RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy16749
(821 letters)
>d1mu2a1 c.55.3.1 (A:430-555) HIV RNase H (Domain of reverse
transcriptase) {Human immunodeficiency virus type 2
[TaxId: 11709]}
Length = 126
Score = 64.5 bits (156), Expect = 4e-13
Identities = 32/130 (24%), Positives = 47/130 (36%), Gaps = 9/130 (6%)
Query: 673 PNAICIYTDASKKNEKVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYSASLKN 732
P A YTD S + T + K K T+ AE+ AL S N
Sbjct: 5 PGAETFYTDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAFAMALTDSGPKVN 64
Query: 733 NEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHEGIKGN 792
I+ DS+ ++ + + I K + + +AW+ H+GI GN
Sbjct: 65 ----IIVDSQYVMGIVASQPTESESKIVNQIIEEMIKK-----EAIYVAWVPAHKGIGGN 115
Query: 793 VEVDRLAKYA 802
EVD L
Sbjct: 116 QEVDHLVSQG 125
>d1s1ta1 c.55.3.1 (A:430-539) HIV RNase H (Domain of reverse
transcriptase) {Human immunodeficiency virus type 1
[TaxId: 11676]}
Length = 110
Score = 52.7 bits (126), Expect = 4e-09
Identities = 28/119 (23%), Positives = 48/119 (40%), Gaps = 11/119 (9%)
Query: 669 QEKCPNAICIYTD-ASKKNEKVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D A+ + K+G A + + L T+ E+ I+ AL+ S
Sbjct: 2 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTD-TTNQKTELQAIYLALQDS 60
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGH 786
E+ I+TDS + + + P E E+++ + V LAW+ H
Sbjct: 61 GL----EVNIVTDS-----QYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAH 110
>d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId:
562]}
Length = 152
Score = 52.3 bits (124), Expect = 2e-08
Identities = 22/136 (16%), Positives = 41/136 (30%), Gaps = 9/136 (6%)
Query: 676 ICIYTD-ASKKNEKVG--AAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYSASLKN 732
+ I+T ++ N G A + K + T+ E++ AL+
Sbjct: 3 VEIFTAGSALGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKEHAE 62
Query: 733 NEIL------ILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGH 786
+ ++ + ++ L +K W+KGH
Sbjct: 63 VILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWVKGH 122
Query: 787 EGIKGNVEVDRLAKYA 802
G N D LA+ A
Sbjct: 123 AGHPENERADELARAA 138
>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus
[TaxId: 274]}
Length = 147
Score = 48.4 bits (114), Expect = 3e-07
Identities = 28/139 (20%), Positives = 45/139 (32%), Gaps = 14/139 (10%)
Query: 676 ICIYTD-ASKKNEKVG--AAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYSASLKN 732
+ ++TD A N G AA K T+ E+ E A +
Sbjct: 4 VALFTDGACLGNPGPGGWAALLRFHAHEKLLSGGEACTTNNRMELKAAIE--GLKALKEP 61
Query: 733 NEILILTDSKSACQKLS---------KNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWI 783
E+ + TDS + + + ++ L L V+ ++
Sbjct: 62 CEVDLYTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRVRFHFV 121
Query: 784 KGHEGIKGNVEVDRLAKYA 802
KGH G N VDR A+
Sbjct: 122 KGHTGHPENERVDREARRQ 140
>d1im4a_ e.8.1.7 (A:) DinB homolog (DBH) {Archaeon Sulfolobus
solfataricus [TaxId: 2287]}
Length = 209
Score = 29.4 bits (65), Expect = 1.2
Identities = 20/164 (12%), Positives = 39/164 (23%), Gaps = 17/164 (10%)
Query: 555 VECRENPMSKRTPQLV-------DRFVLKVISSQTALAAKLNTLTVTHMTSKYCKTKPTP 607
VE NP K P +V ++ A + + +
Sbjct: 19 VEEVLNPQYKGKPLVVCVYSGRTKTSGAVATANYEARKLGVKAGMPIIKAMQIAPSAIYV 78
Query: 608 PIVNSYCNISHQYGRELITYEKPIIYNYDYDIGKVSLQSETFNEYRKHPDSLQDAA--LS 665
P+ L+ I D E + + + + L+
Sbjct: 79 PMRKPIYEAFSNRIMNLLNKHADKIEVASID--------EAYLDVTNKVEGNFENGIELA 130
Query: 666 SEIQEKCPNAICIYTDASKKNEKVGAAWFCPTYKSKACFKLHPA 709
+I+++ I K+ A K + P
Sbjct: 131 RKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPT 174
>d2gqba1 a.282.1.1 (A:1-130) Hypothetical protein RPA2825
{Rhodopseudomonas palustris [TaxId: 1076]}
Length = 130
Score = 28.2 bits (63), Expect = 2.1
Identities = 12/43 (27%), Positives = 14/43 (32%)
Query: 265 KPAPKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTA 307
A P AP T AA + T A VA + K
Sbjct: 15 SAAASPGGAQAPATTGAAGTAPTAPQPTAAPSIDVAPILDKAV 57
Score = 27.8 bits (62), Expect = 2.3
Identities = 8/37 (21%), Positives = 11/37 (29%)
Query: 252 AISPVKKTATTTAKPAPKPATKPAPKPTTAAPKSTTT 288
AI A+ AP PT P + +
Sbjct: 10 AIFGDSAAASPGGAQAPATTGAAGTAPTAPQPTAAPS 46
Score = 27.4 bits (61), Expect = 3.4
Identities = 7/29 (24%), Positives = 8/29 (27%)
Query: 319 APKPAAPKKPVAAPAPKPRPATAAPAPKP 347
A P + P A P P P
Sbjct: 17 AASPGGAQAPATTGAAGTAPTAPQPTAAP 45
Score = 27.1 bits (60), Expect = 5.1
Identities = 8/31 (25%), Positives = 11/31 (35%)
Query: 305 KTATSTVSAAPKPSAPKPAAPKKPVAAPAPK 335
A+ + AP + AP P AP
Sbjct: 16 AAASPGGAQAPATTGAAGTAPTAPQPTAAPS 46
Score = 26.3 bits (58), Expect = 7.8
Identities = 10/27 (37%), Positives = 11/27 (40%)
Query: 321 KPAAPKKPVAAPAPKPRPATAAPAPKP 347
AA APA TA AP+P
Sbjct: 15 SAAASPGGAQAPATTGAAGTAPTAPQP 41
Score = 26.3 bits (58), Expect = 8.0
Identities = 8/32 (25%), Positives = 8/32 (25%)
Query: 264 AKPAPKPATKPAPKPTTAAPKSTTTAPKPAPV 295
A P A TA TA V
Sbjct: 18 ASPGGAQAPATTGAAGTAPTAPQPTAAPSIDV 49
>d1gaia_ a.102.1.1 (A:) Glucoamylase {Aspergillus awamori, variant
x100 [TaxId: 105351]}
Length = 472
Score = 27.8 bits (61), Expect = 6.3
Identities = 13/71 (18%), Positives = 29/71 (40%), Gaps = 2/71 (2%)
Query: 350 NGVTKRPVSATTTASRTSSSSVTSASAAKPAAPRVPLSQRTSAAKPATKPATAKPSTTSK 409
+ +SA S +++ +A+ + + + ++++ P T AT+ T S
Sbjct: 402 DKSDGDELSARDLT--WSYAALLTANNRRNSVVPPSWGETSASSVPGTCAATSASGTYSS 459
Query: 410 PTTASKPATAT 420
T S P+
Sbjct: 460 VTVTSWPSIVA 470
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.306 0.121 0.337
Gapped
Lambda K H
0.267 0.0634 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 2,637,164
Number of extensions: 117315
Number of successful extensions: 352
Number of sequences better than 10.0: 1
Number of HSP's gapped: 341
Number of HSP's successfully gapped: 24
Length of query: 821
Length of database: 2,407,596
Length adjustment: 93
Effective length of query: 728
Effective length of database: 1,130,706
Effective search space: 823153968
Effective search space used: 823153968
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 57 (25.9 bits)