RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780306|ref|YP_003064719.1| DNA topoisomerase I
[Candidatus Liberibacter asiaticus str. psy62]
(837 letters)
>1mw9_X DNA topoisomerase I; decatenase enzyme, toprim domain; HET: DNA;
1.67A {Escherichia coli} SCOP: e.10.1.1 PDB: 1mw8_X*
1cy1_A* 1cy0_A* 1cy2_A* 1cy4_A* 1cy6_A* 1cy7_A* 1cy8_A*
1ecl_A 1cy9_A* 1cyy_A*
Length = 592
Score = 524 bits (1350), Expect = e-149
Identities = 241/602 (40%), Positives = 348/602 (57%), Gaps = 54/602 (8%)
Query: 2 NVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKG--------------------- 40
++IVESPAKAKTI+KYLGS+Y V SS GHIRDLP
Sbjct: 4 ALVIVESPAKAKTINKYLGSDYVVKSSVGHIRDLPTSGSAAKKSADSTSTKTAKKPKKDE 63
Query: 41 --------SVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILATDPDREGEAISWHV 92
V P +E + + P +K + + + + + LATD DREGEAI+WH+
Sbjct: 64 RGALVNRMGVDPWHNWEAHYEVLPGKEKVVSELKQLAEKADHIYLATDLDREGEAIAWHL 123
Query: 93 LDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVNAYLARRALDYLVGFNL 152
+V+ + + RV FN ITK + A P ++N+D VNA ARR +D +VG+ +
Sbjct: 124 REVIGGDD----ARYSRVVFNEITKNAIRQAFNKPGELNIDRVNAQQARRFMDRVVGYMV 179
Query: 153 SPILWQKLPGARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTAHLT 212
SP+LW+K+ SAGRVQSVA+RL+ RE +I++FV EE+W + TP + +T
Sbjct: 180 SPLLWKKIARGLSAGRVQSVAVRLVVEREREIKAFVPEEFWEVDASTTTPSGEALALQVT 239
Query: 213 DFNGQRIEKKSISNKKEADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSR 272
N + NK++ +S ++KA YSV + E+KP P F TSTLQQ AS+R
Sbjct: 240 HQND---KPFRPVNKEQTQAAVSLLEKARYSVLEREDKPTTSKPGAPFITSTLQQAASTR 296
Query: 273 LGFSASHTMRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAVRRSITSHYGDHYL 332
LGF TM +AQ+LYE G ITYMRTD ++S DA+ VR I+ ++G YL
Sbjct: 297 LGFGVKKTMMMAQRLYEA--------GYITYMRTDSTNLSQDAVNMVRGYISDNFGKKYL 348
Query: 333 PEKPRIYSSKSKNAQEAHEAIRPNDFDFLPSKMKQFLDSDQFQLYNLIWKRSVASQMASA 392
PE P Y+SK +N+QEA EAIRP+D + + +K ++D +LY LIW++ VA QM A
Sbjct: 349 PESPNQYASK-ENSQEAREAIRPSDVNVMAESLKDM-EADAQKLYQLIWRQFVACQMTPA 406
Query: 393 KFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPYISANEQ 452
K++ TT+ + A L+ G +L FDG+ KV + +ED +LP ++ +
Sbjct: 407 KYDSTTLTVGAGDF----RLKARGRILRFDGWTKV----MPALRKGDEDRILPAVNKGDA 458
Query: 453 LIATETNASQHFTEPPPRYSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEKRKIL 512
L E +QHFT+PP R+SE+SL+K++E+ GIGRPSTYA+I+ T+ R YV E R+
Sbjct: 459 LTLVELTPAQHFTKPPARFSEASLVKELEKRGIGRPSTYASIISTIQDRGYVRVENRRFY 518
Query: 513 PQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEKIDSI 572
+ G IVT LE F + + YDFTA +E LD+++ + WK VL F+ +F +++D
Sbjct: 519 AEKMGEIVTDRLEENFRELMNYDFTAQMENNLDQVANHEAEWKAVLDHFFSDFTQQLDKA 578
Query: 573 KK 574
+K
Sbjct: 579 EK 580
>1i7d_A DNA topoisomerase III; decatenating enzyme, protein-DNA complex,
single-stranded DNA, isomerase/DNA complex; HET: DNA;
2.05A {Escherichia coli} SCOP: e.10.1.1 PDB: 2o5c_A*
2o54_A* 2o59_A* 2o19_A* 2o5e_A* 1d6m_A*
Length = 659
Score = 469 bits (1207), Expect = e-132
Identities = 138/669 (20%), Positives = 264/669 (39%), Gaps = 81/669 (12%)
Query: 1 MNVIIVESPAKAKTISKYL-------------GSNYKVLSSFGHIRDLPAKKGSVLPEKE 47
M + I E P+ A+ I+ L G+ V GH+ +
Sbjct: 1 MRLFIAEKPSLARAIADVLPKPHRKGDGFIECGNGQVVTWCIGHLLEQAQPDAYDSRYAR 60
Query: 48 FEM----------IWNIDPSSQKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLR 97
+ + PS K L I + ++ ++ A DPDREG+ + VLD L+
Sbjct: 61 WNLADLPIVPEKWQLQPRPSVTKQLNVIKRFLHEASEIVHAGDPDREGQLLVDEVLDYLQ 120
Query: 98 QKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDIN--LDLVNAYLARRALDYLVGFNLSPI 155
++ ++QR N + Q V A+ R + + L + LAR D+L G N++
Sbjct: 121 LAPE-KRQQVQRCLINDLNPQAVERAIDRLRSNSEFVPLCVSALARARADWLYGINMTRA 179
Query: 156 LWQ-----KLPGARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTAH 210
G S GRVQ+ L L+ R+ +IE+FV+++++ + + TP +++FTA
Sbjct: 180 YTILGRNAGYQGVLSVGRVQTPVLGLVVRRDEEIENFVAKDFFEVKAHIVTPADERFTAI 239
Query: 211 LT---DFNGQRIEKKSISNKKEADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQ 267
+ E+ + ++ A+ +++ + V +K + F+ S LQ
Sbjct: 240 WQPSEACEPYQDEEGRLLHRPLAEHVVNRISGQPAIVTSYNDKRESESAPLPFSLSALQI 299
Query: 268 VASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAVRRSITS-- 325
A+ R G SA + + I QKLYE LIT+ R+D ++ + + +
Sbjct: 300 EAAKRFGLSAQNVLDICQKLYETH-------KLITFPRSDCRYLPEEHFAGRHAVMNAIS 352
Query: 326 HYGDHYLPEKPRIYSSKSK----NAQEAHEAIRPNDFDFLPSKMKQFLDSDQFQLYNLIW 381
+ LP+ +++ +AH AI P L ++ ++YNLI
Sbjct: 353 VHAPDLLPQPVVDPDIRNRCWDDKKVDAHHAIIPT-----ARSSAINLTENEAKVYNLIA 407
Query: 382 KRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEED 441
++ + A F + + + + G L G+ + ++ E+N +
Sbjct: 408 RQYLMQFCPDAVFRKCVIEL----DIAKGKFVAKARFLAEAGWRTLLGSKERDEEN--DG 461
Query: 442 ILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKMEEI-----------------G 484
LP ++ ++L+ + + T+PP +++++L+ M I G
Sbjct: 462 TPLPVVAKGDELLCEKGEVVERQTQPPRHFTDATLLSAMTGIARFVQDKDLKKILRATDG 521
Query: 485 IGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKL 544
+G +T A I+E L+KR ++ + R I + G+ + L D TA E L
Sbjct: 522 LGTEATRAGIIELLFKRGFLTKKGRYIHSTDAGKALFHSLPEMA---TRPDMTAHWESVL 578
Query: 545 DEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNED--- 601
+IS + +++ + + ID K+ + I+ K
Sbjct: 579 TQISEKQCRYQDFMQPLVGTLYQLIDQAKRTPVRQFRGIVAPGSGGSADKKKAAPRKRSA 638
Query: 602 SRTCPECHT 610
++ P
Sbjct: 639 KKSPPADEV 647
>2gai_A DNA topoisomerase I; zinc ribbon; HET: DNA; 1.70A {Thermotoga
maritima MSB8} PDB: 2gaj_A*
Length = 633
Score = 398 bits (1023), Expect = e-111
Identities = 231/685 (33%), Positives = 345/685 (50%), Gaps = 70/685 (10%)
Query: 1 MNVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQK 60
I+VESPAKAKTI LG+ Y+V +S GHI DLP K V EK+FE + + +K
Sbjct: 6 KKYIVVESPAKAKTIKSILGNEYEVFASMGHIIDLPKSKFGVDLEKDFEPEFAVIKGKEK 65
Query: 61 HLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVV 120
++ + K + ++A+D DREGEAI+WH+ V + R+ F+ IT +V+
Sbjct: 66 VVEKLKDLAKKGEL-LIASDMDREGEAIAWHIARVTNTLG-----RKNRIVFSEITPRVI 119
Query: 121 LNAMKSPRDINLDLVNAYLARRALDYLVGFNLSPILWQKLPGARSAGRVQSVALRLICNR 180
A+K+PR+I++ V A LARR LD +VG++LSP+LW+ SAGRVQS L+L+C+R
Sbjct: 120 REAVKNPREIDMKKVRAQLARRILDRIVGYSLSPVLWRNFKSNLSAGRVQSATLKLVCDR 179
Query: 181 ENQIESFVSEEYWSLSVLLETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLISFVKKA 240
E +I FV ++Y ++V + + F+ + +++
Sbjct: 180 EREILRFVPKKYHRITVNFDGLTAEIDVKEKKFFDAETLKEIQ--------------SID 225
Query: 241 TYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGL 300
VE+ + K P F TSTLQQ A S+LGFS S TM IAQ+LYEG++ +
Sbjct: 226 ELVVEEKKVSVKKFAPPEPFKTSTLQQEAYSKLGFSVSKTMMIAQQLYEGVETKDGHIAF 285
Query: 301 ITYMRTDGVHMSPDALEAVRRSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIRPNDFDF 360
ITYMRTD +S A E R IT +G+ Y+ K S +K Q+AHEAIRP +
Sbjct: 286 ITYMRTDSTRVSDYAKEEARNLITEVFGEEYVGSKRERRKSNAKI-QDAHEAIRPTNVFM 344
Query: 361 LPSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLC 420
P + ++L+SDQ +LY LIWKR +ASQM +++E T + D + T
Sbjct: 345 TPEEAGKYLNSDQKKLYELIWKRFLASQMKPSQYEETRFVLR--TKDGKYRFKGTVLKKI 402
Query: 421 FDGFLKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKM 480
FDG+ KVW+ + + + E+ E + + T+P PRY+E SL+K+M
Sbjct: 403 FDGYEKVWKTERNTGEFPFEE--------GESVKPVVVKIEEQETKPKPRYTEGSLVKEM 454
Query: 481 EEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADL 540
E +GIGRPSTYA+ ++ L R Y+ + + P G +V +LE +S V FTA++
Sbjct: 455 ERLGIGRPSTYASTIKLLLNRGYIKKIRGYLYPTIVGSVVMDYLEKKYSDVVSVSFTAEM 514
Query: 541 EEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNE 600
E+ LDE+ GK K VL EF+E F D ++ + +
Sbjct: 515 EKDLDEVEQGKKTDKIVLREFYESFSSVFDRNDRIVVDFPTN------------------ 556
Query: 601 DSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDIPEMKESVLLGNDLE 660
+ C LS KYG ++ C EC TR + ++ + + + L D E
Sbjct: 557 --QKCSCGKEMRLSF---GKYGFYLKC----ECGKTRSVKNDEIAVIDDGKIFLGRKDSE 607
Query: 661 TKE------------SVTLRSGRFG 673
+ S R G+ G
Sbjct: 608 SGSPDGRSVEGKGNLSEKRRKGKKG 632
Score = 29.2 bits (64), Expect = 4.3
Identities = 21/122 (17%), Positives = 39/122 (31%), Gaps = 13/122 (10%)
Query: 680 DGKDAKRCSLPKTWKSDSVDYDKAMSLLSLPREIGIHPETQKNIIAGTGKYGYYLNHDGA 739
GK + L + ++S S +D+ + + K + GKYG+YL +
Sbjct: 523 QGKKTDKIVLREFYESFSSVFDRNDRI-VVDFPTNQKCSCGKEMRLSFGKYGFYLKCECG 581
Query: 740 YTKLESIEQVLTIDLEQAISCITEKKKIEKSSRKNSKNQGHVIGTHPEGGSITVHNGRYG 799
T+ ++ ++ + K S + G EG R G
Sbjct: 582 KTR--------SVKNDEIAVI-DDGKIFLGRKDSESGSPD---GRSVEGKGNLSEKRRKG 629
Query: 800 PY 801
Sbjct: 630 KK 631
>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea,
helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16
c.37.1.16 e.10.1.1 PDB: 1gl9_B*
Length = 1054
Score = 182 bits (462), Expect = 3e-46
Identities = 173/629 (27%), Positives = 286/629 (45%), Gaps = 143/629 (22%)
Query: 3 VIIVESPAKAKTISKYLGS-NYKVL------------------SSFGHIRDLPAKKG--S 41
+ IVESP KA+ IS++ G + KVL +S GH+ DL +G
Sbjct: 508 LFIVESPTKARQISRFFGKPSVKVLDGAVVYEIPMQKYVLMVTASIGHVVDLITNRGFHG 567
Query: 42 VLPEKEFEMIW--------------------------NIDPSSQKHLQNIIHAVKSSTIL 75
VL F ++ N+D +S+ ++ + + +
Sbjct: 568 VLVNGRFVPVYASIKRCRDCGYQFTEDRESCPKCGSENVD-NSRSRIEALRKLAHDAEFV 626
Query: 76 ILATDPDREGEAISWHVLDVLRQKNLIEKT-KIQRVSFNAITKQVVLNAMKSPRDINLDL 134
I+ TDPD EGE I+W + KNL+ ++R F+ +T++ +L A++S RD++ +L
Sbjct: 627 IVGTDPDTEGEKIAWDL------KNLLSGCGAVKRAEFHEVTRRAILEALESLRDVDENL 680
Query: 135 VNAYLARRALDYLVGFNLSPILWQKLPGAR-SAGRVQSVALRLICNRENQIESFVSEEYW 193
V A + RR D +GF LS LW++ SAGR Q++ L I +R
Sbjct: 681 VKAQVVRRIEDRWIGFVLSQKLWERFNNRNLSAGRAQTLVLGWIIDR------------- 727
Query: 194 SLSVLLETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLISFVKKATYSVEKIENKPIK 253
+ R + A + DF+ + + +E DL +++ +E +
Sbjct: 728 -----FQESRERRKIAIVRDFD------LVLEHDEEEFDL---------TIKLVEEREEL 767
Query: 254 RNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSP 313
R P P +TT T+ A+ L FS TM+IAQ+L+E GLITY RTD +S
Sbjct: 768 RTPLPPYTTETMLSDANRILKFSVKQTMQIAQELFEN--------GLITYHRTDSTRVS- 818
Query: 314 DALEAVRRSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIRP------NDFDFLPSK--- 364
+ +R + GD ++ + AHE IRP +D L +
Sbjct: 819 ---DVGQRIAKEYLGDDFV--------GREWGESGAHECIRPTRPLTRDDVQRLIQEGVL 867
Query: 365 MKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGF 424
+ + L + F LY+LI++R +ASQ K ++ Y+ + FDG
Sbjct: 868 VVEGLRWEHFALYDLIFRRFMASQCRPFKV------VVKKYSIE------------FDGK 909
Query: 425 LKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPR---YSESSLIKKME 481
E E + E ++ NE + T T + + P+ +++S +I+ M+
Sbjct: 910 TAEEERIVRAEGRAYELYRAVWVK-NE--LPTGTFRVKAEVKSVPKVLPFTQSEIIQMMK 966
Query: 482 EIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLE 541
E GIGRPSTYATI++ L+ R YV+ + +++P G V FL ++++V D T DLE
Sbjct: 967 ERGIGRPSTYATIVDRLFMRNYVVEKYGRMIPTKLGIDVFRFLVRRYAKFVSEDRTRDLE 1026
Query: 542 EKLDEISTGKLNWKEVLHEFWEEFIEKID 570
++D I G+L++ + L + + E I+ ID
Sbjct: 1027 SRMDAIERGELDYLKALEDMYAE-IKSID 1054
>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 = 68.8 bits (168), Expect = 4e-12
Identities = 97/681 (14%), Positives = 178/681 (26%), Gaps = 283/681 (41%)
Query: 183 QIE-SF-VSEEYWSLSVLLETPRNDKFTAHL---TDFNGQRIEKKSISNKKEADDLISFV 237
+E V + ++ L ++F L T+ E + A+ + F+
Sbjct: 15 SLEHVLLVPTASFFIASQL----QEQFNKILPEPTEGFAADDEPTTP-----AELVGKFL 65
Query: 238 KKATYSVEKIENKPIKRNP------WPAFTTSTLQQ-----VASSRLGFSASHTMRIAQK 286
Y +E + + F L+ +A+ + + +
Sbjct: 66 ---GYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAK---LLQENDTTLVKT 119
Query: 287 LYEGIDVNGEIVGLITYMRTDGV------HMSPDAL-EAVRR---SITSHYG-----DHY 331
E++ Y+ + S AL AV + + +G D Y
Sbjct: 120 K--------ELIK--NYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDY 169
Query: 332 LPE------------KPRIYSSK------SKNAQEAHEAIRPNDFDFLPSKMKQFL---- 369
E I S + +A E + + L ++L
Sbjct: 170 FEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDA-EKVFTQGLNIL-----EWLENPS 223
Query: 370 ---DSDQFQLYNLIWKRSVASQMASAKFERTTVN--II-----ATY-------NDQIGHL 412
D D Y + S ++ +I A Y G L
Sbjct: 224 NTPDKD----Y-----------LLSI-----PISCPLIGVIQLAHYVVTAKLLGFTPGEL 263
Query: 413 R-----TTG-SLLCFDGFL--------KVWENQYDQEKNSEEDILLPYISANEQLIATET 458
R TG S G + WE+ + + + +L +I
Sbjct: 264 RSYLKGATGHS----QGLVTAVAIAETDSWESFFVSVRKAIT--VLFFIGVRCY------ 311
Query: 459 NASQHFTEPPPRYS-ESSLIKKMEEIGIGRPSTYATI----LETLYKRKYVIAEKRKILP 513
+ + P S S+++ E G PS +I E + + + LP
Sbjct: 312 ---EAY----PNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDY---VNKTNSHLP 361
Query: 514 QNTGRIVTAFLENFFSQYVE-------YDFTADLEEKLDEISTGKLNWKEVLHEFWEEFI 566
++ + L N V Y L + + +G L+ +
Sbjct: 362 AGK-QVEIS-LVNGAKNLVVSGPPQSLYGLNLTLRKA--KAPSG-LDQSRIPF------- 409
Query: 567 EKIDSIKKLRISNV-LDILNDTLSSVIFPPKENNEDSRTCPECHTHSLSLKLSSKYGAFV 625
S +KL+ SN L + + F H+H L A
Sbjct: 410 ----SERKLKFSNRFLPV------ASPF---------------HSHLLV-------PAS- 436
Query: 626 GCTNYPECKYTRQLTSNPQDIPEMKESVLLGNDLETKESVTLRSG--RFGLYVQRGDGKD 683
+ + DL K +V+ + + +Y DG D
Sbjct: 437 -------------------------DLIN--KDLV-KNNVSFNAKDIQIPVYDTF-DGSD 467
Query: 684 AKRCS---LPK-----TWKSDSVDYDKAMSLLSLP----------REIGIHPETQKN--- 722
+ S + V ++ G+ T +N
Sbjct: 468 LRVLSGSISERIVDCII--RLPVKWETT---TQFKATHILDFGPGGASGLGVLTHRNKDG 522
Query: 723 -----IIAGT------GKYGY 732
I+AGT YG+
Sbjct: 523 TGVRVIVAGTLDINPDDDYGF 543
Score = 58.4 bits (141), Expect = 6e-09
Identities = 100/655 (15%), Positives = 164/655 (25%), Gaps = 341/655 (52%)
Query: 26 LSSF-GHIRDL--PAKKGS---VLPE--KEFEMIWNIDPSSQKHLQNI-IHAVKSSTILI 76
+ F G++ L P+K G VL EFE +L+ IHA+ +
Sbjct: 61 VGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFE---------NCYLEGNDIHALAAK---- 107
Query: 77 LATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVN 136
L + D +++ K LI+ N
Sbjct: 108 LLQENDTT----------LVKTKELIK--------------------------------N 125
Query: 137 AYLARRALDYLVGFNLSPILWQKLPGARSAGRVQSVALRLICNRENQIESFVSEEYWSLS 196
AR + + S
Sbjct: 126 YITARIMAK------------RPFDKKSN------------------------------S 143
Query: 197 VLLETPRNDKFTAHL-TDFNGQRIEKKSISNKKEA-DDLISFVKKATYS--VEKIENKPI 252
L A L F GQ N + ++L TY V + I
Sbjct: 144 ALFRAVGEGN--AQLVAIFGGQ-------GNTDDYFEELRDLY--QTYHVLVGDL----I 188
Query: 253 KRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLY-EGIDV-----NGE---------- 296
F+ TL ++ + T+ A+K++ +G+++ N
Sbjct: 189 ------KFSAETLSELIRT--------TLD-AEKVFTQGLNILEWLENPSNTPDKDYLLS 233
Query: 297 ------IVGLI---TYM---RTDGVHMSPDALEAVRRSI---TSHYGDHYLPEKPRIYS- 340
++G+I Y+ + G P L R + T H S
Sbjct: 234 IPISCPLIGVIQLAHYVVTAKLLGFT--PGEL---RSYLKGATGH-------------SQ 275
Query: 341 ----------SKS-----KNAQEA-----------HEAIRPNDFDFLPSKMKQFLDSDQF 374
+ S + ++A +EA PN LP + + DS +
Sbjct: 276 GLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAY-PNTS--LPPSILE--DSLE- 329
Query: 375 QLYNLIWKRSVASQMASAK-FERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYD 433
N V S M S + V D + N +
Sbjct: 330 ---N---NEGVPSPMLSISNLTQEQVQ------DYVNKT-----------------NSH- 359
Query: 434 QEKNSEEDILLP-----YISANEQLIATETNASQHF--TEPPPRYSESSL---------I 477
LP IS L+ N +++ + PP SL
Sbjct: 360 ----------LPAGKQVEIS----LV----NGAKNLVVSGPP-----QSLYGLNLTLRKA 396
Query: 478 KKMEEIGIGR-PSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAF------------L 524
K + R P + +RK R LP + + F
Sbjct: 397 KAPSGLDQSRIPFS---------ERKLKF-SNR-FLP-----VASPFHSHLLVPASDLIN 440
Query: 525 ENFFSQYVE----------YD-FTA-DLEE-------KL-DEISTGKLNWKEVLH 559
++ V YD F DL ++ D I + W+
Sbjct: 441 KDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQ 495
Score = 53.4 bits (128), Expect = 2e-07
Identities = 95/682 (13%), Positives = 177/682 (25%), Gaps = 307/682 (45%)
Query: 15 ISKYLGSNYKVL-SSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSST 73
+ L F + LP P + F + +P++ L
Sbjct: 22 VPTASFFIASQLQEQF--NKILPE------PTEGFAA--DDEPTTPAEL----------- 60
Query: 74 ILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLD 133
+ + + +V ++ + + ++ + + DI
Sbjct: 61 ---VG-------KFLG-YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEG-----NDI--- 101
Query: 134 LVNAYLARRALDYLVGFNLSPILWQKLPGARSAGR--VQSVALRLICNRENQIESFVSEE 191
+A A+ L L + + + + + R
Sbjct: 102 --HALAAK----------LLQENDTTLVKTKELIKNYITARIM---AKRPFDK------- 139
Query: 192 YWSLSVLLETPRNDKFTAHL-TDFNGQRIEKKSISNKKEA-DDLISFVKKATYS--VEKI 247
S S L A L F GQ N + ++L TY V +
Sbjct: 140 -KSNSALFRAVGEGN--AQLVAIFGGQ-------GNTDDYFEELRDLY--QTYHVLVGDL 187
Query: 248 ENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLY-EGIDV-----NGE----- 296
I F+ TL ++ + T+ A+K++ +G+++ N
Sbjct: 188 ----I------KFSAETLSELIRT--------TLD-AEKVFTQGLNILEWLENPSNTPDK 228
Query: 297 -----------IVGLI---TYM---RTDGVHMSPDALEAVRRSI---TSHYGDHYLPEKP 336
++G+I Y+ + G P L R + T H
Sbjct: 229 DYLLSIPISCPLIGVIQLAHYVVTAKLLGFT--PGEL---RSYLKGATGH---------- 273
Query: 337 RIYS-----------SKS-----KNAQEA-----------HEAIRPNDFDFLPSKMKQFL 369
S + S + ++A +EA PN LP + +
Sbjct: 274 ---SQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAY-PN--TSLPPSILE-- 325
Query: 370 DSDQFQLYNLIWKRSVASQMASAK-FERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVW 428
DS + N V S M S + V D +
Sbjct: 326 DSLE----N---NEGVPSPMLSISNLTQEQV------QDYVNKT---------------- 356
Query: 429 ENQYDQEKNSEEDILLP-----YISANEQLIATETNASQHF--TEPPPRYSESSL----- 476
N + LP IS L+ N +++ + PP SL
Sbjct: 357 -NSH-----------LPAGKQVEIS----LV----NGAKNLVVSGPP-----QSLYGLNL 391
Query: 477 ----IKKMEEIGIGR-PSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQY 531
K + R P + +RK R LP V + F S
Sbjct: 392 TLRKAKAPSGLDQSRIPFS---------ERKLKF-SNR-FLP------VAS---PFHSHL 431
Query: 532 VEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSV 591
+ + + + L + + +++ K ++I V DT
Sbjct: 432 LV-PASDLINKDLVKNN---VSFNA----------------KDIQIP-VY----DT---- 462
Query: 592 IFPPKENNEDSRTCPECHTHSL 613
+ D R + +
Sbjct: 463 -----FDGSDLRVLSGSISERI 479
Score = 46.9 bits (111), Expect = 2e-05
Identities = 80/500 (16%), Positives = 147/500 (29%), Gaps = 174/500 (34%)
Query: 410 GHLRTT----GSLLCF-----DGFLK-----VWENQYDQEKNSEEDILLPYISANEQLIA 455
G L + + F K D E + +++ ++ ++
Sbjct: 14 GSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFL----GYVS 69
Query: 456 TETNASQ--HFTEPPP---RYSES---------SLIKKMEEIGIGRPSTYATILETLYK- 500
+ S+ F + E+ +L K+ + +++
Sbjct: 70 SLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITA 129
Query: 501 RKYVIAEKRKILP--------QNTGRIVTAF-----LENFFSQYVE-YD----FTADLEE 542
R K + ++V F +++F + + Y DL
Sbjct: 130 RIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDL-- 187
Query: 543 KLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNEDS 602
+ + E L E I +K+ + L+IL + L N +
Sbjct: 188 -IKFSA-------ETL----SELIRTTLDAEKVF-TQGLNIL-EWLE---------NPSN 224
Query: 603 RTCPECH---THSLSLKLSSKYGAFVG----CTNYPECKYTRQLTSNPQDIPEMKESVLL 655
P+ + +S L +G K L P E++ L
Sbjct: 225 T--PDKDYLLSIPISCPL-------IGVIQLAHYVVTAKL---LGFTP---GELRSY-LK 268
Query: 656 GNDLETKESVTLRSGRFGLYVQRGDGKDAKRCSLPKTWKS--DSVDYDKAMSLL------ 707
G T S GL A + +W+S SV KA+++L
Sbjct: 269 G--------ATGHSQ--GLVT-------AVAIAETDSWESFFVSVR--KAITVLFFIGVR 309
Query: 708 --------SLPREIGIHPETQKNIIAGTGKYGYYLNHDGAYTKLESIEQVLTIDLEQAIS 759
SLP I + ++ G L+ + EQV + + S
Sbjct: 310 CYEAYPNTSLPPSI-----LEDSLENNEGVPSPMLSISNL-----TQEQVQDY-VNKTNS 358
Query: 760 CITEKKKIEKS---SRKNSKNQGHVIGTHPEGGSITVHNGRYGPYLHWKKINASLSKEES 816
+ K++E S KN V+ P+ S+ YG +N +L K ++
Sbjct: 359 HLPAGKQVEISLVNGAKN-----LVVSGPPQ--SL------YG-------LNLTLRKAKA 398
Query: 817 PDTVDL------EKALKILN 830
P +D E+ LK N
Sbjct: 399 PSGLDQSRIPFSERKLKFSN 418
Score = 36.1 bits (83), Expect = 0.030
Identities = 63/284 (22%), Positives = 103/284 (36%), Gaps = 94/284 (33%)
Query: 4 IIVESPAKAKTI------SKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPS 57
I++ +P TI K + NY + F I D G + EK F+ I S
Sbjct: 1664 IVINNPVNL-TIHFGGEKGKRIRENYSAMI-FETIVD-----GKLKTEKIFKEINEHSTS 1716
Query: 58 ----SQKHLQNIIHAVKSSTIL-------------ILATDPDREGEAISWH-----VLDV 95
S+K L + + + L ++ D G ++ + + DV
Sbjct: 1717 YTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADV 1776
Query: 96 LRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRD-----------INLDLVNAYLARRAL 144
+ ++L+E V + +T QV + PRD IN V A ++ AL
Sbjct: 1777 MSIESLVEV-----VFYRGMTMQVAV-----PRDELGRSNYGMIAINPGRVAASFSQEAL 1826
Query: 145 DYLVGFNLSPILWQKLPGARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRN 204
Y+V +++ G R+ V+ V N ENQ +V+ L L
Sbjct: 1827 QYVV---------ERV-GKRTGWLVEIVNY----NVENQ--QYVAAG--DLRAL------ 1862
Query: 205 DKFTAHLTDFNGQRIEKKSISNKKEADDLISFVKKATYSVEKIE 248
D T L Q+I D+I K + S+E++E
Sbjct: 1863 DTVTNVLNFIKLQKI------------DIIELQK--SLSLEEVE 1892
Score = 33.8 bits (77), Expect = 0.15
Identities = 60/278 (21%), Positives = 97/278 (34%), Gaps = 98/278 (35%)
Query: 380 IWKRSVASQ----MASAKFERT------------TVNIIATYNDQIG-HLRTTGSLLCF- 421
++K S A+Q A F+ T VN+ + + G +R S + F
Sbjct: 1635 LYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFE 1694
Query: 422 ---DGFLKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIK 478
DG LK E + +E N E + S L AT+ FT+P E + +
Sbjct: 1695 TIVDGKLKT-EKIF-KEIN-EHSTSYTFRSEKGLLSATQ------FTQPALTLMEKAAFE 1745
Query: 479 KMEEIG-IGRPSTYA--------------------TILETLYKRKYV--IAEKRKILPQ- 514
++ G I +T+A +++E ++ R +A R L +
Sbjct: 1746 DLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRS 1805
Query: 515 -------NTGRIVTAFLENFFSQYV----------------------EYDFTADLEEKLD 545
N GR+ +F + QYV +Y DL LD
Sbjct: 1806 NYGMIAINPGRVAASFSQEAL-QYVVERVGKRTGWLVEIVNYNVENQQYVAAGDL-RALD 1863
Query: 546 EISTGKLNWKEVLHEFWEEFIEKIDSI---KKLRISNV 580
+ T LN+ + ++KID I K L + V
Sbjct: 1864 TV-TNVLNFIK---------LQKIDIIELQKSLSLEEV 1891
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 34.5 bits (79), Expect = 0.10
Identities = 12/46 (26%), Positives = 15/46 (32%), Gaps = 7/46 (15%)
Query: 604 TCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDI-PE 648
TCPEC + + G V C C L+ D E
Sbjct: 23 TCPECKVYPPKIVERFSEGDVV-CAL---CGLV--LSDKLVDTRSE 62
>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 = 31.9 bits (71), Expect = 0.57
Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 24/50 (48%)
Query: 567 EKIDSIKKLRISNVLDILNDTLSSVIFPPKENNEDSRTCPECHTHSLSLK 616
EK ++KKL+ S L + D DS P +L++K
Sbjct: 18 EK-QALKKLQAS--LKLYAD--------------DS--AP-----ALAIK 43
Score = 31.1 bits (69), Expect = 1.0
Identities = 9/27 (33%), Positives = 13/27 (48%), Gaps = 10/27 (37%)
Query: 805 KKINASL---SKEESPDTVDLEKALKI 828
KK+ ASL + + +P AL I
Sbjct: 23 KKLQASLKLYADDSAP-------ALAI 42
>1h7b_A Anaerobic ribonucleotide-triphosphate reductase large chain;
oxidoreductase, allosteric regulation, substrate
specificity; 2.45A {Bacteriophage T4} SCOP: c.7.1.3 PDB:
1h79_A* 1h7a_A* 1h78_A 1hk8_A*
Length = 605
Score = 30.7 bits (69), Expect = 1.3
Identities = 24/151 (15%), Positives = 44/151 (29%), Gaps = 25/151 (16%)
Query: 476 LIKKMEEIGIGRPSTYATILETLYKRKYVI-AEKRKILPQNTGRIVTAFLENFFSQYVEY 534
L + E G S Y+T E L R + EK + T + + N F +V
Sbjct: 427 LKQWTERTGFAF-SLYSTPAENLCYRFCKLDTEKYGSVKDVTDKG---WYTNSF--HVSV 480
Query: 535 DFTADLEEKL---DEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRI---SNV-------- 580
+ EK+ + + + + ++ + ++
Sbjct: 481 EENITPFEKISREAPYHF-IATGGHISYVELPDMKNNLKGLEAVWDYAAQHLDYFGVNMP 539
Query: 581 LDILNDTLSSVIFPPKENNEDSRTCPECHTH 611
+D S+ P EN C C
Sbjct: 540 VDKCFTCGSTHEMTPTENGF---VCSICGET 567
>1r0v_A ENDA, tRNA-intron endonuclease, intron endonuclease; RNA splicing,
X-RAY crystallography, translation, hydrolase; 2.00A
{Archaeoglobus fulgidus dsm 4304} SCOP: c.52.2.1
c.52.2.1 d.75.1.1 PDB: 1r11_A 1rlv_A 2gjw_A*
Length = 305
Score = 30.6 bits (69), Expect = 1.3
Identities = 27/148 (18%), Positives = 46/148 (31%), Gaps = 23/148 (15%)
Query: 470 RYSESSLIKKMEEIGIGRPST---YATILETLYKRKYVIAEKRKILPQNTGRIVTAFL-- 524
++ K +E G G Y LE +Y + K +++
Sbjct: 5 DFAVVKAKKSLERRGFGVKRGDKIYLHPLEVVY-----LQIKGIESFGELEDVLSWAESR 59
Query: 525 -ENFFSQYVEYDFTADLEEK---------LDEISTGKLNWKEVLHEFWEEFIEKIDSIKK 574
E+F + Y Y+ DL ++ L E EE EK + +
Sbjct: 60 MEDFSTYYFVYE---DLRDRGNKVKIQGEFLLTKKPYLPISERKTIRMEEIAEKARNFDE 116
Query: 575 LRISNVLDILNDTLSSVIFPPKENNEDS 602
LR++ V + T V P +
Sbjct: 117 LRLAVVDEESEITYFRVYEPDMMGEQKE 144
>2c4i_A Avidin; biotin, glycoprotein, signalor; HET: BTN; 1.95A {Gallus
gallus}
Length = 271
Score = 30.6 bits (69), Expect = 1.6
Identities = 18/73 (24%), Positives = 31/73 (42%), Gaps = 9/73 (12%)
Query: 624 FVGCTNYPECKYTRQLTSNPQDIPEMKESVLLGNDLETKESVTLRSGRFGLYVQRGDGKD 683
F+ K L S+ DI + ++ +G ++ T+ T + G G G
Sbjct: 26 FIDRNGKEVLKTMWLLRSSVNDIGDDWKATRVGINIFTRLR-TQKEG--------GSGGS 76
Query: 684 AKRCSLPKTWKSD 696
A++CSL W +D
Sbjct: 77 ARKCSLTGKWTND 89
>3k7l_A Atragin; SVMP, metalloprotease, hydrolase; HET: NAG; 2.50A {Naja
atra}
Length = 422
Score = 30.2 bits (67), Expect = 2.1
Identities = 4/35 (11%), Positives = 16/35 (45%)
Query: 281 MRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDA 315
+ +Y ++ + ++GL + + +++ D
Sbjct: 45 INTMNMIYRRLNFHIALIGLEIWSNINEINVQSDV 79
>1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc finger,
toprim, walker B ATP binding motif; 2.50A {Deinococcus
radiodurans} SCOP: e.49.1.1 PDB: 2v1c_A
Length = 228
Score = 29.9 bits (67), Expect = 2.2
Identities = 10/57 (17%), Positives = 21/57 (36%), Gaps = 2/57 (3%)
Query: 53 NIDPSSQKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQR 109
+ P + + + ILAT EG+A + ++ +L ++I
Sbjct: 116 GVGPDKLHIKPLLPRVGQGMEV-ILATGTTVEGDATALYLQRLLEPLG-AAISRIAY 170
>3dc7_A Putative uncharacterized protein LP_3323; NESG LPR109 X-RAY
LP_3323, structural genomics, PSI-2, protein structure
initiative; 2.12A {Lactobacillus plantarum} SCOP:
c.23.10.9
Length = 232
Score = 29.9 bits (66), Expect = 2.5
Identities = 15/109 (13%), Positives = 32/109 (29%), Gaps = 7/109 (6%)
Query: 231 DDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQK---- 286
L++ ++ +V K+ I + S + R + ++
Sbjct: 117 MMLLTGLQTNWPTVPKLFISAIHIGSDFGGSFSAVTNGLGYRQSDYEAAIAQMTADYGVP 176
Query: 287 ---LYEGIDVNGEIVGLITYMRTDGVHMSPDALEAVRRSITSHYGDHYL 332
LY + I D +H + + R + S H+L
Sbjct: 177 HLSLYRDAGMTFAIPAQAAIYSVDTLHPNNAGHRVIARKLQSFLDSHFL 225
>2ero_A VAP-1, vascular apoptosis-inducing protein 1; metalloprotease,
disintegrin, calcium-binding, ADAM, SVMP, MDC protein,
toxin; HET: NAG; 2.50A {Crotalus atrox} PDB: 2erp_A*
2erq_A*
Length = 427
Score = 29.6 bits (65), Expect = 3.3
Identities = 7/41 (17%), Positives = 19/41 (46%)
Query: 281 MRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAVRR 321
+ + +Y ++++ +VGL + TD + + A +
Sbjct: 47 VNVITPIYHRMNIHVALVGLEIWSNTDKIIVQSSADVTLDL 87
>2dw0_A Catrocollastatin; apoptotic toxin, SVMP, metalloproteinase,
apoptosis, toxin; HET: NAG BMA MAN GM6; 2.15A {Crotalus
atrox} PDB: 2dw1_A* 2dw2_A* 3dsl_A* 3hdb_A*
Length = 419
Score = 29.2 bits (64), Expect = 4.3
Identities = 7/41 (17%), Positives = 19/41 (46%)
Query: 281 MRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAVRR 321
+ ++Y + ++ +VGL + D + + P+A +
Sbjct: 39 VNTVNEIYRYMYIHVALVGLEIWSNEDKITVKPEAGYTLNA 79
>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 = 29.0 bits (64), Expect = 4.5
Identities = 35/131 (26%), Positives = 50/131 (38%), Gaps = 42/131 (32%)
Query: 735 NHDGAYTKLESIEQVL------TIDLEQAISCITEKKKIEKSSRKNSKNQGHVIGTHPEG 788
N D LE E VL D +A+S IT S + G I HP+
Sbjct: 1411 NADNVDKILEQFEYVLYPSKTLKTDGVRAVS-IT--------SFGFGQKGGQAIVVHPDY 1461
Query: 789 --GSITVHNGRYGPYLHWKKINAS------------------LSKEESPDTVDLEKAL-- 826
G+IT RY Y+ K++A +SKE +P T +LE+ +
Sbjct: 1462 LYGAIT--EDRYNEYV--AKVSAREKSAYKFFHNGMIYNKLFVSKEHAPYTDELEEDVYL 1517
Query: 827 -KILNIKKQKK 836
+ + K KK
Sbjct: 1518 DPLARVSKDKK 1528
>2zhx_A UDG, uracil-DNA glycosylase; DNA repair, UNG-UGI complex, UNG-DNA
interactions, cytoplasm, DNA damage; 3.10A
{Mycobacterium tuberculosis}
Length = 238
Score = 28.8 bits (64), Expect = 5.4
Identities = 15/121 (12%), Positives = 27/121 (22%), Gaps = 28/121 (23%)
Query: 535 DFTAD-LEEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIF 593
TA L E ++ W L ++ ++ +
Sbjct: 11 SMTARPLSELVER------GWAAALEPVADQVAHMGQFLRAEIAAGR----------RYL 54
Query: 594 PPKENNEDSRTCPECHTHSLSLKLSSKYGAFVGCTNYPEC-KYTRQLTSNPQDIPEMKES 652
P N + + + VG YP S D+ S
Sbjct: 55 PAGSN----------VLRAFTFPFDNVRVLIVGQDPYPTPGHAVGLSFSVAPDVRPWPRS 104
Query: 653 V 653
+
Sbjct: 105 L 105
>2gvi_A Conserved hypothetical protein; 10640422, structural genomics,
joint center for structural genomics, JCSG, protein
structure initiative; 1.87A {Thermoplasma acidophilum}
SCOP: d.81.3.1 g.39.1.18
Length = 204
Score = 28.4 bits (63), Expect = 6.0
Identities = 11/79 (13%), Positives = 27/79 (34%), Gaps = 2/79 (2%)
Query: 532 VEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILND--TLS 589
+ ++L ++ +++ +E E ID + + S + + + +
Sbjct: 100 IRVHVRNSFMDELSTRASDFFRYRKQGYEPSEIPAGAIDPVLEWISSLEDEEIFEYREID 159
Query: 590 SVIFPPKENNEDSRTCPEC 608
F P + N C C
Sbjct: 160 GFTFEPVKKNGAKVRCDVC 178
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.7 bits (63), Expect = 6.1
Identities = 18/66 (27%), Positives = 31/66 (46%), Gaps = 13/66 (19%)
Query: 180 RENQIESFVSEEYWSLSVLLETPRNDKFTAHLTDFN---GQRIEKKSISNKKEADDLISF 236
RE Q + +E + S ++E +K L ++N +++EK I+N+ AD
Sbjct: 91 REEQRKRL--QELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRI-AD----- 142
Query: 237 VKKATY 242
KA Y
Sbjct: 143 --KAFY 146
>3jsu_A Dihydrofolate reductase-thymidylate synthase; rossmann fold,
oxidoreductase, transferase; HET: KA5 NDP UMP; 2.70A
{Plasmodium falciparum}
Length = 608
Score = 28.5 bits (63), Expect = 7.2
Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 3/48 (6%)
Query: 534 YDFTADLEEKLDEISTGKLNWKEVLHEF-WEEFIEKIDSIKKLRISNV 580
Y DL + ++T KL + ++ E W FI + L NV
Sbjct: 356 YIMKFDLSQYFPLLTTKKLFLRGIIEELLW--FIRGETNGNTLLNKNV 401
>1qf6_A THRRS, threonyl-tRNA synthetase; tRNA(Thr), AMP, zinc, mRNA,
aminoacylation, translational regulation, protein/RNA,
ligase/RNA complex; HET: H2U AET G7M 5MU PSU AMP; 2.90A
{Escherichia coli} SCOP: c.51.1.1 d.15.10.1 d.67.1.1
d.104.1.1
Length = 642
Score = 28.5 bits (63), Expect = 7.5
Identities = 23/145 (15%), Positives = 45/145 (31%), Gaps = 32/145 (22%)
Query: 283 IAQKLYEGID-------VNGEIVGLITYMRTDG----VHM-SPDALEAVRRS-------- 322
+A + G+ VNGE+V + D + + LE +R S
Sbjct: 23 VALDIGPGLAKACIAGRVNGELVDACDLIENDAQLSIITAKDEEGLEIIRHSCAHLLGHA 82
Query: 323 ITSHYGDHYLPEKPRI-----YSSKSKNAQEAHEAIRPNDFDFLPSKMKQFLDSDQFQLY 377
I + + P I Y + D + L +M + + + +
Sbjct: 83 IKQLWPHTKMAIGPVIDNGFYYDVDLD------RTLTQEDVEALEKRMHELAEK-NYDVI 135
Query: 378 NLIWKRSVASQMASAKFERTTVNII 402
A + + + E V+I+
Sbjct: 136 KKKVSWHEARETFANRGESYKVSIL 160
>1hw4_A TS, thymidylate synthase; methyltransferase; HET: CME; 2.06A {Homo
sapiens} SCOP: d.117.1.1
Length = 355
Score = 28.0 bits (62), Expect = 9.4
Identities = 12/44 (27%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 534 YDFTADLEEKLDEISTGKLNWKEVLHEF-WEEFIEKIDSIKKLR 576
L ++ ++T ++ WK VL E W FI+ + K+L
Sbjct: 103 MQARYSLRDEFPLLTTKRVFWKGVLEELLW--FIKGSTNAKELS 144
>3dl5_A Dihydrofolate reductase, DHFR; enzyme active site mutant,
enzyme-ligand complex, , oxidoreductase; HET: UMP CB3
DHF NDP; 2.74A {Cryptosporidium hominis} PDB: 3dl6_A*
1qzf_A* 1sej_A* 2oip_A*
Length = 521
Score = 28.0 bits (62), Expect = 9.4
Identities = 10/48 (20%), Positives = 18/48 (37%), Gaps = 3/48 (6%)
Query: 534 YDFTADLEEKLDEISTGKLNWKEVLHEF-WEEFIEKIDSIKKLRISNV 580
D+ E ++T K+ + + E W FI+ + L V
Sbjct: 268 QMMRFDMRESFPLLTTKKVFIRSIFEELIW--FIKGDTNGNHLIEKKV 313
>4eug_A UDG, UNG, protein (glycosylase); 1.40A {Escherichia coli} SCOP:
c.18.1.1 PDB: 5eug_A 1eug_A 2uug_A 3eug_A 2eug_A 1uug_A
1lqj_A 1lqm_A 1lqg_A 1flz_A 1eui_A 2jhq_A
Length = 229
Score = 27.7 bits (61), Expect = 9.9
Identities = 12/50 (24%), Positives = 24/50 (48%), Gaps = 12/50 (24%)
Query: 551 KLNWKEVLHEFWEE--FIEKIDSIKKLRISNVLDILNDTLSSVIFPPKEN 598
+L W +VL E ++ F+ + ++ R S V I+PP+++
Sbjct: 4 ELTWHDVLAEEKQQPYFLNTLQTVASERQSGV----------TIYPPQKD 43
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
0.315 0.132 0.378
Gapped
Lambda K H
0.267 0.0543 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 7,122,245
Number of extensions: 338029
Number of successful extensions: 1149
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1118
Number of HSP's successfully gapped: 42
Length of query: 837
Length of database: 5,693,230
Length adjustment: 100
Effective length of query: 737
Effective length of database: 3,268,830
Effective search space: 2409127710
Effective search space used: 2409127710
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 (21.5 bits)
S2: 61 (27.7 bits)