BLASTP 2.0.10 [Aug-26-1999]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= PAB0352 (rnhB) DE:ribonuclease HII (rnhB)
(224 letters)
Database: ./suso.pep; /banques/blast2/nr.pep
598,487 sequences; 189,106,746 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
sp|Q9V1A9|RNH2_PYRAB RIBONUCLEASE HII (RNASE HII) >gi|7435246|pi... 444 e-124
sp|O59351|RNH2_PYRHO RIBONUCLEASE HII (RNASE HII) >gi|7435247|pi... 324 6e-88
sp|O74035|RNH2_PYRKO RIBONUCLEASE HII (RNASE HII) >gi|11263449|p... 277 1e-73
gi|11498229 ribonuclease HII (rnhB) [Archaeoglobus fulgidus] >gi... 175 4e-43
gb|AAK42532.1| Ribonuclease HII (rnhB) [Sulfolobus solfataricus] 172 3e-42
sp|Q57599|RNH2_METJA RIBONUCLEASE HII (RNASE HII) >gi|2129242|pi... 168 5e-41
pdb|1EKE|A Chain A, Crystal Structure Of Class Ii Ribonuclease H... 166 2e-40
sp|O27102|RNH2_METTH RIBONUCLEASE HII (RNASE HII) >gi|7435250|pi... 163 1e-39
sp|Q9YET5|RNH2_AERPE RIBONUCLEASE HII (RNASE HII) >gi|7435242|pi... 148 4e-35
sp|P57673|RNH2_THEAC RIBONUCLEASE HII (RNASE HII) >gi|10640800|e... 136 2e-31
gb|AAG20157.1| (AE005093) RNAase H; Rnh [Halobacterium sp. NRC-1] 126 2e-28
gb|AAF97195.1|AF268611_19 (AF268611) ribonuclease HII [unculture... 122 4e-27
gi|5454010 ribonuclease HI, large subunit [Homo sapiens] >gi|113... 115 4e-25
gi|11525953 ribonuclease HI, large subunit [Homo sapiens] 115 6e-25
sp|Q9U6P6|RNHL_CAEEL RIBONUCLEASE HI LARGE SUBUNIT (RNASE HI LAR... 114 1e-24
pir||T24897 hypothetical protein T13H5.2 - Caenorhabditis elegan... 114 1e-24
sp|Q9VPP5|RNHL_DROME PROBABLE RIBONUCLEASE HI LARGE SUBUNIT (RNA... 113 2e-24
sp|Q9SEZ6|RNHL_ARATH PROBABLE RIBONUCLEASE HI LARGE SUBUNIT (RNA... 100 2e-20
sp|Q10236|RNHL_SCHPO PROBABLE RIBONUCLEASE HI LARGE SUBUNIT (RNA... 90 2e-17
gi|6324257 RNase H(35), a 35 kDa ribonuclease H; Rnh35p [Sacchar... 89 4e-17
sp|Q9P5X8|RNHL_NEUCR PROBABLE RIBONUCLEASE HI LARGE SUBUNIT (RNA... 88 7e-17
pir||H82100 ribonuclease HII VC2246 [imported] - Vibrio cholerae... 87 1e-16
sp|Q9X017|RNH2_THEMA RIBONUCLEASE HII (RNASE HII) >gi|7435243|pi... 87 2e-16
sp|O84032|RNH2_CHLTR RIBONUCLEASE HII (RNASE HII) >gi|7435238|pi... 82 4e-15
sp|Q9PEI7|RNH2_XYLFA RIBONUCLEASE HII (RNASE HII) >gi|11362650|p... 80 3e-14
pir||B83190 ribonuclease HII PA3642 [imported] - Pseudomonas aer... 78 6e-14
sp|P43808|RNH2_HAEIN RIBONUCLEASE HII (RNASE HII) >gi|1075221|pi... 78 8e-14
sp|Q9PL10|RNH2_CHLMU RIBONUCLEASE HII (RNASE HII) >gi|8163191|gb... 78 8e-14
sp|Q9Z9S0|RNH2_BACHD RIBONUCLEASE HII (RNASE HII) >gi|10175095|d... 77 1e-13
sp|P10442|RNH2_ECOLI RIBONUCLEASE HII (RNASE HII) >gi|7428165|pi... 77 2e-13
dbj|BAA77858.1| (D83536) Ribonuclease H (EC 3.1.26.4) II. [Esch... 77 2e-13
sp|Q9K1G1|RNH2_NEIMB RIBONUCLEASE HII (RNASE HII) >gi|11263452|p... 76 3e-13
sp|Q10793|RNH2_MYCTU RIBONUCLEASE HII (RNASE HII) >gi|7478920|pi... 75 5e-13
sp|O69989|RNH2_STRCO RIBONUCLEASE HII (RNASE HII) >gi|7481740|pi... 74 1e-12
sp|P72657|RNH2_SYNY3 RIBONUCLEASE HII (RNASE HII) >gi|7435237|pi... 73 2e-12
sp|O68821|RNH2_BRUME RIBONUCLEASE HII (RNASE HII) >gi|2984785|gb... 73 2e-12
sp|Q9Z962|RNH2_CHLPN RIBONUCLEASE HII (RNASE HII) >gi|7435249|pi... 73 2e-12
sp|Q9JX40|RNH2_NEIMA RIBONUCLEASE HII (RNASE HII) >gi|11263450|p... 73 3e-12
pir||E75334 ribonuclease HII - Deinococcus radiodurans (strain R... 70 2e-11
sp|O67768|RNH2_AQUAE RIBONUCLEASE HII (RNASE HII) >gi|7435241|pi... 68 7e-11
sp|O31744|RNH2_BACSU RIBONUCLEASE HII (RNASE HII) >gi|7435239|pi... 68 9e-11
>sp|Q9V1A9|RNH2_PYRAB RIBONUCLEASE HII (RNASE HII) >gi|7435246|pir||A75170 ribonuclease
hII (rnhb) PAB0352 - Pyrococcus abyssi (strain Orsay)
>gi|5457950|emb|CAB49440.1| (AJ248284) ribonuclease HII
(rnhB) [Pyrococcus abyssi]
Length = 224
Score = 444 bits (1131), Expect = e-124
Identities = 224/224 (100%), Positives = 224/224 (100%)
Query: 1 MKVAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVL 60
MKVAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVL
Sbjct: 1 MKVAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVL 60
Query: 61 DDYSVVIVSPQDIDGRKGSMNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAENIRS 120
DDYSVVIVSPQDIDGRKGSMNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAENIRS
Sbjct: 61 DDYSVVIVSPQDIDGRKGSMNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAENIRS 120
Query: 121 RLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFGSGYPSDPRTKKWL 180
RLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFGSGYPSDPRTKKWL
Sbjct: 121 RLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFGSGYPSDPRTKKWL 180
Query: 181 EEWYSKHGNFPPIVRRTWDTAKKIEEKFKRAQLTLDNFLKRFRN 224
EEWYSKHGNFPPIVRRTWDTAKKIEEKFKRAQLTLDNFLKRFRN
Sbjct: 181 EEWYSKHGNFPPIVRRTWDTAKKIEEKFKRAQLTLDNFLKRFRN 224
>sp|O59351|RNH2_PYRHO RIBONUCLEASE HII (RNASE HII) >gi|7435247|pir||B71045 probable
ribonuclease H II - Pyrococcus horikoshii
>gi|3258079|dbj|BAA30762.1| (AP000006) 220aa long
hypothetical ribonuclease H II [Pyrococcus horikoshii]
Length = 220
Score = 324 bits (821), Expect = 6e-88
Identities = 155/220 (70%), Positives = 188/220 (85%)
Query: 1 MKVAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVL 60
MKVAG DEAGRGPVIGPLVI AV++E I L +GVKDSKQLTP QREKLF +++ +L
Sbjct: 1 MKVAGVDEAGRGPVIGPLVIGVAVIDEKNIERLRDIGVKDSKQLTPGQREKLFSKLIDIL 60
Query: 61 DDYSVVIVSPQDIDGRKGSMNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAENIRS 120
DDY V++V+P++ID R SMNELE E FV ALNSL++KP+ IY+DSADV +RFA I++
Sbjct: 61 DDYYVLLVTPKEIDERHHSMNELEAEKFVVALNSLRIKPQKIYVDSADVDPKRFASLIKA 120
Query: 121 RLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFGSGYPSDPRTKKWL 180
L YEA V+AEHKADAKYEIVSAASI+AKV RDREIEKLK +YG+FGSGYPSDPRTK+WL
Sbjct: 121 GLKYEATVIAEHKADAKYEIVSAASIIAKVTRDREIEKLKQKYGEFGSGYPSDPRTKEWL 180
Query: 181 EEWYSKHGNFPPIVRRTWDTAKKIEEKFKRAQLTLDNFLK 220
EE+Y ++G+FPPIVRRTW+TA+KIEE+F++ QLTLD FLK
Sbjct: 181 EEYYKQYGDFPPIVRRTWETARKIEERFRKNQLTLDKFLK 220
>sp|O74035|RNH2_PYRKO RIBONUCLEASE HII (RNASE HII) >gi|11263449|pir||T43891 ribonuclease
HII (EC 3.1.26.-) [validated] - Pyrococcus kodakaraensis
>gi|3551209|dbj|BAA32803.1| (AB012613) ribonuclease HII
[Pyrococcus kodakaraensis]
Length = 228
Score = 277 bits (700), Expect = 1e-73
Identities = 137/227 (60%), Positives = 174/227 (76%), Gaps = 6/227 (2%)
Query: 1 MKVAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVL 60
MK+AG DEAGRGPVIGP+VI A VV+E+ + L +L V+DSK+LTP +REKLF+EI+ VL
Sbjct: 1 MKIAGIDEAGRGPVIGPMVIAAVVVDENSLPKLEELKVRDSKKLTPKRREKLFNEILGVL 60
Query: 61 DDYSVVIVSPQDIDGRKGSMNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAENIRS 120
DDY ++ + P I R+G++NE EVENF KALNSLKVKP+VIY D+ADV ERFA +
Sbjct: 61 DDYVILELPPDVIGSREGTLNEFEVENFAKALNSLKVKPDVIYADAADVDEERFARELGE 120
Query: 121 RLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFGSGYPSDPRTKKWL 180
RL +EA+VVA+HKAD + +VSAASILAKV RDR +EKLK EYG+ GSGYPSDPRT+ +L
Sbjct: 121 RLNFEAEVVAKHKADDIFPVVSAASILAKVTRDRAVEKLKEEYGEIGSGYPSDPRTRAFL 180
Query: 181 EEWYSKHGNFPPIVRRTWDTAKKI------EEKFKRAQLTLDNFLKR 221
E +Y +HG FPPIVR+ W T KKI E+K + Q TLD + ++
Sbjct: 181 ENYYREHGEFPPIVRKGWKTLKKIAEKVESEKKAEERQATLDRYFRK 227
>gi|11498229 ribonuclease HII (rnhB) [Archaeoglobus fulgidus]
>gi|7388077|sp|O29634|RNH2_ARCFU RIBONUCLEASE HII (RNASE
HII) >gi|7435251|pir||E69327 ribonuclease HII (rnhB)
homolog - Archaeoglobus fulgidus
>gi|2650000|gb|AAB90620.1| (AE001062) ribonuclease HII
(rnhB) [Archaeoglobus fulgidus]
Length = 205
Score = 175 bits (439), Expect = 4e-43
Identities = 103/218 (47%), Positives = 145/218 (66%), Gaps = 18/218 (8%)
Query: 4 AGADEAGRGPVIGPLVIVA-AVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDD 62
AG DEAG+G VIGPLV+ A +ED++R KLGVKDSK+L+ +RE+L +EI K+
Sbjct: 3 AGIDEAGKGCVIGPLVVAGVACSDEDRLR---KLGVKDSKKLSQGRREELAEEIRKICRT 59
Query: 63 YSVVIVSPQDIDGRKGS--MNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAENIRS 120
V+ VSP+++D R + +NE+ E + + + L++KPE+ Y+DS DV ER + +
Sbjct: 60 -EVLKVSPENLDERMAAKTINEILKECYAEII--LRLKPEIAYVDSPDVIPERLSRELEE 116
Query: 121 RLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFGSGYPSDPRTKKWL 180
+VVAEHKAD KY +V+AASI+AKV R+REIE+LK ++GDFGSGY SDPRT++ L
Sbjct: 117 ITGL--RVVAEHKADEKYPLVAAASIIAKVEREREIERLKEKFGDFGSGYASDPRTREVL 174
Query: 181 EEWYSKHGNFPPIVRRTWDTAKKIEEKFKRAQLTLDNF 218
+EW + G P VR W T + +K TLD+F
Sbjct: 175 KEWIAS-GRIPSCVRMRWKTVSNLRQK------TLDDF 205
>gb|AAK42532.1| Ribonuclease HII (rnhB) [Sulfolobus solfataricus]
Length = 212
Score = 172 bits (432), Expect = 3e-42
Identities = 91/195 (46%), Positives = 131/195 (66%), Gaps = 7/195 (3%)
Query: 5 GADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDDYS 64
G DEAGRG +IGP+++ V+ + K++ L +GVKDSKQLT +REKLFD + ++ ++
Sbjct: 4 GIDEAGRGALIGPMIVAGVVISDTKLKFLKGIGVKDSKQLTRERREKLFDIVANTVEAFT 63
Query: 65 VVIVSPQDIDGRKGSMNELEVENFVKALNSLK-VKPEVIYIDSADVKAERFAENIRSRLA 123
VV V P +ID ++N+L + K + SL PE++ +D V E+ + ++L
Sbjct: 64 VVKVFPYEIDNY--NLNDLTYDAVSKIILSLSSFNPEIVTVDK--VGDEKPVIELINKLG 119
Query: 124 YEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFGSGYPSDPRTKKWLEEW 183
Y++ VV HKAD + SAASI+AKVIRD I++LK YGDFGSGYP+DPRT KWL+ +
Sbjct: 120 YKSNVV--HKADVLFVEASAASIIAKVIRDNYIDELKQVYGDFGSGYPADPRTIKWLKSF 177
Query: 184 YSKHGNFPPIVRRTW 198
Y K+ N PPI+RR+W
Sbjct: 178 YEKNPNPPPIIRRSW 192
>sp|Q57599|RNH2_METJA RIBONUCLEASE HII (RNASE HII) >gi|2129242|pir||G64316 ribonuclease H
(EC 3.1.26.4) II - Methanococcus jannaschii
>gi|1590900|gb|AAB98116.1| (U67470) ribonuclease HII
(rnhB) [Methanococcus jannaschii]
Length = 230
Score = 168 bits (421), Expect = 5e-41
Identities = 94/234 (40%), Positives = 141/234 (60%), Gaps = 22/234 (9%)
Query: 1 MKVAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVL 60
M + G DEAGRGPV+GP+V+ A +E+++ L KLGVKDSK+LT +R L K+L
Sbjct: 1 MIIIGIDEAGRGPVLGPMVVCAFAIEKEREEELKKLGVKDSKELTKNKRAYL----KKLL 56
Query: 61 DDYSVV---IVSPQDIDGRKGS--MNELEVENFVKALNSLKVKPEV------IYIDSADV 109
++ V I+ ++I+ S +N++E+ F K +L K + IYID+
Sbjct: 57 ENLGYVEKRILEAEEINQLMNSINLNDIEINAFSKVAKNLIEKLNIRDDEIEIYIDACST 116
Query: 110 KAERFAENIRSRLA-------YEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAE 162
++F ++ + ++ K++AEHKADAKY +VSAASI+AK RD I+ K
Sbjct: 117 NTKKFEDSFKDKIEDIIKERNLNIKIIAEHKADAKYPVVSAASIIAKAERDEIIDYYKKI 176
Query: 163 YGDFGSGYPSDPRTKKWLEEWYSKHGNFPPIVRRTWDTAKKIEEKFKRAQLTLD 216
YGD GSGYPSDP+T K+LE+++ KH P I R W T K+I +K K+ +L ++
Sbjct: 177 YGDIGSGYPSDPKTIKFLEDYFKKHKKLPDIARTHWKTCKRILDKSKQTKLIIE 230
>pdb|1EKE|A Chain A, Crystal Structure Of Class Ii Ribonuclease H (Rnase Hii)
With Mes Ligand >gi|10835821|pdb|1EKE|B Chain B, Crystal
Structure Of Class Ii Ribonuclease H (Rnase Hii) With
Mes Ligand
Length = 230
Score = 166 bits (416), Expect = 2e-40
Identities = 93/232 (40%), Positives = 139/232 (59%), Gaps = 22/232 (9%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDD 62
+ G DEAGRGPV+GP V+ A +E+++ L KLGVKDSK+LT +R L K+L++
Sbjct: 3 IIGIDEAGRGPVLGPXVVCAFAIEKEREEELKKLGVKDSKELTKNKRAYL----KKLLEN 58
Query: 63 YSVV---IVSPQDIDGRKGS--MNELEVENFVKALNSLKVKPEV------IYIDSADVKA 111
V I+ ++I+ S +N++E+ F K +L K + IYID+
Sbjct: 59 LGYVEKRILEAEEINQLXNSINLNDIEINAFSKVAKNLIEKLNIRDDEIEIYIDACSTNT 118
Query: 112 ERFAENIRSRLA-------YEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYG 164
++F ++ + ++ K++AEHKADAKY +VSAASI+AK RD I+ K YG
Sbjct: 119 KKFEDSFKDKIEDIIKERNLNIKIIAEHKADAKYPVVSAASIIAKAERDEIIDYYKKIYG 178
Query: 165 DFGSGYPSDPRTKKWLEEWYSKHGNFPPIVRRTWDTAKKIEEKFKRAQLTLD 216
D GSGYPSDP+T K+LE+++ KH P I R W T K+I +K K+ +L ++
Sbjct: 179 DIGSGYPSDPKTIKFLEDYFKKHKKLPDIARTHWKTCKRILDKSKQTKLIIE 230
>sp|O27102|RNH2_METTH RIBONUCLEASE HII (RNASE HII) >gi|7435250|pir||E69003 ribonuclease
HII - Methanobacterium thermoautotrophicum (strain
Delta H) >gi|2622126|gb|AAB85519.1| (AE000875)
ribonuclease HII [Methanobacterium thermoautotrophicum]
Length = 206
Score = 163 bits (409), Expect = 1e-39
Identities = 99/207 (47%), Positives = 128/207 (61%), Gaps = 8/207 (3%)
Query: 1 MKVAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVL 60
MKV G DEAGRGPVIGPLV+ ++ E K L K+GVKDSK+LTP +R L +I ++
Sbjct: 1 MKVLGIDEAGRGPVIGPLVVAGVMIPERKFSILRKMGVKDSKKLTPERRRFLARKIRRIA 60
Query: 61 DDYSVVIVSPQDIDG-RKGSMNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAENIR 119
++V I S DID R+ N E+E + +P+ + IDS DVK ER E IR
Sbjct: 61 RVFTVKI-SASDIDRMRERGFNLNEIEKIAIKRIIPEAQPDRVIIDSVDVKPERLEEEIR 119
Query: 120 SRLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIE---KLKAEYGDFGSGYPSDPRT 176
S E +V AEH AD +Y V+AASI+AKV RD EIE K + GD GSGYPSDPRT
Sbjct: 120 SHFG-EIEVTAEHGADTRYYPVAAASIIAKVERDLEIESIQKKNRKLGDIGSGYPSDPRT 178
Query: 177 KKWLEEWYSKHGNFPPIVRRTWDTAKK 203
+++LE + + P VRR+W T +K
Sbjct: 179 REFLESF--TYDELPDFVRRSWATVQK 203
>sp|Q9YET5|RNH2_AERPE RIBONUCLEASE HII (RNASE HII) >gi|7435242|pir||A72746 probable
ribonuclease HII APE0496 - Aeropyrum pernix (strain K1)
>gi|5104145|dbj|BAA79461.1| (AP000059) 227aa long
hypothetical ribonuclease HII [Aeropyrum pernix]
Length = 227
Score = 148 bits (371), Expect = 4e-35
Identities = 92/225 (40%), Positives = 136/225 (59%), Gaps = 13/225 (5%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDD 62
V G DEAGRG ++G LV+ VEE ++ L LGV+DSKQL+PA R +L+ EI V
Sbjct: 6 VVGVDEAGRGSLVGDLVVAGFAVEEARLGELQSLGVRDSKQLSPAARVELYREISGV-GF 64
Query: 63 YSVVIVSPQDIDGRKGSMNELE-VENFVKALNS-LKVKPEVIYIDS-ADVKAERFAENIR 119
++V + P +IDG ++ + VE V + S L V P ++ +D DV+ R A
Sbjct: 65 FTVEAIRPWEIDGENINILVTKAVEEIVSRIVSYLGVHPSLVVVDKYGDVQGLRLA---L 121
Query: 120 SRLAYEAK-VVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFGSGYPSDPRTKK 178
+RL E + ++ E KAD++Y +VSAASI+AKV+RD ++ L+ YG GSGYPSDP T++
Sbjct: 122 TRLGIEPRSILVEEKADSRYPVVSAASIVAKVVRDARLQVLRRMYGVRGSGYPSDPETRE 181
Query: 179 WLEEWYSKHGNFPPIVRRTWDTAKKI----EEKFKRAQLTLDNFL 219
W+ E +++ G P ++R TW T +K+ K +LD FL
Sbjct: 182 WVREVFAR-GEAPRVIRYTWSTVRKLGGPWRSKKAGRNRSLDEFL 225
>sp|P57673|RNH2_THEAC RIBONUCLEASE HII (RNASE HII) >gi|10640800|emb|CAC12578.1|
(AL445067) probable ribonuclease HII [Thermoplasma
acidophilum]
Length = 212
Score = 136 bits (340), Expect = 2e-31
Identities = 86/204 (42%), Positives = 128/204 (62%), Gaps = 15/204 (7%)
Query: 5 GADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDDYS 64
G DEAGRGPVIGP+VI + + L ++ VKDSK LT +R +LF+ K++ S
Sbjct: 9 GIDEAGRGPVIGPMVISLVCCD---LSFLKEIRVKDSKALTRKRRSELFE---KIMGRCS 62
Query: 65 VV--IVSPQDIDGRKG--SMNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAENIRS 120
V I+ P+D++ S+N++E + V + L+ +++YID DV ER E I+
Sbjct: 63 VRYRILHPKDLNRMMAAESLNKIEEDEIV---DLLRYADDLVYIDCYDVIEERAQEIIQM 119
Query: 121 RLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFGSGYPSDPRTKKWL 180
R + VV +HKADA + VSAASI++KVIRD EI++L +GDFGSGYPSDPRT +L
Sbjct: 120 RSGRQ--VVCKHKADAIFPAVSAASIVSKVIRDAEIDRLHDRFGDFGSGYPSDPRTIDFL 177
Query: 181 EEWYSKHGNFPPIVRRTWDTAKKI 204
+++ ++ + IVR W T +++
Sbjct: 178 KKYLKENQDPSEIVRIHWSTVQRL 201
>gb|AAG20157.1| (AE005093) RNAase H; Rnh [Halobacterium sp. NRC-1]
Length = 212
Score = 126 bits (313), Expect = 2e-28
Identities = 73/199 (36%), Positives = 109/199 (54%), Gaps = 6/199 (3%)
Query: 5 GADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDDYS 64
G DEAG+GPV+G + A + + GV DSK+L+ +R +L D+ V+
Sbjct: 5 GVDEAGKGPVLGSMFAAAVAGDPAAVPD----GVADSKRLSADRRAEL-DDRVRASMRVG 59
Query: 65 VVIVSPQDIDGRKGSMNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAENIRSRLAY 124
V V ID + MN L V AL + Y+D+ DV +RF + +R+A
Sbjct: 60 VAEVPVDRIDDPETDMNTLTVAAQADALGRVVADGMAGYVDAGDVNEQRFGRRVANRVAA 119
Query: 125 EAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEY-GDFGSGYPSDPRTKKWLEEW 183
+ V AEH AD +Y++V+AASI+AKV RD ++ L A + D GSGYPSD T+++L +
Sbjct: 120 DVAVTAEHGADDEYDLVAAASIVAKVARDAHVDALAAAFDADIGSGYPSDSTTREFLAAY 179
Query: 184 YSKHGNFPPIVRRTWDTAK 202
+HG P R +W T++
Sbjct: 180 VREHGELPECARASWQTSR 198
>gb|AAF97195.1|AF268611_19 (AF268611) ribonuclease HII [uncultured marine group II
euryarchaeote 37F11]
Length = 250
Score = 122 bits (303), Expect = 4e-27
Identities = 82/218 (37%), Positives = 120/218 (54%), Gaps = 17/218 (7%)
Query: 1 MKVAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVL 60
M++ G DEAGRGPV+GPLV+ + ++ L + ++DSK L+ A+R+ +D + + +
Sbjct: 5 MRLIGVDEAGRGPVLGPLVVGLLSIPKEDEYMLEEQCIEDSKHLSHAKRKLHYDWLNQQV 64
Query: 61 DD----YSVVIVSPQDIDGR---KGSMNELEVENFVKALNS---LKVKPEVIYIDSADVK 110
+ +I P ID KG +N LEV+ F LN L + I +D+ DV
Sbjct: 65 TERGWYVDTIICKPNRIDNAVYAKG-LNILEVDLFASILNRHHRLFTQELDILLDACDVN 123
Query: 111 AERFAENIRSRLA----YEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYG-D 165
ERF+ I RL + ++AEHKAD + IV ASILAKV+RD EIE++ + G
Sbjct: 124 EERFSNRISERLTDWPWLKTTMIAEHKADTNHRIVGGASILAKVVRDMEIERIAVDVGAP 183
Query: 166 FGSGYPSDPRTKKWLEEWYSKHGNFPPIVRRTWDTAKK 203
GSGYP+DP T K L + K +R +W T K+
Sbjct: 184 VGSGYPADPNTVKAL-PYLIKEDGIHEEIRWSWATVKR 220
>gi|5454010 ribonuclease HI, large subunit [Homo sapiens]
>gi|11387070|sp|O75792|RNHL_HUMAN RIBONUCLEASE HI LARGE
SUBUNIT (RNASE HI LARGE SUBUNIT) (RNASE H(35))
>gi|3334761|emb|CAB09725.1| (Z97029) ribonuclease HI
large subunit [Homo sapiens]
Length = 299
Score = 115 bits (286), Expect = 4e-25
Identities = 81/220 (36%), Positives = 114/220 (51%), Gaps = 17/220 (7%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLF------DEI 56
V G DEAGRGPV+GP+V ++ L L V DSK L ++RE+LF D +
Sbjct: 30 VLGVDEAGRGPVLGPMVYAICYCPLPRLADLEALKVADSKTLLESERERLFAKMEDTDFV 89
Query: 57 VKVLDDYSVVIVSPQDIDGRKGSMNELEVEN---FVKALNSLKVKPEVIYIDSADVKAER 113
LD S ++S + K ++N L + ++ V +++D+ +
Sbjct: 90 GWALDVLSPNLISTSMLGRVKYNLNSLSHDTATGLIQYALDQGVNVTQVFVDTVGMPETY 149
Query: 114 FAENIRSRLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREI------EKLKAEYGDFG 167
A+ +S E V A KADA Y +VSAASI AKV RD+ + EKL+ D+G
Sbjct: 150 QAQLQQSFPGIEVTVKA--KADALYPVVSAASICAKVARDQAVKKWQFVEKLQDLDTDYG 207
Query: 168 SGYPSDPRTKKWLEEWYSKHGNFPPIVRRTWDTAKKIEEK 207
SGYP+DP+TK WL+E FP VR +W TA+ I EK
Sbjct: 208 SGYPNDPKTKAWLKEHVEPVFGFPQFVRFSWRTAQTILEK 247
>gi|11525953 ribonuclease HI, large subunit [Homo sapiens]
Length = 299
Score = 115 bits (284), Expect = 6e-25
Identities = 81/220 (36%), Positives = 113/220 (50%), Gaps = 17/220 (7%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLF------DEI 56
V G DEAGRGPV+GP+V ++ L L V DSK L ++RE+LF D +
Sbjct: 30 VLGVDEAGRGPVLGPMVYAICYCPLPRLADLEALKVADSKTLLESERERLFAKMEDTDFV 89
Query: 57 VKVLDDYSVVIVSPQDIDGRKGSMNELEVEN---FVKALNSLKVKPEVIYIDSADVKAER 113
LD S ++S + K ++N L + ++ V +++D+ +
Sbjct: 90 GWALDVLSPNLISTSMLGRVKYNLNSLSHDTATGLIQYALDQGVNVTQVFVDTVGMPETY 149
Query: 114 FAENIRSRLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREI------EKLKAEYGDFG 167
A +S E V A KADA Y +VSAASI AKV RD+ + EKL+ D+G
Sbjct: 150 QARLQQSFPGIEVTVKA--KADALYPVVSAASICAKVARDQAVKKWQFVEKLQDLDTDYG 207
Query: 168 SGYPSDPRTKKWLEEWYSKHGNFPPIVRRTWDTAKKIEEK 207
SGYP+DP+TK WL+E FP VR +W TA+ I EK
Sbjct: 208 SGYPNDPKTKAWLKEHVEPVFGFPQFVRFSWRTAQTILEK 247
>sp|Q9U6P6|RNHL_CAEEL RIBONUCLEASE HI LARGE SUBUNIT (RNASE HI LARGE SUBUNIT) (RNASE
H(35)) >gi|6010657|gb|AAF01208.1|AF181619_1 (AF181619)
putative ribonuclease H2 large subunit [Caenorhabditis
elegans]
Length = 297
Score = 114 bits (282), Expect = 1e-24
Identities = 82/225 (36%), Positives = 117/225 (51%), Gaps = 22/225 (9%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLF-----DEIV 57
V G DEAGRGPV+GP+V AA+ D+ L LGV DSK L A+RE++F DE +
Sbjct: 23 VLGIDEAGRGPVLGPMVYAAAISPLDQNVELKNLGVDDSKALNEAKREEIFNKMNEDEDI 82
Query: 58 KVLDDYSVVIVSPQDID-----GRKGSMNELEVE---NFVKALNSLKVKPEVIYIDSADV 109
+ + Y++ +SP+ I +K S+NE+ E ++ + V I +D+
Sbjct: 83 QQIIAYALRCLSPELISCSMLKRQKYSLNEVSHEAAITLIRDALACNVNVVEIKVDTVGP 142
Query: 110 KAERFAENIRSRLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREI-------EKLKAE 162
KA A+ +L + KAD+ + IVSAASI AKV RD + + +K
Sbjct: 143 KATYQAK--LEKLFPGISICVTEKADSLFPIVSAASIAAKVTRDSRLRNWQFREKNIKVP 200
Query: 163 YGDFGSGYPSDPRTKKWLEEWYSKHGNFPPIVRRTWDTAKKIEEK 207
+GSGYP DP TKK+L+ F +VR +W TA I EK
Sbjct: 201 DAGYGSGYPGDPNTKKFLQLSVEPVFGFCSLVRSSWKTASTIVEK 245
>pir||T24897 hypothetical protein T13H5.2 - Caenorhabditis elegans
>gi|3879811|emb|CAA91418.1| (Z66524) Homology with Squid
retinal-binding protein (PIR Acc. No. A53057), contains
similarity to Pfam domain: PF00650 (CRAL/TRIO domain.),
Score=56.2, E-value=1.7e-16, N=1; PF01351 (Ribonuclease
HII), Score=370.9, E-value=4.3e-108, N=1~cDNA EST yk463>
Length = 1254
Score = 114 bits (282), Expect = 1e-24
Identities = 82/225 (36%), Positives = 117/225 (51%), Gaps = 22/225 (9%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLF-----DEIV 57
V G DEAGRGPV+GP+V AA+ D+ L LGV DSK L A+RE++F DE +
Sbjct: 428 VLGIDEAGRGPVLGPMVYAAAISPLDQNVELKNLGVDDSKALNEAKREEIFNKMNEDEDI 487
Query: 58 KVLDDYSVVIVSPQDID-----GRKGSMNELEVE---NFVKALNSLKVKPEVIYIDSADV 109
+ + Y++ +SP+ I +K S+NE+ E ++ + V I +D+
Sbjct: 488 QQIIAYALRCLSPELISCSMLKRQKYSLNEVSHEAAITLIRDALACNVNVVEIKVDTVGP 547
Query: 110 KAERFAENIRSRLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREI-------EKLKAE 162
KA A+ +L + KAD+ + IVSAASI AKV RD + + +K
Sbjct: 548 KATYQAK--LEKLFPGISICVTEKADSLFPIVSAASIAAKVTRDSRLRNWQFREKNIKVP 605
Query: 163 YGDFGSGYPSDPRTKKWLEEWYSKHGNFPPIVRRTWDTAKKIEEK 207
+GSGYP DP TKK+L+ F +VR +W TA I EK
Sbjct: 606 DAGYGSGYPGDPNTKKFLQLSVEPVFGFCSLVRSSWKTASTIVEK 650
>sp|Q9VPP5|RNHL_DROME PROBABLE RIBONUCLEASE HI LARGE SUBUNIT (RNASE HI LARGE SUBUNIT)
(RNASE H(35)) >gi|7296208|gb|AAF51500.1| (AE003589)
CG13690 gene product [Drosophila melanogaster]
Length = 347
Score = 113 bits (279), Expect = 2e-24
Identities = 76/217 (35%), Positives = 115/217 (52%), Gaps = 21/217 (9%)
Query: 5 GADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEI-----VKV 59
G DEAGRGPV+GP+V + + ++L LG DSKQLT +R+ +F++I
Sbjct: 74 GVDEAGRGPVLGPMVYGISYCPLESNKALEDLGCADSKQLTEGKRDIIFNDINTKEYATS 133
Query: 60 LDDYSVVIVSPQDID-----GRKGSMNELEVEN---FVKALNSLKVKPEVIYIDSADVKA 111
++V I+SP I K S+NE+ +++ ++ V +Y+D+
Sbjct: 134 CVGWAVEIISPNTISTSMYRRSKCSLNEVSMDSAMGLIQQAIDAGVNIAEVYVDTVG-PP 192
Query: 112 ERFAENIRSRLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREI------EKLKAEYGD 165
E++ E + R K+ KAD+ Y IVSAASI AKV RD + E L + +
Sbjct: 193 EKYQEKLLKRFP-SFKITVAKKADSTYPIVSAASICAKVTRDHALKVWSFPEGLVIKDNE 251
Query: 166 FGSGYPSDPRTKKWLEEWYSKHGNFPPIVRRTWDTAK 202
FGSGYP DP T+++L E+ FP +VR +W TA+
Sbjct: 252 FGSGYPGDPVTRRFLTEYIDLVFGFPRLVRFSWSTAE 288
>sp|Q9SEZ6|RNHL_ARATH PROBABLE RIBONUCLEASE HI LARGE SUBUNIT (RNASE HI LARGE SUBUNIT)
(RNASE H(35)) >gi|6623875|gb|AAF19216.1| (AC018722)
putative ribonuclease large subunit [Arabidopsis
thaliana]
Length = 253
Score = 100 bits (246), Expect = 2e-20
Identities = 72/213 (33%), Positives = 110/213 (50%), Gaps = 21/213 (9%)
Query: 5 GADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDD-- 62
G DEAGRGPV+GP+V SL L DSK L +RE+L++ + LD
Sbjct: 18 GIDEAGRGPVLGPMVYGCMYCPISYQSSLASLHFADSKTLKEEKREELYESLK--LDKSL 75
Query: 63 -YSVVIVSPQDIDGR-----KGSMNELEVEN---FVKALNSLKVKPEVIYIDSADVKAER 113
++V ++ P+++ + K ++NE+ + +K + + V Y+D+ ++
Sbjct: 76 GWAVDVIDPRELSAKMLAKNKTNLNEISHNSAMGLIKRVLDMGVLLTEAYLDTVG-DPDK 134
Query: 114 FAENIRSRLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEK-LKAEYGD-----FG 167
+ + R K V KAD+ + IVS ASI+AKV RDR +++ L E G+ FG
Sbjct: 135 YRIKLSERFP-SIKFVVSKKADSLFPIVSGASIVAKVTRDRALKEWLVEETGEDINRNFG 193
Query: 168 SGYPSDPRTKKWLEEWYSKHGNFPPIVRRTWDT 200
SGYP DP TK WL + FP +VR +W T
Sbjct: 194 SGYPGDPETKAWLVQHKHSVFGFPSLVRFSWGT 226
>sp|Q10236|RNHL_SCHPO PROBABLE RIBONUCLEASE HI LARGE SUBUNIT (RNASE HI LARGE SUBUNIT)
(RNASE H(35)) >gi|7491151|pir||T38861 hypothetical
protein SPAC4G9.02 - fission yeast (Schizosaccharomyces
pombe) >gi|1204203|emb|CAA93552.1| (Z69727) hypothetical
protein [Schizosaccharomyces pombe]
Length = 326
Score = 90.1 bits (220), Expect = 2e-17
Identities = 74/230 (32%), Positives = 109/230 (47%), Gaps = 22/230 (9%)
Query: 5 GADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDDYS 64
G DEAGRGPV+GP+V A D LT G DSK L +RE+L I ++
Sbjct: 67 GVDEAGRGPVLGPMVYAVAYCPVDF--DLTNYGFADSKTLASLKREELLKLICNKSNELG 124
Query: 65 VVIV-SPQDIDGRKGSMNELEVEN--------------FVKALNSLKVKPEVIYIDSADV 109
+ S I R+ + L N +K + + IY+D+
Sbjct: 125 KNVGWSTMSISARELAAGMLRYRNKYNLNLQAHDTTIDLIKKVYESGINVTEIYVDTVGP 184
Query: 110 KAERFAENIRSRLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIE--KLKAEYGDFG 167
+ E +++ +AKV KAD+ + IVS ASI AKV RD ++E + ++G
Sbjct: 185 PIS-YQEKLQAHFP-QAKVTVTKKADSLFPIVSLASICAKVTRDIQLECARESIRTENWG 242
Query: 168 SGYPSDPRTKKWLEEWYSK-HGNFPPIVRRTWDTAKKIEEKFKRAQLTLD 216
SGY SD RT +WL+ K G IVR +W TAK + E ++Q +++
Sbjct: 243 SGYSSDARTTEWLKVNVDKIFGWKGDIVRYSWKTAKDLLELPSKSQSSIE 292
>gi|6324257 RNase H(35), a 35 kDa ribonuclease H; Rnh35p [Saccharomyces
cerevisiae] >gi|1730743|sp|P53942|RNHL_YEAST
RIBONUCLEASE HI 35 LARGE SUBUNIT (RNASE HI LARGE
SUBUNIT) (RNASE H(35)) >gi|1077204|pir||S53908
hypothetical protein YNL072w - yeast (Saccharomyces
cerevisiae) >gi|791114|emb|CAA60188.1| (X86470) unknown
[Saccharomyces cerevisiae] >gi|1301957|emb|CAA95946.1|
(Z71348) ORF YNL072w [Saccharomyces cerevisiae]
Length = 307
Score = 88.9 bits (217), Expect = 4e-17
Identities = 72/225 (32%), Positives = 114/225 (50%), Gaps = 28/225 (12%)
Query: 3 VAGADEAGRGPVIGPLVIVAAV----VEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVK 58
+ G DEAGRGPV+GP+V A +++ I + DSK+LT R LF +I +
Sbjct: 35 IMGIDEAGRGPVLGPMVYAVAYSTQKYQDETI--IPNYEFDDSKKLTDPIRRMLFSKIYQ 92
Query: 59 VLDD-----YSVVIVSPQDIDG--------RKGSMNELEVENFVKALNSLKVKPEV---- 101
++ Y+ ++P DI R ++NE + + AL +K V
Sbjct: 93 DNEELTQIGYATTCITPLDISRGMSKFPPTRNYNLNE-QAHDVTMALIDGVIKQNVKLSH 151
Query: 102 IYIDSADVKAERFAENIRSRLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKA 161
+Y+D+ A + + + R VA+ KAD+ Y +VS AS++AKV RD +E LK
Sbjct: 152 VYVDTVGPPAS-YQKKLEQRFPGVKFTVAK-KADSLYCMVSVASVVAKVTRDILVESLKR 209
Query: 162 EYGD-FGSGYPSDPRTKKWLEEWYSKHGNFPP-IVRRTWDTAKKI 204
+ + GSGYPSDP+T WL+ + +P +VR +W T + +
Sbjct: 210 DPDEILGSGYPSDPKTVAWLKRNQTSLMGWPANMVRFSWQTCQTL 254
>sp|Q9P5X8|RNHL_NEUCR PROBABLE RIBONUCLEASE HI LARGE SUBUNIT (RNASE HI LARGE SUBUNIT)
(RNASE H(35)) >gi|11359578|pir||T49591 probable 35 kDa
ribonuclease H [imported] - Neurospora crassa
>gi|7800995|emb|CAB91392.1| (AL355931) probable 35 kDa
ribonuclease H [Neurospora crassa]
Length = 317
Score = 88.2 bits (215), Expect = 7e-17
Identities = 74/221 (33%), Positives = 110/221 (49%), Gaps = 20/221 (9%)
Query: 5 GADEAGRGPVIGPLVIVAAVVEEDKIRSLTKL--GVKDSKQLTPAQREKLFDEI----VK 58
G DEAGRGPV+GP+V A + L K DSK LTPA R L E+ +
Sbjct: 47 GVDEAGRGPVLGPMVYSAFYLPLTLSDPLLKQKHSFDDSKVLTPAVRLSLMKELCTKDTE 106
Query: 59 VLDD--YSVVIVSPQDIDGRKGSMNELEVENF-VKALNSLKVKPEVIYIDSADVKAERFA 115
+ D+ Y+ +SP I ++ ++ N +A+++ + IY +V + F
Sbjct: 107 LHDNCGYATSSLSPLSISSGMLKASKAQIYNLNQQAMDATIALIKGIYERGVNV-TDIFI 165
Query: 116 ENIRSRLAYE---------AKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYG-D 165
+ I AY+ AK+ KAD+ Y +VSAAS++AKV RD +E L A+
Sbjct: 166 DTIGQPAAYQKKLERVFPTAKITVAKKADSLYPVVSAASVVAKVTRDIALEVLWADRTMA 225
Query: 166 FGSGYPSDPRTKKWLEEWYSKHGNFPPIVRRTWDTAKKIEE 206
+GSGYPSD + WL++ + P R +W TAK + E
Sbjct: 226 WGSGYPSDSKCVSWLKQNMHPVFGWGPECRFSWGTAKDMLE 266
>pir||H82100 ribonuclease HII VC2246 [imported] - Vibrio cholerae (group O1
strain N16961) >gi|9656806|gb|AAF95390.1| (AE004296)
ribonuclease HII [Vibrio cholerae]
Length = 206
Score = 87.4 bits (213), Expect = 1e-16
Identities = 58/174 (33%), Positives = 98/174 (55%), Gaps = 22/174 (12%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDD 62
+AG DE GRGP++G +V A +++ ++ +G+ DSK+L+ +R LF EI
Sbjct: 21 IAGVDEVGRGPLVGDVVTAAVILDPNR----PIMGLNDSKKLSEKKRLALFPEIQVKALA 76
Query: 63 YSVVIVSPQDIDGRKGSMNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAENIRSRL 122
++V SPQ+ID + ++ + + +A+ L+++P+++ ID + +L
Sbjct: 77 WAVGRCSPQEID--ELNIFQATMVAMQRAVAGLRIQPDLVLIDGNKIP----------KL 124
Query: 123 AYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFG----SGYPS 172
EA+ V K D + +SAASI+AKVIRD+E+E L +Y FG GYP+
Sbjct: 125 PMEAQAVV--KGDLRVAQISAASIIAKVIRDQEMEALDKQYPQFGFAKHKGYPT 176
>sp|Q9X017|RNH2_THEMA RIBONUCLEASE HII (RNASE HII) >gi|7435243|pir||B72320 ribonuclease
HII - Thermotoga maritima (strain MSB8)
>gi|4981451|gb|AAD35996.1|AE001755_19 (AE001755)
ribonuclease HII [Thermotoga maritima]
Length = 238
Score = 86.6 bits (211), Expect = 2e-16
Identities = 70/195 (35%), Positives = 99/195 (49%), Gaps = 35/195 (17%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDD 62
VAG DEAGRG + GP V+ AAVV E +I G+ DSKQL+PA+RE+L DEI++
Sbjct: 14 VAGVDEAGRGCLAGP-VVAAAVVLEKEIE-----GINDSKQLSPAKRERLLDEIMEKA-A 66
Query: 63 YSVVIVSPQDID------GRKGSMNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAE 116
+ I SP++ID K +MN +AL +L VKP + +D ++
Sbjct: 67 VGIGIASPEEIDLYNIFNATKLAMN--------RALENLSVKPSFVLVDGKGIE------ 112
Query: 117 NIRSRLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFGSGYPSDPRT 176
L+ + K D K +++ AASI+AKV RDR + + Y F T
Sbjct: 113 -----LSVPGTCLV--KGDQKSKLIGAASIVAKVFRDRLMSEFHRMYPQFSFHKHKGYAT 165
Query: 177 KKWLEEWYSKHGNFP 191
K+ L E K+G P
Sbjct: 166 KEHLNE-IRKNGVLP 179
>sp|O84032|RNH2_CHLTR RIBONUCLEASE HII (RNASE HII) >gi|7435238|pir||H71566 probable
ribonuclease HII - Chlamydia trachomatis (serotype D,
strain UW3/Cx) >gi|3328419|gb|AAC67619.1| (AE001277)
Ribonuclease HII [Chlamydia trachomatis]
Length = 217
Score = 82.3 bits (200), Expect = 4e-15
Identities = 58/169 (34%), Positives = 92/169 (54%), Gaps = 24/169 (14%)
Query: 2 KVAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLD 61
+VAG DEAGRGP+ GP+V A ++ K+ LG+ DSK+LTP QR L++ +++ +
Sbjct: 28 QVAGVDEAGRGPLAGPVVAGACILPRGKV----FLGIDDSKKLTPKQRRYLYELLLEDPE 83
Query: 62 -DYSVVIVSPQDIDGRKGSMNELEV--ENFVKALNSLKVKPEVIYIDSADVKAERFAENI 118
D V ++S + ID +N LE E V+A+ SL+ P+ + +D
Sbjct: 84 VDCGVGVISVERID----EINILEATKEAMVQAIASLRSTPDFLLVDGL----------- 128
Query: 119 RSRLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFG 167
L ++ + K DA+ ++AASI+AK RD + KL EY ++G
Sbjct: 129 --FLPHKVPSLKIIKGDARSVSIAAASIIAKEYRDELMRKLHVEYPEYG 175
>sp|Q9PEI7|RNH2_XYLFA RIBONUCLEASE HII (RNASE HII) >gi|11362650|pir||H82730 ribonuclease
HII XF1041 [imported] - Xylella fastidiosa (strain
9a5c) >gi|9105983|gb|AAF83851.1|AE003941_5 (AE003941)
ribonuclease HII [Xylella fastidiosa]
Length = 234
Score = 79.6 bits (193), Expect = 3e-14
Identities = 58/165 (35%), Positives = 81/165 (48%), Gaps = 16/165 (9%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDD 62
VAG DEAGRGP+ GP+V+ A V + + R G+ DSKQL+PA RE+L+ IV+
Sbjct: 18 VAGVDEAGRGPLAGPVVVAAVVFDPSQPRI---NGLNDSKQLSPACRERLYAHIVERALA 74
Query: 63 YSVVIVSPQDIDGRKGSMNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAENIRSRL 122
Y VV++ ID L + L V+ SA + R +N+
Sbjct: 75 YKVVMIDSTQID-------TLNIYQATMLGMRLAVEGVAHVAKSARIDGNRLPKNL---- 123
Query: 123 AYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFG 167
A DA+ + AASILAKV RDR + +L +Y +G
Sbjct: 124 --PCPAEALVGGDARDRTIMAASILAKVTRDRHMVELHLQYPHYG 166
>pir||B83190 ribonuclease HII PA3642 [imported] - Pseudomonas aeruginosa
(strain PAO1) >gi|9949802|gb|AAG07030.1|AE004784_3
(AE004784) ribonuclease HII [Pseudomonas aeruginosa]
Length = 201
Score = 78.4 bits (190), Expect = 6e-14
Identities = 60/176 (34%), Positives = 89/176 (50%), Gaps = 26/176 (14%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDD 62
VAG DE GRGP+ GP+V A +++ + LG+ DSK+L+ A+RE LF+EI +
Sbjct: 14 VAGVDEVGRGPLCGPVVTAAVILDPSR----PILGLNDSKKLSEARREALFEEIREKALA 69
Query: 63 YSVVIVSPQDIDGRKGSMNELEVENFV--KALNSLKVKPEVIYIDSADVKAERFAENIRS 120
+ + ++ID +N L +A+ L V P + ID N
Sbjct: 70 WCIARAEVEEID----RLNILHATMLAMQRAVEGLSVIPRLALIDG----------NRCP 115
Query: 121 RLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFG----SGYPS 172
+LA V K D++ ++AASILAKV RDRE+ +L Y +G GYP+
Sbjct: 116 KLAVPCAPVV--KGDSQVPAIAAASILAKVSRDREMVELDRVYPGYGMAGHKGYPT 169
>sp|P43808|RNH2_HAEIN RIBONUCLEASE HII (RNASE HII) >gi|1075221|pir||D64180 ribonuclease H
(EC 3.1.26.4) II - Haemophilus influenzae (strain Rd
KW20) >gi|1574610|gb|AAC22714.1| (U32786) ribonuclease
HII (rnhB) [Haemophilus influenzae Rd]
Length = 197
Score = 78.0 bits (189), Expect = 8e-14
Identities = 67/212 (31%), Positives = 108/212 (50%), Gaps = 31/212 (14%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDD 62
+AG DE GRGP++G +V A +++ G+ DSK+L+ +R L +EI +
Sbjct: 11 IAGVDEVGRGPLVGAVVTAAVILDPHNPIE----GLADSKKLSEKKRLALAEEIKEKARA 66
Query: 63 YSVVIVSPQDIDGRKGSMNELEVE--NFVKALNSLKVKPEVIYIDSADVKAERFAENIRS 120
+++ +ID +N L+ +A+ SLK++P + ID + +
Sbjct: 67 WALGRAEADEID----EINILQASLLAMTRAVKSLKIQPHFVLIDGNKIPKD-------- 114
Query: 121 RLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFG----SGYPSDPRT 176
LA A+ V K D+ +SAASILAKV RD+E+E+L +Y ++ GYP T
Sbjct: 115 -LAIPAQAVV--KGDSLVAEISAASILAKVARDQEMEELDKQYPEYAFAQHKGYP----T 167
Query: 177 KKWLEEWYSKHGNFPPIVRRTWDTAKKIEEKF 208
K LE+ ++ G P RR++ KK E+F
Sbjct: 168 KLHLEK-LAELGALPQ-HRRSFAPVKKALEQF 197
>sp|Q9PL10|RNH2_CHLMU RIBONUCLEASE HII (RNASE HII) >gi|8163191|gb|AAF73545.1| (AE002297)
ribonuclease HII [Chlamydia muridarum]
Length = 217
Score = 78.0 bits (189), Expect = 8e-14
Identities = 56/169 (33%), Positives = 92/169 (54%), Gaps = 24/169 (14%)
Query: 2 KVAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLD 61
++AG DEAGRGP+ GP+V A ++ K+ LG+ DSK+L+P QR L++ +++ +
Sbjct: 28 RIAGVDEAGRGPLAGPVVAGACILPGGKL----FLGIDDSKKLSPKQRRYLYELLLEDPE 83
Query: 62 -DYSVVIVSPQDIDGRKGSMNELEV--ENFVKALNSLKVKPEVIYIDSADVKAERFAENI 118
V +VS + ID +N LE E V+A+ SL+ P+ + +D
Sbjct: 84 VTCGVGVVSVERID----EINILEATKEAMVQAIASLRSTPDFLLVDGL----------- 128
Query: 119 RSRLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFG 167
L +E + K D++ ++AASI+AK RD + KL +EY ++G
Sbjct: 129 --FLPHEIPCLKIIKGDSRSVSIAAASIIAKEYRDELMRKLHSEYPEYG 175
>sp|Q9Z9S0|RNH2_BACHD RIBONUCLEASE HII (RNASE HII) >gi|10175095|dbj|BAB06194.1|
(AP001515) ribonuclease H [Bacillus halodurans]
Length = 263
Score = 77.3 bits (187), Expect = 1e-13
Identities = 53/165 (32%), Positives = 86/165 (52%), Gaps = 19/165 (11%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDD 62
VAG DE GRGP+ GP+V A ++ +D + G+ DSK+L RE +D I +V
Sbjct: 76 VAGLDEVGRGPLAGPVVTAAVILPKD----VQLPGLTDSKKLAKETRESFYDRIKEVALA 131
Query: 63 YSVVIVSPQDIDGRKGSMNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAENIRSRL 122
+SV IV ID + ++ + + + A++ L V P+ + +D A N+ L
Sbjct: 132 WSVAIVPVTVID--EVNIYQATKQGMMSAIDQLSVNPDALLLD---------AMNLPLSL 180
Query: 123 AYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFG 167
++ + K D K ++A+S+LAKV RDR + L Y ++G
Sbjct: 181 PQQSLI----KGDQKSLSIAASSVLAKVTRDRYMADLANRYPEYG 221
>sp|P10442|RNH2_ECOLI RIBONUCLEASE HII (RNASE HII) >gi|7428165|pir||QQECBE ribonuclease H
(EC 3.1.26.4) II - Escherichia coli
>gi|1552760|gb|AAB08612.1| (U70214) ribonuclease HII
[Escherichia coli] >gi|1786380|gb|AAC73294.1| (AE000127)
RNAse HII, degrades RNA of DNA-RNA hybrids [Escherichia
coli K12]
Length = 198
Score = 76.9 bits (186), Expect = 2e-13
Identities = 64/201 (31%), Positives = 98/201 (47%), Gaps = 28/201 (13%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDD 62
VAG DE GRGP++G +V A ++ D R + G+ DSK+L+ +R L++EI +
Sbjct: 12 VAGVDEVGRGPLVGAVVTAAVIL--DPARPIA--GLNDSKKLSEKRRLALYEEIKEKALS 67
Query: 63 YSVVIVSPQDIDGRKGSMNELEVENFV--KALNSLKVKPEVIYIDSADVKAERFAENIRS 120
+S+ P +ID +N L +A+ L + PE + ID N
Sbjct: 68 WSLGRAEPHEID----ELNILHATMLAMQRAVAGLHIAPEYVLIDG----------NRCP 113
Query: 121 RLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFG----SGYPSDPRT 176
+L A V K D++ +SAASILAKV RD E+ L + +G GYP+
Sbjct: 114 KLPMPAMAVV--KGDSRVPEISAASILAKVTRDAEMAALDIVFPQYGFAQHKGYPTAFHL 171
Query: 177 KKWLEEWYSKH--GNFPPIVR 195
+K E ++H +F P+ R
Sbjct: 172 EKLAEHGATEHHRRSFGPVKR 192
>dbj|BAA77858.1| (D83536) Ribonuclease H (EC 3.1.26.4) II. [Escherichia coli]
Length = 213
Score = 76.9 bits (186), Expect = 2e-13
Identities = 64/201 (31%), Positives = 98/201 (47%), Gaps = 28/201 (13%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDD 62
VAG DE GRGP++G +V A ++ D R + G+ DSK+L+ +R L++EI +
Sbjct: 12 VAGVDEVGRGPLVGAVVTAAVIL--DPARPIA--GLNDSKKLSEKRRLALYEEIKEKALS 67
Query: 63 YSVVIVSPQDIDGRKGSMNELEVENFV--KALNSLKVKPEVIYIDSADVKAERFAENIRS 120
+S+ P +ID +N L +A+ L + PE + ID N
Sbjct: 68 WSLGRAEPHEID----ELNILHATMLAMQRAVAGLHIAPEYVLIDG----------NRCP 113
Query: 121 RLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFG----SGYPSDPRT 176
+L A V K D++ +SAASILAKV RD E+ L + +G GYP+
Sbjct: 114 KLPMPAMAVV--KGDSRVPEISAASILAKVTRDAEMAALDIVFPQYGFAQHKGYPTAFHL 171
Query: 177 KKWLEEWYSKH--GNFPPIVR 195
+K E ++H +F P+ R
Sbjct: 172 EKLAEHGATEHHRRSFGPVKR 192
>sp|Q9K1G1|RNH2_NEIMB RIBONUCLEASE HII (RNASE HII) >gi|11263452|pir||E81227 ribonuclease
HII NMB0192 [imported] - Neisseria meningitidis (group B
strain MD58) >gi|7225412|gb|AAF40649.1| (AE002376)
ribonuclease HII [Neisseria meningitidis MC58]
Length = 194
Score = 76.1 bits (184), Expect = 3e-13
Identities = 61/190 (32%), Positives = 92/190 (48%), Gaps = 22/190 (11%)
Query: 4 AGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDDY 63
AG DEAGRGP++G + A ++ E + G+ DSK+L+ +R+ L + I ++
Sbjct: 6 AGVDEAGRGPLVGSVFAAAVILPE----TFDLPGLTDSKKLSEKKRDALAEMIKNQAVEW 61
Query: 64 SVVIVSPQDIDGRKGSMNELEVENFV--KALNSLKVKPEVIYIDSADVKAERFAENIRSR 121
V SP++I S+N L +A++ L V+PE I+ID I
Sbjct: 62 HVAAASPEEI----ASLNILHATMLAMKRAVDGLAVRPEKIFIDG---------NRIPEH 108
Query: 122 LAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFGSGYPSDPRTKKWLE 181
L A+ V K D+K +SAAS+LAK RD E+ L + +G TK+ LE
Sbjct: 109 LNIPAEAVV--KGDSKIIEISAASVLAKTARDAEMYALAQRHPQYGFDKHKGYGTKQHLE 166
Query: 182 EWYSKHGNFP 191
K+G P
Sbjct: 167 A-LEKYGVLP 175
>sp|Q10793|RNH2_MYCTU RIBONUCLEASE HII (RNASE HII) >gi|7478920|pir||A70927 probable rnhB
protein - Mycobacterium tuberculosis (strain H37RV)
>gi|1403423|emb|CAA98340.1| (Z74024) rnhB [Mycobacterium
tuberculosis]
Length = 264
Score = 75.3 bits (182), Expect = 5e-13
Identities = 57/165 (34%), Positives = 81/165 (48%), Gaps = 16/165 (9%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDD 62
VAG DE GRG GPLV+ A V+ +I SL L DSK+L+ REKLF I +
Sbjct: 35 VAGVDEVGRGACAGPLVVAACVLGPGRIASLAAL--DDSKKLSEQAREKLFPLICRYAVA 92
Query: 63 YSVVIVSPQDIDGRKGSMNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAENIRSRL 122
Y VV + ++D R ++ +E +A+ L V+P + D V L
Sbjct: 93 YHVVFIPSAEVDRR--GVHVANIEGMRRAVAGLAVRPGYVLSDGFRVPG----------L 140
Query: 123 AYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFG 167
+ V DA ++AAS+LAKV RDR + L A++ +G
Sbjct: 141 PMPSLPVI--GGDAAAACIAAASVLAKVSRDRVMVALDADHPGYG 183
>sp|O69989|RNH2_STRCO RIBONUCLEASE HII (RNASE HII) >gi|7481740|pir||T35186 ribonuclease
HII - Streptomyces coelicolor
>gi|3036877|emb|CAA18510.1| (AL022374) SC5B8.02,
probable ribonuclease HII, len: 233 aa; si milar to many
e.g. RNH2_ECOLI P10442 ribonuclease hii (EC 3 .1.26.4)
(213 aa), fasta scores; opt: 444 z-score: 689.5 E( ):
3.2e-31, 42.5% identity in 179 aa overlap [Streptomyces
coelicolo>
Length = 233
Score = 74.1 bits (179), Expect = 1e-12
Identities = 61/184 (33%), Positives = 92/184 (49%), Gaps = 22/184 (11%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDD 62
+AG DE GRG GP+ + AA+ + +G+ DSK LT +R +L E+ +
Sbjct: 23 IAGVDEVGRGAWAGPVTVCAAITGLRR----PPVGLTDSKLLTIKRRTELEVELRTWVTS 78
Query: 63 YSVVIVSPQDIDGRKGSMNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAENIRSRL 122
Y++ SP++ID G L + V+AL +L V+P+ + +D L
Sbjct: 79 YALGHASPEEIDAM-GMTAALRLAA-VRALGTLPVRPDAVILDGK-----------HDYL 125
Query: 123 AYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFG----SGYPSDPRTKK 178
+V K D V+AAS+LAKV RD+ + +L ++ DFG +GYPS P K
Sbjct: 126 GAPWRVRTVIKGDQSCIAVAAASVLAKVQRDKMMAELGVDHADFGFADNAGYPS-PVHKA 184
Query: 179 WLEE 182
LEE
Sbjct: 185 ALEE 188
>sp|P72657|RNH2_SYNY3 RIBONUCLEASE HII (RNASE HII) >gi|7435237|pir||S74507 ribonuclease
HII - Synechocystis sp. (strain PCC 6803)
>gi|1651731|dbj|BAA16659.1| (D90899) ribonuclease HII
[Synechocystis sp.]
Length = 190
Score = 73.4 bits (177), Expect = 2e-12
Identities = 52/162 (32%), Positives = 78/162 (48%), Gaps = 15/162 (9%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDD 62
+AG DE GRG + GP+V A +V + I L LGVKDSKQL+P R +L + +
Sbjct: 1 MAGVDEVGRGALFGPVVAAAVLVPIEAINQLQALGVKDSKQLSPQHRSQLAQALPDYVHS 60
Query: 63 YSVVIVSPQDIDGRKGSMNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAENIRSRL 122
Y + I+ + ++ + + +A+ L V P + +D D L
Sbjct: 61 YGISFADVPTIN--RVNIRQASLLAMERAVQKLPVMPAWVLVDGRDT------------L 106
Query: 123 AYEAKV-VAEHKADAKYEIVSAASILAKVIRDREIEKLKAEY 163
+ A +A D K ++SAASILAKV RD I +L +
Sbjct: 107 PHIAMAQMAVTGGDRKSLLISAASILAKVWRDTLITRLAERF 148
>sp|O68821|RNH2_BRUME RIBONUCLEASE HII (RNASE HII) >gi|2984785|gb|AAC08032.1| (AF054610)
ribonuclease HII [Brucella melitensis]
Length = 220
Score = 73.4 bits (177), Expect = 2e-12
Identities = 53/165 (32%), Positives = 84/165 (50%), Gaps = 17/165 (10%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDD 62
+AG DEAGRGP+ GP+V A V++++ + G+ DSK+LT A+RE L++ I+
Sbjct: 34 IAGIDEAGRGPLAGPVVAAAVVLDQNDLPE----GLDDSKRLTAARREALYEIILTKAIT 89
Query: 63 YSVVIVSPQDIDGRKGSMNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAENIRSRL 122
SV +S + ID + + +E +A+ L +KP +D DV
Sbjct: 90 VSVASLSARSIDA--SDIRKAALEAMRRAVIGLTLKPCHALVDGRDVPP----------- 136
Query: 123 AYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFG 167
A K D + ++AASI+AKV RDR + + A + +G
Sbjct: 137 GLPCPGSALVKGDQRSVSIAAASIVAKVTRDRMMIRAGAAHPPYG 181
>sp|Q9Z962|RNH2_CHLPN RIBONUCLEASE HII (RNASE HII) >gi|7435249|pir||E72117 ribonuclease
HII - Chlamydophila pneumoniae (strain CWL029)
>gi|4376382|gb|AAD18272.1| (AE001598) Ribonuclease HII
[Chlamydophila pneumoniae CWL029]
>gi|8163472|gb|AAF73691.1| (AE002223) ribonuclease HII
[Chlamydophila pneumoniae AR39]
>gi|8978493|dbj|BAA98330.1| (AP002545) ribonuclease HII
[Chlamydophila pneumoniae J138]
Length = 214
Score = 73.4 bits (177), Expect = 2e-12
Identities = 55/173 (31%), Positives = 94/173 (53%), Gaps = 24/173 (13%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLD- 61
VAG DEAGRGP+ GP+V A ++ + K+ GV DSK+L+P QR ++ D +++ +
Sbjct: 29 VAGIDEAGRGPLAGPVVASACILPKGKVFP----GVNDSKKLSPKQRAQVRDALMQDPEV 84
Query: 62 DYSVVIVSPQDIDGRKGSMNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAENIRSR 121
+ + ++S + ID + ++ E E ++A++SL + P+++ +D
Sbjct: 85 CFGIGVISVERID--QVNILEATKEAMLQAISSLPISPDILLVDGL-------------Y 129
Query: 122 LAYEAKVVAEHKADAKYEIVSAASILAKVIRD---REIEKLKAEYG-DFGSGY 170
L ++ + DAK ++AASILAK RD ++ +L EYG D GY
Sbjct: 130 LPHDIPCKKIIQGDAKSASIAAASILAKEHRDDLMLQLHRLYPEYGFDRHKGY 182
>sp|Q9JX40|RNH2_NEIMA RIBONUCLEASE HII (RNASE HII) >gi|11263450|pir||B81999 ribonuclease
H (EC 3.1.26.4) II NMA0075 [imported] - Neisseria
meningitidis (group A strain Z2491)
>gi|7378848|emb|CAB83391.1| (AL162752) ribonuclease HII
[Neisseria meningitidis Z2491]
Length = 194
Score = 73.0 bits (176), Expect = 3e-12
Identities = 60/190 (31%), Positives = 90/190 (46%), Gaps = 22/190 (11%)
Query: 4 AGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDDY 63
AG DEAGRGP++G + A ++ E + G+ DSK+L+ +R+ L + I +
Sbjct: 6 AGVDEAGRGPLVGSVFAAAVILPE----TFDLPGLTDSKKLSEKKRDALAEMIKNQAVAW 61
Query: 64 SVVIVSPQDIDGRKGSMNELEVENFV--KALNSLKVKPEVIYIDSADVKAERFAENIRSR 121
V P++I S+N L +A++ L V+PE I+ID I
Sbjct: 62 HVAAAGPEEI----ASLNILHATMLAMKRAVDGLAVRPEKIFIDG---------NRIPEH 108
Query: 122 LAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFGSGYPSDPRTKKWLE 181
L A+ V K D+K +SAAS+LAK RD E+ L + +G TK+ LE
Sbjct: 109 LNIPAEAVV--KGDSKIIEISAASVLAKTARDAEMYALAQRHPQYGFDKHKGYGTKQHLE 166
Query: 182 EWYSKHGNFP 191
K+G P
Sbjct: 167 A-LEKYGVLP 175
>pir||E75334 ribonuclease HII - Deinococcus radiodurans (strain R1)
>gi|6459735|gb|AAF11501.1|AE002033_9 (AE002033)
ribonuclease HII [Deinococcus radiodurans]
Length = 212
Score = 69.9 bits (168), Expect = 2e-11
Identities = 54/168 (32%), Positives = 85/168 (50%), Gaps = 23/168 (13%)
Query: 2 KVAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLD 61
+VAG DEAGRG GPL + A ++ + +DSKQL+PA RE+ E+ +V
Sbjct: 23 RVAGVDEAGRGAWAGPLTVAAVILPGTS----QEYPFRDSKQLSPAAREEYAAEVRRVAV 78
Query: 62 DYSVVIVSPQDIDGRKGSMNELEVENF--VKALNSLKVKPEVIYIDSADVKAERFAENIR 119
++V P++ID +N L + ++A+ L+ P+ + D
Sbjct: 79 AWAVEHAWPEEID----RLNVLGATHAAALRAIARLEPPPQALVTDYL------------ 122
Query: 120 SRLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFG 167
RL + + A +ADA V+AAS+LAK RDR + +L AE+ +G
Sbjct: 123 -RLRADLPLSAPPRADALSYSVAAASLLAKTERDRLMRELDAEFPGYG 169
>sp|O67768|RNH2_AQUAE RIBONUCLEASE HII (RNASE HII) >gi|7435241|pir||D70467 RNase HII -
Aquifex aeolicus >gi|2984206|gb|AAC07736.1| (AE000765)
RNase HII [Aquifex aeolicus]
Length = 196
Score = 68.3 bits (164), Expect = 7e-11
Identities = 62/208 (29%), Positives = 92/208 (43%), Gaps = 36/208 (17%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVK-DSKQLTPAQREKLFDEIVKVLD 61
VAG DEAGRGP+ GP+V A + + T+ +K DSK+LT +RE+ ++EI
Sbjct: 15 VAGVDEAGRGPLAGPVVAAAVI-----LPPFTEPFIKGDSKKLTKKEREEAYEEIKNKAL 69
Query: 62 DYSVVIVSPQDIDGRKGSMNELEVENFV--KALNSLKVKPEVIYIDSADVKAERFAENIR 119
+V ID +N L +AL LK +++ D ++ E +
Sbjct: 70 AVGTAVVDSAVID----RVNILRATKLAMKRALKDLKYHYDIVITDYVKLEGENCMPLV- 124
Query: 120 SRLAYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDF----GSGYPSDPR 175
K D K + ASI+AKVIRD+ +E Y DF GYPS
Sbjct: 125 -------------KGDEKSLNCACASIIAKVIRDKIMEIYHKIYPDFNFASNKGYPSKTH 171
Query: 176 TKKWLEEWYSKHGNFPPIVRRTWDTAKK 203
+K + G + I R+++ KK
Sbjct: 172 LEK------VEKGEYTEIHRKSFSPLKK 193
>sp|O31744|RNH2_BACSU RIBONUCLEASE HII (RNASE HII) >gi|7435239|pir||C69693 ribonuclease H
rnh - Bacillus subtilis >gi|2633978|emb|CAB13479.1|
(Z99112) ribonuclease H [Bacillus subtilis]
Length = 255
Score = 67.9 bits (163), Expect = 9e-11
Identities = 52/179 (29%), Positives = 87/179 (48%), Gaps = 19/179 (10%)
Query: 3 VAGADEAGRGPVIGPLVIVAAVVEEDKIRSLTKLGVKDSKQLTPAQREKLFDEIVKVLDD 62
+AG DE GRGP+ GP+V A ++ E+ LG+ DSK+L+ +RE+ ++ I+K
Sbjct: 74 IAGVDEVGRGPLAGPVVASAVILPEE----CEILGLTDSKKLSEKKREEYYELIMKEALA 129
Query: 63 YSVVIVSPQDIDGRKGSMNELEVENFVKALNSLKVKPEVIYIDSADVKAERFAENIRSRL 122
+ IV ID + ++ E VKA+ L P+ + +D+ + +
Sbjct: 130 VGIGIVEATVID--EINIYEASKMAMVKAIQDLSDTPDYLLVDAMTLPLD---------- 177
Query: 123 AYEAKVVAEHKADAKYEIVSAASILAKVIRDREIEKLKAEYGDFGSGYPSDPRTKKWLE 181
+A ++ K DAK ++A + +AKV RDR + Y +G TK+ LE
Sbjct: 178 TAQASII---KGDAKSVSIAAGACIAKVTRDRMMSAYAETYPMYGFEKNKGYGTKEHLE 233
Database: ./suso.pep
Posted date: Jul 6, 2001 5:57 PM
Number of letters in database: 840,471
Number of sequences in database: 2977
Database: /banques/blast2/nr.pep
Posted date: Dec 14, 2000 12:46 PM
Number of letters in database: 188,266,275
Number of sequences in database: 595,510
Lambda K H
0.315 0.134 0.374
Gapped
Lambda K H
0.270 0.0470 0.230
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 79841971
Number of Sequences: 2977
Number of extensions: 3244972
Number of successful extensions: 11191
Number of sequences better than 1.0e-10: 41
Number of HSP's better than 0.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 30
Number of HSP's that attempted gapping in prelim test: 11098
Number of HSP's gapped (non-prelim): 41
length of query: 224
length of database: 189,106,746
effective HSP length: 58
effective length of query: 166
effective length of database: 154,394,500
effective search space: 25629487000
effective search space used: 25629487000
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.8 bits)
X3: 64 (24.9 bits)
S1: 41 (21.5 bits)
S2: 163 (67.9 bits)