RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= 010553
(507 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 = 244 bits (623), Expect = 4e-73
Identities = 63/241 (26%), Positives = 111/241 (46%), Gaps = 17/241 (7%)
Query: 269 RSSSLPG--KLADCS---STTPEESEIFIVEGDSA-----GGSAKQGRDRRFQAILPLRG 318
R S + KL D + + + + + EGDSA G A GRD + PLRG
Sbjct: 1 RKSRITNYPKLEDANKAGTKEGYKCTLVLTEGDSALSLAVAGLAVVGRD--YYGCYPLRG 58
Query: 319 KILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRT 378
K+LNV + KN EIQ + + +GL + + ++LRY ++I+TD D DG+HI+
Sbjct: 59 KMLNVREASADQILKNAEIQAIKKIMGLQHRKKYEDTKSLRYGHLMIMTDQDHDGSHIKG 118
Query: 379 LLLTFFYRYQKTLFD-EGCIYVGVPPLYKVERGKQVQY---CYDDAELKKVKSSFPSNAL 434
L++ F L D +G + + P+ KV K + Y+ + +K +
Sbjct: 119 LIINFLESSFLGLLDIQGFLLEFITPIIKVSITKPTKNTIAFYNMPDYEKWREEESHKFT 178
Query: 435 YSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQ 494
+ + +KGLG + ++ E N ++ + K + + + + + D RKE ++
Sbjct: 179 WKQKYYKGLGTSLAQEVREYFSNLDRHL-KIFHSLQGNDKDYIDLAFSKKKADDRKEWLR 237
Query: 495 N 495
Sbjct: 238 Q 238
>d1ei1a1 d.14.1.3 (A:221-392) DNA gyrase B {Escherichia coli [TaxId:
562]}
Length = 172
Score = 147 bits (372), Expect = 1e-42
Identities = 66/172 (38%), Positives = 110/172 (63%), Gaps = 2/172 (1%)
Query: 91 GLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGG 149
G++ +V++LN +K P+H ++ F + DGI +++ALQW D + + + + N+I DGG
Sbjct: 1 GIKAFVEYLNKNKTPIHPNIFYFSTEKDGIGVEVALQWN-DGFQENIYCFTNNIPQRDGG 59
Query: 150 THIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTR 209
TH+ G +A++TRTLN+ K K +S +G+ REGL ++SV+VP+P+F QTK +
Sbjct: 60 THLAGFRAAMTRTLNAYMDKEGYSKKAKVSATGDDAREGLIAVVSVKVPDPKFSSQTKDK 119
Query: 210 LGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDL 261
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 = 145 bits (366), Expect = 8e-42
Identities = 62/173 (35%), Positives = 98/173 (56%), Gaps = 2/173 (1%)
Query: 91 GLEEYVQWLNTDKKPLHD-VVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGG 149
G+ + + L + L++ R + +++ Y+ +L YAN I T DGG
Sbjct: 1 GVASFAKALAEGEDLLYEKPFLIRGTHGEVEVEVGFLHT-QGYNAEILTYANMIPTRDGG 59
Query: 150 THIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTR 209
TH+ K++ +R LN KK+ K+K +G+ + EGL ++SV++PNP+FEGQTK +
Sbjct: 60 THLTAFKSAYSRALNQYAKKAGLNKEKGPQPTGDDLLEGLYAVVSVKLPNPQFEGQTKGK 119
Query: 210 LGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLV 262
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 = 142 bits (360), Expect = 5e-41
Identities = 37/166 (22%), Positives = 72/166 (43%), Gaps = 2/166 (1%)
Query: 91 GLEEYVQWLNTDKKPLHD-VVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGG 149
GL +Y+ L + D +D AL W + Y N I T+ GG
Sbjct: 2 GLNDYLAEAVNGLPTLPEKPFIGNFAGDTEAVDWALLWLPEGGELLTESYVNLIPTMQGG 61
Query: 150 THIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTR 209
TH+ G++ L + + + + + LS E + + ++SV++ +P+F GQTK R
Sbjct: 62 THVNGLRQGLLDAMREFCEYRNILP-RGVKLSAEDIWDRCAYVLSVKMQDPQFAGQTKER 120
Query: 210 LGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAA 255
L + + V V++ +L + + + ++S+ + + A
Sbjct: 121 LSSRQCAAFVSGVVKDAFILWLNQNVQAAELLAEMAISSAQRRMRA 166
>d1pvga1 d.14.1.3 (A:246-406) DNA topoisomerase II {Baker's yeast
(Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 161
Score = 84.4 bits (208), Expect = 6e-20
Identities = 28/164 (17%), Positives = 60/164 (36%), Gaps = 16/164 (9%)
Query: 88 FAGGLEEYVQWLNTDKKPLHDVVGFRK--------DVDGITIDLALQWCSDAYSDTMLGY 139
F +E Y++ L ++ + G K + ++A ++ + +
Sbjct: 2 FKNYVELYLKSLEKKRQLDNGEDGAAKSDIPTILYERINNRWEVAFAVSDISF--QQISF 59
Query: 140 ANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPN 199
NSI T GGTH+ + + + ++ + KK K S+ ++ + I+ + N
Sbjct: 60 VNSIATTMGGTHVNYITDQIVKKISEILKK-----KKKKSVKSFQIKNNMFIFINCLIEN 114
Query: 200 PEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILS 243
P F QTK +L + + + D+ +
Sbjct: 115 PAFTSQTKEQLTTRVKDFGSRCEIPLEYINKI-MKTDLATRMFE 157
>d1s14a_ d.122.1.2 (A:) Topoisomerase IV subunit B {Escherichia coli
[TaxId: 562]}
Length = 168
Score = 73.3 bits (180), Expect = 7e-16
Identities = 19/84 (22%), Positives = 36/84 (42%), Gaps = 3/84 (3%)
Query: 2 EYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELA 61
Y+ + G+ V L K GT + FWPD+ F + +F + + ++ A
Sbjct: 87 VYNIAFENGEKVQDLQVV--GTCGKRNTGTSVHFWPDETFFDS-PRFSVSRLTHVLKAKA 143
Query: 62 FLNPKLTIALRKEDSDPEKNQYNE 85
L P + I + E ++ E+ +
Sbjct: 144 VLCPGVEITFKDEINNTEQRWCYQ 167
>d1ei1a2 d.122.1.2 (A:2-220) DNA gyrase B {Escherichia coli [TaxId:
562]}
Length = 219
Score = 70.8 bits (173), Expect = 1e-14
Identities = 26/88 (29%), Positives = 43/88 (48%), Gaps = 8/88 (9%)
Query: 3 YHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAF 62
+ Q Y G P L ++ GT +RFWP + FT +F++ +A R+REL+F
Sbjct: 140 HRQIYEHGVPQAPLA----VTGETEKTGTMVRFWPSLETFTNVTEFEYEILAKRLRELSF 195
Query: 63 LNPKLTIALRKEDSDPEKNQYNEYFFAG 90
L+ ++I LR + E + + G
Sbjct: 196 LDSGVSIRLRDKRDGKED----HFHYEG 219
>d1kija2 d.122.1.2 (A:9-220) DNA gyrase B {Thermus thermophilus
[TaxId: 274]}
Length = 212
Score = 58.5 bits (141), Expect = 2e-10
Identities = 21/85 (24%), Positives = 40/85 (47%), Gaps = 3/85 (3%)
Query: 1 MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIREL 60
+ +SRG+ L + + GTR+ F PD ++F ++FD + I R+RE+
Sbjct: 130 KHHRIAFSRGEVTEPLRVV--GEAPRGKTGTRVTFKPDPEIFGN-LRFDPSKIRARLREV 186
Query: 61 AFLNPKLTIALRKEDSDPEKNQYNE 85
A+L L + + E+ ++
Sbjct: 187 AYLVAGLKLVFQDRQHGKEEVFLDK 211
>d1pvga2 d.122.1.2 (A:7-245) DNA topoisomerase II {Baker's yeast
(Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 239
Score = 55.6 bits (133), Expect = 2e-09
Identities = 13/77 (16%), Positives = 27/77 (35%), Gaps = 6/77 (7%)
Query: 1 MEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIREL 60
+Y QK+ + K T++ F PD F + D++ + R +
Sbjct: 161 QKYVQKWENNMSICHPPKI--TSYKKGPSYTKVTFKPDLTRFGM-KELDNDILGVMRRRV 217
Query: 61 AFLN---PKLTIALRKE 74
+N + + L +
Sbjct: 218 YDINGSVRDINVYLNGK 234
>d1juoa_ a.39.1.8 (A:) Sorcin {Human (Homo sapiens) [TaxId: 9606]}
Length = 172
Score = 28.9 bits (64), Expect = 0.98
Identities = 9/39 (23%), Positives = 18/39 (46%), Gaps = 2/39 (5%)
Query: 335 EEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDG 373
+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 = 29.4 bits (65), Expect = 1.0
Identities = 9/44 (20%), Positives = 16/44 (36%), Gaps = 10/44 (22%)
Query: 461 RMLKQLVIEDAAEANVVFSSL----------MGARVDTRKELIQ 494
+ 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 = 27.7 bits (61), Expect = 2.3
Identities = 11/39 (28%), Positives = 16/39 (41%), Gaps = 2/39 (5%)
Query: 335 EEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDG 373
EE+Q + G+ F E R +I + D D G
Sbjct: 19 EELQRCLTQSGINGTYSPFSLETCR--IMIAMLDRDHTG 55
>d1ir6a_ c.107.1.2 (A:) Exonuclease RecJ {Thermus thermophilus
[TaxId: 274]}
Length = 385
Score = 27.9 bits (61), Expect = 3.0
Identities = 6/23 (26%), Positives = 10/23 (43%)
Query: 362 KIIILTDADVDGAHIRTLLLTFF 384
+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 = 27.5 bits (60), Expect = 3.7
Identities = 4/44 (9%), Positives = 16/44 (36%), Gaps = 10/44 (22%)
Query: 461 RMLKQLVIEDAAEANVVFSSL----------MGARVDTRKELIQ 494
+ + L + N+ + + +G + +T +++
Sbjct: 57 NLYRVLKDQVNTFDNIFIAPVGISTAMGMISLGLKGETHEQVHS 100
>d1c6va_ c.55.3.2 (A:) Retroviral integrase, catalytic domain
{Simian immunodeficiency virus [TaxId: 11723]}
Length = 159
Score = 26.0 bits (56), Expect = 8.0
Identities = 8/32 (25%), Positives = 15/32 (46%)
Query: 434 LYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQ 465
+ +R G+G+M P + + EQ + Q
Sbjct: 128 CMNHKRRGGIGDMTPAERLINMITTEQEIQFQ 159
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
0.318 0.135 0.387
Gapped
Lambda K H
0.267 0.0678 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,867,435
Number of extensions: 89957
Number of successful extensions: 230
Number of sequences better than 10.0: 1
Number of HSP's gapped: 214
Number of HSP's successfully gapped: 17
Length of query: 507
Length of database: 2,407,596
Length adjustment: 89
Effective length of query: 418
Effective length of database: 1,185,626
Effective search space: 495591668
Effective search space used: 495591668
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 (25.1 bits)