RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= 008738
(555 letters)
>d1bjta_ e.11.1.1 (A:) DNA topoisomerase II, C-terminal fragment
(residues 410-1202) {Baker's yeast (Saccharomyces
cerevisiae) [TaxId: 4932]}
Length = 760
Score = 248 bits (635), Expect = 3e-74
Identities = 63/241 (26%), Positives = 111/241 (46%), Gaps = 17/241 (7%)
Query: 317 RSSSLPG--KLADCS---STTPEESEIFIVEGDSA-----GGSAKQGRDRRFQAILPLRG 366
R S + KL D + + + + + EGDSA G A GRD + PLRG
Sbjct: 1 RKSRITNYPKLEDANKAGTKEGYKCTLVLTEGDSALSLAVAGLAVVGRD--YYGCYPLRG 58
Query: 367 KILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRT 426
K+LNV + KN EIQ + + +GL + + ++LRY ++I+TD D DG+HI+
Sbjct: 59 KMLNVREASADQILKNAEIQAIKKIMGLQHRKKYEDTKSLRYGHLMIMTDQDHDGSHIKG 118
Query: 427 LLLTFFYRYQKTLFD-EGCIYVGVPPLYKVERGKQVQY---CYDDAELKKVKSSFPSNAL 482
L++ F L D +G + + P+ KV K + Y+ + +K +
Sbjct: 119 LIINFLESSFLGLLDIQGFLLEFITPIIKVSITKPTKNTIAFYNMPDYEKWREEESHKFT 178
Query: 483 YSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQ 542
+ + +KGLG + ++ E N ++ + K + + + + + D RKE ++
Sbjct: 179 WKQKYYKGLGTSLAQEVREYFSNLDRHL-KIFHSLQGNDKDYIDLAFSKKKADDRKEWLR 237
Query: 543 N 543
Sbjct: 238 Q 238
>d1ei1a1 d.14.1.3 (A:221-392) DNA gyrase B {Escherichia coli [TaxId:
562]}
Length = 172
Score = 149 bits (377), Expect = 5e-43
Identities = 66/172 (38%), Positives = 110/172 (63%), Gaps = 2/172 (1%)
Query: 139 GLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGG 197
G++ +V++LN +K P+H ++ F + DGI +++ALQW D + + + + N+I DGG
Sbjct: 1 GIKAFVEYLNKNKTPIHPNIFYFSTEKDGIGVEVALQWN-DGFQENIYCFTNNIPQRDGG 59
Query: 198 THIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTR 257
TH+ G +A++TRTLN+ K K +S +G+ REGL ++SV+VP+P+F QTK +
Sbjct: 60 THLAGFRAAMTRTLNAYMDKEGYSKKAKVSATGDDAREGLIAVVSVKVPDPKFSSQTKDK 119
Query: 258 LGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDL 309
L + EV+ V+Q + E L EYL +P ++ K + A +A AA+RAR++
Sbjct: 120 LVSSEVKSAVEQQMNELLAEYLLENPTDAKIVVGKIIDAARAREAARRAREM 171
>d1kija1 d.14.1.3 (A:221-392) DNA gyrase B {Thermus thermophilus
[TaxId: 274]}
Length = 172
Score = 147 bits (371), Expect = 3e-42
Identities = 62/173 (35%), Positives = 98/173 (56%), Gaps = 2/173 (1%)
Query: 139 GLEEYVQWLNTDKKPLHD-VVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGG 197
G+ + + L + L++ R + +++ Y+ +L YAN I T DGG
Sbjct: 1 GVASFAKALAEGEDLLYEKPFLIRGTHGEVEVEVGFLHT-QGYNAEILTYANMIPTRDGG 59
Query: 198 THIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTR 257
TH+ K++ +R LN KK+ K+K +G+ + EGL ++SV++PNP+FEGQTK +
Sbjct: 60 THLTAFKSAYSRALNQYAKKAGLNKEKGPQPTGDDLLEGLYAVVSVKLPNPQFEGQTKGK 119
Query: 258 LGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLV 310
L NPE V Q V E L E LE +P + ++ K+L A +A AA++AR+LV
Sbjct: 120 LLNPEAGTAVGQVVYERLLEILEENPRIAKAVYEKALRAAQAREAARKARELV 172
>d1s16a1 d.14.1.3 (A:1217-1383) Topoisomerase IV subunit B
{Escherichia coli [TaxId: 562]}
Length = 167
Score = 144 bits (364), Expect = 3e-41
Identities = 37/166 (22%), Positives = 72/166 (43%), Gaps = 2/166 (1%)
Query: 139 GLEEYVQWLNTDKKPLHD-VVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGG 197
GL +Y+ L + D +D AL W + Y N I T+ GG
Sbjct: 2 GLNDYLAEAVNGLPTLPEKPFIGNFAGDTEAVDWALLWLPEGGELLTESYVNLIPTMQGG 61
Query: 198 THIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTR 257
TH+ G++ L + + + + + LS E + + ++SV++ +P+F GQTK R
Sbjct: 62 THVNGLRQGLLDAMREFCEYRNILP-RGVKLSAEDIWDRCAYVLSVKMQDPQFAGQTKER 120
Query: 258 LGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAA 303
L + + V V++ +L + + + ++S+ + + A
Sbjct: 121 LSSRQCAAFVSGVVKDAFILWLNQNVQAAELLAEMAISSAQRRMRA 166
>d1ei1a2 d.122.1.2 (A:2-220) DNA gyrase B {Escherichia coli [TaxId:
562]}
Length = 219
Score = 115 bits (289), Expect = 4e-30
Identities = 58/138 (42%), Positives = 83/138 (60%), Gaps = 10/138 (7%)
Query: 1 MIVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKP 60
+I+TVLHAGGKF +S Y VSGGLHGVG+SVVNALS+ LE+ + R+G + Q Y G P
Sbjct: 92 VIMTVLHAGGKFDDNS--YKVSGGLHGVGVSVVNALSQKLELVIQREGKIHRQIYEHGVP 149
Query: 61 VTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALR 120
L ++ GT +RFWP + FT +F++ +A R+REL+FL+ ++I LR
Sbjct: 150 QAPLA----VTGETEKTGTMVRFWPSLETFTNVTEFEYEILAKRLRELSFLDSGVSIRLR 205
Query: 121 KEDSDPEKNQYNEYFFAG 138
+ E + + G
Sbjct: 206 DKRDGKED----HFHYEG 219
>d1s14a_ d.122.1.2 (A:) Topoisomerase IV subunit B {Escherichia coli
[TaxId: 562]}
Length = 168
Score = 111 bits (280), Expect = 2e-29
Identities = 32/107 (29%), Positives = 53/107 (49%), Gaps = 3/107 (2%)
Query: 27 GVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPD 86
+ +SVVNALS+ +EV V RDG Y+ + G+ V L K GT + FWPD
Sbjct: 64 ILCISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDLQVV--GTCGKRNTGTSVHFWPD 121
Query: 87 KQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNE 133
+ F + +F + + ++ A L P + I + E ++ E+ +
Sbjct: 122 ETFFDS-PRFSVSRLTHVLKAKAVLCPGVEITFKDEINNTEQRWCYQ 167
>d1kija2 d.122.1.2 (A:9-220) DNA gyrase B {Thermus thermophilus
[TaxId: 274]}
Length = 212
Score = 94.0 bits (233), Expect = 1e-22
Identities = 50/133 (37%), Positives = 74/133 (55%), Gaps = 5/133 (3%)
Query: 1 MIVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKP 60
+I LH+GGKF + Y VSGGLHGVG SVVNALSE V V+R+G + +SRG+
Sbjct: 84 VIYNTLHSGGKFEQGA--YKVSGGLHGVGASVVNALSEWTVVEVFREGKHHRIAFSRGEV 141
Query: 61 VTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALR 120
L + + GTR+ F PD ++F ++FD + I R+RE+A+L L + +
Sbjct: 142 TEPLRVV--GEAPRGKTGTRVTFKPDPEIFGN-LRFDPSKIRARLREVAYLVAGLKLVFQ 198
Query: 121 KEDSDPEKNQYNE 133
E+ ++
Sbjct: 199 DRQHGKEEVFLDK 211
>d1pvga1 d.14.1.3 (A:246-406) DNA topoisomerase II {Baker's yeast
(Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 161
Score = 85.6 bits (211), Expect = 3e-20
Identities = 28/164 (17%), Positives = 60/164 (36%), Gaps = 16/164 (9%)
Query: 136 FAGGLEEYVQWLNTDKKPLHDVVGFRK--------DVDGITIDLALQWCSDAYSDTMLGY 187
F +E Y++ L ++ + G K + ++A ++ + +
Sbjct: 2 FKNYVELYLKSLEKKRQLDNGEDGAAKSDIPTILYERINNRWEVAFAVSDISF--QQISF 59
Query: 188 ANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPN 247
NSI T GGTH+ + + + ++ + KK K S+ ++ + I+ + N
Sbjct: 60 VNSIATTMGGTHVNYITDQIVKKISEILKK-----KKKKSVKSFQIKNNMFIFINCLIEN 114
Query: 248 PEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILS 291
P F QTK +L + + + D+ +
Sbjct: 115 PAFTSQTKEQLTTRVKDFGSRCEIPLEYINKI-MKTDLATRMFE 157
>d1pvga2 d.122.1.2 (A:7-245) DNA topoisomerase II {Baker's yeast
(Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 239
Score = 77.2 bits (189), Expect = 1e-16
Identities = 22/125 (17%), Positives = 41/125 (32%), Gaps = 8/125 (6%)
Query: 3 VTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEV--TVWRDGMEYHQKYSRGKP 60
+ H V+GG +G G + N S + G +Y QK+
Sbjct: 113 MIFGHLLTSSNYDDDEKKVTGGRNGYGAKLCNIFSTEFILETADLNVGQKYVQKWENNMS 172
Query: 61 VTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLN---PKLTI 117
+ K T++ F PD F + D++ + R + +N + +
Sbjct: 173 ICHPPKI--TSYKKGPSYTKVTFKPDLTRFGM-KELDNDILGVMRRRVYDINGSVRDINV 229
Query: 118 ALRKE 122
L +
Sbjct: 230 YLNGK 234
>d2bcgg1 c.3.1.3 (G:5-301) Guanine nucleotide dissociation
inhibitor, GDI {Baker's yeast (Saccharomyces cerevisiae)
[TaxId: 4932]}
Length = 297
Score = 30.9 bits (68), Expect = 0.32
Identities = 15/218 (6%), Positives = 52/218 (23%), Gaps = 3/218 (1%)
Query: 3 VTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDG---MEYHQKYSRGK 59
V + +GG ++ ++S + ++ + RD + + G+
Sbjct: 31 VLHIDKQDHYGGEAASVTLSQLYEKFKQNPISKEERESKFGKDRDWNVDLIPKFLMANGE 90
Query: 60 PVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIAL 119
L + +Q + + +++ + + K +
Sbjct: 91 LTNILIHTDVTRYVDFKQVSGSYVFKQGKIYKVPANEIEAISSPLMGIFEKRRMKKFLEW 150
Query: 120 RKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDA 179
+ + + + + V + + +G + L
Sbjct: 151 ISSYKEDDLSTHQGLDLDKNTMDEVYYKFGLGNSTKEFIGHAMALWTNDDYLQQPARPSF 210
Query: 180 YSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKK 217
+ + + + L + L
Sbjct: 211 ERILLYCQSVARYGKSPYLYPMYGLGELPQGFARLSAI 248
>d1d5ta1 c.3.1.3 (A:-2-291,A:389-431) Guanine nucleotide
dissociation inhibitor, GDI {Cow (Bos taurus) [TaxId:
9913]}
Length = 336
Score = 29.8 bits (65), Expect = 0.75
Identities = 10/97 (10%), Positives = 24/97 (24%)
Query: 3 VTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVT 62
V + +GG SS + L+ + W + + G+ V
Sbjct: 32 VLHMDRNPYYGGESSSITPLEELYKRFQLLEGPPETMGRGRDWNVDLIPKFLMANGQLVK 91
Query: 63 TLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHN 99
L + + + +++
Sbjct: 92 MLLYTEVTRYLDFKVVEGSFVYKGGKIYKVPSTETEA 128
>d1juoa_ a.39.1.8 (A:) Sorcin {Human (Homo sapiens) [TaxId: 9606]}
Length = 172
Score = 29.3 bits (65), Expect = 0.77
Identities = 9/39 (23%), Positives = 18/39 (46%), Gaps = 2/39 (5%)
Query: 383 EEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDG 421
+E+Q + G+ + F E R ++ + D D+ G
Sbjct: 26 DELQRCLTQSGIAGGYKPFNLETCR--LMVSMLDRDMSG 62
>d2b5ti1 e.1.1.1 (I:6-431) Antithrombin {Human (Homo sapiens)
[TaxId: 9606]}
Length = 426
Score = 29.8 bits (66), Expect = 1.0
Identities = 9/44 (20%), Positives = 16/44 (36%), Gaps = 10/44 (22%)
Query: 509 RMLKQLVIEDAAEANVVFSSL----------MGARVDTRKELIQ 542
+ L N+ S L +GA DT ++L++
Sbjct: 56 TFYQHLADSKNDNDNIFLSPLSISTAFAMTKLGACNDTLQQLME 99
>d1k94a_ a.39.1.8 (A:) Grancalcin {Human (Homo sapiens) [TaxId:
9606]}
Length = 165
Score = 28.0 bits (62), Expect = 2.0
Identities = 11/39 (28%), Positives = 16/39 (41%), Gaps = 2/39 (5%)
Query: 383 EEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDG 421
EE+Q + G+ F E R +I + D D G
Sbjct: 19 EELQRCLTQSGINGTYSPFSLETCR--IMIAMLDRDHTG 55
>d1pmma_ c.67.1.6 (A:) Glutamate decarboxylase beta, GadB
{Escherichia coli [TaxId: 562]}
Length = 450
Score = 28.7 bits (63), Expect = 2.2
Identities = 12/68 (17%), Positives = 20/68 (29%), Gaps = 6/68 (8%)
Query: 1 MIVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKP 60
M+ + HA G + G + G L + WR ME K +
Sbjct: 101 MVADLWHAPAPKNGQAVGTNTIGSSEACMLGGMAMKWR------WRKRMEAAGKPTDKPN 154
Query: 61 VTTLTCHV 68
+ +
Sbjct: 155 LVCGPVQI 162
>d1ir6a_ c.107.1.2 (A:) Exonuclease RecJ {Thermus thermophilus
[TaxId: 274]}
Length = 385
Score = 28.3 bits (62), Expect = 3.0
Identities = 6/23 (26%), Positives = 10/23 (43%)
Query: 410 KIIILTDADVDGAHIRTLLLTFF 432
+I + D D DG +L+
Sbjct: 26 RIRVHGDYDADGLTGTAILVRGL 48
>d1jmja_ e.1.1.1 (A:) Heparin cofactor II (Hc-II, leuserpin 2)
{Human (Homo sapiens) [TaxId: 9606]}
Length = 420
Score = 27.9 bits (61), Expect = 3.7
Identities = 4/44 (9%), Positives = 16/44 (36%), Gaps = 10/44 (22%)
Query: 509 RMLKQLVIEDAAEANVVFSSL----------MGARVDTRKELIQ 542
+ + L + N+ + + +G + +T +++
Sbjct: 57 NLYRVLKDQVNTFDNIFIAPVGISTAMGMISLGLKGETHEQVHS 100
>d2v5za1 c.3.1.2 (A:6-289,A:402-500) Monoamine oxidase B {Human
(Homo sapiens) [TaxId: 9606]}
Length = 383
Score = 27.4 bits (59), Expect = 5.2
Identities = 22/159 (13%), Positives = 41/159 (25%), Gaps = 1/159 (0%)
Query: 3 VTVLHAGGKFGG-SSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPV 61
V VL A + GG + + + +G S V + G+E ++ + +
Sbjct: 25 VVVLEARDRVGGRTYTLRNQKVKYVDLGGSYVGPTQNRILRLAKELGLETYKVNEVERLI 84
Query: 62 TTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRK 121
+ P + D F + I A L + K
Sbjct: 85 HHVKGKSYPFRGPFPPVWNPITYLDHNNFWRTMDDMGREIPSDAPWKAPLAEEWDNMTMK 144
Query: 122 EDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGF 160
E D + A T + + +
Sbjct: 145 ELLDKLCWTESAKQLATLFVNLCVTAETHEVSALWFLWY 183
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
0.317 0.135 0.387
Gapped
Lambda K H
0.267 0.0397 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 2,044,662
Number of extensions: 98400
Number of successful extensions: 282
Number of sequences better than 10.0: 1
Number of HSP's gapped: 264
Number of HSP's successfully gapped: 20
Length of query: 555
Length of database: 2,407,596
Length adjustment: 90
Effective length of query: 465
Effective length of database: 1,171,896
Effective search space: 544931640
Effective search space used: 544931640
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: 41 (21.7 bits)
S2: 55 (25.8 bits)