RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy1361
(1274 letters)
>d1tgoa2 e.8.1.1 (A:348-773) Family B DNA polymerase {Archaeon
Thermococcus gorgonarius [TaxId: 71997]}
Length = 426
Score = 213 bits (542), Expect = 7e-61
Identities = 125/439 (28%), Positives = 200/439 (45%), Gaps = 41/439 (9%)
Query: 578 RSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKG 637
E+ LL +E++ + P+K + R++ +Y+GG V EP++G
Sbjct: 2 TGNLVEWFLLRKAYERNELAPNKPDEREL-------------ARRRESYAGGYVKEPERG 48
Query: 638 FYDKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLCEYLPEHQVDTGILPSEI 697
++ I+ +DF SLYPSII +N+ T+ ++ D+ + G +PS +
Sbjct: 49 LWEN-IVYLDFRSLYPSIIITHNVSPDTLNREGCEEYDVAPQVGHKFCKDFP-GFIPSLL 106
Query: 698 KKLVESRRQVKALMKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAAL 757
L+E R++VK MK D RQ+A+K+ ANS YG G+ +R++ + A
Sbjct: 107 GDLLEERQKVKKKMKATI-DPIEKKLLDYRQRAIKILANSFYGYYGYAKARWYCKECAES 165
Query: 758 VTAKGREILLNTKSLVEN-LNYEVIYGDTDSLMISCNVNDYDSVFKIGNQIKSECNK-LY 815
VTA GR+ + T +E ++V+Y DTD + D ++V K + N L
Sbjct: 166 VTAWGRQYIETTIREIEEKFGFKVLYADTDGFFATIPGADAETVKKKAKEFLDYINAKLP 225
Query: 816 KQLELDIDGVYKYMLLLKKKKYAALSISKLSNGKMICSQEIKGVDVVRRDWSQLASEAGK 875
LEL+ +G YK + KKKYA +G+++VRRDWS++A E
Sbjct: 226 GLLELEYEGFYKRGFFVTKKKYAV--------IDEEDKITTRGLEIVRRDWSEIAKETQA 277
Query: 876 FVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTD 935
V+ IL ++ +K++ L VP L I +Q+T+ ++Y
Sbjct: 278 RVLEAILK---------HGDVEEAVRIVKEVTEKLSKYEVPPEKLVIYEQITRDLKDY-- 326
Query: 936 RKALPHVQVALRLNNTNSKKLKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDV 995
+ PHV VA RL K + G ISYI+ + RA +E K K D
Sbjct: 327 KATGPHVAVAKRLAARGIKI-RPGTVISYIVLKGS--GRIGDRAIPFDEFDPA-KHKYDA 382
Query: 996 NYYLSQQIHPVVTRLLEPI 1014
YY+ Q+ P V R+L
Sbjct: 383 EYYIENQVLPAVERILRAF 401
>d1q8ia2 e.8.1.1 (A:390-783) Family B DNA polymerase {Escherichia coli
[TaxId: 562]}
Length = 394
Score = 209 bits (531), Expect = 7e-60
Identities = 104/433 (24%), Positives = 177/433 (40%), Gaps = 60/433 (13%)
Query: 616 NKGKGRKKAAYSGGLVLEPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSD 675
N G+ A GG V++ + G YD ++++D+ SLYPSI++ + I + M Q
Sbjct: 1 NLGE-VPPHASPGGYVMDSRPGLYDS-VLVLDYKSLYPSIVRTFLIDPVGLVEGMAQPDP 58
Query: 676 ITTLCEYLPEH-QVDTGILPSEIKKLVESRRQVKALMKQPNLSSDLLMQYDIRQKALKLT 734
+ +L + LP + + R + K +P +ALK+
Sbjct: 59 EHSTEGFLDAWFSREKHCLPEIVTNIWHGRDEAKRQGNKPL------------SQALKII 106
Query: 735 ANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVIYGDTDSLMISC-N 793
N+ YG LG RFF LA+ +T +G +I+ TK+L+E Y+VIYGDTDS +
Sbjct: 107 MNAFYGVLGTTACRFFDPRLASSITMRGHQIMRQTKALIEAQGYDVIYGDTDSTFVWLKG 166
Query: 794 VNDYDSVFKIGNQIKSECN----------KLYKQLELDIDGVYKYMLLLKKKKYAALSIS 843
+ + KIG + N +L LEL+ + + L+ + S
Sbjct: 167 AHSEEEAAKIGRALVQHVNAWWAETLQKQRLTSALELEYETHFCRFLMPTIRGADTGSKK 226
Query: 844 KLSNGK---MICSQEIKGVDVVRRDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIH 900
+ + KG++ VR DW+ LA + + + +I + Y + ++
Sbjct: 227 RYAGLIQEGDKQRMVFKGLETVRTDWTPLAQQFQQELYLRIFRNEPY-----QEYVRETI 281
Query: 901 EHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRKALPHVQVALRLNNTNSK-----K 955
+ + D K+L + EY R PHV+ A + N K +
Sbjct: 282 DKLMAGELDARLV--------YRKRLRRPLSEY-QRNVPPHVRAARLADEENQKRGRPLQ 332
Query: 956 LKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLEPIE 1015
+ TI Y+ +G E + + +D +YL++Q+ PV +L IE
Sbjct: 333 YQNRGTIKYVWTTNG------------PEPLDYQRSPLDYEHYLTRQLQPVAEGILPFIE 380
Query: 1016 GTDAVRIAECLGL 1028
A + LGL
Sbjct: 381 DNFATLMTGQLGL 393
>d1s5ja2 e.8.1.1 (A:450-864) Family B DNA polymerase {Sulfolobus
solfataricus [TaxId: 2287]}
Length = 415
Score = 208 bits (529), Expect = 2e-59
Identities = 105/434 (24%), Positives = 174/434 (40%), Gaps = 38/434 (8%)
Query: 585 LLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFYDKFII 644
L ++++++P K+ K T KGKG Y G +V++P G + I
Sbjct: 9 LYYWEHRKRNWLIPLKEEILAKSSNIRTSALIKGKG-----YKGAVVIDPPAGIFFN-IT 62
Query: 645 LMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLCEYLPEHQVDT---GILPSEIKKLV 701
++DF SLYPSII+ +N+ + T+ ++ + H V GI L
Sbjct: 63 VLDFASLYPSIIRTWNLSYETVDIQQCKKPYEVKDETGEVLHIVCMDRPGITAVITGLLR 122
Query: 702 ESR-RQVKALMKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTA 760
+ R + K K PN S + + YD+ Q+A+K+ N+ YG G +A +A VTA
Sbjct: 123 DFRVKIYKKKAKNPNNSEEQKLLYDVVQRAMKVFINATYGVFGAETFPLYAPRVAESVTA 182
Query: 761 KGREILLNTKSLVENLNYEVIYGDTDSLMISCNVNDYDSVFKIGNQIKSECNKLYKQLEL 820
GR ++ +T V+YGDTDSL + +S+ I +K+ L+L
Sbjct: 183 LGRYVITSTVKKAREEGLTVLYGDTDSLFLLN--PPKNSLENIIKWVKTTF-----NLDL 235
Query: 821 DIDGVYKYMLLLKKKKYAALSISKLSNGKMICSQEIKGVDVVRRDWSQLASEAGKFVISQ 880
++D YK++ KK +IKG+ V +R+ + + V
Sbjct: 236 EVDKTYKFVAFSGLKKNYFGVY-------QDGKVDIKGMLVKKRNTPEFVKKVFNEVKEL 288
Query: 881 ILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRKALP 940
++ S D + + I + +K L N L L L+K + Y +
Sbjct: 289 MISINSPNDV--KEIKRKIVDVVKGSYEKLKNKGYNLDELAFKVMLSKPLDAY-KKNTPQ 345
Query: 941 HVQVALRLNNTNSKKLKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLS 1000
HV+ AL+L + D I Y+ Q A E ID YL
Sbjct: 346 HVKAALQLRPFG-VNVLPRDIIYYVKVRSKDGVKPVQLAKVTE---------IDAEKYL- 394
Query: 1001 QQIHPVVTRLLEPI 1014
+ + ++L
Sbjct: 395 EALRSTFEQILRAF 408
>d1ih7a2 e.8.1.1 (A:376-903) Family B DNA polymerase {Bacteriophage
RB69 [TaxId: 12353]}
Length = 528
Score = 114 bits (285), Expect = 7e-27
Identities = 80/517 (15%), Positives = 149/517 (28%), Gaps = 130/517 (25%)
Query: 617 KGKGRKKAAYSGGLVLEPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDI 676
+G+ Y G V EP Y +++ D SLYPSII++ NI TI + + +
Sbjct: 7 QGRSHPVQPYPGAFVKEPIPNRYK-YVMSFDLTSLYPSIIRQVNISPETI-AGTFKVAPL 64
Query: 677 TTLCEYLPEHQVDT---------------GILPSEIKKLVESRRQVKALM---------- 711
+ E D G++P+EI K+ R++ K M
Sbjct: 65 HDYINAVAERPSDVYSCSPNGMMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEII 124
Query: 712 ----------------------------------------KQPNLSSDLLMQYDIRQKAL 731
+ + + Q
Sbjct: 125 KEALHNPNLSVDEPLDVDYRFDFSDEIKEKIKKLSAKSLNEMLFRAQRTEVAGMTAQINR 184
Query: 732 KLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYE---------VIY 782
KL NS+YG LG R++ A +T G+ L + V E V+Y
Sbjct: 185 KLLINSLYGALGNVWFRYYDLRNATAITTFGQMALQWIERKVNEYLNEVCGTEGEAFVLY 244
Query: 783 GDTDSLMISCNVNDYDSVFKIGNQIKSECNKLYKQLELDI-------------------- 822
GDTDS+ +S + + L K +
Sbjct: 245 GDTDSIYVSADKIIDKVGESKFRDTNHWVDFLDKFARERMEPAIDRGFREMCEYMNNKQH 304
Query: 823 --------------DGVYKYMLLLKKKKYAALSISKLSNGKMICSQEIKGVDVVRRDWSQ 868
KK+YA +I G++ + +
Sbjct: 305 LMFMDREAIAGPPLGSKGIGGFWTGKKRYALNVWDMEGTRYAEPKLKIMGLETQKSSTPK 364
Query: 869 LASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTK 928
+A K I ++L E + SL + + + +++ + + + K
Sbjct: 365 AVQKALKECIRRMLQEG---EESLQEYFKEFEKEFRQLNYIS------IASVSSANNIAK 415
Query: 929 APEEYTDRKALP-HVQVALRLN-----NTNSKKLKQGDTISYIICEDG-----TSEAATQ 977
P H++ L N N ++ ++ +G+ + + +G A
Sbjct: 416 YDVGGFPGPKCPFHIRGILTYNRAIKGNIDAPQVVEGEKVYVLPLREGNPFGDKCIAWPS 475
Query: 978 RAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLEPI 1014
+ +K++ +D L + +
Sbjct: 476 GTEITDLIKDDVLHWMDYTVLLEKTFIKPLEGFTSAA 512
>d2py5a2 e.8.1.1 (A:188-575) phi29 DNA polymerase {Bacteriophage
phi-29 [TaxId: 10756]}
Length = 388
Score = 69.1 bits (168), Expect = 1e-12
Identities = 45/347 (12%), Positives = 94/347 (27%), Gaps = 96/347 (27%)
Query: 623 KAAYSGGLV--LEPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLC 680
+ AY GG + K ++ D NSLYP+ + + + V +
Sbjct: 36 RYAYRGGFTWLNDRFKEKEIGEGMVFDVNSLYPAQMYSRLLPYGEPIVFEGKYVWDEDYP 95
Query: 681 EYL---------------------------------PEHQVDTGILPSEIKKLVESRRQV 707
++ ++ L + +L++ +
Sbjct: 96 LHIQHIRCEFELKEGYIPTIQIKRSRFYKGNEYLKSSGGEIADLWLSNVDLELMKEHYDL 155
Query: 708 KALM--------KQPNLSSDLL--------MQYDIRQKALKLTANSMYGCLGFPNS---- 747
+ L D + ++ KL NS+YG
Sbjct: 156 YNVEYISGLKFKATTGLFKDFIDKWTYIKTTSEGAIKQLAKLMLNSLYGKFASNPDVTGK 215
Query: 748 --------------------RFFAQPLAALVTAKGREILLNTKSLVENLNYEVIYGDTDS 787
P+ +TA R + + +IY DTDS
Sbjct: 216 VPYLKENGALGFRLGEEETKDPVYTPMGVFITAWARYTTITAA---QACYDRIIYCDTDS 272
Query: 788 LMISCN-VNDYDSVFKIGNQIKSECNKLYKQLELDIDGVYKYMLLLKKKKYAALSISKLS 846
+ ++ + D ++ + +K L++K Y K
Sbjct: 273 IHLTGTEIPDVIKDIVDPKKL----------GYWAHESTFKRAKYLRQKTYIQDIYMKEV 322
Query: 847 NGKMICSQEIKGVDVVRRDWSQLASEAGKFVISQILDEQSYTDYSLD 893
+GK++ E D +S + +I E ++ ++ +
Sbjct: 323 DGKLV---EGSPDDYTDIKFSVKC----AGMTDKIKKEVTFENFKVG 362
>d1q8ia1 c.55.3.5 (A:2-389) Exonuclease domain of family B DNA
polymerases {Escherichia coli [TaxId: 562]}
Length = 388
Score = 41.5 bits (97), Expect = 5e-04
Identities = 10/39 (25%), Positives = 12/39 (30%), Gaps = 2/39 (5%)
Query: 560 IRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLP 598
+ V G + R GG L H YV P
Sbjct: 352 LERATVNGLPVDRH--GGSVAAFGHLYFPRMHRAGYVAP 388
>d1k18a_ g.67.1.1 (A:) Zinc finger domain of DNA polymerase-alpha
{Human (Homo sapiens) [TaxId: 9606]}
Length = 31
Score = 33.7 bits (77), Expect = 0.005
Identities = 12/29 (41%), Positives = 14/29 (48%), Gaps = 2/29 (6%)
Query: 1136 CEDPGCSDLTRRCPLGLK--TRLCTTCHK 1162
CE+P C + TR PL LC C K
Sbjct: 2 CEEPTCRNRTRHLPLQFSRTGPLCPACMK 30
>d1dfma_ c.52.1.5 (A:) Restriction endonuclease BglII {Bacillus
subtilis [TaxId: 1423]}
Length = 223
Score = 32.2 bits (73), Expect = 0.30
Identities = 17/72 (23%), Positives = 27/72 (37%), Gaps = 8/72 (11%)
Query: 144 NIQNPNAKGDIQKLLANMPVK-KKKKEEVQLNNDDVLADLLSEVNTTIAPTLKLNTK--T 200
I NP +I++ L MP+ K + ++ + + V T +L K
Sbjct: 13 EILNPQLWKEIEETLLKMPLHVKASDQASKVGS-----LIFDPVGTNQYIKDELVPKHWK 67
Query: 201 NEIVIPKEEPPA 212
N I IPK
Sbjct: 68 NNIPIPKRFDFL 79
>d1jfxa_ c.1.8.8 (A:) Streptomyces lysozyme {Streptomyces
coelicolor, "mueller" dsm3030 [TaxId: 1902]}
Length = 217
Score = 29.3 bits (65), Expect = 2.1
Identities = 10/51 (19%), Positives = 19/51 (37%), Gaps = 4/51 (7%)
Query: 856 IKGVDVVR----RDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEH 902
++G+DV +WS + S F + + +Y D N +
Sbjct: 5 VQGIDVSHWQGSINWSSVKSAGMSFAYIKATEGTNYKDDRFSANYTNAYNA 55
>d1y97a1 c.55.3.5 (A:1-228) Three prime repair exonuclease 2, TREX2
{Human (Homo sapiens) [TaxId: 9606]}
Length = 228
Score = 28.4 bits (62), Expect = 5.1
Identities = 14/172 (8%), Positives = 35/172 (20%), Gaps = 27/172 (15%)
Query: 1091 VVFVLDECINPECKVPPYTYLPH------LINKLSQDMNKYIVKYYEGWLKCEDPGCSDL 1144
V+ L C+ PE L + +V+ + +L + +
Sbjct: 56 VLDKLTLCMCPERPFTAKASEITGLSSEGLARCRKAGFDGAVVRTLQAFLSRQAGPICLV 115
Query: 1145 TRRCPLGLKTRLCTTCHKYKLHRVYTELQLYQQLSFFHYICDITKALTKSDTPSIKFDS- 1203
LC + + L + + S
Sbjct: 116 AHNGFDYDFPLLCAELRRLGARLPRDTVCLDTLPALRGLDRAHSHGTRARGRQGYSLGSL 175
Query: 1204 -ETYMG-------------------YCKMKQHVERFLESSAYNIVDLKKLFS 1235
Y + + + + A ++ ++
Sbjct: 176 FHRYFRAEPSAAHSAEGDVHTLLLIFLHRAAELLAWADEQARGWAHIEPMYL 227
>d1wuua1 d.14.1.5 (A:2-216) Galactokinase {Human (Homo sapiens)
[TaxId: 9606]}
Length = 215
Score = 27.9 bits (61), Expect = 6.8
Identities = 15/98 (15%), Positives = 32/98 (32%), Gaps = 5/98 (5%)
Query: 377 ENKKVFRMFFLDAFEDIYKQPGTVYLFGKVFVKENNSHSSCCVIVQNIDRKIYLLPRSEH 436
E ++ FR F E PG V L G E+ ++ V+ ++ L+
Sbjct: 14 EARRAFREEFGAEPELAVSAPGRVNLIG-----EHTDYNQGLVLPMALELMTVLVGSPRK 68
Query: 437 LKTKEPVSIAQVYSEFDQIATQYKILDFKSRKIEKKYA 474
++ ++ E ++ ++A
Sbjct: 69 DGLVSLLTTSEGADEPQRLQFPLPTAQRSLEPGTPRWA 106
>d2btma_ c.1.1.1 (A:) Triosephosphate isomerase {Bacillus
stearothermophilus [TaxId: 1422]}
Length = 251
Score = 27.9 bits (61), Expect = 6.8
Identities = 12/140 (8%), Positives = 37/140 (26%), Gaps = 4/140 (2%)
Query: 1105 VPPYTYLPHLINKLSQDMNKYIVKYYEGWLKCEDPGCSDLTRRC--PLGLKTRLCTTCHK 1162
P+ +L L+ K + + +++ LG+ + +
Sbjct: 40 CAPFLFLDRLVQAADGTDLKIGAQTMHFADQ--GAYTGEVSPVMLKDLGVTYVILGHSER 97
Query: 1163 YKLHRVYTELQLYQQLSFFHYICDITKALTKSDTPSIKFDSETYMGYCKMKQHVERFLES 1222
++ E + L+ F +S + + K E
Sbjct: 98 RQMFAETDETVNKKVLAAFTRGLIPIICCGESLEEREAGQTNAVVASQVEKALAGLTPEQ 157
Query: 1223 SAYNIVDLKKLFSCEEKQPK 1242
++ + +++ +
Sbjct: 158 VKQAVIAYEPIWAIGTGKSS 177
>d1neya_ c.1.1.1 (A:) Triosephosphate isomerase {Baker's yeast
(Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 247
Score = 27.9 bits (61), Expect = 8.1
Identities = 12/122 (9%), Positives = 34/122 (27%), Gaps = 15/122 (12%)
Query: 1070 MNPSCKQVNTVEAPTRLSTHGVVFVLDECINPECKV---PPYTYLPHLINKLSQDMNKYI 1126
+N S + + + V + I +V PP TYL + ++ + +
Sbjct: 12 LNGSKQSIKEI----------VERLNTASIPENVEVVICPPATYLDYSVSLVKKPQVTVG 61
Query: 1127 VKYYEGWLKCEDPGCSDLTRRCPLGLKTRLCTTCHKYKLHRVYTELQLYQQLSFFHYICD 1186
+ + + + + H + + + + + F
Sbjct: 62 AQNAYLKAS--GAFTGENSVDQIKDVGAKYVILGHSERRSYFHEDDKFIADKTKFALGQG 119
Query: 1187 IT 1188
+
Sbjct: 120 VG 121
>d1jmta_ d.58.7.3 (A:) U2AF35
(35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}
Length = 104
Score = 26.5 bits (58), Expect = 8.8
Identities = 15/64 (23%), Positives = 27/64 (42%), Gaps = 2/64 (3%)
Query: 359 PQVHSRTADDSLPLATDHENKKVFRMFFLDAFEDIYKQPGTVYLFGKVFVKENNSHSSCC 418
PQ S++AD +D E ++ + FF + F ++ ++ G V H
Sbjct: 13 PQNSSQSADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEM--NVCDNLGDHLVGN 70
Query: 419 VIVQ 422
V V+
Sbjct: 71 VYVK 74
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
0.315 0.133 0.381
Gapped
Lambda K H
0.267 0.0476 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 4,704,629
Number of extensions: 230837
Number of successful extensions: 441
Number of sequences better than 10.0: 1
Number of HSP's gapped: 424
Number of HSP's successfully gapped: 22
Length of query: 1274
Length of database: 2,407,596
Length adjustment: 96
Effective length of query: 1178
Effective length of database: 1,089,516
Effective search space: 1283449848
Effective search space used: 1283449848
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 58 (26.7 bits)