RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy16215
(1041 letters)
>d1jiha2 e.8.1.7 (A:1-389) DNA polymerase eta {Baker's yeast
(Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 389
Score = 206 bits (525), Expect = 3e-59
Identities = 75/371 (20%), Positives = 131/371 (35%), Gaps = 71/371 (19%)
Query: 4 RIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMRGD 63
IA IDM+ F+ QVE P+ VQ+N IIAV+Y AR G++R
Sbjct: 24 ACIAHIDMNAFFAQVEQMRCGLSKEDPVVCVQWN-----SIIAVSYAARKYGISRMDTIQ 78
Query: 64 EAKQHCPEIELCRVPSVRG---------------------------KADISKYRNAGREV 96
EA + C + + K + YR R+
Sbjct: 79 EALKKCSNLIPIHTAVFKKGEDFWQYHDGCGSWVQDPAKQISVEDHKVSLEPYRRESRKA 138
Query: 97 IAVLSEFSNIVERASIDEAYIDLTDVVHERMKS------IGHIAASQLSNTFVVGFGPDN 150
+ + ++VERASIDE ++DL + + G + + F N
Sbjct: 139 LKIFKSACDLVERASIDEVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNIREAFIGGN 198
Query: 151 NDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQE-----LAIAGVIVEEIRAAVLSKTQF 205
D ++ + E + + + D E + + LA+ + + IR ++ +
Sbjct: 199 YDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDWDDVILALGSQVCKGIRDSIKDILGY 258
Query: 206 HCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVS--MLYANLSIKKVRHLGGKLGDEVVE 263
S G++ K + KL KP Q+I+ + + I LGG LG E+++
Sbjct: 259 TTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKFEITSFWTLGGVLGKELID 318
Query: 264 TLQCSTMLELEKF------SLKQLQSHF--------------------EEKTASWLYYIA 297
L ++ + QL+ A L+ ++
Sbjct: 319 VLDLPHENSIKHIRETWPDNAGQLKEFLDAKVKQSDYDRSTSNIDPLKTADLAEKLFKLS 378
Query: 298 RGIDHEPVNAR 308
RG P+++R
Sbjct: 379 RGRYGLPLSSR 389
>d1t94a2 e.8.1.7 (A:75-407) DNA polymerase kappa {Human (Homo
sapiens) [TaxId: 9606]}
Length = 333
Score = 195 bits (496), Expect = 5e-56
Identities = 81/319 (25%), Positives = 131/319 (41%), Gaps = 33/319 (10%)
Query: 2 TSRIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMR 61
S I IDMD FY VE + NP L KP+AV + NY AR GV M
Sbjct: 25 LSNTIVHIDMDAFYAAVEMRDNPELKDKPIAVGSM-----SMLSTSNYHARRFGVRAAMP 79
Query: 62 GDEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTD 121
G AK+ CP++ + + KYR +EV +L+++ S+DEAY+++T
Sbjct: 80 GFIAKRLCPQLIIV-------PPNFDKYRAVSKEVKEILADYDPNFMAMSLDEAYLNITK 132
Query: 122 VVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTED 181
+ ER + V + + ++ ++ + + +
Sbjct: 133 HLEERQNWPEDKRRYFIKMGSSVENDNPGKEVNKLSEHERSISPLLFEESPSDVQPPGDP 192
Query: 182 FQE-----------------LAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGL 224
FQ A +V+EIR + KT SAGIA N +LAK+
Sbjct: 193 FQVNFEEQNNPQILQNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDK 252
Query: 225 HKP--QKQSILPQSSVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQ 282
+KP Q Q + + +V +L I+KV +G ++++ L T EL + L
Sbjct: 253 NKPNGQYQILPNRQAVMDFIKDLPIRKVSGIGKVTE-KMLKALGIITCTELYQ-QRALLS 310
Query: 283 SHFEEKTASWLYYIARGID 301
F E + + +I+ G+
Sbjct: 311 LLFSETSWHYFLHISLGLG 329
>d1zeta2 e.8.1.7 (A:27-299) DNA polymerase iota {Human (Homo
sapiens) [TaxId: 9606]}
Length = 273
Score = 190 bits (482), Expect = 7e-55
Identities = 93/307 (30%), Positives = 146/307 (47%), Gaps = 38/307 (12%)
Query: 3 SRIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMRG 62
SR+I +D+DCFY QVE NP L KPL V Q ++ NYEAR GV + M
Sbjct: 1 SRVIVHVDLDCFYAQVEMISNPELKDKPLGVQQ-----KYLVVTCNYEARKLGVKKLMNV 55
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
+AK+ CP++ L D+++YR +V +L EFS +VER DE ++DLT++
Sbjct: 56 RDAKEKCPQLVLVNGE------DLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEM 109
Query: 123 VHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDF 182
V +R++ + S ++ + V N D
Sbjct: 110 VEKRLQQLQSDELSAVTVSGHVYNNQSINLLDVLHI------------------------ 145
Query: 183 QELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSMLY 242
L + I E+R A+ ++ AG+A NK+LAKLV G+ KP +Q++L S L
Sbjct: 146 -RLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLI 204
Query: 243 ANL-SIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARGID 301
+L IK++ +G K +E L +++ +L+ FS K L+ A + ++ G D
Sbjct: 205 HSLNHIKEIPGIGYKTAKC-LEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGED 263
Query: 302 HEPVNAR 308
+ PV
Sbjct: 264 NSPVILS 270
>d1jx4a2 e.8.1.7 (A:1-240) DinB homolog (DBH) {Archaeon Sulfolobus
solfataricus, DNA polymerase IV [TaxId: 2287]}
Length = 240
Score = 129 bits (325), Expect = 2e-34
Identities = 72/306 (23%), Positives = 115/306 (37%), Gaps = 69/306 (22%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQY--NTWKGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V + G + NYEAR GV +
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P V Y+ ++ +L E+S +E ASIDEAY+D++D
Sbjct: 62 VEAKKILPNA-------VYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 114
Query: 123 VHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDF 182
V + ++ + L +
Sbjct: 115 VRDYREA-----------------------------------------YNLGLEIKNKIL 133
Query: 183 QELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSMLY 242
++ I + I+ NKV AK+ + KP ++ V L
Sbjct: 134 EKEKITVTVG------------------ISKNKVFAKIAADMAKPNGIKVIDDEEVKRLI 175
Query: 243 ANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARGIDH 302
L I V + G + E ++ L + +++ +L+ E A +L +AR +
Sbjct: 176 RELDIADVPGI-GNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYN 234
Query: 303 EPVNAR 308
EP+ R
Sbjct: 235 EPIRTR 240
>d1im4a_ e.8.1.7 (A:) DinB homolog (DBH) {Archaeon Sulfolobus
solfataricus [TaxId: 2287]}
Length = 209
Score = 97.2 bits (241), Expect = 2e-23
Identities = 48/154 (31%), Positives = 66/154 (42%), Gaps = 16/154 (10%)
Query: 4 RIIALIDMDCFYCQVECKLNPSLHGKPLAVVQY--NTWKGGGIIAVNYEARHKGVTRHMR 61
I+ +D D F+ QVE LNP GKPL V Y T G + NYEAR GV M
Sbjct: 5 HIVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGRTKTSGAVATANYEARKLGVKAGMP 64
Query: 62 GDEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTD 121
+A Q P + +A ++ N + ++ +E ASIDEAY+D+T+
Sbjct: 65 IIKAMQIAPSAIYVPMRKPIYEAFSNRIMNLLN-------KHADKIEVASIDEAYLDVTN 117
Query: 122 VVH-------ERMKSIGHIAASQLSNTFVVGFGP 148
V E + I + T VG P
Sbjct: 118 KVEGNFENGIELARKIKQEILEKEKITVTVGVAP 151
Score = 47.9 bits (113), Expect = 1e-06
Identities = 17/68 (25%), Positives = 33/68 (48%)
Query: 191 IVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSMLYANLSIKKV 250
+ +I+ +L K + + G+A NK+LAK++ KP ++ + V L I ++
Sbjct: 129 LARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDIDEI 188
Query: 251 RHLGGKLG 258
+G L
Sbjct: 189 PGIGSVLA 196
>d1jiha1 d.240.1.1 (A:390-509) DNA polymerase eta {Baker's yeast
(Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 120
Score = 73.0 bits (179), Expect = 5e-16
Identities = 22/119 (18%), Positives = 47/119 (39%), Gaps = 7/119 (5%)
Query: 310 VSKSIGCCKRFPGKTCLATRQDVSHWIQELADEVCERLEDDLTLNKRRAQLLTVSFTQET 369
V KS+ K GK+C + D W++ E+ R++D + TVS +
Sbjct: 2 VVKSMMSNKNLRGKSC-NSIVDCISWLEVFCAELTSRIQDLEQEYNKIVIPRTVSISL-K 59
Query: 370 DGKVNSCSRSIALASYKL----QDIVEVSMQVINKTNSAPPISDLTPPLLFLGLSASKF 424
+S +A + ++++V ++ + + + PL L ++ + F
Sbjct: 60 TKSYEVYRKSGPVAYKGINFQSHELLKVGIKFVTDLDIKGK-NKSYYPLTKLSMTITNF 117
>d1t94a1 d.240.1.1 (A:411-515) DNA polymerase kappa {Human (Homo
sapiens) [TaxId: 9606]}
Length = 105
Score = 29.9 bits (67), Expect = 0.42
Identities = 14/111 (12%), Positives = 44/111 (39%), Gaps = 10/111 (9%)
Query: 312 KSIGCCKRFPGKTCLATRQDVSHWIQELADEVCERLEDDLTLNKRRAQLLTVSFTQETDG 371
KS+ + F + ++ QEL E+ + L+ + + + +T+ + +
Sbjct: 4 KSMSVERTFSE---INKAEEQYSLCQELCSELAQDLQK----ERLKGRTVTIKL-KNVNF 55
Query: 372 KVNSCSRSIALASYKLQDIVEVSMQVINKTNSAPPISDLTPPLLFLGLSAS 422
+V + + +++ ++I ++ +++ L +G+ S
Sbjct: 56 EVKTRASTVSSVVSTAEEIFAIAKELLKT--EIDADFPHPLRLRLMGVRIS 104
>d1wf3a2 d.52.3.1 (A:181-298) GTPase Era C-terminal domain {Thermus
thermophilus [TaxId: 274]}
Length = 118
Score = 29.4 bits (66), Expect = 0.80
Identities = 15/68 (22%), Positives = 30/68 (44%), Gaps = 1/68 (1%)
Query: 465 RDKTLLNFNQQTPFQLALNRIERKLIDKFKSHIESKLDSCNANVDKLVIGDISEQIKNIA 524
R++ + + P+ +A E + +I++ L + +VIG+ +IK I
Sbjct: 18 REEAMKRLWHEVPYAVATKVEEVAERENGVLYIKAILYVERPSQKAIVIGEGGRKIKEI- 76
Query: 525 AENVRKYL 532
+ RK L
Sbjct: 77 GQATRKQL 84
>d1v7pc_ c.62.1.1 (C:) Integrin alpha2-beta1 {Human (Homo sapiens)
[TaxId: 9606]}
Length = 193
Score = 27.9 bits (61), Expect = 4.3
Identities = 10/56 (17%), Positives = 18/56 (32%), Gaps = 1/56 (1%)
Query: 141 TFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQEL-AIAGVIVEEI 195
F + N +++ + + S N D L AG + E+I
Sbjct: 135 RFGIAVLGYLNRNALDTKNLIKEIKAIASIPTERYFFNVSDEAALLEKAGTLGEQI 190
>d1pt6a_ c.62.1.1 (A:) Integrin alpha1-beta1 {Human (Homo sapiens)
[TaxId: 9606]}
Length = 192
Score = 28.0 bits (61), Expect = 4.9
Identities = 13/75 (17%), Positives = 24/75 (32%), Gaps = 1/75 (1%)
Query: 124 HERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQ 183
+ R+K + + F + N + +E + + S+ N D
Sbjct: 118 NHRLKKVIQDCEDENIQRFSIAILGSYNRGNLSTEKFVEEIKSIASEPTEKHFFNVSDEL 177
Query: 184 ELA-IAGVIVEEIRA 197
L I + E I A
Sbjct: 178 ALVTIVKTLGERIFA 192
>d2fmla2 d.113.1.6 (A:3-204) Hypothetical protein EF2700, N-terminal
domain {Enterococcus faecalis [TaxId: 1351]}
Length = 202
Score = 27.9 bits (61), Expect = 5.5
Identities = 11/55 (20%), Positives = 20/55 (36%)
Query: 435 QFFKPQDHPEPMTSEHSSLPEQSTNHDSKKRDKTLLNFNQQTPFQLALNRIERKL 489
+F + H + +T H + + K L F+ A NR+ K+
Sbjct: 145 HWFNLERHGQHITLSHEDVEITLDLKTAASLGKDTLAFDHSEIIIKAFNRVVDKM 199
>d2csga1 b.82.2.12 (A:3-419) Hypothetical protein YbiU {Salmonella
typhimurium [TaxId: 90371]}
Length = 417
Score = 28.4 bits (63), Expect = 5.8
Identities = 11/64 (17%), Positives = 19/64 (29%), Gaps = 16/64 (25%)
Query: 515 DISEQIKNIAAENVRKYLRTHSKDSNASDEDEESFNDKLVSIEREVEESVGKDIEESLKN 574
D I+ + ++ LR D + F+ +I V E I +
Sbjct: 11 DPKAAIRQM-----KQALRAQIGDV------QAVFDRLSATIAARVAE-----INDLKAQ 54
Query: 575 VSDV 578
V
Sbjct: 55 GQPV 58
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
0.311 0.127 0.357
Gapped
Lambda K H
0.267 0.0485 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 3,565,541
Number of extensions: 162983
Number of successful extensions: 331
Number of sequences better than 10.0: 1
Number of HSP's gapped: 316
Number of HSP's successfully gapped: 18
Length of query: 1041
Length of database: 2,407,596
Length adjustment: 95
Effective length of query: 946
Effective length of database: 1,103,246
Effective search space: 1043670716
Effective search space used: 1043670716
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 58 (26.7 bits)