RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780182|ref|YP_003064595.1| DNA gyrase subunit A
[Candidatus Liberibacter asiaticus str. psy62]
(910 letters)
>2wl2_A GYRA, DNA gyrase subunit A; isomerase, aminocoumarin antibiotic,
drug target, protein-ligand complex; HET: DNA SM8; 2.62A
{Escherichia coli} PDB: 1ab4_A 1x75_A*
Length = 522
Score = 634 bits (1637), Expect = 0.0
Identities = 271/523 (51%), Positives = 363/523 (69%), Gaps = 11/523 (2%)
Query: 8 SDEEEEKGITSVSITDEMQNSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQMGVEW 67
SD E IT V+I +E+++SYL YA++VI+GRA+PD+RDGLKPVHRR+L+ M +G +W
Sbjct: 1 SDLARE--ITPVNIEEELKSSYLDYAMSVIVGRALPDVRDGLKPVHRRVLYAMNVLGNDW 58
Query: 68 NKKYVKCARISGEVMGKYHPHGNAAIYDALARMAQDWSLRLLLIEGQGNFGSVDGDPPAA 127
NK Y K AR+ G+V+GKYHPHG++A+YD + RMAQ +SLR +L++GQGNFGS+DGD AA
Sbjct: 59 NKAYKKSARVVGDVIGKYHPHGDSAVYDTIVRMAQPFSLRYMLVDGQGNFGSIDGDSAAA 118
Query: 128 ERYTECRLQKAAHFLLDDLGKDTVDFRPNYDGSFQEPVVLCARYPNVLVNGGGGIAVGMA 187
RYTE RL K AH L+ DL K+TVDF NYDG+ + P V+ + PN+LVNG GIAVGMA
Sbjct: 119 MRYTEIRLAKIAHELMADLEKETVDFVDNYDGTEKIPDVMPTKIPNLLVNGSSGIAVGMA 178
Query: 188 TNIPTHNLGEVVDGCVAVIDNPDIDLDALMEIIRGPDFPTGAVILGRTGIKNAYATGRGS 247
TNIP HNL EV++GC+A ID+ DI ++ LME I GPDFPT A+I GR GI+ AY TGRG
Sbjct: 179 TNIPPHNLTEVINGCLAYIDDEDISIEGLMEHIPGPDFPTAAIINGRRGIEEAYRTGRGK 238
Query: 248 IVIRGVSHIEK-TSGDREQIVVTEIPYQVNKAAMLEKIAELVREKRIVDIADLRDESDRQ 306
+ IR + +E RE I+V EIPYQVNKA ++EKIAELV+EKR+ I+ LRDESD+
Sbjct: 239 VYIRARAEVEVDAKTGRETIIVHEIPYQVNKARLIEKIAELVKEKRVEGISALRDESDKD 298
Query: 307 GYRVVIELKRGASADVILNQLYRYTSLQSLFSVNMVALNGYKPERFTLIGILKAFVAFRE 366
G R+VIE+KR A +V+LN LY T LQ F +NMVAL+ +P+ L I+ AFV R
Sbjct: 299 GMRIVIEVKRDAVGEVVLNNLYSQTQLQVSFGINMVALHHGQPKIMNLKDIIAAFVRHRR 358
Query: 367 EVVVRRTKYLLNKARDRAHVLVGLAIAVANLDEVVRIIRFSPNPETARRELMQRSWNASD 426
EVV RRT + L KARDRAH+L LA+A+AN+D ++ +IR +P P A+ L+ W +
Sbjct: 359 EVVTRRTIFELRKARDRAHILEALAVALANIDPIIELIRHAPTPAEAKTALVANPWQLGN 418
Query: 427 IKDLIDLIDDSSYTI--------GSDGTMYLSEVQTRAILELRLARLTGLGRDDIRNELN 478
+ +++ D + DG YL+E Q +AIL+LRL +LTGL + + +E
Sbjct: 419 VAAMLERAGDDAARPEWLEPEFGVRDGLYYLTEQQAQAILDLRLQKLTGLEHEKLLDEYK 478
Query: 479 SLGIEIKECLDILSSRSRLLGIIKQELLSVKDELDTPRRTRIV 521
L +I E L IL S RL+ +I++EL V+++ RRT I
Sbjct: 479 ELLDQIAELLRILGSADRLMEVIREELELVREQFGDKRRTEIT 521
>1zvu_A Topoisomerase IV subunit A; beta-pinwheel, ATPase, supercoiling,
decatenation, DNA binding, DNA topology; 3.00A
{Escherichia coli}
Length = 716
Score = 555 bits (1432), Expect = e-158
Identities = 234/810 (28%), Positives = 373/810 (46%), Gaps = 108/810 (13%)
Query: 38 LGRAIPDLRDGLKPVHRRILFGMMQMGVEWNKKYVKCARISGEVMGKYHPHGNAAIYDAL 97
+ RA+P + DGLKPV RRI++ M ++G+ + K+ K AR G+V+GKYHPHG++A Y+A+
Sbjct: 1 MDRALPFIGDGLKPVQRRIVYAMSELGLNASAKFKKSARTVGDVLGKYHPHGDSACYEAM 60
Query: 98 ARMAQDWSLRLLLIEGQGNFGSVDGDPP-AAERYTECRLQKAAHFLLDDLGKDTVDFRPN 156
MAQ +S R L++GQGN+G+ D AA RYTE RL K + LL +LG+ T D+ PN
Sbjct: 61 VLMAQPFSYRYPLVDGQGNWGAPDDPKSFAAMRYTESRLSKYSELLLSELGQGTADWVPN 120
Query: 157 YDGSFQEPVVLCARYPNVLVNGGGGIAVGMATNIPTHNLGEVVDGCVAVIDNPDIDLDAL 216
+DG+ QEP +L AR PN+L+NG GIAVGMAT+IP HNL EV +A+ID P LD L
Sbjct: 121 FDGTLQEPKMLPARLPNILLNGTTGIAVGMATDIPPHNLREVAQAAIALIDQPKTTLDQL 180
Query: 217 MEIIRGPDFPTGAVILG-RTGIKNAYATGRGSIVIRGVSHIEKTSGDREQIVVTEIPYQV 275
++I++GPD+PT A I+ R I+ Y GRGS+ +R V E +V++ +P+QV
Sbjct: 181 LDIVQGPDYPTEAEIITSRAEIRKIYENGRGSVRMRAVWKKE-----DGAVVISALPHQV 235
Query: 276 NKAAMLEKIAELVREKRIVDIADLRDESDRQGYRV--VIELKRGASADVILNQLYRYTSL 333
+ A +LE+IA +R K++ + DLRDESD + ++ D ++N L+ T L
Sbjct: 236 SGARVLEQIAAQMRNKKLPMVDDLRDESDHENPTRLVIVPRSNRVDMDQVMNHLFATTDL 295
Query: 334 QSLFSVNM-VALNGYKPERFTLIGILKAFVAFREEVVVRRTKYLLNKARDRAHVLVGLAI 392
+ + +N+ + +P L+ IL ++ FR + V RR Y L K R H+L GL +
Sbjct: 296 EKSYRINLNMIGLDGRPAVKNLLEILSEWLVFRRDTVRRRLNYRLEKVLKRLHILEGLLV 355
Query: 393 AVANLDEVVRIIRFSPNPETARRELMQRSWNASDIKDLIDLIDDSSYTIGSDGTMYLSEV 452
A N+DEV+ IIR P+ A LM R L+E
Sbjct: 356 AFLNIDEVIEIIRNEDEPKPA---LMSR--------------------------FGLTET 386
Query: 453 QTRAILELRLARLTGLGRDDIRNELNSLGIEIKECLDILSSRSRLLGIIKQELLSVKDEL 512
Q AILEL+L L L IR E + L E + IL+S ++ ++K+EL +
Sbjct: 387 QAEAILELKLRHLAKLEEMKIRGEQSELEKERDQLQGILASERKMNNLLKKELQADAQAY 446
Query: 513 DTPRRTRIVEG--LLDMEDEDCIVREDMVVTVSHLGYVKRVPLSVYRAQRRGGKGRSGVV 570
RR+ + E M + D + E + + +S +G+V+ A
Sbjct: 447 GDDRRSPLQEREEAKAMSEHDMLPSEPVTIVLSQMGWVRSAKGHDIDAPGLN-------- 498
Query: 571 MRDEDFVTDLFIVSTHTSVLFFSSLGFVYKEKVWRLPIGSPQARGKALINILSLNQGERI 630
+ D ++ V+F S G Y LP +G+ L L+L G +
Sbjct: 499 YKAGDSFKAAVKGKSNQPVVFVDSTGRSYAIDPITLPSAR--GQGEPLTGKLTLPPGATV 556
Query: 631 TTIMPFPEDESSWNNLYVVFATKHGNVRRNKLSDFIQINRSGKIAMKLDSRDEILSVETC 690
++ +D+ ++ A+ G +D + NR+GK + L ++
Sbjct: 557 DHMLMESDDQ------KLLMASDAGYGFVCTFNDLVARNRAGKALITLPENAHVMPPVVI 610
Query: 691 TQEND-ILLTTKLGQCVRFPISAIRVFAGRNSVGVRGISLAKGDQVISMAIVLHADADYD 749
+D +L T+ G+ + FP+S + + G + I++ + +
Sbjct: 611 EDASDMLLAITQAGRMLMFPVSDLPQL-SKGK-GNKIINIPSAEAARGEDGLAQLY---- 664
Query: 750 ERICYMKHMSAQRRLISGDTEEITSLKNDSSVEGNISEERCQELKLKEQFILTVSEKGFG 809
++ + + K
Sbjct: 665 --------------VLPPQST-----------------------------LTIHVGKRKI 681
Query: 810 KRT-SSYDFRISNRSGKGIRATDVSKINEI 838
K R +G + +I+ +
Sbjct: 682 KLRPEELQKVTGERGRRGTLMRGLQRIDRV 711
Score = 58.2 bits (140), Expect = 9e-09
Identities = 21/114 (18%), Positives = 50/114 (43%), Gaps = 7/114 (6%)
Query: 796 KEQFILTVSEKGFGKRTSSYDFRISNRSGKGIRATDVSKINEIGALVAVFPVND-NDQII 854
+Q +L S+ G+G + D NR+GK + + E ++ + D +D ++
Sbjct: 564 DDQKLLMASDAGYGFVCTFNDLVARNRAGKAL-----ITLPENAHVMPPVVIEDASDMLL 618
Query: 855 LVSDKGTLIRVPVNEIRIASRATKGVVIFSTAKDERVVSVERIRESEIVDEAES 908
++ G ++ PV+++ S+ KG I + E + + + ++ +
Sbjct: 619 AITQAGRMLMFPVSDLPQLSKG-KGNKIINIPSAEAARGEDGLAQLYVLPPQST 671
>2xcs_B DNA gyrase subunit B, DNA gyrase subunit A; isomerase, type IIA
topoisomerase; HET: DNA 5UA RXV; 2.10A {Staphylococcus
aureus} PDB: 2xcr_B* 2xcq_A* 2xco_A*
Length = 692
Score = 544 bits (1402), Expect = e-155
Identities = 261/516 (50%), Positives = 346/516 (67%), Gaps = 27/516 (5%)
Query: 9 DEEEEKGITSVSITDEMQNSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQMGVEWN 68
E + I +IT EM+ S+L YA++VI+ RA+PD+RDGLKPVHRRIL+G+ + G+ +
Sbjct: 203 AELPQSRINERNITSEMRESFLDYAMSVIVARALPDVRDGLKPVHRRILYGLNEQGMTPD 262
Query: 69 KKYVKCARISGEVMGKYHPHGNAAIYDALARMAQDWSLRLLLIEGQGNFGSVDGDPPAAE 128
K Y K ARI G+VMGKYHPHG+++IY+A+ RMAQD+S R L++GQGNFGS+DGD AA
Sbjct: 263 KSYKKSARIVGDVMGKYHPHGDSSIYEAMVRMAQDFSYRYPLVDGQGNFGSMDGDGAAAM 322
Query: 129 RYTECRLQKAAHFLLDDLGKDTVDFRPNYDGSFQEPVVLCARYPNVLVNGGGGIAVGMAT 188
R+TE R+ K LL D+ KDT+DF NYDG+ +EP VL AR+PN+L NG GIAVGMAT
Sbjct: 323 RFTEARMTKITLELLRDINKDTIDFIDNYDGNEREPSVLPARFPNLLANGASGIAVGMAT 382
Query: 189 NIPTHNLGEVVDGCVAVIDNPDIDLDALMEIIRGPDFPTGAVILGRTGIKNAYATGRGSI 248
NIP HNL E+++G +++ NPDI + LME I GPDFPT +ILG++GI+ AY TGRGSI
Sbjct: 383 NIPPHNLTELINGVLSLSKNPDISIAELMEDIEGPDFPTAGLILGKSGIRRAYETGRGSI 442
Query: 249 VIRGVSHIEKTSGDREQIVVTEIPYQVNKAAMLEKIAELVREKRIVDIADLRDESD-RQG 307
+R + IE+ G R++IVVTEIP+QVNKA M+EKIAELVR+K+I I DLRDE+ R G
Sbjct: 443 QMRSRAVIEERGGGRQRIVVTEIPFQVNKARMIEKIAELVRDKKIDGITDLRDETSLRTG 502
Query: 308 YRVVIELKRGASADVILNQLYRYTSLQSLFSVNMVALNGYKPERFTLIGILKAFVAFREE 367
RVVI++++ A+A VILN LY+ T LQ+ F VNM+AL +P+ L L ++ ++
Sbjct: 503 VRVVIDVRKDANASVILNNLYKQTPLQTSFGVNMIALVNGRPKLINLKEALVHYLEHQKT 562
Query: 368 VVVRRTKYLLNKARDRAHVLVGLAIAVANLDEVVRIIRFSPNPETARRELMQRSWNASDI 427
VV RRT+Y L KA+DRAH+L GL IA+ ++DE++ IR S + A L QR
Sbjct: 563 VVRRRTQYNLRKAKDRAHILEGLRIALDHIDEIISTIRESDTDKVAMESLQQR------- 615
Query: 428 KDLIDLIDDSSYTIGSDGTMYLSEVQTRAILELRLARLTGLGRDDIRNELNSLGIEIKEC 487
LSE Q +AIL++RL RLTGL RD I E N L I E
Sbjct: 616 -------------------FKLSEKQAQAILDMRLRRLTGLERDKIEAEYNELLNYISEL 656
Query: 488 LDILSSRSRLLGIIKQELLSVKDELDTPRRTRIVEG 523
IL+ LL +++ EL ++D RRT I G
Sbjct: 657 ETILADEEVLLQLVRDELTEIRDRFGDDRRTEIQLG 692
>2inr_A DNA topoisomerase 4 subunit A; topoisomerase II fold; HET: DNA;
2.80A {Staphylococcus aureus}
Length = 514
Score = 534 bits (1377), Expect = e-152
Identities = 207/518 (39%), Positives = 319/518 (61%), Gaps = 26/518 (5%)
Query: 11 EEEKGITSVSITDEMQNSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQMGVEWNKK 70
E + I +S+ D + + + Y+ +I RA+PD+RDGLKPV RRIL+ M G +K
Sbjct: 23 EVSEIIQDLSLEDVLGDRFGRYSKYIIQERALPDVRDGLKPVQRRILYAMYSSGNTHDKN 82
Query: 71 YVKCARISGEVMGKYHPHGNAAIYDALARMAQDWSLRLLLIEGQGNFGSVDGDPPAAERY 130
+ K A+ G+V+G+YHPHG++++Y+A+ R++QDW LR +LIE GN GS+D DPPAA RY
Sbjct: 83 FRKSAKTVGDVIGQYHPHGDSSVYEAMVRLSQDWKLRHVLIEMHGNNGSIDNDPPAAMRY 142
Query: 131 TECRLQKAAHFLLDDLGKDTVDFRPNYDGSFQEPVVLCARYPNVLVNGGGGIAVGMATNI 190
TE +L A LL D+ K+TV F PNYD + EP+VL +R+PN+LVNG GI+ G AT+I
Sbjct: 143 TEAKLSLLAEELLRDINKETVSFIPNYDDTTLEPMVLPSRFPNLLVNGSTGISAGYATDI 202
Query: 191 PTHNLGEVVDGCVAVIDNPDIDLDALMEIIRGPDFPTGAVILGRTGIKNAYATGRGSIVI 250
P HNL EV+ + IDNPDI ++ LM+ I+GPDFPTG +I G GIK AY +G+G I++
Sbjct: 203 PPHNLAEVIQATLKYIDNPDITVNQLMKYIKGPDFPTGGIIQGIDGIKKAYESGKGRIIV 262
Query: 251 RGVSHIEKTSGDREQIVVTEIPYQVNKAAMLEKIAELVREKRIVDIADLRDESDRQGYRV 310
R E R+Q+++TEIPY+VNK++++++I EL +K++ I ++RDE+DR G R+
Sbjct: 263 RSKVEEETLRNGRKQLIITEIPYEVNKSSLVKRIDELRADKKVDGIVEVRDETDRTGLRI 322
Query: 311 VIELKRGASADVILNQLYRYTSLQSLFSVNMVALNGYKPERFTLIGILKAFVAFREEVVV 370
IELK+ +++ I N LY+ + LQ ++ NMVA++ +P+ + I+ +++ + EVV
Sbjct: 323 AIELKKDVNSESIKNYLYKNSDLQISYNFNMVAISDGRPKLMGIRQIIDSYLNHQIEVVA 382
Query: 371 RRTKYLLNKARDRAHVLVGLAIAVANLDEVVRIIRFSPNPETARRELMQRSWNASDIKDL 430
RTK+ L+ A R H++ GL A++ LD+V+ +IR S N A+ L++
Sbjct: 383 NRTKFELDNAEKRMHIVEGLIKALSILDKVIELIRSSKNKRDAKENLIEV---------- 432
Query: 431 IDLIDDSSYTIGSDGTMYLSEVQTRAILELRLARLTGLGRDDIRNELNSLGIEIKECLDI 490
+E Q AI+ L+L RLT + E L IK+ I
Sbjct: 433 ----------------YEFTEEQAEAIVMLQLYRLTNTDIVALEGEHKELEALIKQLRHI 476
Query: 491 LSSRSRLLGIIKQELLSVKDELDTPRRTRIVEGLLDME 528
L + LL +IK+EL +K + + R + I + +++
Sbjct: 477 LDNHDALLNVIKEELNEIKKKFKSERLSLIEAEIEEIK 514
>3ilw_A DNA gyrase subunit A; DNA topology, topoisomerase, antibiotic
resistance, breakage-reunion domain, structural
genomics; HET: DNA; 1.60A {Mycobacterium tuberculosis}
Length = 470
Score = 498 bits (1284), Expect = e-141
Identities = 224/491 (45%), Positives = 310/491 (63%), Gaps = 31/491 (6%)
Query: 36 VILGRAIPDLRDGLKPVHRRILFGMMQMGVEWNKKYVKCARISGEVMGKYHPHGNAAIYD 95
VI+GRA+P++RDGLKPVHRR+L+ M G ++ + K AR E MG YHPHG+A+IYD
Sbjct: 5 VIVGRALPEVRDGLKPVHRRVLYAMFDSGFRPDRSHAKSARSVAETMGNYHPHGDASIYD 64
Query: 96 ALARMAQDWSLRLLLIEGQGNFGSVDGDPPAAERYTECRLQKAAHFLLDDLGKDTVDFRP 155
+L RMAQ WSLR L++GQGNFGS DPPAA RYTE RL A +L ++ ++TVDF P
Sbjct: 65 SLVRMAQPWSLRYPLVDGQGNFGSPGNDPPAAMRYTEARLTPLAMEMLREIDEETVDFIP 124
Query: 156 NYDGSFQEPVVLCARYPNVLVNGGGGIAVGMATNIPTHNLGEVVDGCVAVIDNPDIDLD- 214
NYDG QEP VL +R+PN+L NG GGIAVGMATNIP HNL E+ D ++N D D +
Sbjct: 125 NYDGRVQEPTVLPSRFPNLLANGSGGIAVGMATNIPPHNLRELADAVFWALENHDADEEE 184
Query: 215 ---ALMEIIRGPDFPTGAVILGRTGIKNAYATGRGSIVIRGVSHIEKTSGDREQIVVTEI 271
A+M ++GPDFPT +I+G G +AY TGRGSI +RGV +E+ S R +V+TE+
Sbjct: 185 TLAAVMGRVKGPDFPTAGLIVGSQGTADAYKTGRGSIRMRGVVEVEEDSRGRTSLVITEL 244
Query: 272 PYQVNKAAMLEKIAELVREKRIVDIADLRDE-SDRQGYRVVIELKRGASADVILNQLYRY 330
PYQVN + IAE VR+ ++ I+++ D+ SDR G R+VIE+KR A A V++N LY++
Sbjct: 245 PYQVNHDNFITSIAEQVRDGKLAGISNIEDQSSDRVGLRIVIEIKRDAVAKVVINNLYKH 304
Query: 331 TSLQSLFSVNMVALNGYKPERFTLIGILKAFVAFREEVVVRRTKYLLNKARDRAHVLVGL 390
T LQ+ F NM+A+ P L +++ +V + +V+VRRT Y L KA +RAH+L GL
Sbjct: 305 TQLQTSFGANMLAIVDGVPRTLRLDQLIRYYVDHQLDVIVRRTTYRLRKANERAHILRGL 364
Query: 391 AIAVANLDEVVRIIRFSPNPETARRELMQRSWNASDIKDLIDLIDDSSYTIGSDGTMYLS 450
A+ LDEV+ +IR S + AR L++ + +
Sbjct: 365 VKALDALDEVIALIRASETVDIARAGLIEL--------------------------LDID 398
Query: 451 EVQTRAILELRLARLTGLGRDDIRNELNSLGIEIKECLDILSSRSRLLGIIKQELLSVKD 510
E+Q +AIL+++L RL L R I ++L + EI + DIL+ R GI++ EL + D
Sbjct: 399 EIQAQAILDMQLRRLAALERQRIIDDLAKIEAEIADLEDILAKPERQRGIVRDELAEIVD 458
Query: 511 ELDTPRRTRIV 521
RRTRI+
Sbjct: 459 RHGDDRRTRII 469
>2nov_A DNA topoisomerase 4 subunit A; protein, PARC, TOPO IV,
GRAM-positive bacteria, quinolone target, DNA binding,
DNA cleavage; HET: DNA; 2.67A {Streptococcus pneumoniae}
PDB: 3foe_A* 3fof_A*
Length = 496
Score = 481 bits (1240), Expect = e-136
Identities = 213/513 (41%), Positives = 317/513 (61%), Gaps = 26/513 (5%)
Query: 16 ITSVSITDEMQNSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQMGVEWNKKYVKCA 75
I ++S+ D M + Y+ +I RA+PD+RDGLKPV RRIL+ M + ++K Y K A
Sbjct: 4 IQNMSLEDIMGERFGRYSKYIIQDRALPDIRDGLKPVQRRILYSMNKDSNTFDKSYRKSA 63
Query: 76 RISGEVMGKYHPHGNAAIYDALARMAQDWSLRLLLIEGQGNFGSVDGDPPAAERYTECRL 135
+ G +MG +HPHG+++IYDA+ RM+Q+W R +L+E GN GS+DGDPPAA RYTE RL
Sbjct: 64 KSVGNIMGNFHPHGDSSIYDAMVRMSQNWKNREILVEMHGNNGSMDGDPPAAMRYTEARL 123
Query: 136 QKAAHFLLDDLGKDTVDFRPNYDGSFQEPVVLCARYPNVLVNGGGGIAVGMATNIPTHNL 195
+ A +LL D+ K TV F N+D + +EP VL A +PN+LVNG GI+ G AT+IP HNL
Sbjct: 124 SEIAGYLLQDIEKKTVPFAWNFDDTEKEPTVLPAAFPNLLVNGSTGISAGYATDIPPHNL 183
Query: 196 GEVVDGCVAVIDNPDIDLDALMEIIRGPDFPTGAVILGRTGIKNAYATGRGSIVIRGVSH 255
EV+D V +ID+P +D LME + GPDFPTGA+I GR IK AY TG+G +V+R +
Sbjct: 184 AEVIDAAVYMIDHPTAKIDKLMEFLPGPDFPTGAIIQGRDEIKKAYETGKGRVVVRSKTE 243
Query: 256 IEKTSGDREQIVVTEIPYQVNKAAMLEKIAELVREKRIVDIADLRDESDRQGYRVVIELK 315
IEK G +EQIV+TEIPY++NKA +++KI ++ ++ IA++RDESDR G R+ IELK
Sbjct: 244 IEKLKGGKEQIVITEIPYEINKANLVKKIDDVRVNNKVAGIAEVRDESDRDGLRIAIELK 303
Query: 316 RGASADVILNQLYRYTSLQSLFSVNMVALNGYKPERFTLIGILKAFVAFREEVVVRRTKY 375
+ A+ +++LN L++YT LQ ++ NMVA++ + P + ++ IL +++A R EV++ R+++
Sbjct: 304 KDANTELVLNYLFKYTDLQINYNFNMVAIDNFTPRQVGIVPILSSYIAHRREVILARSRF 363
Query: 376 LLNKARDRAHVLVGLAIAVANLDEVVRIIRFSPNPETARRELMQRSWNASDIKDLIDLID 435
KA R H++ GL ++ LDEV+ +IR S N A+ L
Sbjct: 364 DKEKAEKRLHIVEGLIRVISILDEVIALIRASENKADAKENLKVS--------------- 408
Query: 436 DSSYTIGSDGTMYLSEVQTRAILELRLARLTGLGRDDIRNELNSLGIEIKECLDILSSRS 495
+E Q AI+ L+L RLT ++ E L +I I+
Sbjct: 409 -----------YDFTEEQAEAIVTLQLYRLTNTDVVVLQEEEAELREKIAMLAAIIGDER 457
Query: 496 RLLGIIKQELLSVKDELDTPRRTRIVEGLLDME 528
+ ++K+EL VK + TPR + + + +E
Sbjct: 458 TMYNLMKKELREVKKKFATPRLSSLEDTAKALE 490
>2xkj_E Topoisomerase IV; type IIA topoisomerase; 2.20A {Acinetobacter
baumannii} PDB: 2xkk_A*
Length = 767
Score = 479 bits (1234), Expect = e-135
Identities = 197/541 (36%), Positives = 303/541 (56%), Gaps = 41/541 (7%)
Query: 3 EHIISSDEEEEKGITSVSITDEMQNSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQ 62
E ++ + S+ + + +YL YA+ VI+ RA+P + DGLKPV RRI++ M +
Sbjct: 260 EDKLTMTSLAHHATENRSVAEFTEQAYLNYAMYVIMDRALPHISDGLKPVQRRIVYAMSE 319
Query: 63 MGVEWNKKYVKCARISGEVMGKYHPHGNAAIYDALARMAQDWSLRLLLIEGQGNFGSVDG 122
+G++ + K K AR G+V+GKYHPHG++A Y+A+ MAQ +S R LIEGQGN+GS D
Sbjct: 320 LGLKSSGKPKKSARTVGDVLGKYHPHGDSACYEAMVLMAQPFSYRYPLIEGQGNWGSPDD 379
Query: 123 -DPPAAERYTECRLQKAAHFLLDDLGKDTVDFRPNYDGSFQEPVVLCARYPNVLVNGGGG 181
AA RYTE +L + LL +LG+ T +++ N+DGS +EP+ L AR PN+L+NG G
Sbjct: 380 PKSFAAMRYTEAKLSAYSELLLSELGQGTSEWQDNFDGSLKEPITLPARVPNILLNGTTG 439
Query: 182 IAVGMATNIPTHNLGEVVDGCVAVIDNPDIDLDALMEIIRGPDFPTGAVIL-GRTGIKNA 240
IAVGMAT+IP HNL EVV G +A+I NP + L E I PD PT A I+ +
Sbjct: 440 IAVGMATDIPPHNLREVVKGTIALIRNPQTSDEKLAEYIPAPDLPTKAEIITPPEELLKI 499
Query: 241 YATGRGSIVIRGVSHIEKTSGDREQIVVTEIPYQVNKAAMLEKIAELVREKRIVDIADLR 300
TGRGS +R V IEK +IV+TE+PYQV+ + ++ +IA+ ++ K++ + D+R
Sbjct: 500 QTTGRGSYRMRAVYTIEKN-----EIVITELPYQVSGSKVITQIADQMQAKKLPLVVDVR 554
Query: 301 DESDR-QGYRVVIELKR-GASADVILNQLYRYTSLQSLFSVNMVAL-NGYKPERFTLIGI 357
DESD R+VI L+ A+ +++ L+ T L+S + VN+ + +P+ ++ I
Sbjct: 555 DESDHENPTRLVIVLRSNRIDAEAVMSHLFATTDLESSYRVNLNMIGEDGRPQVKSIRRI 614
Query: 358 LKAFVAFREEVVVRRTKYLLNKARDRAHVLVGLAIAVANLDEVVRIIRFSPNPETARREL 417
L ++ R++ V RR +Y LN+ R H+L GL IA ++D V+RIIR + + L
Sbjct: 615 LLEWIEIRKKTVTRRLQYHLNRIEKRLHILAGLLIAYLDIDTVIRIIREE---DQPKPVL 671
Query: 418 MQRSWNASDIKDLIDLIDDSSYTIGSDGTMYLSEVQTRAILELRLARLTGLGRDDIRNEL 477
M+ + E+Q AILEL+L L L +IR+E
Sbjct: 672 MEH--------------------------FNIDEIQAEAILELKLRHLAKLEEMEIRHEQ 705
Query: 478 NSLGIEIKECLDILSSRSRLLGIIKQELLSVKDELDTPRRTRIVE--GLLDMEDEDCIVR 535
+ L + + L + L +I EL + RR+ IV + ++++D +
Sbjct: 706 DELSAKAAIIREQLENPESLKNLIISELKEDAKKFGDERRSPIVARAEAVQIKEQDLMPA 765
Query: 536 E 536
E
Sbjct: 766 E 766
>3l4j_A DNA topoisomerase 2; topoisomerase, protein-DNA complex, covalently
linked comple supercoiling; HET: DNA PTR TSP; 2.48A
{Saccharomyces cerevisiae} PDB: 3l4k_A* 1bjt_A 1bgw_A
2rgr_A*
Length = 757
Score = 315 bits (807), Expect = 3e-86
Identities = 85/538 (15%), Positives = 185/538 (34%), Gaps = 59/538 (10%)
Query: 13 EKGITSVSITDEMQNSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQMGVEWNKKYV 72
+ + + I+D + + +++ + R+IP++ DG KP R++L+G + ++ K
Sbjct: 244 DPTLKEIPISDFINKELILFSLADNI-RSIPNVLDGFKPGQRKVLYGCFKKNLKSELKVA 302
Query: 73 KCARISGEVMGKYHPHGNAAIYDALARMAQDW--SLRLLLIEGQGNFGS--VDGDPPAAE 128
+ A E + HG ++ + +AQ++ S + L+ G FG+ G AA
Sbjct: 303 QLAPYVSECTA--YHHGEQSLAQTIIGLAQNFVGSNNIYLLLPNGAFGTRATGGKDAAAA 360
Query: 129 RYTECRLQKAAHFLLDDLGKDTVDFRPNYDGSFQEPVVLCARYPNVLVNGGGGIAVGMAT 188
RY L K + + + + EP P +LVNG GI G +T
Sbjct: 361 RYIYTELNKLTRKIFHPADDPLYKYIQEDEKT-VEPEWYLPILPMILVNGAEGIGTGWST 419
Query: 189 NIPTHNLGEVVDGCVAVIDNPDIDLDALMEIIRGPDFPTGAVILGRTGIKNAYATGRGSI 248
IP N E++ ++++ ++ + + RG TG R +
Sbjct: 420 YIPPFNPLEIIKNIRHLMNDEEL--EQMHPWFRGW-----------TGTIEEIEPLRYRM 466
Query: 249 VIRGVSHIEKTSGDREQIVVTEIPYQVNKAAMLEKIAELV-REKRIVDIADLRDESDRQG 307
+ + +TE+P + + + E + + +I +E
Sbjct: 467 ------YGRIEQIGDNVLEITELPARTWTSTIKEYLLLGLSGNDKIKPWIKDMEEQHDDN 520
Query: 308 YRVVIELKRGASADVIL-NQLYRYTSLQSLFSVNMVALN--GYKPERFTLIGILKAFVAF 364
+ +I L A R+ + + +NMVA + G + ++ IL F
Sbjct: 521 IKFIITLSPEEMAKTRKIGFYERFKLISPISLMNMVAFDPHGKIKKYNSVNEILSEFYYV 580
Query: 365 REEVVVRRTKYL-------LNKARDRAHVLVG-----LAIAVANLDEVVRIIRFSPNPET 412
R E +R ++ + K + + L + + +++ + P
Sbjct: 581 RLEYYQKRKDHMSERLQWEVEKYSFQVKFIKMIIEKELTVTNKPRNAIIQELENLGFPRF 640
Query: 413 ARRELMQRSWNASDIKDLIDLIDDSSYTI-----------GSDGTMYLSEVQTRAILELR 461
+ +I + I+ + ++ +L +R
Sbjct: 641 NKEGKPYYGSPNDEIAEQINDVKGATSDEEDEESSHEDTENVINGPEELYGTYEYLLGMR 700
Query: 462 LARLTGLGRDDIRNELNSLGIEIKECLDILSSRSRLLGIIKQELLSVKDELDTPRRTR 519
+ LT + + E++ L + + I +L + + +
Sbjct: 701 IWSLTKERYQKLLKQKQEKETELENLLKLSAKD-----IWNTDLKAFEVGYQEFLQRD 753
>3l6v_A GYRA, DNA gyrase subunit A; gyrase A C-terminal domain, GYRA
C-terminal domain, DNA wrapping, beta-strand-bearing
proline, ATP-binding; HET: DNA; 2.19A {Xanthomonas
campestris PV}
Length = 370
Score = 312 bits (799), Expect = 3e-85
Identities = 133/380 (35%), Positives = 202/380 (53%), Gaps = 24/380 (6%)
Query: 531 DCIVREDMVVTVSHLGYVKRVPLSVYRAQRRGGKGRSGVVMRDEDFVTDLFIVSTHTSVL 590
D I ED+VVT+SH GY KR P+S YRAQRRGG+GRS ++EDF+ L++V+TH ++L
Sbjct: 2 DLIAPEDVVVTLSHAGYAKRQPVSAYRAQRRGGRGRSAASTKEEDFIDQLWLVNTHDTLL 61
Query: 591 FFSSLGFVYKEKVWRLPIGSPQARGKALINILSLNQGERITTIMPFPEDESSWNNLYVVF 650
F+S G V+ V +LP ARG+ +IN + L GER+ ++P E +N YV
Sbjct: 62 TFTSSGKVFWLPVHQLPEAGSNARGRPIINWIPLESGERVQAVLPVREY---ADNRYVFM 118
Query: 651 ATKHGNVRRNKLSDFIQINRSGKIAMKLDSRDEILSVETCTQENDILLTTKLGQCVRFPI 710
AT++G V++ LS+F GKIA+ LD D ++ V + D+LL G+ VRF
Sbjct: 119 ATRNGTVKKTPLSEFAFRLARGKIAINLDEGDALVGVALTDGDRDVLLFASNGKTVRFGE 178
Query: 711 SAIRVFAGRNSVGVRGISLAKGDQVISMAIVLHADADYDERICYMKHMSAQRRLISGDTE 770
S +R GR + GVRGI LAKG++V+S+ + A DE E
Sbjct: 179 STVRSM-GRTATGVRGIRLAKGEEVVSLIVSERAGGVEDEV------------------E 219
Query: 771 EITSLKNDSSVEGNISEERCQELKLKEQFILTVSEKGFGKRTSSYDFRISNRSGKGIRAT 830
+ ++ + + +G +ILT +E G+GKRT ++ R +G+
Sbjct: 220 DESAEEVVETTDGAEPAVIDVADNGDVAYILTATENGYGKRTPLAEYPRKGRGTQGVIGI 279
Query: 831 DVSKINEIGALVAVFPVNDNDQIILVSDKGTLIRVPVNEIRIASRATKGVVIFSTAKDER 890
++ N LV + D+++L+SD GTL+R +EI R T+GV + +K E+
Sbjct: 280 QTTERNGK--LVRAVLLGSTDEVMLISDGGTLVRTRGSEISRVGRNTQGVTLIRLSKGEK 337
Query: 891 VVSVERIRESEIVDEAESTE 910
+ +VER+ S E E
Sbjct: 338 LQAVERLDASLEEPEDVVDE 357
Score = 66.7 bits (162), Expect = 2e-11
Identities = 25/135 (18%), Positives = 51/135 (37%), Gaps = 4/135 (2%)
Query: 507 SVKDELDTPRRTRIVEGLLDMEDEDCIVREDMVVTVSHLGYVKRVPLSVYRAQRRGGKGR 566
V+DE + D ++T + GY KR PL+ Y + RG +G
Sbjct: 217 EVEDESAEEVVETTDGAEPAVIDVADNGDVAYILTATENGYGKRTPLAEYPRKGRGTQGV 276
Query: 567 SGVVMRDED-FVTDLFIVSTHTSVLFFSSLGFVYKEKVWRLPIGSPQARGKALINILSLN 625
G+ + + + ++ + V+ S G + + + + +G LI L+
Sbjct: 277 IGIQTTERNGKLVRAVLLGSTDEVMLISDGGTLVRTRGSEISRVGRNTQGVTLIR---LS 333
Query: 626 QGERITTIMPFPEDE 640
+GE++ +
Sbjct: 334 KGEKLQAVERLDASL 348
>1bjt_A Topoisomerase II; quaternary change, DNA-binding, DNA topology;
2.50A {Saccharomyces cerevisiae} SCOP: e.11.1.1 PDB:
1bgw_A 2rgr_A*
Length = 793
Score = 273 bits (699), Expect = 1e-73
Identities = 82/543 (15%), Positives = 173/543 (31%), Gaps = 56/543 (10%)
Query: 14 KGITSVSITDEMQNSYLTYAINVILGRAIPDLRDGLKPVHRRILFGMMQMGVEWNKKYVK 73
+ + I+D + + +++ + R+IP++ DG KP R++L+G + ++ K +
Sbjct: 257 PTLKEIPISDFINKELILFSLADNI-RSIPNVLDGFKPGQRKVLYGCFKKNLKSELKVAQ 315
Query: 74 CARISGEVMGKYHPHGNAAIYDALARMAQDWSLR----LLLIEGQGNFGSVDGDPPAAER 129
A E + HG ++ + +AQ++ LLL G + G AA R
Sbjct: 316 LAPYVSECTA--YHHGEQSLAQTIIGLAQNFVGSNNIYLLLPNGAFGTRATGGKDAAAAR 373
Query: 130 YTECRLQKAAHFLLDDLGKDTVDFRPNYDGSFQEPVVLCARYPNVLVNGGGGIAVGMATN 189
Y L K + + + + EP P +LVNG GI G +T
Sbjct: 374 YIYTELNKLTRKIFHPADDPLYKYIQEDEKT-VEPEWYLPILPMILVNGAEGIGTGWSTY 432
Query: 190 IPTHNLGEVVDGCVAVIDNPDIDLDALMEIIRGPDFPTGAVILGRTGIKNAYATGRGSIV 249
IP N E++ ++++ +++ P F TG R +
Sbjct: 433 IPPFNPLEIIKNIRHLMNDEELE-------QMHPWFRGW------TGTIEEIEPLRYRM- 478
Query: 250 IRGVSHIEKTSGDREQIVVTEIPYQVNKAAMLEKIAELVREKR-IVDIADLRDESDRQGY 308
+ + +TE+P + + + E + + I +E
Sbjct: 479 -----YGRIEQIGDNVLEITELPARTWTSTIKEYLLLGLSGNDKIKPWIKDMEEQHDDNI 533
Query: 309 RVVIELKRGASADVILNQLYRYTSLQSLFSVNMVAL---NGYKPERFTLIGILKAFVAFR 365
+ +I L A Y L S S+ + +G + ++ IL F R
Sbjct: 534 KFIITLSPEEMAKTRKIGFYERFKLISPISLMNMVAFDPHGKIKKYNSVNEILSEFYYVR 593
Query: 366 EEVVVRRTKYLLNKARDRAHVL------------VGLAIAVANLDEVVRIIRFSPNPETA 413
E +R ++ + + L + + +++ + P
Sbjct: 594 LEYYQKRKDHMSERLQWEVEKYSFQVKFIKMIIEKELTVTNKPRNAIIQELENLGFPRFN 653
Query: 414 RRELMQRSWNASDIKDLIDLIDDSSYTI-----------GSDGTMYLSEVQTRAILELRL 462
+ +I + I+ + ++ +L +R+
Sbjct: 654 KEGKPYYGSPNDEIAEQINDVKGATSDEEDEESSHEDTENVINGPEELYGTYEYLLGMRI 713
Query: 463 ARLTGLGRDDIRNELNSLGIEIKECLDILSSR--SRLLGIIKQELLSVKDELDTPRRTRI 520
LT + + E++ L + + + L + R +
Sbjct: 714 WSLTKERYQKLLKQKQEKETELENLLKLSAKDIWNTDLKAFEVGYQEFLQRDAEARGGNV 773
Query: 521 VEG 523
Sbjct: 774 PNK 776
>1zi0_A DNA gyrase subunit A; beta pinwheel, topoisomerase, spiralling beta
pinwheel, DNA wrapping, isomerase, DNA bindng protein;
HET: DNA; 2.60A {Escherichia coli}
Length = 307
Score = 253 bits (646), Expect = 2e-67
Identities = 130/364 (35%), Positives = 204/364 (56%), Gaps = 59/364 (16%)
Query: 536 EDMVVTVSHLGYVKRVPLSVYRAQRRGGKGRSGVVMRDEDFVTDLFIVSTHTSVLFFSSL 595
ED+VVT+SH GYVK PLS Y AQRRGGKG+S +++EDF+ L + +TH +L FSS
Sbjct: 3 EDVVVTLSHQGYVKYQPLSEYEAQRRGGKGKSAARIKEEDFIDRLLVANTHDHILCFSSR 62
Query: 596 GFVYKEKVWRLPIGSPQARGKALINILSLNQGERITTIMPFPEDESSWNNLYVVFATKHG 655
G VY KV++LP + ARG+ ++N+L L Q ERIT I+P E + V AT +G
Sbjct: 63 GRVYSMKVYQLPEATRGARGRPIVNLLPLEQDERITAILPVTEF---EEGVKVFMATANG 119
Query: 656 NVRRNKLSDFIQINRSGKIAMKLDSRDEILSVETCTQENDILLTTKLGQCVRFPISAIRV 715
V++ L++F ++ +GK+A+KL DE++ V+ + E++++L + G+ VRF S++R
Sbjct: 120 TVKKTVLTEFNRLRTAGKVAIKLVDGDELIGVDLTSGEDEVMLFSAEGKVVRFKESSVR- 178
Query: 716 FAGRNSVGVRGISLAKGDQVISMAIVLHADADYDERICYMKHMSAQRRLISGDTEEITSL 775
G N+ GVRGI L +GD+V
Sbjct: 179 AMGCNTTGVRGIRLGEGDKV---------------------------------------- 198
Query: 776 KNDSSVEGNISEERCQELKLKEQFILTVSEKGFGKRTSSYDFRISNRSGKGIRATDVSKI 835
+S + + ILT ++ G+GKRT+ ++ +R+ KG+ + V++
Sbjct: 199 ---------VSLIVPRG----DGAILTATQNGYGKRTAVAEYPTKSRATKGVISIKVTE- 244
Query: 836 NEIGALVAVFPVNDNDQIILVSDKGTLIRVPVNEIRIASRATKGVVIFSTAKDERVVSVE 895
G +V V+D DQI++++D GTL+R V+EI I R T+GV++ TA+DE VV ++
Sbjct: 245 -RNGLVVGAVQVDDCDQIMMITDAGTLVRTRVSEISIVGRNTQGVILIRTAEDENVVGLQ 303
Query: 896 RIRE 899
R+ E
Sbjct: 304 RVAE 307
Score = 62.8 bits (152), Expect = 3e-10
Identities = 24/102 (23%), Positives = 47/102 (46%), Gaps = 3/102 (2%)
Query: 796 KEQFILTVSEKGFGKRTSSYDFRISNRSGKGIRATDVSKINEIGALVAVFPVNDNDQIIL 855
+E ++T+S +G+ K ++ R GKG A +I E + + N +D I+
Sbjct: 2 QEDVVVTLSHQGYVKYQPLSEYEAQRRGGKGKSAA---RIKEEDFIDRLLVANTHDHILC 58
Query: 856 VSDKGTLIRVPVNEIRIASRATKGVVIFSTAKDERVVSVERI 897
S +G + + V ++ A+R +G I + E+ + I
Sbjct: 59 FSSRGRVYSMKVYQLPEATRGARGRPIVNLLPLEQDERITAI 100
>1suu_A DNA gyrase subunit A; topoisomerase,DNA gyrase, beta-propeller,
beta-pinwheel; HET: DNA; 1.75A {Borrelia burgdorferi}
SCOP: b.68.10.1
Length = 312
Score = 207 bits (527), Expect = 9e-54
Identities = 78/370 (21%), Positives = 153/370 (41%), Gaps = 59/370 (15%)
Query: 530 EDCIVREDMVVTVSHLGYVKRVPLSVYRAQRRGGKGRSGVVMRDEDFVTDLFIVSTHTSV 589
D + +E++VV ++ G++KR+ + Y+ Q GGKG S + D D + V+TH +
Sbjct: 2 SDLMQKENIVVMLTKKGFLKRLSQNEYKLQGTGGKGLSSFDLNDGDEIVIALCVNTHDYL 61
Query: 590 LFFSSLGFVYKEKVWRLPIGSPQARGKALINILSLNQGERITTIMPFPEDESSWNNLYVV 649
S+ G +Y + + S ++G+ + +++L E I TI + ++ Y++
Sbjct: 62 FMISNEGKLYLINAYEIKDSSRASKGQNISELINLGDQEEILTIKNSKDL---TDDAYLL 118
Query: 650 FATKHGNVRRNKLSDFIQINRSGKIAMKLDSRDEILSVETCTQENDILLTTKLGQCVRFP 709
T G + R + +DF + G I +KL+ +D + S E ++ ++ +K G F
Sbjct: 119 LTTASGKIARFESTDFKAVKSRGVIVIKLNDKDFVTSAEIVFKDEKVICLSKKGSAFIFN 178
Query: 710 ISAIRVFAGRNSVGVRGISLAKGDQVISMAIVLHADADYDERICYMKHMSAQRRLISGDT 769
+R R + GV G+ L +GD + + V
Sbjct: 179 SRDVR-LTNRGTQGVCGMKLKEGDLFVKVLSVKE-------------------------- 211
Query: 770 EEITSLKNDSSVEGNISEERCQELKLKEQFILTVSEKGFGKRTSSYDFRISNRSGKGIRA 829
++L VSE G+GKR + R G +
Sbjct: 212 ---------------------------NPYLLIVSENGYGKRLNMSKISELKRGATGYTS 244
Query: 830 TDVSKINEIGALVAVFPVNDNDQIILVSDKGTLIRVPVNEIRIASRATKGVVIFSTAKDE 889
S G++V V+++D+I+LVS + +R ++ + +G+ + ++
Sbjct: 245 YKKSDKKA-GSVVDAIAVSEDDEILLVSKRSKALRTVAGKVSEQGKDARGIQVLFL-DND 302
Query: 890 RVVSVERIRE 899
+VSV + +
Sbjct: 303 SLVSVSKFIK 312
Score = 47.6 bits (112), Expect = 1e-05
Identities = 27/139 (19%), Positives = 51/139 (36%), Gaps = 11/139 (7%)
Query: 507 SVKDELDTPRRTRIVEGLLD-----MEDEDCIVREDMVVTVSHLGYVKRVPLSVYRAQRR 561
+ +D T R T+ V G+ + ++ VS GY KR+ +S +R
Sbjct: 178 NSRDVRLTNRGTQGVCGMKLKEGDLFVKVLSVKENPYLLIVSENGYGKRLNMSKISELKR 237
Query: 562 GGKGRSGVVMRDE--DFVTDLFIVSTHTSVLFFSSLGFVYKEKVWRLPIGSPQARGKALI 619
G G + D+ V D VS +L S + ++ ARG ++
Sbjct: 238 GATGYTSYKKSDKKAGSVVDAIAVSEDDEILLVSKRSKALRTVAGKVSEQGKDARGIQVL 297
Query: 620 NILSLNQGERITTIMPFPE 638
+ + + ++ F +
Sbjct: 298 FL----DNDSLVSVSKFIK 312
>1wp5_A Topoisomerase IV; broken beta-propeller, hairpin-invaded
beta-propeller, six- bladed beta-propeller; 1.79A
{Geobacillus stearothermophilus} SCOP: b.68.10.1
Length = 323
Score = 174 bits (441), Expect = 9e-44
Identities = 71/380 (18%), Positives = 145/380 (38%), Gaps = 64/380 (16%)
Query: 533 IVREDMVVTVSHLGYVKRVPLSVYRAQRRGGKGRSGVVMRDEDFVTDLFIVSTHTSVLFF 592
+ ED++VTV+ GYVKR L Y A M+D D + + ++T +L F
Sbjct: 2 VASEDVIVTVTKDGYVKRTSLRSYAASNGQDFA-----MKDTDRLLAMLEMNTKDVLLLF 56
Query: 593 SSLGFVYKEKVWRLPIGSPQARGKALINILSLNQGERITTIMPFPEDESSWNNLYVVFAT 652
++ G V LP + G+ + NI+ +++ E I +P + E + L F T
Sbjct: 57 TNKGNYLYCPVHELPDIRWKDLGQHIANIIPIDRDEEIIKAIPINDFELNGYFL---FVT 113
Query: 653 KHGNVRRNKLSDFIQINRSGK-IAMKLDSRDEILSVETCTQENDILLTTKLGQCVRFPIS 711
++G V++ +L + S + L + D+++ V N++ L T G + F S
Sbjct: 114 RNGMVKKTELKHYKAQRYSKPLTGINLKNDDQVVDVHLTDGMNELFLVTHNGYALWFDES 173
Query: 712 AIRVFAGRNSVGVRGISLAKGDQVISMAIVLHADADYDERICYMKHMSAQRRLISGDTEE 771
+ G + GV+G+ + ++ + + + S D
Sbjct: 174 EVS-IVGVRAAGVKGM-----------------------NLKEGDYIVSGQLITSKDESI 209
Query: 772 ITSLKNDSSVEGNISEERCQELKLKEQFILTVSEKGFGKRTSSYDFRISNRSGKGIRATD 831
+ + + + + ++E + IL + +
Sbjct: 210 VVATQRGAVKKMKLTEFEKATRAKRGVVILRELKANPHRI-------------------- 249
Query: 832 VSKINEIGALVAVFPVNDNDQIILVSDKGTLIRVPVNEIRIASRATKGVVIFSTAKDERV 891
D+D I L ++K + + V +IR + R + G + ++ RV
Sbjct: 250 ----------SGFVVAQDSDTIYLQTEKSFIETIKVGDIRFSDRYSNGSFVLDEEENGRV 299
Query: 892 VSVERIRESEIVDE-AESTE 910
+SV ++ + ++ A + E
Sbjct: 300 ISVWKVEAEDKTEKLAAALE 319
>3ku8_A GYRA14, DNA gyrase subunit A; alpha+beta, SH3 domain,
topoisomerase, toxin-isomerase compl; HET: DNA; 1.93A
{Escherichia coli} PDB: 1x75_A* 3kua_A*
Length = 156
Score = 149 bits (377), Expect = 3e-36
Identities = 52/145 (35%), Positives = 80/145 (55%), Gaps = 8/145 (5%)
Query: 360 AFVAFREEVVVRRTKYLLNKARDRAHVLVGLAIAVANLDEVVRIIRFSPNPETARRELMQ 419
+ + R + RRT + L KARDRAH+L LA+A+AN+D ++ +IR +P P A+ L+
Sbjct: 12 SGLVPRGSHMTRRTIFELRKARDRAHILEALAVALANIDPIIELIRHAPTPAEAKTALVA 71
Query: 420 RSWNASDIKDLIDLIDDSSYTI--------GSDGTMYLSEVQTRAILELRLARLTGLGRD 471
W ++ +++ D + DG YL+E Q +AIL+LRL +LTGL +
Sbjct: 72 NPWQLGNVAAMLERAGDDAARPEWLEPEFGVRDGLYYLTEQQAQAILDLRLQKLTGLEHE 131
Query: 472 DIRNELNSLGIEIKECLDILSSRSR 496
+ +E L +I E L IL S R
Sbjct: 132 KLLDEYKELLDQIAELLRILGSADR 156
>1zvt_A Topoisomerase IV subunit A; beta-pinwheel, ATPase, supercoiling,
decatenation, DNA binding, DNA topology; 1.70A
{Escherichia coli}
Length = 256
Score = 115 bits (289), Expect = 4e-26
Identities = 38/215 (17%), Positives = 79/215 (36%), Gaps = 20/215 (9%)
Query: 536 EDMVVTVSHLGYVKRVPLSVYRAQRRGGKGRSGVVMRDEDFVTDLFIVSTHTSVLFFSSL 595
E + + +S +G+V R+ + G+ + D ++ V+F S
Sbjct: 2 EPVTIVLSQMGWV--------RSAKGHDIDAPGLNYKAGDSFKAAVKGKSNQPVVFVDST 53
Query: 596 GFVYKEKVWRLPIGSPQARGKALINILSLNQGERITTIMPFPEDESSWNNLYVVFATKHG 655
G Y LP Q L+L G + ++ +D+ ++ A+ G
Sbjct: 54 GRSYAIDPITLPSARGQGEPL--TGKLTLPPGATVDHMLMESDDQ------KLLMASDAG 105
Query: 656 NVRRNKLSDFIQINRSGKIAMKLDSRDEILSVETCT-QENDILLTTKLGQCVRFPISAIR 714
+D + NR+GK + L ++ + +L T+ G+ + FP+S +
Sbjct: 106 YGFVCTFNDLVARNRAGKALITLPENAHVMPPVVIEDASDMLLAITQAGRMLMFPVSDLP 165
Query: 715 VF---AGRNSVGVRGISLAKGDQVISMAIVLHADA 746
G + + A+G+ ++ VL +
Sbjct: 166 QLSKGKGNKIINIPSAEAARGEDGLAQLYVLPPQS 200
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 76.9 bits (189), Expect = 2e-14
Identities = 83/523 (15%), Positives = 157/523 (30%), Gaps = 196/523 (37%)
Query: 3 EHIISSDEEEEKG-ITSV--SITDEMQNSYL-TYAINVILGRAIPDLRDGLKPVHRRILF 58
++ S E + G V E +N YL I+ + + + + L + ++
Sbjct: 66 GYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTL-VKTKELI- 123
Query: 59 GMMQMGVEWNKKYVKCARISGEVMGKYHPHGNAAIYDALARMAQDWSLRLLLI-EGQGNF 117
K Y+ ++ K AL R + + +L+ I GQGN
Sbjct: 124 ----------KNYITARIMAKRPFDKKSNS-------ALFRAVGEGNAQLVAIFGGQGN- 165
Query: 118 GSVDGDPPAAERY-TECR-------------LQKAAHFLLDDLGKDTVDF---------- 153
+ Y E R ++ +A L +L + T+D
Sbjct: 166 ---------TDDYFEELRDLYQTYHVLVGDLIKFSAE-TLSELIRTTLDAEKVFTQGLNI 215
Query: 154 ---------RPNYDG------SFQEPV----------VLCARYPNVLVNGGGGIAVG-MA 187
P+ D S P+ V +L G G +
Sbjct: 216 LEWLENPSNTPDKDYLLSIPISC--PLIGVIQLAHYVVTA----KLL-----GFTPGELR 264
Query: 188 TNIP--T-HNLGEVVDGCVAVIDNPD--ID-----LDALMEI-IRGPD-FPTGAVILGRT 235
+ + T H+ G V +A D+ + + L I +R + +P + L +
Sbjct: 265 SYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTS--LPPS 322
Query: 236 GIKNAYATGRGS----IVIRGVSHIEKTSGDREQIVVTEIPYQVNKAAMLEKIAELVREK 291
++++ G + I ++ +EQ V + + N L K
Sbjct: 323 ILEDSLENNEGVPSPMLSISNLT--------QEQ--VQDYVNKTNS--------HLPAGK 364
Query: 292 RIVDIADLRDESDRQ----G-----YRVVIELKRGASADVILNQLYRYTSLQSLFSVNMV 342
++ I+ L + + G Y + + L R A A L+Q + +
Sbjct: 365 QVE-IS-LVN-GAKNLVVSGPPQSLYGLNLTL-RKAKAPSGLDQ-------------SRI 407
Query: 343 ALNGYKPE---RFTLIGILKAFVAFREEVVVRRTKYLLNKARDRAHVLVGLAIAVANLDE 399
+ K + RF L F + L+ A D + L
Sbjct: 408 PFSERKLKFSNRF-----LPVASPF-------HSHLLV-PASDL--INKDLVKNN----- 447
Query: 400 VVRIIRFSPN----P----ETARRELMQRSWNASDIKDLIDLI 434
+ F+ P +L R + S + ++D I
Sbjct: 448 ----VSFNAKDIQIPVYDTFDG-SDL--RVLSGSISERIVDCI 483
Score = 68.0 bits (166), Expect = 1e-11
Identities = 97/616 (15%), Positives = 177/616 (28%), Gaps = 263/616 (42%)
Query: 351 RFTLIGILKAFVAFREE------------VVVR--RTKYLLNKARDRAHVLVG--LAIAV 394
+F +G +V+ E + + YL D H L L
Sbjct: 63 KF--LG----YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGN--D-IHALAAKLLQEND 113
Query: 395 ANLDEVVRIIR------------FSPNPETARRELMQRSWNASDIKDLIDLIDDSS-YTI 441
L + +I+ F +A L + + ++ I
Sbjct: 114 TTLVKTKELIKNYITARIMAKRPFDKKSNSA---LFR---AVGE--------GNAQLVAI 159
Query: 442 -GSDGTM--YLSEVQT-----RAILE--LRLA--RLTGLGRD-DIRNELNSLGIEIKECL 488
G G Y E++ ++ ++ + L+ L R ++ + G+ I E L
Sbjct: 160 FGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWL 219
Query: 489 DILSSR-SRLLGIIKQELLSVKDELDTPRRTRIVE----GLLDMEDEDCIVREDMVVTVS 543
+ S+ + LLS+ P + G++ + VVT
Sbjct: 220 ENPSNTPDK------DYLLSI------P-----ISCPLIGVIQL------AH--YVVTAK 254
Query: 544 HLGYVKRVPLSVYRAQRRGGKGRS-GVVMRDEDFVTDLFIVSTHT------------SVL 590
LG P + R+ +G G S G+V T + I T + +VL
Sbjct: 255 LLG---FTPGEL-RSYLKGATGHSQGLV-------TAVAIAETDSWESFFVSVRKAITVL 303
Query: 591 FFSSLGFVYKEKVWRLPIGSPQARGKALI--NIL--SLNQGERITTIMPFPEDESSWNNL 646
FF +G R +A + +IL SL E + + M L
Sbjct: 304 FF--IG-------VR----CYEAYPNTSLPPSILEDSLENNEGVPSPM-----------L 339
Query: 647 YVVFATKHGNVRRNKLSDFI-QINR----SGKIAMKL-DSRDEILSVET---------CT 691
+ N+ + ++ D++ + N ++ + L + + V +
Sbjct: 340 SIS------NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNL--VVSGPPQSLYGLNL 391
Query: 692 QENDILLTTKLGQ-----------CV-RF-PISAIRVFAGRNSVGVRGISLAKGDQVISM 738
+ L Q RF P+++ F
Sbjct: 392 TLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVAS--PF---------------------- 427
Query: 739 AIVLH----ADADYDERICYMKHMSAQRRLISG--------DTEEITSLKNDSSVEGN-- 784
H A + I K + + DT + + L+ + G+
Sbjct: 428 ----HSHLLVPAS--DLI--NKDLVKNNVSFNAKDIQIPVYDTFDGSDLR---VLSGSIS 476
Query: 785 ------ISEERCQ-ELKLKEQF----ILT-----VSEKGFGKRTSSYDFRISNRSGKGIR 828
I + E QF IL S G G T N+ G G+R
Sbjct: 477 ERIVDCIIRLPVKWETTT--QFKATHILDFGPGGAS--GLGVLTHR------NKDGTGVR 526
Query: 829 -----ATDVSKINEIG 839
D++ ++ G
Sbjct: 527 VIVAGTLDINPDDDYG 542
Score = 57.3 bits (138), Expect = 2e-08
Identities = 101/590 (17%), Positives = 193/590 (32%), Gaps = 229/590 (38%)
Query: 284 IAELVREKRIVD-IADLRDESDRQGYRVVIELKRGASADVILNQLYRYTSLQSLF----S 338
AELV + + ++ L + S + V+ L L + ++ +
Sbjct: 57 PAELV--GKFLGYVSSLVEPSKVGQFDQVLNL--------CLTEF------ENCYLEGND 100
Query: 339 VNMVALNGYKPERFTLI---GILKAFVAFREEVVVRRTKY----LLNKARDRAHVLVGLA 391
++ +A + TL+ ++K ++ R K L + LV
Sbjct: 101 IHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLV--- 157
Query: 392 IAVAN--------LDE-----------VVRIIRFSPNPETARR--ELMQRSWNASDIK-- 428
A+ +E V +I+FS A EL++ + +A +
Sbjct: 158 -AIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFS-----AETLSELIRTTLDAEKVFTQ 211
Query: 429 --DLIDLIDDSSYTIGSDGTMYLSEVQTRAI------LELRLA------RLTGL--GRDD 472
++++ +++ S T D YL + I + ++LA +L G G +
Sbjct: 212 GLNILEWLENPSNTPDKD---YLLSI---PISCPLIGV-IQLAHYVVTAKLLGFTPG--E 262
Query: 473 IRNEL-----NSLGI------------E-----IKECLDIL---SSRSR-------LLGI 500
+R+ L +S G+ E +++ + +L R L
Sbjct: 263 LRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPS 322
Query: 501 IKQE-----------LLSVKDELDTPRRTRIVEGLLDM------EDED-CI--V--REDM 538
I ++ +LS+ + + + V+ ++ + I V +++
Sbjct: 323 ILEDSLENNEGVPSPMLSISN----LTQEQ-VQDYVNKTNSHLPAGKQVEISLVNGAKNL 377
Query: 539 VVTVSHLGYVKRVPLSVYRAQR--RGGKGRSGVVMRDEDFVTDLFIVSTHTSVLFFSS-- 594
VV+ G P S+Y R K SG+ D+ + FS
Sbjct: 378 VVS----GP----PQSLYGLNLTLRKAKAPSGL---DQSRIP-------------FSERK 413
Query: 595 LGFVYKEKVWR-LPIGSP---QARGKALINILSLNQGERITTIMPFPEDESSW--NNLYV 648
L F R LP+ SP A I + ++ S+ ++ +
Sbjct: 414 LKFSN-----RFLPVASPFHSHLLVPASDLIN-----KD------LVKNNVSFNAKDIQI 457
Query: 649 -VFATKHGNVRRNKLSDFIQINRSGKIAMKLDSRDEILSVETCTQENDILLTTKLGQCVR 707
V+ T G SD + SG I+ ++ D I+ E +
Sbjct: 458 PVYDTFDG-------SDLRVL--SGSISERI--VDCIIR-LPVKWE----------TTTQ 495
Query: 708 FPISAIRVFAGRNSVGVRGI-SLAK------GDQVISMAIVLHADADYDE 750
F + I F G G G+ L G +VI +A L + D D+
Sbjct: 496 FKATHILDF-GPG--GASGLGVLTHRNKDGTGVRVI-VAGTLDINPD-DD 540
Score = 46.9 bits (111), Expect = 2e-05
Identities = 37/180 (20%), Positives = 53/180 (29%), Gaps = 84/180 (46%)
Query: 110 LIEGQGNFGSVDGDP------------------------PAAERYTECR----------- 134
L+ G N V G P P +ER +
Sbjct: 370 LVNGAKNL-VVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFH 428
Query: 135 ---LQKAAHFLLDDLGKDTVDFRPN---------YDGS-----------------FQEPV 165
L A+ + DL K+ V F +DGS + PV
Sbjct: 429 SHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPV 488
Query: 166 V--LCARYP--NVLVNGGGGIA-VGMATNIPTHNLGEVVDGC-VAVI------DNPDIDL 213
++ ++L G GG + +G+ T+ N DG V VI NPD D
Sbjct: 489 KWETTTQFKATHILDFGPGGASGLGVLTH---RN----KDGTGVRVIVAGTLDINPDDDY 541
Score = 38.0 bits (88), Expect = 0.009
Identities = 40/188 (21%), Positives = 69/188 (36%), Gaps = 66/188 (35%)
Query: 1 MTEHIISSDEEEEKGITSVSITDEMQNSYLTYAINVILGRAIPDLRD-GLKPVHRRILFG 59
+ EH S EKG+ S + + A+ ++ A DL+ GL P
Sbjct: 1710 INEHSTSYTFRSEKGLLSAT-------QFTQPALTLMEKAAFEDLKSKGLIPAD------ 1756
Query: 60 MMQMGVEWNKKYVKCARISGEVMGKYHPHGNAAIYDALARMAQDWSLRLLLIE------- 112
A +G +G+Y ALA +A S+ L+E
Sbjct: 1757 ---------------ATFAGHSLGEYA---------ALASLADVMSIE-SLVEVVFYRGM 1791
Query: 113 -----------GQGNFGSVDGDP-PAAERYTECRLQKAAHFLLDDLGKDT---VDFRPNY 157
G+ N+G + +P A ++ Q+A ++++ +GK T V+ NY
Sbjct: 1792 TMQVAVPRDELGRSNYGMIAINPGRVAASFS----QEALQYVVERVGKRTGWLVEI-VNY 1846
Query: 158 DGSFQEPV 165
+ Q+ V
Sbjct: 1847 NVENQQYV 1854
Score = 31.5 bits (71), Expect = 0.82
Identities = 24/126 (19%), Positives = 39/126 (30%), Gaps = 33/126 (26%)
Query: 795 LKEQFILTVSEK--GFG--KRTSS-----YDF-----RISNRSGKGIRATDVSKI----- 835
L+EQF + E GF ++ F + S G + V +
Sbjct: 33 LQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVG-QFDQVLNLCLTEF 91
Query: 836 -------NEIGALVAVFPVNDNDQIILVSDKGTLIRVPVNEIRIASRA-TKGVV--IFST 885
N+I AL A +ND + LI+ + +A R K +F
Sbjct: 92 ENCYLEGNDIHALAAKLL-QEND--TTLVKTKELIKNYITARIMAKRPFDKKSNSALFRA 148
Query: 886 AKDERV 891
+
Sbjct: 149 VGEGNA 154
>2vld_A NUCS, UPF0286 protein pyrab01260; endonuclease, hydrolase; 2.60A
{Pyrococcus abyssi}
Length = 251
Score = 31.0 bits (70), Expect = 1.2
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 304 DRQGYRVVIELKRGASADVILNQLYRY 330
D+ G VV+ELKR + ++Q+ RY
Sbjct: 165 DKDGNIVVLELKRRKADLHAVSQMKRY 191
>1b4a_A Arginine repressor; helix turn helix; 2.50A {Bacillus
stearothermophilus} SCOP: a.4.5.3 d.74.2.1 PDB: 1f9n_A
Length = 149
Score = 30.6 bits (69), Expect = 1.5
Identities = 10/36 (27%), Positives = 15/36 (41%)
Query: 275 VNKAAMLEKIAELVREKRIVDIADLRDESDRQGYRV 310
+NK KI E++ I +L D G+ V
Sbjct: 1 LNKGQRHIKIREIIMSNDIETQDELVDRLREAGFNV 36
>3eez_A Putative mandelate racemase/muconate lactonizing enzyme; structural
genomics, unknown function, PSI-2, protein structure
initiative; 2.80A {Silicibacter pomeroyi}
Length = 378
Score = 29.9 bits (65), Expect = 3.0
Identities = 11/56 (19%), Positives = 20/56 (35%), Gaps = 4/56 (7%)
Query: 167 LCARYPNVLVNGGGGIAVGMATNIPTHNLGEVVDGCVAVIDNP----DIDLDALME 218
L A P+ + + +I +DG + + + P D DAL +
Sbjct: 309 LAATIPDHACHAVWACQDMLTVDIAGGRGPRNIDGHLHLPETPGLGVHPDEDALGD 364
>3ere_D Arginine repressor; X-RAY crystallography, arginine repressor
protein; 2.50A {Mycobacterium tuberculosis H37RV} PDB:
3fhz_A*
Length = 170
Score = 29.1 bits (65), Expect = 4.1
Identities = 6/36 (16%), Positives = 14/36 (38%)
Query: 275 VNKAAMLEKIAELVREKRIVDIADLRDESDRQGYRV 310
N+A +I ++ ++ +L +G V
Sbjct: 16 ANRAGRQARIVAILSSAQVRSQNELAALLAAEGIEV 51
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.2 bits (64), Expect = 4.8
Identities = 6/28 (21%), Positives = 16/28 (57%), Gaps = 2/28 (7%)
Query: 755 MKHMSAQRRLISGDTEEITSLKNDSSVE 782
+K + A +L + D+ ++K +++E
Sbjct: 22 LKKLQASLKLYADDSAPALAIK--ATME 47
>3nx4_A Putative oxidoreductase; csgid, structural genomics, center for
struc genomics of infectious diseases, PSI, protein
structure INI; HET: MSE NAP; 1.90A {Salmonella enterica
subsp} PDB: 1o89_A 1o8c_A*
Length = 324
Score = 28.6 bits (63), Expect = 6.2
Identities = 24/176 (13%), Positives = 47/176 (26%), Gaps = 35/176 (19%)
Query: 174 VLVNGGGGIAVGMATNIPTHNLGEVVDGCVAVIDNPDIDLDALMEIIRGPDFPTGAVILG 233
V+V G G VG H LG V I D + L
Sbjct: 150 VVVTGASG-GVGSTAVALLHKLGYQVAAVSGRESTHGYLKSLGANRILSRDEFAESRPLE 208
Query: 234 RTGIKNAYATG--------------RGSIVIRGVSHIEKTSGDREQIVVTEIPYQV---- 275
+ A T G + G++ ++ + Q
Sbjct: 209 KQLWAGAIDTVGDKVLAKVLAQMNYGGCVAACGLAGGFALPTTVMPFILRNVRLQGVDSV 268
Query: 276 -----NKAAMLEKIAELVREK------RIVDIADLRD-----ESDRQGYRVVIELK 315
+A ++ + + E + +AD +++ R ++++K
Sbjct: 269 MTPPARRAEAWARLVKDLPESFYAQAATEITLADAPKFADAIINNQVQGRTLVKIK 324
>1o98_A 2,3-bisphosphoglycerate-independent phosphoglycerate mutase;
isomerase, alpha/beta-type structure; HET: 2PG; 1.4A
{Bacillus stearothermophilus} SCOP: c.105.1.1 c.76.1.3
PDB: 1ejj_A* 1eqj_A* 1o99_A* 2ify_A
Length = 511
Score = 28.3 bits (62), Expect = 9.0
Identities = 15/148 (10%), Positives = 41/148 (27%), Gaps = 10/148 (6%)
Query: 158 DGSFQEPVVLCARYPNVLVNGGGGIAVGMATNIPTHNLGEVVDGCVAVIDNPDIDLDALM 217
+G F A +V +G G+ ++ H+ + + + + +
Sbjct: 88 EGEFDRNETFLAAMNHVKQHGTSLHLFGLLSDGGVHSHIHHLYALLRLAAKEGVKRVYIH 147
Query: 218 EIIRGPDFPTGAVILGRTGI----------KNAYATGRGSIVIRGVSHIEKTSGDREQIV 267
+ G D + + A +GR + R R +
Sbjct: 148 GFLDGRDVGPQTAPQYIKELQEKIKEYGVGEIATLSGRYYSMDRDKRWDRVEKAYRAMVY 207
Query: 268 VTEIPYQVNKAAMLEKIAELVREKRIVD 295
Y+ + + + ++ ++
Sbjct: 208 GEGPTYRDPLECIEDSYKHGIYDEFVLP 235
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.320 0.137 0.386
Gapped
Lambda K H
0.267 0.0509 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 7,923,718
Number of extensions: 399228
Number of successful extensions: 1433
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1341
Number of HSP's successfully gapped: 57
Length of query: 910
Length of database: 5,693,230
Length adjustment: 101
Effective length of query: 809
Effective length of database: 3,244,586
Effective search space: 2624870074
Effective search space used: 2624870074
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 61 (27.8 bits)