ORF STATUS Function Best COG Functional category Pathways and functional systems
r_klactII3305 good L KOG3752 Replication, recombination and repair Ribonuclease H
Only best alignment is shown:
BLASTP 2.2.3 [May-13-2002]
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= r_klactII3305 1132489 1131380 -370
(370 letters)
Database: KOG eukaryal database 04/03
60,738 sequences; 30,389,216 total letters
Searching..................................................done
Color Key for Alignment Scores: 
Score E
Sequences producing significant alignments: (bits) Value
YMR234w [L] KOG3752 Ribonuclease H 249 5e-66
SPBC336.06c [L] KOG3752 Ribonuclease H 87 4e-17
CE01984 [L] KOG3752 Ribonuclease H 77 5e-14
7304133 [L] KOG3752 Ribonuclease H 74 3e-13
HsM4506555 [L] KOG3752 Ribonuclease H 72 2e-12
Hs21359816 [L] KOG3752 Ribonuclease H 72 2e-12
CE19682 [L] KOG3752 Ribonuclease H 51 3e-06
CE03839 [R] KOG3780 Thioredoxin binding protein TBP-2/VDUP1 49 9e-06
>YMR234w [L] KOG3752 Ribonuclease H
Length = 348
Score = 249 bits (636), Expect = 5e-66
Identities = 133/372 (35%), Positives = 203/372 (53%), Gaps = 27/372 (7%)
Query: 1 MGKKG-YYAVANGRNVGVFDSWSECQESVNGYSNAKFKRFDTPAEARAFANXXXXXXXXX 59
M ++G +YAV GR G++++W+EC+ V+GY A +K+F++ +A++F
Sbjct: 1 MARQGNFYAVRKGRETGIYNTWNECKNQVDGYGGAIYKKFNSYEQAKSFLGQPNTTSNYG 60
Query: 60 XXXXXXXXXXXXXXXXXXXXXXXXXHQQSTYNQXXXXXXXXXXXXXXXXXXXXXXXXXXX 119
Q
Sbjct: 61 SSTHAGGQVSKPHTT-----------------QKRVHRRNRPLHYSSLTSSSACSSLSSA 103
Query: 120 XXXXXXXVRSSDSSVPNKVFTNWADCKSYVEGRRNLSYRKFDTPSKADDFIQGRASNETI 179
V+S+ ++ +K+F NW DC++YV+ +R ++++KF+ A++FI G ++++
Sbjct: 104 NTNTFYSVKSNVPNIESKIFNNWKDCQAYVKHKRGITFKKFEDQLAAENFISGMSAHD-- 161
Query: 180 YSHLNTTASQFSQAHKITPERRSQVRVPAAPCNVYCDGSSFNNGFEGARAGYGIYFEGE- 238
Y +N + F +K++ + NVYCDGSSF NG +RAGYG YFEG
Sbjct: 162 YKLMNISKESFESKYKLSSNTMYNKSM-----NVYCDGSSFGNGTSSSRAGYGAYFEGAP 216
Query: 239 DRRIARPLTNGNQTNNRAEISAVSDALSDIWDNLKEGKKLNKYVIHTDSEYVSKMLNDYA 298
+ I+ PL +G QTNNRAEI AVS+AL IW+ L K+ Y I TDSEYV+K+LND
Sbjct: 217 EENISEPLLSGAQTNNRAEIEAVSEALKKIWEKLTNEKEKVNYQIKTDSEYVTKLLNDRY 276
Query: 299 NHVDPQQLQKAPNADLIVPMVQNYTKVKQFYEVNKDVVKDNG-LEVKWVKGHAGVPGNEI 357
D ++L+ PN+DLIVP+VQ + KVK++YE+NK+ K+NG +++WVKGH G PGNE+
Sbjct: 277 MTYDNKKLEGLPNSDLIVPLVQRFVKVKKYYELNKECFKNNGKFQIEWVKGHDGDPGNEM 336
Query: 358 ADQLAKEGAMKR 369
AD LAK+GA +R
Sbjct: 337 ADFLAKKGASRR 348
>SPBC336.06c [L] KOG3752 Ribonuclease H
Length = 264
Score = 87.0 bits (214), Expect = 4e-17
Identities = 73/264 (27%), Positives = 115/264 (42%), Gaps = 55/264 (20%)
Query: 138 VFTNWADCKSYVEGRRNLSYRKFDTPSKADDFIQGRASNETI-------------YSHLN 184
+++ W + V+G Y+KFD+ A +F + S + YS +
Sbjct: 19 IYSTWDEASDQVKGYGGNRYKKFDSYEAAQEFCRTEGSRYSSSSGPYRRSTTSYGYSPYS 78
Query: 185 TTASQFSQAHKITPERR---------------SQVRVPAAPCN----VYCDGSSFNNGFE 225
+++S +S H ++ + + C+ VY DGSS NG +
Sbjct: 79 SSSSNYSARHSDKYRKKISRSYSTEKDIEIFSNDTHEKSIACSDRQVVYADGSSLRNGKK 138
Query: 226 GARAGYGIYFEGED-RRIARPLTNGNQTNNRAEISAVSDALSDIWDNLKEGKKLNKYVIH 284
GA AG G++F +D R I+ PL QTNNRAE+ A+ AL + +L I
Sbjct: 139 GAVAGCGVFFGNDDPRNISVPLAGEEQTNNRAELQAIILALENTSGDL---------TIR 189
Query: 285 TDSEYVSKMLNDYANHVDPQQLQKAPNADLIVPMVQNYTKVKQFYEVNK--DVVKDNGLE 342
+DS Y K L + L K D N VK +N+ D++ D +
Sbjct: 190 SDSNYSIKSLTTW--------LPKWKKNDF---KTSNSQPVKNLDLINRASDLMSDRNVS 238
Query: 343 VKWVKGHAGVPGNEIADQLAKEGA 366
+++VKGH+ GN+ AD LA+ GA
Sbjct: 239 LEYVKGHSTDYGNQQADMLARRGA 262
Score = 53.1 bits (126), Expect = 6e-07
Identities = 20/46 (43%), Positives = 30/46 (64%)
Query: 3 KKGYYAVANGRNVGVFDSWSECQESVNGYSNAKFKRFDTPAEARAF 48
K+ YYAVA GRN G++ +W E + V GY ++K+FD+ A+ F
Sbjct: 5 KRAYYAVARGRNTGIYSTWDEASDQVKGYGGNRYKKFDSYEAAQEF 50
>CE01984 [L] KOG3752 Ribonuclease H
Length = 369
Score = 76.6 bits (187), Expect = 5e-14
Identities = 69/244 (28%), Positives = 122/244 (49%), Gaps = 42/244 (17%)
Query: 143 ADCKSYVEGRRNLSYRKFDTPSKADDFIQGRAS---NETIYSHLNTTAS---------QF 190
AD + VE ++ ++KF T ++A F+ S ++ + ++T+++ +F
Sbjct: 141 ADQEESVEKKKKKKFKKFATEAEARKFVADNMSVPGSKPVTPAVSTSSATRKRTHEGTKF 200
Query: 191 SQAHKI-TPERRSQVRVPAAPCNVYCDGSSFNNGFEGARAGYGIYFEGEDRRIARPLTNG 249
++A K+ T E AP VY DG+ +NG + A+AG+G+Y+ + G
Sbjct: 201 TEAKKMKTEEEVIDPEFANAPV-VYTDGACSSNGTKNAKAGWGVYWGDDSEDNEFGPVYG 259
Query: 250 NQTNNRAEISAVSDALSDIWDNLKEGKKLNKYVIHTDSEYVSKMLNDYANHVDPQQLQKA 309
TNNR E+ AV A+ + K+L K VI TDS + + +N + + + + +
Sbjct: 260 APTNNRGELIAVQKAIEKAIE-----KRLPKVVIKTDSNLLVQSMNIWIHGWKRKGWKTS 314
Query: 310 PNADLIVPMVQNYTKVKQFYEVNKDVVK--DN---GLEVKW--VKGHAGVPGNEIADQLA 362
++++ N+DV+ DN L+VK+ V+GHAG+ GNE AD+LA
Sbjct: 315 TGSEVL----------------NQDVLMKIDNLRQKLKVKFLHVRGHAGIDGNEKADELA 358
Query: 363 KEGA 366
++GA
Sbjct: 359 RKGA 362
>7304133 [L] KOG3752 Ribonuclease H
Length = 333
Score = 73.9 bits (180), Expect = 3e-13
Identities = 58/183 (31%), Positives = 86/183 (46%), Gaps = 17/183 (9%)
Query: 187 ASQFSQAHKITPERRSQVRVPAAP-CNVYCDGSSFNNGFEGARAGYGIYFEGEDRRIARP 245
ASQ S+A + Q + A VY DGS NG GA AGYG+YF + A
Sbjct: 157 ASQVSEATGLKQVGAFQFEIDAEGYVIVYTDGSCIGNGRAGACAGYGVYFGKNHQLNAAK 216
Query: 246 LTNGNQTNNRAEISAVSDALSDIWDNLKEGKKLNKYVIHTDSEYVSKMLNDYANHVDPQQ 305
G TNN EI A A+ D + K I TDS+++ + + +
Sbjct: 217 PVEGRVTNNVGEIQAAIHAIKTALD-----LGIQKLCISTDSQFLINSITLWVAGWKKRD 271
Query: 306 LQKAPNADLIVPMVQNYTKVKQFYEVNKDVVKDNGLEVKW--VKGHAGVPGNEIADQLAK 363
+ N Q V F E++K ++++N + VKW V+ H G+ GNE+AD+LA+
Sbjct: 272 WKLKNN--------QPVKNVVDFKELDK-LLQENNITVKWNYVEAHKGIEGNEMADKLAR 322
Query: 364 EGA 366
+G+
Sbjct: 323 QGS 325
Score = 60.1 bits (144), Expect = 5e-09
Identities = 25/45 (55%), Positives = 33/45 (72%)
Query: 6 YYAVANGRNVGVFDSWSECQESVNGYSNAKFKRFDTPAEARAFAN 50
+YAVA+GR GV+ SW+EC+E V G+ NAK+K+F T EA F N
Sbjct: 18 FYAVASGRRSGVYGSWAECEEQVKGFKNAKYKKFKTRQEADQFVN 62
>HsM4506555 [L] KOG3752 Ribonuclease H
Length = 286
Score = 71.6 bits (174), Expect = 2e-12
Identities = 66/261 (25%), Positives = 110/261 (41%), Gaps = 50/261 (19%)
Query: 138 VFTNWADCKSYVEGRRNLSYRKFDTPSKADDFIQGRASNETIYSHLNTTASQ-------- 189
VF W +C++ V+ ++KF T +A F++ AS E H N +
Sbjct: 39 VFLTWNECRAQVDRFPAARFKKFATEDEAWAFVRKSASPEVSEGHENQHGQESEAKASKR 98
Query: 190 ---------FSQAHKITPERRSQVRVPAAPCN------------VYCDGSSFNNGFEGAR 228
A + V PA P + VY DG +NG R
Sbjct: 99 LREPLDGDGHESAEPYAKHMKPSVE-PAPPVSRDTFSYMGDFVVVYTDGCCSSNGRRRPR 157
Query: 229 AGYGIYF-EGEDRRIARPLTNGNQTNNRAEISAVSDALSDIWDNLKEGKKLNKYVIHTDS 287
AG G+Y+ G + L G QTN RAEI A A+ + + +NK V++TDS
Sbjct: 158 AGIGVYWGPGHPLNVGIRLP-GRQTNQRAEIHAACKAIEQA-----KTQNINKLVLYTDS 211
Query: 288 EYVSKMLNDYANHVDPQQLQKAPNADLIVPMVQNYTKVKQFYEVNKDVVKDNGLEVKW-- 345
+ + ++ + + ++I +++ +++ + G++++W
Sbjct: 212 MFTINGITNWVQGWKKNGWKTSAGKEVINK--EDFVALERLTQ---------GMDIQWMH 260
Query: 346 VKGHAGVPGNEIADQLAKEGA 366
V GH+G GNE AD+LA+EGA
Sbjct: 261 VPGHSGFIGNEEADRLAREGA 281
>Hs21359816 [L] KOG3752 Ribonuclease H
Length = 286
Score = 71.6 bits (174), Expect = 2e-12
Identities = 66/261 (25%), Positives = 110/261 (41%), Gaps = 50/261 (19%)
Query: 138 VFTNWADCKSYVEGRRNLSYRKFDTPSKADDFIQGRASNETIYSHLNTTASQ-------- 189
VF W +C++ V+ ++KF T +A F++ AS E H N +
Sbjct: 39 VFLTWNECRAQVDRFPAARFKKFATEDEAWAFVRKSASPEVSEGHENQHGQESEAKASKR 98
Query: 190 ---------FSQAHKITPERRSQVRVPAAPCN------------VYCDGSSFNNGFEGAR 228
A + V PA P + VY DG +NG R
Sbjct: 99 LREPLDGDGHESAEPYAKHMKPSVE-PAPPVSRDTFSYMGDFVVVYTDGCCSSNGRRRPR 157
Query: 229 AGYGIYF-EGEDRRIARPLTNGNQTNNRAEISAVSDALSDIWDNLKEGKKLNKYVIHTDS 287
AG G+Y+ G + L G QTN RAEI A A+ + + +NK V++TDS
Sbjct: 158 AGIGVYWGPGHPLNVGIRLP-GRQTNQRAEIHAACKAIEQA-----KTQNINKLVLYTDS 211
Query: 288 EYVSKMLNDYANHVDPQQLQKAPNADLIVPMVQNYTKVKQFYEVNKDVVKDNGLEVKW-- 345
+ + ++ + + ++I +++ +++ + G++++W
Sbjct: 212 MFTINGITNWVQGWKKNGWKTSAGKEVINK--EDFVALERLTQ---------GMDIQWMH 260
Query: 346 VKGHAGVPGNEIADQLAKEGA 366
V GH+G GNE AD+LA+EGA
Sbjct: 261 VPGHSGFIGNEEADRLAREGA 281
>CE19682 [L] KOG3752 Ribonuclease H
Length = 139
Score = 50.8 bits (120), Expect = 3e-06
Identities = 40/150 (26%), Positives = 66/150 (43%), Gaps = 26/150 (17%)
Query: 210 PCNVYCDGSSFNNGFEGARAGYGIYFEGE-DRRIARPLTNGNQTNNRAEISAVSDALS-- 266
P + Y DGS+ NG +G+R GYG++ + + ++ +G QTNNR E+ A+ A
Sbjct: 2 PYDFYTDGSALGNGQQGSRGGYGVHVPSDTSKNVSGSYPHGPQTNNRYELEAIKHATQMA 61
Query: 267 -DIWDNLKEGKKLNKYVIHTDSEYVSKMLNDY-----ANHVDPQQLQKAPNADLIVPMVQ 320
D+ D + IHTDS+ + + +N Q N DLI + +
Sbjct: 62 RDVPD--------SHVRIHTDSKNAKDSVTKWNDNWKSNGYKTSSGQDVKNQDLIRDIDR 113
Query: 321 NYTKVKQFYEVNKDVVKDNGLEVKWVKGHA 350
N +K +E + V+GH+
Sbjct: 114 NVQALKH---------SGKTVEFEHVRGHS 134
>CE03839 [R] KOG3780 Thioredoxin binding protein TBP-2/VDUP1
Length = 404
Score = 49.3 bits (116), Expect = 9e-06
Identities = 46/158 (29%), Positives = 76/158 (47%), Gaps = 7/158 (4%)
Query: 213 VYCDGSSFNNGFEGARAGYGIYFEGEDRRIARP--LTNGNQTNNRAEISAVSDALSDI-- 268
VY DGS+ NNG GAR G+ I F DR + + G QTNN E++A+ +A +
Sbjct: 8 VYTDGSTVNNGKRGARGGWAIVFP-FDRSLDEYDFMKVGKQTNNVYELTAIYEATEVVRC 66
Query: 269 WDNLKEGKKLNKYVI-HTDSEYVSKMLNDYANH-VDPQQLQKAPNADLIVPMVQNYTKVK 326
WD+ K +KL + +T + S +L V P N + +K+
Sbjct: 67 WDSFKCNQKLEFVRLKNTITPTTSSILIPCTRRTVSPNGSTDGTNMGGLRITPGILSKIS 126
Query: 327 QFYEVNKDVVKDNGLEVKWVKGHAGVPGNEIADQLAKE 364
+ + + + + +++++VKGH N AD+LAK+
Sbjct: 127 RSFVPSTAISESLDVKIEYVKGHHTNFFNCEADRLAKK 164
Database: KOG eukaryal database 04/03
Posted date: Apr 14, 2003 1:07 PM
Number of letters in database: 30,389,216
Number of sequences in database: 60,738
Lambda K H
0.313 0.130 0.382
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,929,120
Number of Sequences: 60738
Number of extensions: 742107
Number of successful extensions: 1490
Number of sequences better than 1.0e-05: 8
Number of HSP's better than 0.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1463
Number of HSP's gapped (non-prelim): 22
length of query: 370
length of database: 30,389,216
effective HSP length: 108
effective length of query: 262
effective length of database: 23,829,512
effective search space: 6243332144
effective search space used: 6243332144
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)