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= PAB0426 (NusA) DE:transcription termination-antitermination
factor NusA, putative
(145 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
pir||E75182 probable transcription termination-antitermination f... 292 1e-78
pir||E71031 probable transcription termination-antitermination f... 287 4e-77
sp|P29157|NUSA_THECE NUSA PROTEIN HOMOLOG >gi|99241|pir||S18712 ... 252 1e-66
pir||B69007 probable transcription termination factor nusA - Met... 146 1e-34
gi|11499475 transcription termination-antitermination factor Nus... 145 3e-34
sp|P11523|NUSA_SULAC NUSA PROTEIN HOMOLOG 115 2e-25
pir||A72571 hypothetical protein APE1850 - Aeropyrum pernix (str... 111 4e-24
gb|AAK40563.1| Transcription termination factor nusA homolog, pu... 104 4e-22
pir||S04720 probable transcription termination factor nusA - Sul... 104 7e-22
sp|P14026|NUSA_METVA NUSA PROTEIN HOMOLOG >gi|76322|pir||QQMX2 p... 96 2e-19
sp|Q58447|NUSA_METJA NUSA PROTEIN HOMOLOG >gi|2129311|pir||D6443... 90 1e-17
sp|P15738|NUSA_HALMO NUSA PROTEIN HOMOLOG >gi|81082|pir||S03580 ... 88 4e-17
sp|P15739|NUSA_HALHA NUSA PROTEIN HOMOLOG >gi|81060|pir||S03579 ... 88 5e-17
>pir||E75182 probable transcription termination-antitermination factor nusa
PAB0426 - Pyrococcus abyssi (strain Orsay)
>gi|5458050|emb|CAB49540.1| (AJ248284) transcription
termination-antitermination factor NusA, putative
[Pyrococcus abyssi]
Length = 145
Score = 292 bits (740), Expect = 1e-78
Identities = 145/145 (100%), Positives = 145/145 (100%)
Query: 1 MPLKLNTDQIKYIALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVE 60
MPLKLNTDQIKYIALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVE
Sbjct: 1 MPLKLNTDQIKYIALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVE 60
Query: 61 NLLGKEIDLVEHSENPEEFIKNIYKTMGVKVKRVHITEKKDGKKVALLDVNPRDKPKAIG 120
NLLGKEIDLVEHSENPEEFIKNIYKTMGVKVKRVHITEKKDGKKVALLDVNPRDKPKAIG
Sbjct: 61 NLLGKEIDLVEHSENPEEFIKNIYKTMGVKVKRVHITEKKDGKKVALLDVNPRDKPKAIG 120
Query: 121 RGGHNINIVRQLMERHHGIEDVIII 145
RGGHNINIVRQLMERHHGIEDVIII
Sbjct: 121 RGGHNINIVRQLMERHHGIEDVIII 145
>pir||E71031 probable transcription termination-antitermination factor nusA -
Pyrococcus horikoshii >gi|3257970|dbj|BAA30653.1|
(AP000006) 145aa long hypothetical transcription
termination-antitermination factor nusA [Pyrococcus
horikoshii]
Length = 145
Score = 287 bits (727), Expect = 4e-77
Identities = 140/145 (96%), Positives = 145/145 (99%)
Query: 1 MPLKLNTDQIKYIALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVE 60
MPLKLNTDQIKYIALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVE
Sbjct: 1 MPLKLNTDQIKYIALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVE 60
Query: 61 NLLGKEIDLVEHSENPEEFIKNIYKTMGVKVKRVHITEKKDGKKVALLDVNPRDKPKAIG 120
+LLGKEIDL+EHSENPEEFIKNIY+TMGVKVKRVHITEKKDGKKVALLDVNPRDKP+AIG
Sbjct: 61 SLLGKEIDLIEHSENPEEFIKNIYRTMGVKVKRVHITEKKDGKKVALLDVNPRDKPRAIG 120
Query: 121 RGGHNINIVRQLMERHHGIEDVIII 145
RGGHNINIVRQLMERHHGIEDVII+
Sbjct: 121 RGGHNINIVRQLMERHHGIEDVIIV 145
>sp|P29157|NUSA_THECE NUSA PROTEIN HOMOLOG >gi|99241|pir||S18712 probable transcription
termination factor nusA - Thermococcus celer
>gi|48144|emb|CAA47726.1| (X67313) ORF-X [Thermococcus
celer] >gi|58411|emb|CAA42848.1| (X60305) orf-x
[Thermococcus celer]
Length = 145
Score = 252 bits (638), Expect = 1e-66
Identities = 115/145 (79%), Positives = 139/145 (95%)
Query: 1 MPLKLNTDQIKYIALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVE 60
MPLKLNTDQIK+IALFES TGATVLDCLID RNRLI+VIKKGEMGLALGK+G NV+RV+
Sbjct: 1 MPLKLNTDQIKFIALFESMTGATVLDCLIDDRRNRLIFVIKKGEMGLALGKKGANVKRVQ 60
Query: 61 NLLGKEIDLVEHSENPEEFIKNIYKTMGVKVKRVHITEKKDGKKVALLDVNPRDKPKAIG 120
N++GKEI+++EHSENPEEF++NIYK++GVKVKRVHITEK+DGK+VALLD+ PR+KP+AIG
Sbjct: 61 NMIGKEIEVIEHSENPEEFLRNIYKSLGVKVKRVHITEKRDGKRVALLDIGPREKPRAIG 120
Query: 121 RGGHNINIVRQLMERHHGIEDVIII 145
RGG NIN+V++LMERHHGI+DV+II
Sbjct: 121 RGGQNINLVKELMERHHGIQDVVII 145
>pir||B69007 probable transcription termination factor nusA - Methanobacterium
thermoautotrophicum (strain Delta H)
>gi|2622153|gb|AAB85545.1| (AE000876) transcription
termination factor NusA [Methanobacterium
thermoautotrophicum]
Length = 143
Score = 146 bits (364), Expect = 1e-34
Identities = 67/144 (46%), Positives = 102/144 (70%), Gaps = 2/144 (1%)
Query: 1 MPLKLNTDQIKYIALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVE 60
M +K T++I+YIALFES TGA V DC++D E R+ +++KKG+MGLA+GK+G V +V+
Sbjct: 1 MTIKFTTNEIRYIALFESMTGAMVKDCIVDDENGRVTFLVKKGDMGLAIGKKGSTVAKVQ 60
Query: 61 NLLGKEIDLVEHSENPEEFIKNIYKTMGVKVKRVHITEKKDGKKVALLDVNPRDKPKAIG 120
L K ++++EHS +P EFIKN+ KV+ + I +K++G+K+A ++ +P++K AIG
Sbjct: 61 KALDKGVEVIEHSNDPVEFIKNLMAP--AKVRSIRILQKENGEKIATVETDPKNKRIAIG 118
Query: 121 RGGHNINIVRQLMERHHGIEDVII 144
RGG NI R L R H I ++II
Sbjct: 119 RGGQNIERARLLARRQHNISNIII 142
>gi|11499475 transcription termination-antitermination factor NusA, putative
[Archaeoglobus fulgidus] >gi|7428995|pir||B69486
probable transcription termination factor nusA -
Archaeoglobus fulgidus >gi|2648654|gb|AAB89363.1|
(AE000972) transcription termination-antitermination
factor NusA, putative [Archaeoglobus fulgidus]
Length = 139
Score = 145 bits (361), Expect = 3e-34
Identities = 69/144 (47%), Positives = 105/144 (72%), Gaps = 6/144 (4%)
Query: 1 MPLKLNTDQIKYIALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVE 60
M +KL+ D I+Y+ LFE+ TGA+V DCL+ ++ +++V+++G MG+A+GK GINV R
Sbjct: 1 MGVKLSADGIRYLTLFENLTGASVKDCLVYDDK--VVFVVRRGHMGVAIGKGGINVERAR 58
Query: 61 NLLGKEIDLVEHSENPEEFIKNIYKTMGVKVKRVHITEKKDGKKVALLDVNPRDKPKAIG 120
L+GK I+++EHSE+P EFI NI+K + V VK + +K+G K+A++ V+P K IG
Sbjct: 59 ELIGKRIEIIEHSEDPAEFIANIFKPIKVNVKLM----EKEGSKIAVVSVSPDLKGIVIG 114
Query: 121 RGGHNINIVRQLMERHHGIEDVII 144
+GG NIN ++L +RHH IEDVI+
Sbjct: 115 KGGKNINKAKELAKRHHDIEDVIV 138
>sp|P11523|NUSA_SULAC NUSA PROTEIN HOMOLOG
Length = 143
Score = 115 bits (286), Expect = 2e-25
Identities = 51/143 (35%), Positives = 91/143 (62%), Gaps = 3/143 (2%)
Query: 3 LKLNTDQIKYIALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVENL 62
+KL ++++KY++LF+ TG T DC+ID R+I +I MG+A+GK G+NVR++E L
Sbjct: 4 IKLTSEELKYMSLFQDITGVTARDCIIDDRNKRIILLINPESMGVAIGKNGLNVRKLEKL 63
Query: 63 LGKEIDLVEHSENPEEFIKNIYKTMGVKVKRVHITEKKDGKKVALLDVNPRDKPKAIGRG 122
+ K +++V + EN E+ +KN+ VK +V + + KK + V P+DK AIG+
Sbjct: 64 INKSVEIVGYQENLEDLVKNLMSPARVKTIKV---VQSNSKKTVYITVEPQDKGIAIGKN 120
Query: 123 GHNINIVRQLMERHHGIEDVIII 145
G N+ + +++R+ I+ V+++
Sbjct: 121 GRNVERAKLILKRYLDIDSVVVV 143
>pir||A72571 hypothetical protein APE1850 - Aeropyrum pernix (strain K1)
>gi|5105541|dbj|BAA80854.1| (AP000062) 144aa long
hypothetical protein [Aeropyrum pernix]
Length = 144
Score = 111 bits (275), Expect = 4e-24
Identities = 50/141 (35%), Positives = 94/141 (66%), Gaps = 3/141 (2%)
Query: 4 KLNTDQIKYIALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVENLL 63
++ ++++YI++F S TG T C++D+E NRLI+++ +GE G A+G+ G ++ + L
Sbjct: 6 RITLEELRYISVFHSITGVTAYRCIVDEENNRLIFLVSEGEAGRAIGRGGRLIKLLREAL 65
Query: 64 GKEIDLVEHSENPEEFIKNIYKTMGVKVKRVHITEKKDGKKVALLDVNPRDKPKAIGRGG 123
GK I++VE+S + E +KN++ GVK++ +++ E ++G K ++ V+ DK AIG+GG
Sbjct: 66 GKNIEVVEYSSDLERIVKNLFP--GVKIESINVRE-RNGVKQVVIKVSEDDKGAAIGKGG 122
Query: 124 HNINIVRQLMERHHGIEDVII 144
N+ R ++ + G+E V+I
Sbjct: 123 KNVKRARLVLSKLFGVEKVVI 143
>gb|AAK40563.1| Transcription termination factor nusA homolog, putative (nusA)
[Sulfolobus solfataricus]
Length = 124
Score = 104 bits (258), Expect = 4e-22
Identities = 48/126 (38%), Positives = 86/126 (68%), Gaps = 3/126 (2%)
Query: 20 TGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVENLLGKEIDLVEHSENPEEF 79
T A V DC+ID E NR+I+++ +MG+A+GK GINV++++ ++GK+I+LV +S+N EE
Sbjct: 2 TRANVRDCIIDNENNRIIFLVDSKDMGVAIGKSGINVKKLKKIIGKDIELVAYSDNLEEL 61
Query: 80 IKNIYKTMGVKVKRVHITEKKDGKKVALLDVNPRDKPKAIGRGGHNINIVRQLMERHHGI 139
+KN+ V+ +V T KK ++++P+DK AIG+ G N+ + +++R+ I
Sbjct: 62 VKNLMSPARVRSVKVVNT---SSKKSVYINIDPQDKGLAIGKNGRNVARAKLILKRYMDI 118
Query: 140 EDVIII 145
++V+I+
Sbjct: 119 DNVVIV 124
>pir||S04720 probable transcription termination factor nusA - Sulfolobus
acidocaldarius >gi|46673|emb|CAA32928.1| (X14818) ORF
130 (AA 1-130) [Sulfolobus acidocaldarius]
Length = 130
Score = 104 bits (256), Expect = 7e-22
Identities = 47/133 (35%), Positives = 82/133 (61%), Gaps = 3/133 (2%)
Query: 13 IALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVENLLGKEIDLVEH 72
++LF+ TG T DC+ID R+I +I MG+A+GK G+NVR++E L+ K +++V +
Sbjct: 1 MSLFQDITGVTARDCIIDDRNKRIILLINPESMGVAIGKNGLNVRKLEKLINKSVEIVGY 60
Query: 73 SENPEEFIKNIYKTMGVKVKRVHITEKKDGKKVALLDVNPRDKPKAIGRGGHNINIVRQL 132
EN E+ +KN+ VK +V + + KK + V P+DK AIG+ G N+ + +
Sbjct: 61 QENLEDLVKNLMSPARVKTIKV---VQSNSKKTVYITVEPQDKGIAIGKNGRNVERAKLI 117
Query: 133 MERHHGIEDVIII 145
++R+ I+ V+++
Sbjct: 118 LKRYLDIDSVVVV 130
>sp|P14026|NUSA_METVA NUSA PROTEIN HOMOLOG >gi|76322|pir||QQMX2 probable transcription
termination factor nusA - Methanococcus vannielii
>gi|44783|emb|CAA34088.1| (X15970) ORF 2 protein (AA
1-173) [Methanococcus vannielii]
Length = 173
Score = 96.0 bits (235), Expect = 2e-19
Identities = 54/146 (36%), Positives = 90/146 (60%), Gaps = 7/146 (4%)
Query: 1 MPLKLNTDQIKYIALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVE 60
M +KLNT+ I I+LFE TGA V+D D E+ +++V+K+G++G A+GK G NV+
Sbjct: 1 MRIKLNTEDIMRISLFEKMTGANVIDSTSDDEK--IVFVVKEGDIGAAIGKGGENVKNAT 58
Query: 61 NLLGKEIDLVEHSENPEEFIKNIYKTMGVKVKRVHITEKKDGKK-VALLDVNPRDKPKAI 119
+ GK+IDL+E+SE+ ++FIKNI+ ++ + KK G V + V+PR + I
Sbjct: 59 DKFGKKIDLIEYSEDLKQFIKNIF----APIELEDVWVKKFGNDLVVYVRVHPRLRRAII 114
Query: 120 GRGGHNINIVRQLMERHHGIEDVIII 145
G G NI+ + R G++++ ++
Sbjct: 115 GDKGKNIDRAVDIAGRLAGVKNIKVV 140
>sp|Q58447|NUSA_METJA NUSA PROTEIN HOMOLOG >gi|2129311|pir||D64430 probable transcription
termination factor nusA - Methanococcus jannaschii
>gi|1591699|gb|AAB99049.1| (U67547) putative
transcription termination-antitermination factor (NusA)
[Methanococcus jannaschii]
Length = 183
Score = 89.7 bits (219), Expect = 1e-17
Identities = 44/144 (30%), Positives = 86/144 (59%), Gaps = 7/144 (4%)
Query: 3 LKLNTDQIKYIALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVENL 62
++L T++I I FE +LDC+++ ER + +++K+G++G A+GK G NV+ E
Sbjct: 4 VRLTTEEIMKIGFFEKIANVPILDCVLNDER--VAFIVKEGDVGAAIGKGGENVKTAEEK 61
Query: 63 LGKEIDLVEHSENPEEFIKNIYKTMGVKVKRVHITEKKDGKK-VALLDVNPRDKPKAIGR 121
GK++D++E+S++ +FI+NI+ ++ + K+ GK VA + +NP+ + G
Sbjct: 62 FGKKVDIIEYSDDWRKFIRNIF----APIQLDDVWVKRVGKDVVAFIKINPKVRRAVFGE 117
Query: 122 GGHNINIVRQLMERHHGIEDVIII 145
G N+ ++++RH I + +I
Sbjct: 118 KGKNLERALKILKRHTKITKIKVI 141
>sp|P15738|NUSA_HALMO NUSA PROTEIN HOMOLOG >gi|81082|pir||S03580 probable transcription
termination factor nusA - Halococcus morrhuae
>gi|43623|emb|CAA40433.1| (X57145) ORF 139 [Halococcus
morrhuae]
Length = 139
Score = 88.2 bits (215), Expect = 4e-17
Identities = 50/142 (35%), Positives = 79/142 (55%), Gaps = 6/142 (4%)
Query: 1 MPLKLNTDQIKYIALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVE 60
M + L+ +++IALFE TGA+ +DCL+D +R + +++ GEM A+G G V +VE
Sbjct: 1 MRVTLSDTALRHIALFEDVTGASAVDCLVDDDR--VCFLVATGEMSDAIGPDGTTVEQVE 58
Query: 61 NLLGKEIDLVEHSENPEEFIKNIYKTMGVKVKRVHITEKKDGKKVALLDVNPRDKPKAIG 120
L K + LVE+++ E F+ N V ++T ++ VA +V+ D AIG
Sbjct: 59 ERLDKRVSLVENADTAELFVANALAPAVVH----NVTISENASTVAYAEVDRADTGVAIG 114
Query: 121 RGGHNINIVRQLMERHHGIEDV 142
R G I R+L ER I+D+
Sbjct: 115 RDGETIETARRLAERQFDIDDI 136
>sp|P15739|NUSA_HALHA NUSA PROTEIN HOMOLOG >gi|81060|pir||S03579 probable transcription
termination factor nusA - Halobacterium salinarum
>gi|43544|emb|CAA40428.1| (X57144) ORF 139
[Halobacterium halobium] >gi|10582041|gb|AAG20690.1|
(AE005138) transcription termination-antitermination
factor; NusA [Halobacterium sp. NRC-1]
Length = 139
Score = 87.8 bits (214), Expect = 5e-17
Identities = 51/142 (35%), Positives = 78/142 (54%), Gaps = 6/142 (4%)
Query: 1 MPLKLNTDQIKYIALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVE 60
M ++L+ + + IA+FE+ T AT +DCL D +R ++YV+ GEMG A+G G V +E
Sbjct: 1 MTIRLSDEARQLIAVFETETDATAVDCLPDDDR--VVYVVTAGEMGAAIGDGGSRVDALE 58
Query: 61 NLLGKEIDLVEHSENPEEFIKNIYKTMGVKVKRVHITEKKDGKKVALLDVNPRDKPKAIG 120
LG+ + LVE + E F+ N V ++T ++ VA +V DK AIG
Sbjct: 59 ATLGRSVVLVEDAPTAEGFVANALSPAAV----YNVTVSENDTTVAYAEVAHEDKGVAIG 114
Query: 121 RGGHNINIVRQLMERHHGIEDV 142
G NI ++L RH I+D+
Sbjct: 115 ADGTNIETAKELAARHFDIDDI 136
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
0.320 0.142 0.399
Gapped
Lambda K H
0.270 0.0470 0.230
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 52429923
Number of Sequences: 2977
Number of extensions: 2079875
Number of successful extensions: 6035
Number of sequences better than 1.0e-10: 13
Number of HSP's better than 0.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 6002
Number of HSP's gapped (non-prelim): 13
length of query: 145
length of database: 189,106,746
effective HSP length: 53
effective length of query: 92
effective length of database: 157,386,935
effective search space: 14479598020
effective search space used: 14479598020
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.8 bits)
X3: 64 (24.9 bits)
S1: 41 (21.8 bits)
S2: 161 (67.1 bits)