RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780353|ref|YP_003064766.1| DNA topoisomerase IV subunit A
[Candidatus Liberibacter asiaticus str. psy62]
(753 letters)
>1zvu_A Topoisomerase IV subunit A; beta-pinwheel, ATPase, supercoiling,
decatenation, DNA binding, DNA topology; 3.00A
{Escherichia coli}
Length = 716
Score = 583 bits (1503), Expect = e-167
Identities = 262/724 (36%), Positives = 431/724 (59%), Gaps = 25/724 (3%)
Query: 40 ERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLV 99
+RA+P + DG KPV RRI++AMSE+GL+ A FKKSAR VG+V+GK HPHGD + Y+++V
Sbjct: 2 DRALPFIGDGLKPVQRRIVYAMSELGLNASAKFKKSARTVGDVLGKYHPHGDSACYEAMV 61
Query: 100 RLAQPFVQRYPLISGQGNFGNIDG-DSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTY 158
+AQPF RYPL+ GQGN+G D S AA RYTE+R+++ +EL+L + + D+ +
Sbjct: 62 LMAQPFSYRYPLVDGQGNWGAPDDPKSFAAMRYTESRLSKYSELLLSELGQGTADWVPNF 121
Query: 159 NEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLL 218
+ EP + P++ PN+L NGT+GIAVGMAT IP HN++E+ +AA+ALID P+ ++++LL
Sbjct: 122 DGTLQEPKMLPARLPNILLNGTTGIAVGMATDIPPHNLREVAQAAIALIDQPKTTLDQLL 181
Query: 219 EYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVEEVGRGSWCIVVTEIPYQVQ 278
+ + GPD+PT I+ SR I + Y GRG R+RA W E+ +V++ +P+QV
Sbjct: 182 DIVQGPDYPTEAEIITSRAEIRKIYENGRGSVRMRAVWKKED-----GAVVISALPHQVS 236
Query: 279 KSRLIEKIAELIIAKRIPLLEDIRDESAED--VRIVLFPKNRSLDPDLLMESIFMLSDME 336
+R++E+IA + K++P+++D+RDES + R+V+ P++ +D D +M +F +D+E
Sbjct: 237 GARVLEQIAAQMRNKKLPMVDDLRDESDHENPTRLVIVPRSNRVDMDQVMNHLFATTDLE 296
Query: 337 TRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIA 396
+ +N+N++ + P V L IL EWL RR+ + RR ++R++ + +R+ IL+GLL+A
Sbjct: 297 KSYRINLNMIGLDGRPAVKNLLEILSEWLVFRRDTVRRRLNYRLEKVLKRLHILEGLLVA 356
Query: 397 YLNIDEIIAIIRNEDKPKPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLA 456
+LNIDE+I IIRNED+PKP ++SRF LTE Q +AIL L+LR L KLEE +I+ E L
Sbjct: 357 FLNIDEVIEIIRNEDEPKPALMSRFGLTETQAEAILELKLRHLAKLEEMKIRGEQSELEK 416
Query: 457 EKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLGRRRTTFCEVSRADKATLQQAMIE 516
E++++ +L S ++ N + E++ + + G R + + KA + M+
Sbjct: 417 ERDQLQGILASERKMNNLLKKELQADAQAY------GDDRRSPLQEREEAKAMSEHDMLP 470
Query: 517 KEPITVVISNRGWIRSLKSHSVDLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLP 576
EP+T+V+S GW+RS K H +D L++K GDS K A+ + ++ + + G++Y +
Sbjct: 471 SEPVTIVLSQMGWVRSAKGHDIDAPGLNYKAGDSFKAAVKGKSNQPVVFVDSTGRSYAID 530
Query: 577 AGNLLSGRGHGEAIQLLIDLNHNQDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTR 636
L S RG GE + + L + + KLL+ S G F+ ++++A R
Sbjct: 531 PITLPSARGQGEPLTGKLTLPPGATVDHMLMESDDQKLLMASDAGYGFVCTFNDLVARNR 590
Query: 637 KGKTFLKVSSEEKMKLVVKVTG--DHVAVVGENRKLLIFSIDQIPEMSRGKGVRLQSYKD 694
GK + + + V + D + + + ++L+F + +P++S+GKG ++ +
Sbjct: 591 AGKALITLPENAHVMPPVVIEDASDMLLAITQAGRMLMFPVSDLPQLSKGKGNKIINIPS 650
Query: 695 G-------GISDVICFKICEGLTWIDSAGRSYNRSENDLLGWLGKRGGVGSLVPKGFPRS 747
G++ + LT R +L G+RG G+L +G R
Sbjct: 651 AEAARGEDGLAQLYVLPPQSTLTIH-VGKRKIKLRPEELQKVTGERGRRGTL-MRGLQRI 708
Query: 748 GKFL 751
+
Sbjct: 709 DRVE 712
>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 = 509 bits (1313), Expect = e-145
Identities = 218/523 (41%), Positives = 311/523 (59%), Gaps = 45/523 (8%)
Query: 13 VEENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAF 72
+ + V++ L+ YL YA+S I RA+PD+RDG KPVHRR+++AM+ +G D+ A+
Sbjct: 3 LAREITPVNIEEELKSSYLDYAMSVIVGRALPDVRDGLKPVHRRVLYAMNVLGNDWNKAY 62
Query: 73 KKSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYT 132
KKSAR+VG+VIGK HPHGD +VYD++VR+AQPF RY L+ GQGNFG+IDGDSAAA RYT
Sbjct: 63 KKSARVVGDVIGKYHPHGDSAVYDTIVRMAQPFSLRYMLVDGQGNFGSIDGDSAAAMRYT 122
Query: 133 EARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIP 192
E R+ ++A ++ ++++ VDF D Y+ + P V P+K PNLL NG+SGIAVGMAT+IP
Sbjct: 123 EIRLAKIAHELMADLEKETVDFVDNYDGTEKIPDVMPTKIPNLLVNGSSGIAVGMATNIP 182
Query: 193 SHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRV 252
HN+ E+ LA ID+ +ISIE L+E+I GPDFPT II R I E+YR GRG +
Sbjct: 183 PHNLTEVINGCLAYIDDEDISIEGLMEHIPGPDFPTAAIIN-GRRGIEEAYRTGRGKVYI 241
Query: 253 RARWCVEEVGR-GSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRI 311
RAR VE + G I+V EIPYQV K+RLIEKIAEL+ KR+ + +RDES +D
Sbjct: 242 RARAEVEVDAKTGRETIIVHEIPYQVNKARLIEKIAELVKEKRVEGISALRDESDKDGMR 301
Query: 312 VLFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREV 371
++ R ++++ +++ + ++ F +NM L G+ P++M L I+ ++ HRREV
Sbjct: 302 IVIEVKRDAVGEVVLNNLYSQTQLQVSFGINMVALHHGQ-PKIMNLKDIIAAFVRHRREV 360
Query: 372 LFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDKPKPVMV------------- 418
+ RR+ F ++ R IL+ L +A NID II +IR+ P
Sbjct: 361 VTRRTIFELRKARDRAHILEALAVALANIDPIIELIRHAPTPAEAKTALVANPWQLGNVA 420
Query: 419 ------------------------SRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNL 454
+ LTE Q AIL+LRL+ L LE ++ E L
Sbjct: 421 AMLERAGDDAARPEWLEPEFGVRDGLYYLTEQQAQAILDLRLQKLTGLEHEKLLDEYKEL 480
Query: 455 LAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLGRRRT 497
L + ++ +L S + I E+ V+E F +RRT
Sbjct: 481 LDQIAELLRILGSADRLMEVIREELELVREQFGD-----KRRT 518
>2inr_A DNA topoisomerase 4 subunit A; topoisomerase II fold; HET: DNA;
2.80A {Staphylococcus aureus}
Length = 514
Score = 485 bits (1249), Expect = e-137
Identities = 179/488 (36%), Positives = 299/488 (61%), Gaps = 10/488 (2%)
Query: 13 VEENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAF 72
V E ++ +SL L +R+ Y+ I+ERA+PD+RDG KPV RRI++AM G F
Sbjct: 24 VSEIIQDLSLEDVLGDRFGRYSKYIIQERALPDVRDGLKPVQRRILYAMYSSGNTHDKNF 83
Query: 73 KKSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYT 132
+KSA+ VG+VIG+ HPHGD SVY+++VRL+Q + R+ LI GN G+ID D AA RYT
Sbjct: 84 RKSAKTVGDVIGQYHPHGDSSVYEAMVRLSQDWKLRHVLIEMHGNNGSIDNDPPAAMRYT 143
Query: 133 EARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIP 192
EA+++ +AE +L+ ++++ V F Y++ EP+V PS+FPNLL NG++GI+ G AT IP
Sbjct: 144 EAKLSLLAEELLRDINKETVSFIPNYDDTTLEPMVLPSRFPNLLVNGSTGISAGYATDIP 203
Query: 193 SHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRV 252
HN+ E+ +A L IDNP+I++ +L++YI GPDFPTGGII + + I ++Y G+G V
Sbjct: 204 PHNLAEVIQATLKYIDNPDITVNQLMKYIKGPDFPTGGII-QGIDGIKKAYESGKGRIIV 262
Query: 253 RARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIV 312
R++ E + G +++TEIPY+V KS L+++I EL K++ + ++RDE+ +
Sbjct: 263 RSKVEEETLRNGRKQLIITEIPYEVNKSSLVKRIDELRADKKVDGIVEVRDETDRTGLRI 322
Query: 313 LFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVL 372
+ ++ + + ++ SD++ + NM +S GR P++M + I+ +L H+ EV+
Sbjct: 323 AIELKKDVNSESIKNYLYKNSDLQISYNFNMVAISDGR-PKLMGIRQIIDSYLNHQIEVV 381
Query: 373 FRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDKP---KPVMVSRFSLTENQVD 429
R+ F + ++R+ I++GL+ A +D++I +IR+ K ++ + TE Q +
Sbjct: 382 ANRTKFELDNAEKRMHIVEGLIKALSILDKVIELIRSSKNKRDAKENLIEVYEFTEEQAE 441
Query: 430 AILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKS 489
AI+ L+L L + ++ E L A +++ +L++ N I E+ E+K+ F
Sbjct: 442 AIVMLQLYRLTNTDIVALEGEHKELEALIKQLRHILDNHDALLNVIKEELNEIKKKFKS- 500
Query: 490 TDLGRRRT 497
R +
Sbjct: 501 ----ERLS 504
>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 = 480 bits (1238), Expect = e-136
Identities = 213/489 (43%), Positives = 323/489 (66%), Gaps = 13/489 (2%)
Query: 14 EENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFK 73
+ + ++ + E +L YA+S I RA+PD+RDG KPVHRRI++ ++E G+ ++K
Sbjct: 207 QSRINERNITSEMRESFLDYAMSVIVARALPDVRDGLKPVHRRILYGLNEQGMTPDKSYK 266
Query: 74 KSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTE 133
KSARIVG+V+GK HPHGD S+Y+++VR+AQ F RYPL+ GQGNFG++DGD AAA R+TE
Sbjct: 267 KSARIVGDVMGKYHPHGDSSIYEAMVRMAQDFSYRYPLVDGQGNFGSMDGDGAAAMRFTE 326
Query: 134 ARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPS 193
ARMT++ +L+ +++D +DF D Y+ + EP V P++FPNLLANG SGIAVGMAT+IP
Sbjct: 327 ARMTKITLELLRDINKDTIDFIDNYDGNEREPSVLPARFPNLLANGASGIAVGMATNIPP 386
Query: 194 HNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVR 253
HN+ E+ L+L NP+ISI +L+E I GPDFPT G+I+ + I +Y GRG ++R
Sbjct: 387 HNLTELINGVLSLSKNPDISIAELMEDIEGPDFPTAGLIL-GKSGIRRAYETGRGSIQMR 445
Query: 254 ARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAED--VRI 311
+R +EE G G IVVTEIP+QV K+R+IEKIAEL+ K+I + D+RDE++ VR+
Sbjct: 446 SRAVIEERGGGRQRIVVTEIPFQVNKARMIEKIAELVRDKKIDGITDLRDETSLRTGVRV 505
Query: 312 VLFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREV 371
V+ + + + +++ +++ + ++T F +NM L GR P+++ L L +L H++ V
Sbjct: 506 VIDVR-KDANASVILNNLYKQTPLQTSFGVNMIALVNGR-PKLINLKEALVHYLEHQKTV 563
Query: 372 LFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDKPKPVM---VSRFSLTENQV 428
+ RR+ + ++ R IL+GL IA +IDEII+ IR D K M RF L+E Q
Sbjct: 564 VRRRTQYNLRKAKDRAHILEGLRIALDHIDEIISTIRESDTDKVAMESLQQRFKLSEKQA 623
Query: 429 DAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSK 488
AIL++RLR L LE +I++E + LL +++++L + + E+ E+++ F
Sbjct: 624 QAILDMRLRRLTGLERDKIEAEYNELLNYISELETILADEEVLLQLVRDELTEIRDRFGD 683
Query: 489 STDLGRRRT 497
RRT
Sbjct: 684 D-----RRT 687
>2xkj_E Topoisomerase IV; type IIA topoisomerase; 2.20A {Acinetobacter
baumannii} PDB: 2xkk_A*
Length = 767
Score = 468 bits (1205), Expect = e-132
Identities = 211/519 (40%), Positives = 325/519 (62%), Gaps = 14/519 (2%)
Query: 3 VDNISNSNTLVEENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMS 62
V++ +L + S+ E+ YL YA+ I +RA+P + DG KPV RRI++AMS
Sbjct: 259 VEDKLTMTSLAHHATENRSVAEFTEQAYLNYAMYVIMDRALPHISDGLKPVQRRIVYAMS 318
Query: 63 EMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNID 122
E+GL KKSAR VG+V+GK HPHGD + Y+++V +AQPF RYPLI GQGN+G+ D
Sbjct: 319 ELGLKSSGKPKKSARTVGDVLGKYHPHGDSACYEAMVLMAQPFSYRYPLIEGQGNWGSPD 378
Query: 123 G-DSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTS 181
S AA RYTEA+++ +EL+L + + +++D ++ EP+ P++ PN+L NGT+
Sbjct: 379 DPKSFAAMRYTEAKLSAYSELLLSELGQGTSEWQDNFDGSLKEPITLPARVPNILLNGTT 438
Query: 182 GIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVE 241
GIAVGMAT IP HN++E+ + +ALI NP+ S EKL EYI PD PT I+ E +++
Sbjct: 439 GIAVGMATDIPPHNLREVVKGTIALIRNPQTSDEKLAEYIPAPDLPTKAEIITPPEELLK 498
Query: 242 SYRLGRGGFRVRARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDI 301
GRG +R+RA + +E+ IV+TE+PYQV S++I +IA+ + AK++PL+ D+
Sbjct: 499 IQTTGRGSYRMRAVYTIEK-----NEIVITELPYQVSGSKVITQIADQMQAKKLPLVVDV 553
Query: 302 RDESAE--DVRIVLFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDG 359
RDES R+V+ ++ +D + +M +F +D+E+ + +N+N++ PQV +
Sbjct: 554 RDESDHENPTRLVIVLRSNRIDAEAVMSHLFATTDLESSYRVNLNMIGEDGRPQVKSIRR 613
Query: 360 ILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDKPKPVMVS 419
IL EW+ R++ + RR + + I++R+ IL GLLIAYL+ID +I IIR ED+PKPV++
Sbjct: 614 ILLEWIEIRKKTVTRRLQYHLNRIEKRLHILAGLLIAYLDIDTVIRIIREEDQPKPVLME 673
Query: 420 RFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEI 479
F++ E Q +AIL L+LR L KLEE +I+ E D L A+ I L + + N I E+
Sbjct: 674 HFNIDEIQAEAILELKLRHLAKLEEMEIRHEQDELSAKAAIIREQLENPESLKNLIISEL 733
Query: 480 REVKEIFSKSTDLGRRRTTFCEVSRADKATLQQAMIEKE 518
+E + F RR+ + A + +Q ++ E
Sbjct: 734 KEDAKKFGDE-----RRSPIVARAEAVQIK-EQDLMPAE 766
>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 = 434 bits (1118), Expect = e-122
Identities = 182/471 (38%), Positives = 285/471 (60%), Gaps = 17/471 (3%)
Query: 36 STIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVY 95
S I RA+P++RDG KPVHRR+++AM + G + KSAR V E +G HPHGD S+Y
Sbjct: 4 SVIVGRALPEVRDGLKPVHRRVLYAMFDSGFRPDRSHAKSARSVAETMGNYHPHGDASIY 63
Query: 96 DSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQGVDEDAVDFR 155
DSLVR+AQP+ RYPL+ GQGNFG+ D AA RYTEAR+T +A +L+ +DE+ VDF
Sbjct: 64 DSLVRMAQPWSLRYPLVDGQGNFGSPGNDPPAAMRYTEARLTPLAMEMLREIDEETVDFI 123
Query: 156 DTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIE 215
Y+ EP V PS+FPNLLANG+ GIAVGMAT+IP HN++E+ +A ++N + E
Sbjct: 124 PNYDGRVQEPTVLPSRFPNLLANGSGGIAVGMATNIPPHNLRELADAVFWALENHDADEE 183
Query: 216 K----LLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVEEVGRGSWCIVVT 271
+ ++ + GPDFPT G+IV + ++Y+ GRG R+R VEE RG +V+T
Sbjct: 184 ETLAAVMGRVKGPDFPTAGLIV-GSQGTADAYKTGRGSIRMRGVVEVEEDSRGRTSLVIT 242
Query: 272 EIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESA--EDVRIVLFPKNRSLDPDLLMESI 329
E+PYQV I IAE + ++ + +I D+S+ +RIV+ K R +++ ++
Sbjct: 243 ELPYQVNHDNFITSIAEQVRDGKLAGISNIEDQSSDRVGLRIVIEIK-RDAVAKVVINNL 301
Query: 330 FMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEI 389
+ + ++T F NM + G P+ + LD +++ ++ H+ +V+ RR+++R++ + R I
Sbjct: 302 YKHTQLQTSFGANMLAIVDGV-PRTLRLDQLIRYYVDHQLDVIVRRTTYRLRKANERAHI 360
Query: 390 LKGLLIAYLNIDEIIAIIR---NEDKPKPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQ 446
L+GL+ A +DE+IA+IR D + ++ + E Q AIL+++LR L LE +
Sbjct: 361 LRGLVKALDALDEVIALIRASETVDIARAGLIELLDIDEIQAQAILDMQLRRLAALERQR 420
Query: 447 IKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLGRRRT 497
I +L + AE ++ +L ++Q + E+ E+ + RRT
Sbjct: 421 IIDDLAKIEAEIADLEDILAKPERQRGIVRDELAEIVDRHGDD-----RRT 466
>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 = 429 bits (1104), Expect = e-120
Identities = 170/493 (34%), Positives = 301/493 (61%), Gaps = 10/493 (2%)
Query: 16 NVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKS 75
N++ +SL + ER+ Y+ I++RA+PD+RDG KPV RRI+++M++ F +++KS
Sbjct: 3 NIQNMSLEDIMGERFGRYSKYIIQDRALPDIRDGLKPVQRRILYSMNKDSNTFDKSYRKS 62
Query: 76 ARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEAR 135
A+ VG ++G HPHGD S+YD++VR++Q + R L+ GN G++DGD AA RYTEAR
Sbjct: 63 AKSVGNIMGNFHPHGDSSIYDAMVRMSQNWKNREILVEMHGNNGSMDGDPPAAMRYTEAR 122
Query: 136 MTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHN 195
++++A +LQ +++ V F +++ + EP V P+ FPNLL NG++GI+ G AT IP HN
Sbjct: 123 LSEIAGYLLQDIEKKTVPFAWNFDDTEKEPTVLPAAFPNLLVNGSTGISAGYATDIPPHN 182
Query: 196 VQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRAR 255
+ E+ +AA+ +ID+P I+KL+E++ GPDFPTG II R+ I ++Y G+G VR++
Sbjct: 183 LAEVIDAAVYMIDHPTAKIDKLMEFLPGPDFPTGAIIQ-GRDEIKKAYETGKGRVVVRSK 241
Query: 256 WCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFP 315
+E++ G IV+TEIPY++ K+ L++KI ++ + ++ + ++RDES D +
Sbjct: 242 TEIEKLKGGKEQIVITEIPYEINKANLVKKIDDVRVNNKVAGIAEVRDESDRDGLRIAIE 301
Query: 316 KNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRR 375
+ + +L++ +F +D++ + NM + QV + + ++AHRREV+ R
Sbjct: 302 LKKDANTELVLNYLFKYTDLQINYNFNMVAIDNFTPRQVGIVPIL-SSYIAHRREVILAR 360
Query: 376 SSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRN---EDKPKPVMVSRFSLTENQVDAIL 432
S F + ++R+ I++GL+ +DE+IA+IR + K + + TE Q +AI+
Sbjct: 361 SRFDKEKAEKRLHIVEGLIRVISILDEVIALIRASENKADAKENLKVSYDFTEEQAEAIV 420
Query: 433 NLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDL 492
L+L L + ++ E L + + +++ + +N + E+REVK+ F+
Sbjct: 421 TLQLYRLTNTDVVVLQEEEAELREKIAMLAAIIGDERTMYNLMKKELREVKKKFATP--- 477
Query: 493 GRRRTTFCEVSRA 505
R ++ + ++A
Sbjct: 478 --RLSSLEDTAKA 488
>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 = 290 bits (744), Expect = 5e-79
Identities = 96/541 (17%), Positives = 198/541 (36%), Gaps = 90/541 (16%)
Query: 8 NSNTLVEENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLD 67
T+++ +K + + + + + ++L+ R+IP++ DGFKP R++++ + L
Sbjct: 238 EPGTVLDPTLKEIPISDFINKELILFSLADN-IRSIPNVLDGFKPGQRKVLYGCFKKNLK 296
Query: 68 FGAAFKKSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFV--QRYPLISGQGNFGN--IDG 123
+ A V E + HG+QS+ +++ LAQ FV L+ G FG G
Sbjct: 297 SELKVAQLAPYVSECTA--YHHGEQSLAQTIIGLAQNFVGSNNIYLLLPNGAFGTRATGG 354
Query: 124 DSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGI 183
AAA RY + ++ I D+ + + EP + P +L NG GI
Sbjct: 355 KDAAAARYIYTELNKLTRKIFHPADDPLYKYIQEDEKT-VEPEWYLPILPMILVNGAEGI 413
Query: 184 AVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESY 243
G +T IP N EI + L+++ E +E++ + G I
Sbjct: 414 GTGWSTYIPPFNPLEIIKNIRHLMNDEE--LEQMHPWFRGWTGTIEEI------------ 459
Query: 244 RLGRGGFRVRARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKR--IPLLEDI 301
R R +E++G + +TE+P + S + E + + P ++D+
Sbjct: 460 ----EPLRYRMYGRIEQIGD--NVLEITELPARTWTSTIKEYLLLGLSGNDKIKPWIKDM 513
Query: 302 RDESAEDVRIVLFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVL-SMGRVPQVMPLDGI 360
++ ++++ ++ + + + +NM G++ + ++ I
Sbjct: 514 EEQHDDNIKFIITLSPEEMAKTRKIGFYERFKLISPISLMNMVAFDPHGKIKKYNSVNEI 573
Query: 361 LKEWLAHRREVLFRRSSFRMQAIDRRVEILKG------------LLIAYLNIDEIIAIIR 408
L E+ R E +R + + VE L + + II +
Sbjct: 574 LSEFYYVRLEYYQKRKDHMSERLQWEVEKYSFQVKFIKMIIEKELTVTNKPRNAIIQELE 633
Query: 409 NEDKPK----------------------------------------PVMVSRFSLTENQV 428
N P+ +++
Sbjct: 634 NLGFPRFNKEGKPYYGSPNDEIAEQINDVKGATSDEEDEESSHEDTENVINGPEELYGTY 693
Query: 429 DAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLN-SGKQQWNQIACEIREVKEIFS 487
+ +L +R+ SL K ++ + E +++LL S K WN +++ + +
Sbjct: 694 EYLLGMRIWSLTKERYQKLLKQKQEKETE---LENLLKLSAKDIWNT---DLKAFEVGYQ 747
Query: 488 K 488
+
Sbjct: 748 E 748
>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 = 230 bits (586), Expect = 1e-60
Identities = 93/539 (17%), Positives = 193/539 (35%), Gaps = 90/539 (16%)
Query: 10 NTLVEENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFG 69
T+++ +K + + + + + ++L+ R+IP++ DGFKP R++++ + L
Sbjct: 252 GTVLDPTLKEIPISDFINKELILFSLADN-IRSIPNVLDGFKPGQRKVLYGCFKKNLKSE 310
Query: 70 AAFKKSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQR----YPLISGQGNFGNIDGDS 125
+ A V E + HG+QS+ +++ LAQ FV L +G G
Sbjct: 311 LKVAQLAPYVSECTA--YHHGEQSLAQTIIGLAQNFVGSNNIYLLLPNGAFGTRATGGKD 368
Query: 126 AAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAV 185
AAA RY + ++ I D+ + + EP + P +L NG GI
Sbjct: 369 AAAARYIYTELNKLTRKIFHPADDPLYKYIQEDEKT-VEPEWYLPILPMILVNGAEGIGT 427
Query: 186 GMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRL 245
G +T IP N EI + L+++ E+ + P F
Sbjct: 428 GWSTYIPPFNPLEIIKNIRHLMNDEELE-------QMHPWFRGWT-----------GTIE 469
Query: 246 GRGGFRVRARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKR--IPLLEDIRD 303
R R +E++G + +TE+P + S + E + + P ++D+ +
Sbjct: 470 EIEPLRYRMYGRIEQIGD--NVLEITELPARTWTSTIKEYLLLGLSGNDKIKPWIKDMEE 527
Query: 304 ESAEDVRIVLFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVL-SMGRVPQVMPLDGILK 362
+ ++++ ++ + + + +NM G++ + ++ IL
Sbjct: 528 QHDDNIKFIITLSPEEMAKTRKIGFYERFKLISPISLMNMVAFDPHGKIKKYNSVNEILS 587
Query: 363 EWLAHRREVLFRRSSFRMQAIDRRVEILKG------------LLIAYLNIDEIIAIIRNE 410
E+ R E +R + + VE L + + II + N
Sbjct: 588 EFYYVRLEYYQKRKDHMSERLQWEVEKYSFQVKFIKMIIEKELTVTNKPRNAIIQELENL 647
Query: 411 DKPK----------------------------------------PVMVSRFSLTENQVDA 430
P+ +++ +
Sbjct: 648 GFPRFNKEGKPYYGSPNDEIAEQINDVKGATSDEEDEESSHEDTENVINGPEELYGTYEY 707
Query: 431 ILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLN-SGKQQWNQIACEIREVKEIFSK 488
+L +R+ SL K ++ + E +++LL S K WN +++ + + +
Sbjct: 708 LLGMRIWSLTKERYQKLLKQKQEKETE---LENLLKLSAKDIWNT---DLKAFEVGYQE 760
>1zvt_A Topoisomerase IV subunit A; beta-pinwheel, ATPase, supercoiling,
decatenation, DNA binding, DNA topology; 1.70A
{Escherichia coli}
Length = 256
Score = 162 bits (412), Expect = 2e-40
Identities = 59/242 (24%), Positives = 111/242 (45%), Gaps = 11/242 (4%)
Query: 518 EPITVVISNRGWIRSLKSHSVDLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPA 577
EP+T+V+S GW+RS K H +D L++K GDS K A+ + ++ + + G++Y +
Sbjct: 2 EPVTIVLSQMGWVRSAKGHDIDAPGLNYKAGDSFKAAVKGKSNQPVVFVDSTGRSYAIDP 61
Query: 578 GNLLSGRGHGEAIQLLIDLNHNQDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTRK 637
L S RG GE + + L + + KLL+ S G F+ ++++A R
Sbjct: 62 ITLPSARGQGEPLTGKLTLPPGATVDHMLMESDDQKLLMASDAGYGFVCTFNDLVARNRA 121
Query: 638 GKTFLKVSSEEKMKLVVKVTG--DHVAVVGENRKLLIFSIDQIPEMSRGKGVRLQSYKDG 695
GK + + + V + D + + + ++L+F + +P++S+GKG ++ +
Sbjct: 122 GKALITLPENAHVMPPVVIEDASDMLLAITQAGRMLMFPVSDLPQLSKGKGNKIINIPSA 181
Query: 696 -------GISDVICFKICEGLTWIDSAGRSYNRSENDLLGWLGKRGGVGSLVPKGFPRSG 748
G++ + LT R +L G+RG G+L +G R
Sbjct: 182 EAARGEDGLAQLYVLPPQSTLTIH-VGKRKIKLRPEELQKVTGERGRRGTL-MRGLQRID 239
Query: 749 KF 750
+
Sbjct: 240 RV 241
>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 = 99.0 bits (246), Expect = 4e-21
Identities = 36/142 (25%), Positives = 54/142 (38%), Gaps = 37/142 (26%)
Query: 363 EWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDKPKPVMVSR-- 420
L R + RR+ F ++ R IL+ L +A NID II +IR+ P +
Sbjct: 12 SGLVPRGSHMTRRTIFELRKARDRAHILEALAVALANIDPIIELIRHAPTPAEAKTALVA 71
Query: 421 -----------------------------------FSLTENQVDAILNLRLRSLRKLEEY 445
+ LTE Q AIL+LRL+ L LE
Sbjct: 72 NPWQLGNVAAMLERAGDDAARPEWLEPEFGVRDGLYYLTEQQAQAILDLRLQKLTGLEHE 131
Query: 446 QIKSELDNLLAEKEKIDSLLNS 467
++ E LL + ++ +L S
Sbjct: 132 KLLDEYKELLDQIAELLRILGS 153
>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 = 84.1 bits (207), Expect = 9e-17
Identities = 45/227 (19%), Positives = 77/227 (33%), Gaps = 17/227 (7%)
Query: 514 MIEKEPITVVISNRGWI--------RSLKSHSVDLSALHFKEGDSLKIALHAHTTDRILL 565
+I E + V +S+ G+ R+ + SA KE D + +T D +L
Sbjct: 3 LIAPEDVVVTLSHAGYAKRQPVSAYRAQRRGGRGRSAASTKEEDFIDQLWLVNTHDTLLT 62
Query: 566 LSTDGKAYTLPAGNL--LSGRGHGEAIQLLIDLNHNQDIVTAFV---YDSTCKLLVVSSK 620
++ GK + LP L G I I L + + Y + + +
Sbjct: 63 FTSSGKVFWLPVHQLPEAGSNARGRPIINWIPLESGERVQAVLPVREYADNRYVFMATRN 122
Query: 621 GNAFIVEESEIIANTRKGKTFLKVSSEEKMKLVVKVTGD-HVAVVGENRKLLIFSIDQIP 679
G SE +GK + + + + V GD V + N K + F +
Sbjct: 123 GTVKKTPLSEFAFRLARGKIAINLDEGDALVGVALTDGDRDVLLFASNGKTVRFGESTVR 182
Query: 680 EMSR-GKGVRLQSYKDGGISDVICFKICEGLTWIDSAGRSYNRSEND 725
M R GVR G +V+ + E ++ + E
Sbjct: 183 SMGRTATGVRGIRLAKG--EEVVSLIVSERAGGVEDEVEDESAEEVV 227
Score = 35.5 bits (81), Expect = 0.044
Identities = 31/196 (15%), Positives = 60/196 (30%), Gaps = 43/196 (21%)
Query: 542 ALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLS-GRGHGEAIQLLIDLNHNQ 600
A++ EGD+L +LL +++GK + S GR I L +
Sbjct: 143 AINLDEGDALVGVALTDGDRDVLLFASNGKTVRFGESTVRSMGRTATGVR--GIRLAKGE 200
Query: 601 DIVTAFV-----------------------------------YDSTCKLLVVSSKGNAFI 625
++V+ V +L + G
Sbjct: 201 EVVSLIVSERAGGVEDEVEDESAEEVVETTDGAEPAVIDVADNGDVAYILTATENGYGKR 260
Query: 626 VEESEIIANTRKGKTFLKVSSEEKMKLVVKVT----GDHVAVVGENRKLLIFSIDQIPEM 681
+E R + + + + E+ +V+ D V ++ + L+ +I +
Sbjct: 261 TPLAEYPRKGRGTQGVIGIQTTERNGKLVRAVLLGSTDEVMLISDGGTLVRTRGSEISRV 320
Query: 682 SR-GKGVRLQSYKDGG 696
R +GV L G
Sbjct: 321 GRNTQGVTLIRLSKGE 336
Score = 33.6 bits (76), Expect = 0.16
Identities = 25/100 (25%), Positives = 43/100 (43%), Gaps = 4/100 (4%)
Query: 560 TDRILLLSTDGKAYTLPAGNL-LSGRGHGEAIQLLIDLNHNQDIVTAFVYDSTCKLLVVS 618
IL + +G P GRG I + N +V A + ST +++++S
Sbjct: 246 VAYILTATENGYGKRTPLAEYPRKGRGTQGVIGIQTT-ERNGKLVRAVLLGSTDEVMLIS 304
Query: 619 SKGNAFIVEESEIIANTR--KGKTFLKVSSEEKMKLVVKV 656
G SEI R +G T +++S EK++ V ++
Sbjct: 305 DGGTLVRTRGSEISRVGRNTQGVTLIRLSKGEKLQAVERL 344
>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 = 67.1 bits (163), Expect = 1e-11
Identities = 44/211 (20%), Positives = 80/211 (37%), Gaps = 17/211 (8%)
Query: 517 KEPITVVISNRGWI--------RSLKSHSVDLSALHFKEGDSLKIALHAHTTDRILLLST 568
+E + V +S++G++ + + SA KE D + L A+T D IL S+
Sbjct: 2 QEDVVVTLSHQGYVKYQPLSEYEAQRRGGKGKSAARIKEEDFIDRLLVANTHDHILCFSS 61
Query: 569 DGKAYTLPAGNLLSG--RGHGEAIQLLIDLNHNQDIVTAFVYDSTC---KLLVVSSKGNA 623
G+ Y++ L G I L+ L ++ I K+ + ++ G
Sbjct: 62 RGRVYSMKVYQLPEATRGARGRPIVNLLPLEQDERITAILPVTEFEEGVKVFMATANGTV 121
Query: 624 FIVEESEIIANTRKGKTFLKVSSEEKMKLVVKVTG-DHVAVVGENRKLLIFSIDQIPEMS 682
+E GK +K+ +++ V +G D V + K++ F + M
Sbjct: 122 KKTVLTEFNRLRTAGKVAIKLVDGDELIGVDLTSGEDEVMLFSAEGKVVRFKESSVRAMG 181
Query: 683 -RGKGVRLQSYKDGGISDVICFKICEGLTWI 712
GVR +G V+ + G I
Sbjct: 182 CNTTGVRGIRLGEG--DKVVSLIVPRGDGAI 210
Score = 49.7 bits (118), Expect = 2e-06
Identities = 29/162 (17%), Positives = 59/162 (36%), Gaps = 6/162 (3%)
Query: 540 LSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLSGRGHGEAIQLLIDLNHN 599
A+ +GD L D ++L S +GK ++ + + ++ I L
Sbjct: 137 KVAIKLVDGDELIGVDLTSGEDEVMLFSAEGKVVRFKESSVRAMGCNTTGVRG-IRLGEG 195
Query: 600 QDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTRKGKTFLKVSSEEKMKLVVKV--- 656
+V+ V +L + G +E +R K + + E+ LVV
Sbjct: 196 DKVVSLIVPRGDGAILTATQNGYGKRTAVAEYPTKSRATKGVISIKVTERNGLVVGAVQV 255
Query: 657 -TGDHVAVVGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGG 696
D + ++ + L+ + +I + R +GV L +
Sbjct: 256 DDCDQIMMITDAGTLVRTRVSEISIVGRNTQGVILIRTAEDE 297
Score = 30.5 bits (68), Expect = 1.5
Identities = 19/118 (16%), Positives = 44/118 (37%), Gaps = 4/118 (3%)
Query: 542 ALHFKEGDSLKIALHAHTTDRILLLSTDGKA-YTLPAGNLLSGRGHGEAIQLLIDLNHNQ 600
+ EGD + ++L D +L +T + + + + N
Sbjct: 189 GIRLGEGDKV-VSLIVPRGDGAILTATQNGYGKRTAVAEYPTKSRATKGVISIKVTERNG 247
Query: 601 DIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTR--KGKTFLKVSSEEKMKLVVKV 656
+V A D ++++++ G SEI R +G ++ + +E + + +V
Sbjct: 248 LVVGAVQVDDCDQIMMITDAGTLVRTRVSEISIVGRNTQGVILIRTAEDENVVGLQRV 305
>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 = 64.6 bits (156), Expect = 7e-11
Identities = 31/180 (17%), Positives = 58/180 (32%), Gaps = 8/180 (4%)
Query: 514 MIEKEPITVVISNRGWIRSLKSHSV---DLSALHFKEGDSLKIALHAHTTDRILLLSTDG 570
M+ E + V ++ G+++ S + K+ D L L +T D +LL + G
Sbjct: 1 MVASEDVIVTVTKDGYVKRTSLRSYAASNGQDFAMKDTDRLLAMLEMNTKDVLLLFTNKG 60
Query: 571 KAYTLPAGNLLSGRGH--GEAIQLLIDLNHNQDIVTAFVYDST---CKLLVVSSKGNAFI 625
P L R G+ I +I ++ +++I+ A + L V+ G
Sbjct: 61 NYLYCPVHELPDIRWKDLGQHIANIIPIDRDEEIIKAIPINDFELNGYFLFVTRNGMVKK 120
Query: 626 VEESEIIANTRKGKTFLKVSSEEKMKLVVKVTGDHVAVVGENRKLLIFSIDQIPEMSRGK 685
E A + + V +T + D+ G
Sbjct: 121 TELKHYKAQRYSKPLTGINLKNDDQVVDVHLTDGMNELFLVTHNGYALWFDESEVSIVGV 180
Score = 33.8 bits (76), Expect = 0.16
Identities = 18/184 (9%), Positives = 45/184 (24%), Gaps = 8/184 (4%)
Query: 514 MIEKEPITVVISNRGWIRSLKSHSVDLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAY 573
K S +LK+ + + L + H ++
Sbjct: 121 TELKHYKAQRYSKPLTGINLKNDDQVVDVHLTDGMNELFLVTHNGYALWFDE--SEVSIV 178
Query: 574 TLPAGNLLSGRGHGEAIQLLIDLNHNQDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIA 633
+ A + + L ++D + ++ + ++
Sbjct: 179 GVRAAGVKGMNLKEGDYIVSGQLITSKDESIVVATQRGAVKKMKLTEFEKATRAKRGVVI 238
Query: 634 NTRKGKTFLKVSSEEKMKLVVKVTGDHVAVVGENRKLLIFSIDQIPEMSR-GKGVRLQSY 692
++S VV D + + E + + I R G +
Sbjct: 239 LRELKANPHRISG-----FVVAQDSDTIYLQTEKSFIETIKVGDIRFSDRYSNGSFVLDE 293
Query: 693 KDGG 696
++ G
Sbjct: 294 EENG 297
>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 = 61.5 bits (149), Expect = 7e-10
Identities = 69/470 (14%), Positives = 134/470 (28%), Gaps = 199/470 (42%)
Query: 29 RYLAYALSTIKERAIPDLRDGFKPV----HRRI-----IHAM-SEMGLDFGAAFKKSARI 78
++L Y S ++ + IHA+ +++ + K+ +
Sbjct: 63 KFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKEL 122
Query: 79 VG------EVIGKLHPHGDQSVYDSLVRLAQ-PFVQRYPLISGQGNFGNIDGDSAAAYRY 131
+ + + S +L R Q + GQ GN D Y +
Sbjct: 123 IKNYITARIMAKRPFDKKSNS---ALFRAVGEGNAQLVAIFGGQ---GNTDD-----Y-F 170
Query: 132 TEARMTQ------VAELI------LQGVDEDAVDFRDTY-----------NEE---DSE- 164
E R V +LI L + +D + N D +
Sbjct: 171 EELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDY 230
Query: 165 ----PVVFP---------------------SKFPNLLANGTSG------IAVGMA----- 188
P+ P + + L G +G AV +A
Sbjct: 231 LLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLK-GATGHSQGLVTAVAIAETDSW 289
Query: 189 ---------------------------TSIPSHNVQEICEAA-------LALIDNPEISI 214
TS+P +++ E L++ + ++
Sbjct: 290 ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISN---LTQ 346
Query: 215 EKLLEYIIGPD-----FPTG---GI-IVESRESIV-----ES-YRLGRGGFRVRARWCVE 259
E++ +Y+ + P G I +V +++V +S Y L +R
Sbjct: 347 EQVQDYV---NKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNL---TLRKAKAPS 400
Query: 260 EVGRGSWCIVVTEIPYQVQK---------------SRLIEKIAELIIAKRIPLLEDIRDE 304
+ + + IP+ +K S L+ ++LI +D+
Sbjct: 401 GLDQ-------SRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLI-------NKDLVKN 446
Query: 305 ----SAEDVRIVLFP-------KN-RSLDPDLLMESIFMLSDMETRFPLN 342
+A+D++I P + R L + E I D R P+
Sbjct: 447 NVSFNAKDIQI---PVYDTFDGSDLRVLSGSIS-ERIV---DCIIRLPVK 489
Score = 49.2 bits (117), Expect = 3e-06
Identities = 50/300 (16%), Positives = 88/300 (29%), Gaps = 126/300 (42%)
Query: 14 EENV-KAVSLRFALEER-YLAYALSTIKERAIPD-LRDGF-KPVHRRIIHAMSEM----G 65
+V KA+++ F + R Y AY +++ + D L + P S M
Sbjct: 293 FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVP---------SPMLSISN 343
Query: 66 LDFGAAFKKSARIVGEVIGKLHPH--GDQSVYDSLV--------------------RLA- 102
L + V + + K + H + V SLV L
Sbjct: 344 L------TQEQ--VQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRK 395
Query: 103 --------Q---PFVQRYPLISGQGNFGNIDGDSAAAYR--YTEARMTQVAELILQGVDE 149
Q PF +R S + F + A+ + ++LI + + +
Sbjct: 396 AKAPSGLDQSRIPFSERKLKFSNR--FLPV----ASPFHSHLLVP----ASDLINKDLVK 445
Query: 150 DAVDFR---------DTYNEED----SEPVVFPSKFPNLLANGTSGIAVGMATSIPSHNV 196
+ V F DT++ D S + + V +P
Sbjct: 446 NNVSFNAKDIQIPVYDTFDGSDLRVLSGSIS-----ERI---------VDCIIRLPVK-- 489
Query: 197 QEICEAALALIDNPEISIEKLLEYIIGPDFPTGGI----IVESRESIVESYRLGRGGFRV 252
E + + +I+ DF GG ++ R + G G RV
Sbjct: 490 ---WETTT----QFKAT------HIL--DFGPGGASGLGVLTHR--NKD----GT-GVRV 527
Score = 43.4 bits (102), Expect = 2e-04
Identities = 70/466 (15%), Positives = 140/466 (30%), Gaps = 189/466 (40%)
Query: 303 DESAED------VRIVL-F---------PKNRSLDPDLLMESIFMLSDMETRFPLNMNVL 346
+ A D +V F P +L L++ E + ++
Sbjct: 46 EGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNL---CLTEFENCYLEGNDIH 102
Query: 347 SMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEII-- 404
++ L L +E++ ++ + + +R D+
Sbjct: 103 AL-----AAKLLQENDTTLVKTKELI--KNYITARIMAKR------------PFDKKSNS 143
Query: 405 AIIR--NEDKPKPVMVSRF---SLTENQVDAILNLRLRSLRKLEEYQI-KSELDNLLAEK 458
A+ R E + V + F T++ + LR L YQ + +L+
Sbjct: 144 ALFRAVGEGNAQLVAI--FGGQGNTDDYFE-----ELRDL-----YQTYHVLVGDLIKF- 190
Query: 459 EKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLGRRRTTFCEVSRADKATLQQAMIEKE 518
L+ ++ + +++F++ ++ L+
Sbjct: 191 --SAETLS-------ELIRTTLDAEKVFTQGLNI--------------LEWLENP--SNT 225
Query: 519 P-----ITVVISNRGWIRSLKSHSVDLSALHFKEGDSLKIALHAH--TTDRILLLSTDGK 571
P +++ IS L + I L AH T ++L +
Sbjct: 226 PDKDYLLSIPIS------------CPLIGV---------IQL-AHYVVTAKLLGFT---- 259
Query: 572 AYTLPAGNL---LSG-RGHGEAIQLLIDLNHNQDIVTA-----------FVYDS---TCK 613
P G L L G GH +Q +VTA F + S
Sbjct: 260 ----P-GELRSYLKGATGH------------SQGLVTAVAIAETDSWESF-FVSVRKAIT 301
Query: 614 LL----VVSSKGNAF--------IVEESEIIANTRKGKTF----LKVS--SEEKMKLVVK 655
+L V A+ I+E+S + N + L +S ++E+++ V
Sbjct: 302 VLFFIGVRCY--EAYPNTSLPPSILEDS--LEN---NEGVPSPMLSISNLTQEQVQDYVN 354
Query: 656 VTGDHVAVVGENRKL---LIFSIDQI----PEMS-RGKGVRLQSYK 693
T H+ +++ L+ + P S G + L+ K
Sbjct: 355 KTNSHLP---AGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAK 397
Score = 30.3 bits (68), Expect = 1.4
Identities = 41/280 (14%), Positives = 75/280 (26%), Gaps = 102/280 (36%)
Query: 524 ISNRGWIRSLKS--HSVDLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAY----TLPA 577
S R S S H + + F L+ + L T+G A T PA
Sbjct: 4 YSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKI-----LPEPTEGFAADDEPTTPA 58
Query: 578 GNLLSGRGHGEAIQLLIDLNHNQDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTRK 637
L+ + + + L + +D L + F E+ +
Sbjct: 59 E-LVG-----KFLGYVSSLVEPSKVGQ---FDQVLNLCL-----TEF---ENCYLEGN-- 99
Query: 638 GKTFLKVSSEEKMKLVVKVTGDHVAVVGENRKLL-------IFSIDQIPEMSR------- 683
+ + L K+ ++ + + ++L+ I + + S
Sbjct: 100 -----DIHA-----LAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAV 149
Query: 684 --GKGVRL------QSYKDGGISDVICFKICEGL-----TW-------IDSAGRSYNR-S 722
G +L Q G D F E L T+ I + + +
Sbjct: 150 GEGN-AQLVAIFGGQ----GNTDD--YF---EELRDLYQTYHVLVGDLIKFSAETLSELI 199
Query: 723 EN------------DLLGWL---GKRGGVGSL--VPKGFP 745
++L WL L +P P
Sbjct: 200 RTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCP 239
>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 = 49.5 bits (117), Expect = 3e-06
Identities = 34/150 (22%), Positives = 72/150 (48%), Gaps = 13/150 (8%)
Query: 514 MIEKEPITVVISNRGWI--------RSLKSHSVDLSALHFKEGDSLKIALHAHTTDRILL 565
+++KE I V+++ +G++ + + LS+ +GD + IAL +T D + +
Sbjct: 4 LMQKENIVVMLTKKGFLKRLSQNEYKLQGTGGKGLSSFDLNDGDEIVIALCVNTHDYLFM 63
Query: 566 LSTDGKAYTLPAGNLL--SGRGHGEAIQLLIDLNHNQDIVTAFVYDSTCK---LLVVSSK 620
+S +GK Y + A + S G+ I LI+L ++I+T LL+ ++
Sbjct: 64 ISNEGKLYLINAYEIKDSSRASKGQNISELINLGDQEEILTIKNSKDLTDDAYLLLTTAS 123
Query: 621 GNAFIVEESEIIANTRKGKTFLKVSSEEKM 650
G E ++ A +G +K++ ++ +
Sbjct: 124 GKIARFESTDFKAVKSRGVIVIKLNDKDFV 153
Score = 36.0 bits (82), Expect = 0.029
Identities = 28/170 (16%), Positives = 62/170 (36%), Gaps = 9/170 (5%)
Query: 539 DLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNL-LSGRGHGEAIQLLIDLN 597
+ + + D + A ++++ LS G A+ + ++ L+ RG + +
Sbjct: 141 GVIVIKLNDKDFVTSAEIVFKDEKVICLSKKGSAFIFNSRDVRLTNRGTQGVCGMKLKEG 200
Query: 598 HNQDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIA-NTRKGKTFLKVSSEEKMKLVVKV 656
V + + LL+VS G + S+I S++K VV
Sbjct: 201 DLFVKVLSVKENPY--LLIVSENGYGKRLNMSKISELKRGATGYTSYKKSDKKAGSVVDA 258
Query: 657 ----TGDHVAVVGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGGISDVI 701
D + +V + K L ++ E + +G+++ + + V
Sbjct: 259 IAVSEDDEILLVSKRSKALRTVAGKVSEQGKDARGIQVLFLDNDSLVSVS 308
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl
reductase, beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 45.6 bits (107), Expect = 4e-05
Identities = 113/500 (22%), Positives = 182/500 (36%), Gaps = 144/500 (28%)
Query: 33 YALSTIKERAI----PDLRDGFKPVHRRIIH-AMSEMGLDFGAAFKKSARIVGEVIGKLH 87
Y S ++ I P+L +G+ P + +I + E L+ A K++A H
Sbjct: 894 YETSILEHSGIRLIEPELFNGYNPEKKEMIQEVIVEEDLEPFEASKETAEQFK------H 947
Query: 88 PHGDQ-SVYD---------SLVRLAQ---PFVQRYP-LISGQGNFGNI-DGDSAAAYRYT 132
HGD+ +++ L++ A P R+ L++GQ I G +A Y +
Sbjct: 948 QHGDKVDIFEIPETGEYSVKLLKGATLYIPKALRFDRLVAGQ-----IPTGWNAKTYGIS 1002
Query: 133 EARMTQVAEL---ILQGVDED--AVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAV-- 185
+ ++QV + +L V E A D Y + V S+ N +G G++
Sbjct: 1003 DDIISQVDPITLFVLVSVVEAFIASGITDPY---EMYKYVHVSEVGNCSGSGMGGVSALR 1059
Query: 186 GMATSI----PSHN--VQEICEAALALIDNPEISIEKLLEYIIGP-DFPTGGII--VESR 236
GM P N +QE + I+ + LL GP P G VES
Sbjct: 1060 GMFKDRFKDEPVQNDILQE------SFINTMSAWVNMLLISSSGPIKTPVGACATSVESV 1113
Query: 237 ESIVESYRLGRGGFRVRARWCVEEVG-------RGSWCIVVTEIPYQVQKSRLIEKIAEL 289
+ VE+ G+ AR C+ VG GS+ E S +E+
Sbjct: 1114 DIGVETILSGK------ARICI--VGGYDDFQEEGSF-----EFGNMKATSNTLEEFEH- 1159
Query: 290 IIAKRIPLLEDIRDESAEDVRIVLFPKNRSLDPDLLMESIFMLSDMETRF--PLNMNVLS 347
R P AE R +N ++ I M +D+ + P+ +++
Sbjct: 1160 ---GRTP---------AEMSRPATTTRNGFMEAQGAGIQIIMQADLALKMGVPI-YGIVA 1206
Query: 348 M--------GR-VPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYL 398
M GR VP P GIL H V + + M+ R+
Sbjct: 1207 MAATATDKIGRSVPA--PGKGILTTAREHHSSVKYASPNLNMKYRKRQ------------ 1252
Query: 399 NIDEIIAIIRNEDKPKPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDN--LLA 456
++ E + K EN+++A+ KLE +I SE N LL
Sbjct: 1253 -------LVTREAQIK-------DWVENELEAL---------KLEAEEIPSEDQNEFLLE 1289
Query: 457 EKEKI----DSLLNSGKQQW 472
+I +S L + +QQW
Sbjct: 1290 RTREIHNEAESQLRAAQQQW 1309
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 35.7 bits (81), Expect = 0.039
Identities = 28/97 (28%), Positives = 38/97 (39%), Gaps = 35/97 (36%)
Query: 427 QVDAILNLRL----RSLRKLEEYQIK--SELD---NLLAE--KEKIDSLLNSGKQQWNQI 475
Q D RL S+RK E Q K ELD ++ + +EK L ++WNQ
Sbjct: 76 QAD-----RLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDL----EEWNQR 126
Query: 476 ACEIREVKEIFSKSTDLGRRRTTFCEVSRADKATLQQ 512
E E +I ++ ADKA QQ
Sbjct: 127 QSEQVEKNKINNRI---------------ADKAFYQQ 148
Score = 28.0 bits (61), Expect = 8.6
Identities = 21/86 (24%), Positives = 37/86 (43%), Gaps = 26/86 (30%)
Query: 206 LIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVE---SYRLGRGGFRVRARWCVEEVG 262
L PE SI K E E R+ + E + ++ +R +A+ +EE
Sbjct: 80 LTQEPE-SIRKWRE--------------EQRKRLQELDAASKVMEQEWREKAKKDLEE-- 122
Query: 263 RGSWCIVVTEIPYQVQKSRLIEKIAE 288
W +E QV+K+++ +IA+
Sbjct: 123 ---WNQRQSE---QVEKNKINNRIAD 142
>2dq3_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; HET: SSA; 3.00A {Aquifex aeolicus
VF5}
Length = 425
Score = 32.4 bits (73), Expect = 0.44
Identities = 22/144 (15%), Positives = 41/144 (28%), Gaps = 22/144 (15%)
Query: 399 NIDEIIAIIRNEDKPKPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEK 458
D + + DK +V + L L R+ +I L+ L +E+
Sbjct: 10 KPDYVKERLATRDKELVSLVDKV------------LELDKRRR----EIIKRLEALRSER 53
Query: 459 EKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLGRRRTTFCEVSRADKATLQQAMIEKE 518
K+ + K++ VKE+ + L E + +
Sbjct: 54 NKLSKEIGKLKREGKDTTEIQNRVKELKEEIDRLEEELRKVEEELKNTLLWIPNLPHPSV 113
Query: 519 PIT------VVISNRGWIRSLKSH 536
P+ V + G R
Sbjct: 114 PVGEDEKDNVEVRRWGEPRKFDFE 137
>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 = 30.4 bits (67), Expect = 1.6
Identities = 7/22 (31%), Positives = 14/22 (63%), Gaps = 3/22 (13%)
Query: 201 EAALAL-IDN--PEISIEKLLE 219
+A+L L D+ P ++I+ +E
Sbjct: 26 QASLKLYADDSAPALAIKATME 47
>2j0w_A Lysine-sensitive aspartokinase 3; feedback inhibition, allosteric
regulation, ACT domain, transferase, amino acid
biosynthesis; HET: ADP; 2.5A {Escherichia coli} SCOP:
c.73.1.3 d.58.18.10 d.58.18.10 PDB: 2j0x_A*
Length = 449
Score = 29.2 bits (64), Expect = 3.6
Identities = 15/86 (17%), Positives = 31/86 (36%), Gaps = 7/86 (8%)
Query: 400 IDEIIAIIRNEDKPKPVMVSRFSLTENQVDAILNL-----RLRSLRKLEEYQ--IKSELD 452
++ I+ ++ + V++S + N + A+ R L + Q I L
Sbjct: 20 MNRSADIVLSDANVRLVVLSASAGITNLLVALAEGLEPGERFEKLDAIRNIQFAILERLR 79
Query: 453 NLLAEKEKIDSLLNSGKQQWNQIACE 478
+E+I+ LL + A
Sbjct: 80 YPNVIREEIERLLENITVLAEAAALA 105
>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding
mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli}
SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*
Length = 758
Score = 28.5 bits (63), Expect = 5.4
Identities = 37/227 (16%), Positives = 79/227 (34%), Gaps = 28/227 (12%)
Query: 251 RVRARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAE-LIIAKRIPLLEDIRDESAEDV 309
RA E GS+ P V K+ + ++++ L I + + +
Sbjct: 476 MARAGLGHEHKPVGSFLFAG---PTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVS- 531
Query: 310 RIVLFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHR- 368
R++ + + + +L+D + P + +L + +L+
Sbjct: 532 RLI-----GAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTL 586
Query: 369 -----REVLFRRSSFRMQ--AIDRRVEILKGLLIAYLNIDEIIAIIRNEDKPK-----PV 416
R+ FR M A R E LI N + + I+ P+
Sbjct: 587 TDNNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDN 646
Query: 417 MVSRFSLTENQVDAILNLRLRSLRK-LEEYQIKSELD----NLLAEK 458
++ L+ + + +++ + L+ L++ + E+ N LAEK
Sbjct: 647 IIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQEARNWLAEK 693
>3bho_A Cleavage and polyadenylation specificity factor subunit 5; CPSF5,
RNA processing, cleavage factor, diadenosine
tetraphosphate, mRNA processing; HET: B4P; 1.80A {Homo
sapiens} PDB: 3bap_A 2cl3_A 2j8q_A
Length = 208
Score = 28.5 bits (64), Expect = 5.6
Identities = 13/53 (24%), Positives = 21/53 (39%), Gaps = 2/53 (3%)
Query: 556 HAHTTDRILLLSTDGKAYTLPAGNLLSGRGHGEAIQLLID--LNHNQDIVTAF 606
H H +LLL + LP G L G E ++ L+ L ++ +
Sbjct: 68 HEHRLPHVLLLQLGTTFFKLPGGELNPGEDEVEGLKRLMTEILGRQDGVLQDW 120
>2etb_A Transient receptor potential cation channel subfamily V member 2;
TRPV2, ankyrin repeat domain, transport protein; 1.65A
{Rattus norvegicus} PDB: 2eta_A 2etc_A 2f37_A
Length = 256
Score = 28.5 bits (62), Expect = 6.1
Identities = 16/109 (14%), Positives = 29/109 (26%), Gaps = 28/109 (25%)
Query: 527 RGWIRSLKSHSVDLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLSGRGH 586
G + L+ +S L+ + EG + K L L G
Sbjct: 19 TGLLEYLRWNSKYLTDSAYTEGSTGKTCLMKAV--------------------LNLQDGV 58
Query: 587 GEAIQLLIDLNHNQDIVTAFVYDSTCK--------LLVVSSKGNAFIVE 627
I L+ ++ + V L + K + V+
Sbjct: 59 NACIMPLLQIDKDSGNPKPLVNAQCTDEFYQGHSALHIAIEKRSLQCVK 107
>2aaz_A TS, tsase, thymidylate synthase; methyl transferase, nucleotide
biosynthesis, transferase; HET: UMP CB3; 2.08A
{Filobasidiella neoformans}
Length = 317
Score = 28.1 bits (62), Expect = 7.4
Identities = 11/65 (16%), Positives = 18/65 (27%), Gaps = 6/65 (9%)
Query: 254 ARWCVEEVGRGSWCIVVTEI------PYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAE 307
A E + + P + Q R +L A+ + DI E
Sbjct: 239 ALITDTEPHEFILQMGDAHVYRDHVEPLKTQLEREPRDFPKLKWARSKEEIGDIDGFKVE 298
Query: 308 DVRIV 312
D +
Sbjct: 299 DFVVE 303
>3glk_A Acetyl-COA carboxylase 2; ATP binding, alternative splicing,
ATP-binding, biotin, fatty acid biosynthesis, ligase,
lipid synthesis, manganese; 2.10A {Homo sapiens} PDB:
3gid_A 2hjw_A
Length = 540
Score = 27.9 bits (61), Expect = 8.0
Identities = 7/31 (22%), Positives = 13/31 (41%), Gaps = 1/31 (3%)
Query: 396 AYLNIDEIIAIIRNEDKPKPVMVSRFSLTEN 426
Y N++ I+ I + + V +EN
Sbjct: 108 NYANVELIVDIAKRI-PVQAVWAGWGHASEN 137
>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon,
coiled post-transcriptional, gene regulation, chaperone;
HET: EPE; 2.20A {Helicobacter pylori}
Length = 256
Score = 27.8 bits (61), Expect = 9.5
Identities = 9/53 (16%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 432 LNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKE 484
L+ + SL L + + +LD L +KE + + + +++ + ++ + ++
Sbjct: 16 LDKEIDSLEPLIR-EKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQ 67
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
0.319 0.137 0.389
Gapped
Lambda K H
0.267 0.0673 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 6,474,710
Number of extensions: 317102
Number of successful extensions: 1063
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1004
Number of HSP's successfully gapped: 58
Length of query: 753
Length of database: 5,693,230
Length adjustment: 100
Effective length of query: 653
Effective length of database: 3,268,830
Effective search space: 2134545990
Effective search space used: 2134545990
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: 60 (27.0 bits)