RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4975
(126 letters)
>2d1s_A Luciferase, luciferin 4-monooxygenase; alpha/beta, beta barrel,
alpha+beta, riken structural genomics/proteomics
initiative, RSGI; HET: SLU; 1.30A {Luciola cruciata}
PDB: 2d1q_A* 2d1r_A* 2d1t_A*
Length = 548
Score = 147 bits (374), Expect = 3e-43
Identities = 50/130 (38%), Positives = 75/130 (57%), Gaps = 18/130 (13%)
Query: 1 MLDDDGWLHTGDLAYRLPDGTHFI--------------ISPCELESIFRQHPDVEDVAVI 46
++D++GWLHTGD+ Y + FI + P ELES+ QHP + D V
Sbjct: 413 LIDEEGWLHTGDIGYYDEEKHFFIVDRLKSLIKYKGYQVPPAELESVLLQHPSIFDAGVA 472
Query: 47 GIPHDVFGELPAAVVVPKPNSSVTAEEVKQFVEDQVNPSKRLSGGV-FLCSFDFIPRTMS 105
G+P V GELP AVVV + ++T +EV +V QV+ +KRL GGV F+ D +P+ ++
Sbjct: 473 GVPDPVAGELPGAVVVLESGKNMTEKEVMDYVASQVSNAKRLRGGVRFV---DEVPKGLT 529
Query: 106 GKVKRKDLNE 115
GK+ + + E
Sbjct: 530 GKIDGRAIRE 539
>3rix_A Luciferase, luciferin 4-monooxygenase; oxidoreductase,
photoprotein, luminescence, aspulvinone, natural product
extracts; HET: 923; 1.70A {Photinus pyralis} PDB: 1ba3_A
1lci_A* 3ies_A* 3iep_A* 3ier_A* 3qya_A
Length = 550
Score = 147 bits (373), Expect = 3e-43
Identities = 52/130 (40%), Positives = 77/130 (59%), Gaps = 18/130 (13%)
Query: 1 MLDDDGWLHTGDLAYRLPDGTHFI--------------ISPCELESIFRQHPDVEDVAVI 46
++D DGWLH+GD+AY D FI ++P ELESI QHP++ D V
Sbjct: 411 LIDKDGWLHSGDIAYWDEDEHFFIVDRLKSLIKYKGYQVAPAELESILLQHPNIFDAGVA 470
Query: 47 GIPHDVFGELPAAVVVPKPNSSVTAEEVKQFVEDQVNPSKRLSGGV-FLCSFDFIPRTMS 105
G+P D GELPAAVVV + ++T +E+ +V QV +K+L GGV F+ D +P+ ++
Sbjct: 471 GLPDDDAGELPAAVVVLEHGKTMTEKEIVDYVASQVTTAKKLRGGVVFV---DEVPKGLT 527
Query: 106 GKVKRKDLNE 115
GK+ + + E
Sbjct: 528 GKLDARKIRE 537
>3tsy_A Fusion protein 4-coumarate--COA ligase 1, resvera synthase;
transferase; 3.10A {Arabidospis thaliana}
Length = 979
Score = 147 bits (373), Expect = 2e-42
Identities = 49/137 (35%), Positives = 70/137 (51%), Gaps = 17/137 (12%)
Query: 1 MLDDDGWLHTGDLAYRLPDGTHFI--------------ISPCELESIFRQHPDVEDVAVI 46
+D DGWLHTGD+ D FI ++P ELE++ HPD+ DVAV+
Sbjct: 453 TIDKDGWLHTGDIGLIDDDDELFIVDRLKELIKYKGFQVAPAELEALLIGHPDITDVAVV 512
Query: 47 GIPHDVFGELPAAVVVPKPNSSVTAEEVKQFVEDQVNPSKRLSGGVFLCSFDFIPRTMSG 106
+ + GE+P A VV +S ++ ++VKQFV QV KR++ F + IP+ SG
Sbjct: 513 AMKEEAAGEVPVAFVVKSKDSELSEDDVKQFVSKQVVFYKRINKVFFT---ESIPKAPSG 569
Query: 107 KVKRKDLNETKVMRHDD 123
K+ RKDL
Sbjct: 570 KILRKDLRAKLANGLGS 586
>3ni2_A 4-coumarate:COA ligase; 4CL, phenylpropanoid biosynthesis; HET: AYL
EPE; 1.90A {Populus tomentosa} PDB: 3a9v_A* 3a9u_A*
Length = 536
Score = 144 bits (366), Expect = 3e-42
Identities = 47/129 (36%), Positives = 70/129 (54%), Gaps = 17/129 (13%)
Query: 1 MLDDDGWLHTGDLAYRLPDGTHFI--------------ISPCELESIFRQHPDVEDVAVI 46
+D +GWLHTGD+ Y D FI ++P ELE++ HP++ D AV+
Sbjct: 406 TIDKEGWLHTGDIGYIDDDDELFIVDRLKELIKYKGFQVAPAELEALLIAHPEISDAAVV 465
Query: 47 GIPHDVFGELPAAVVVPKPNSSVTAEEVKQFVEDQVNPSKRLSGGVFLCSFDFIPRTMSG 106
G+ + GE+P A VV S T +E+KQ++ QV KR+ F+ + IP+ SG
Sbjct: 466 GLKDEDAGEVPVAFVVKSEKSQATEDEIKQYISKQVIFYKRIKRVFFI---EAIPKAPSG 522
Query: 107 KVKRKDLNE 115
K+ RK+L E
Sbjct: 523 KILRKNLKE 531
>3g7s_A Long-chain-fatty-acid--COA ligase (FADD-1); protein structure
initiative, PSI-II, NYSGXRC, 11193J, structural
genomics; 2.15A {Archaeoglobus fulgidus dsm 4304}
Length = 549
Score = 125 bits (317), Expect = 3e-35
Identities = 40/130 (30%), Positives = 65/130 (50%), Gaps = 19/130 (14%)
Query: 2 LDDDGWLHTGDLAYRLPDGTHFI--------------ISPCELESIFRQHPDVEDVAVIG 47
+ TGD+ + +G I+P ELE++ +H V DVAVIG
Sbjct: 412 EKGRKFFRTGDVGFIDEEGFLHFQDRVKEVIKYKGYTIAPFELEALLMKHEAVMDVAVIG 471
Query: 48 IPHDVFGELPAAVVVPKPN--SSVTAEEVKQFVEDQVNPSKRLSGGVFLCSFDFIPRTMS 105
P + GE+P A +V KP V E++ ++V ++++ KR+ F+ + +PRT S
Sbjct: 472 KPDEEAGEVPKAFIVLKPEYRGKVDEEDIIEWVRERISGYKRVREVEFV---EELPRTAS 528
Query: 106 GKVKRKDLNE 115
GK+ R+ L E
Sbjct: 529 GKLLRRLLRE 538
>4fuq_A Malonyl COA synthetase; ANL superfamily, methylma malonate, ligase;
HET: MSE; 1.70A {Rhodopseudomonas palustris} PDB:
4fut_A*
Length = 503
Score = 116 bits (293), Expect = 5e-32
Identities = 41/129 (31%), Positives = 58/129 (44%), Gaps = 17/129 (13%)
Query: 2 LDDDGWLHTGDLAYRLPDGTHFI--------------ISPCELESIFRQHPDVEDVAVIG 47
DDG+ TGDL G I + P E+ES P V + AVIG
Sbjct: 372 FRDDGFFITGDLGKIDERGYVHILGRGKDLVITGGFNVYPKEIESEIDAMPGVVESAVIG 431
Query: 48 IPHDVFGELPAAVVVPKPNSSVTAEEVKQFVEDQVNPSKRLSGGVFLCSFDFIPRTMSGK 107
+PH FGE AVVV +++ +V ++ Q+ K +F+ D +PR GK
Sbjct: 432 VPHADFGEGVTAVVVRDKGATIDEAQVLHGLDGQLAKFKMPKKVIFV---DDLPRNTMGK 488
Query: 108 VKRKDLNET 116
V++ L ET
Sbjct: 489 VQKNVLRET 497
>3nyq_A Malonyl-COA ligase; A/B topology ababa sandwich beta-barrel
adenylate-forming EN fold; HET: MCA AMP; 1.43A
{Streptomyces coelicolor} PDB: 3nyr_A*
Length = 505
Score = 113 bits (286), Expect = 6e-31
Identities = 39/130 (30%), Positives = 57/130 (43%), Gaps = 19/130 (14%)
Query: 2 LDDDGWLHTGDLAYRLPDGTHFI---------------ISPCELESIFRQHPDVEDVAVI 46
+DG+ TGD+A R PDG I I E+E+ +HP+V + AV
Sbjct: 378 FTEDGFFRTGDMAVRDPDGYVRIVGRKATDLIKSGGYKIGAGEIENALLEHPEVREAAVT 437
Query: 47 GIPHDVFGELPAAVVVP-KPNSSVTAEEVKQFVEDQVNPSKRLSGGVFLCSFDFIPRTMS 105
G P GE A +VP P + + V ++ P KR +L D +PR
Sbjct: 438 GEPDPDLGERIVAWIVPADPAAPPALGTLADHVAARLAPHKRPRVVRYL---DAVPRNDM 494
Query: 106 GKVKRKDLNE 115
GK+ ++ LN
Sbjct: 495 GKIMKRALNR 504
>3ivr_A Putative long-chain-fatty-acid COA ligase; structural genomics,
PSI-2, protein S initiative, fatty acid synthesis; HET:
GOL; 2.00A {Rhodopseudomonas palustris}
Length = 509
Score = 112 bits (282), Expect = 2e-30
Identities = 36/125 (28%), Positives = 56/125 (44%), Gaps = 19/125 (15%)
Query: 5 DGWLHTGDLAYRLPDGTHFI----------------ISPCELESIFRQHPDVEDVAVIGI 48
+GW HTGD+ DG F + P E+E +QHP + D VIG+
Sbjct: 374 NGWHHTGDMGRFDADGYLFYAGRAPEKELIKTGGENVYPAEVEGALKQHPAIADAVVIGV 433
Query: 49 PHDVFGELPAAVVVPKPNSSVTAEEVKQFVEDQVNPSKRLSGGVFLCSFDFIPRTMSGKV 108
P + E AV V KP S+ A+ + +FV + K+ VF+ + +P+ G +
Sbjct: 434 PDPQWSEAIKAVCVCKPGESIAADALAEFVASLIARYKKPKHVVFV---EALPKDAKGAI 490
Query: 109 KRKDL 113
R +
Sbjct: 491 DRAAV 495
>3ipl_A 2-succinylbenzoate--COA ligase; structural genomics, acyl-protein
synthetase, PSI-2, protein structure initiative; 2.30A
{Staphylococcus aureus subsp}
Length = 501
Score = 111 bits (280), Expect = 4e-30
Identities = 27/126 (21%), Positives = 56/126 (44%), Gaps = 19/126 (15%)
Query: 4 DDGWLHTGDLAYRLPDGTHFI--------------ISPCELESIFRQHPDVEDVAVIGIP 49
++G+ +TGD+A +G I I P ++E++ +Q P + D +G P
Sbjct: 373 ENGYFNTGDIAEIDHEGYVMIYDRRKDLIISGGENIYPYQIETVAKQFPGISDAVCVGHP 432
Query: 50 HDVFGELPAAVVVPKPNSSVTAEEVKQFVEDQVNPSKRLSGGVFLCSFDFIPRTMSGKVK 109
D +G++P V + ++ ++ ++ + K + D +P T +GK++
Sbjct: 433 DDTWGQVPKLYFVSES--DISKAQLIAYLSKHLAKYKVPKHFEKV---DTLPYTSTGKLQ 487
Query: 110 RKDLNE 115
R L
Sbjct: 488 RNKLYR 493
>1t5h_X 4-chlorobenzoyl COA ligase; adenylate-forming coenzyme A ligase
domain alternation confo change; 2.00A {Alcaligenes SP}
SCOP: e.23.1.1 PDB: 1t5d_X 3cw9_A* 3cw8_X* 2qvz_X*
2qw0_X* 3dlp_X* 2qvx_X* 2qvy_X*
Length = 504
Score = 110 bits (278), Expect = 6e-30
Identities = 34/129 (26%), Positives = 53/129 (41%), Gaps = 26/129 (20%)
Query: 4 DDGWLHTGDLAYRLPDGTHFI--------------ISPCELESIFRQHPDVEDVAVIGIP 49
DGW T D+A P+GT I I P E+E + P V +V VIG+
Sbjct: 377 QDGWYRTSDVAVWTPEGTVRILGRVDDMIISGGENIHPSEIERVLGTAPGVTEVVVIGLA 436
Query: 50 HDVFGELPAAVVVPKPNSSVTAEEVKQFVEDQVNPSKRLSGGVFLC--SFDFI---PRTM 104
+G+ A VVP+ +++A+ + F L+ F + + P+
Sbjct: 437 DQRWGQSVTACVVPRLGETLSADALDTFCRSS-----ELAD--FKRPKRYFILDQLPKNA 489
Query: 105 SGKVKRKDL 113
KV R+ L
Sbjct: 490 LNKVLRRQL 498
>3r44_A Fatty acyl COA synthetase FADD13 (fatty-acyl-COA synthetase);
ligase; HET: HIS; 1.80A {Mycobacterium tuberculosis}
PDB: 3t5c_A 3t5b_A
Length = 517
Score = 109 bits (275), Expect = 2e-29
Identities = 35/129 (27%), Positives = 60/129 (46%), Gaps = 28/129 (21%)
Query: 4 DDGWLHTGDLAYRLPDGTHFI--------------ISPCELESIFRQHPDVEDVAVIGIP 49
D+GW TGD+ +G +I + P E+ES+ P V +VAVIG+P
Sbjct: 388 DNGWFRTGDIGEIDDEGYLYIKDRLKDMIISGGENVYPAEIESVIIGVPGVSEVAVIGLP 447
Query: 50 HDVFGELPAAVVVPKPNSSVTAEEVKQFVEDQVNPSKRLSGGVFLC--SFDFI---PRTM 104
+ +GE+ AA+VV + V+ +++ ++ RL+ + F PR
Sbjct: 448 DEKWGEIAAAIVVADQ-NEVSEQQIVEYCGT------RLAR--YKLPKKVIFAEAIPRNP 498
Query: 105 SGKVKRKDL 113
+GK+ + L
Sbjct: 499 TGKILKTVL 507
>3o83_A Peptide arylation enzyme; ligase, adenylation of
2,3-dihydroxybenzoate and transfer to pantetheine
cofactor of BASF; HET: IXN; 1.90A {Acinetobacter
baumannii} PDB: 3o82_A* 3o84_A*
Length = 544
Score = 106 bits (267), Expect = 3e-28
Identities = 32/131 (24%), Positives = 53/131 (40%), Gaps = 23/131 (17%)
Query: 2 LDDDGWLHTGDLAYRLPDGTHFI--------------ISPCELESIFRQHPDVEDVAVIG 47
D+D + ++GDL R PDG + I+ E+E + HP+V A++
Sbjct: 412 FDEDNYYYSGDLVQRTPDGNLRVVGRIKDQINRGGEKIASEEIEKLILLHPEVMHAALVA 471
Query: 48 IPHDVFGELPAAVVVPKPNSSVTAEEVKQFVEDQVNPSK---RLSGGVFLCSFDFIPRTM 104
I + FGE A +V + + +E + K ++ + S P T
Sbjct: 472 IVDEQFGEKSCAFIVSRNPELKAVVLRRHLMELGIAQYKLPDQI---KLIESL---PLTA 525
Query: 105 SGKVKRKDLNE 115
GKV +K L
Sbjct: 526 VGKVDKKQLRS 536
>3rg2_A Enterobactin synthase component E (ENTE), 2,3-DIH dihydroxybenzoate
synthetase, isochroismatase...; adenylate-forming
enzymes, ANL superfamily; HET: SVS PNS; 3.10A
{Escherichia coli}
Length = 617
Score = 105 bits (265), Expect = 7e-28
Identities = 33/133 (24%), Positives = 59/133 (44%), Gaps = 28/133 (21%)
Query: 2 LDDDGWLHTGDLAYRLPDGTHFI--------------ISPCELESIFRQHPDVEDVAVIG 47
D +G+ +GDL P+G + I+ E+E++ +HP V A++
Sbjct: 407 FDANGFYCSGDLISIDPEGYITVQGREKDQINRGGEKIAAEEIENLLLRHPAVIYAALVS 466
Query: 48 IPHDVFGELPAAVVVPKPNSSVTAEEVKQFVEDQV-----NPSKRLSGGVFLCSFDFIPR 102
+ ++ GE A +V K + A +V++F+ +Q P R+ + S P
Sbjct: 467 MEDELMGEKSCAYLVVKE--PLRAVQVRRFLREQGIAEFKLP-DRV---ECVDSL---PL 517
Query: 103 TMSGKVKRKDLNE 115
T GKV +K L +
Sbjct: 518 TAVGKVDKKQLRQ 530
>1mdb_A 2,3-dihydroxybenzoate-AMP ligase; adenylation domain, peptide
synthetase, antibiotic biosynthesis, siderophore
formation; HET: AMP DBH; 2.15A {Bacillus subtilis} SCOP:
e.23.1.1 PDB: 1md9_A* 1mdf_A
Length = 539
Score = 104 bits (262), Expect = 1e-27
Identities = 35/133 (26%), Positives = 58/133 (43%), Gaps = 27/133 (20%)
Query: 2 LDDDGWLHTGDLAYRLPDGTHFI--------------ISPCELESIFRQHPDVEDVAVIG 47
+DG+ TGD+ DG + ++ E+E+ HP V D A++
Sbjct: 403 FTEDGFYRTGDIVRLTRDGYIVVEGRAKDQINRGGEKVAAEEVENHLLAHPAVHDAAMVS 462
Query: 48 IPHDVFGELPAAVVVPKPNSSVTAEEVKQFVEDQV-----NPSKRLSGGVFLCSFDFIPR 102
+P GE ++P+ + A E+K F+ ++ P R+ F+ SF P+
Sbjct: 463 MPDQFLGERSCVFIIPRDE-APKAAELKAFLRERGLAAYKIP-DRV---EFVESF---PQ 514
Query: 103 TMSGKVKRKDLNE 115
T GKV +K L E
Sbjct: 515 TGVGKVSKKALRE 527
>1v25_A Long-chain-fatty-acid-COA synthetase; ligase, structural genomics,
riken structural genomics/proteomics initiative, RSGI;
HET: ANP; 2.30A {Thermus thermophilus} SCOP: e.23.1.1
PDB: 1ult_A* 1v26_A*
Length = 541
Score = 98.4 bits (246), Expect = 3e-25
Identities = 37/128 (28%), Positives = 57/128 (44%), Gaps = 21/128 (16%)
Query: 2 LDDDGWLHTGDLAYRLPDGTHFI----------------ISPCELESIFRQHPDVEDVAV 45
L DG+ TGD+A +G ++ IS +LE+ HP V++ AV
Sbjct: 408 LTPDGFFRTGDIAVWDEEG--YVEIKDRLKDLIKSGGEWISSVDLENALMGHPKVKEAAV 465
Query: 46 IGIPHDVFGELPAAVVVPKPNSSVTAEEVKQFVEDQVNPSKRLSGGVFLCSFDFIPRTMS 105
+ IPH + E P AVVVP+ E + ++ + VF + IPRT +
Sbjct: 466 VAIPHPKWQERPLAVVVPRGEKPTPEELNEHLLKAGFAKWQLPDAYVFA---EEIPRTSA 522
Query: 106 GKVKRKDL 113
GK ++ L
Sbjct: 523 GKFLKRAL 530
>2v7b_A Benzoate-coenzyme A ligase; benzoate oxidation, benzoate COA
ligase; 1.84A {Burkholderia xenovorans}
Length = 529
Score = 91.9 bits (229), Expect = 5e-23
Identities = 41/126 (32%), Positives = 62/126 (49%), Gaps = 21/126 (16%)
Query: 5 DGWLHTGDLAYRLPDGTHFI--------------ISPCELESIFRQHPDVEDVAVIGIPH 50
W+ +GD RLP+G + +SP E+E + QH V + AV+G+ H
Sbjct: 405 GEWIRSGDKYCRLPNGCYVYAGRSDDMLKVSGQYVSPVEVEMVLVQHDAVLEAAVVGVDH 464
Query: 51 DVFGELPAAVVVPKPN---SSVTAEEVKQFVEDQVNPSKRLSGGVFLCSFDFIPRTMSGK 107
A VV K S + AEE+K FV+D++ P K VF+ D +P+T +GK
Sbjct: 465 GG-LVKTRAFVVLKREFAPSEILAEELKAFVKDRLAPHKYPRDIVFV---DDLPKTATGK 520
Query: 108 VKRKDL 113
++R L
Sbjct: 521 IQRFKL 526
>3c5e_A Acyl-coenzyme A synthetase ACSM2A, mitochondrial; middle-chain
acyl-COA synthetase, xenobiotic/medium-chain FA COA
ligase; HET: ATP; 1.60A {Homo sapiens} PDB: 2vze_A
3b7w_A* 3day_A* 3eq6_A* 3eyn_A* 3gpc_A* 2wd9_A*
Length = 570
Score = 83.5 bits (207), Expect = 4e-20
Identities = 34/128 (26%), Positives = 54/128 (42%), Gaps = 22/128 (17%)
Query: 5 DGWLHTGDLAYRLPDGT-HFI-------------ISPCELESIFRQHPDVEDVAVIGIPH 50
+ GD + DG F+ I P E+E+ +HP V + AVI P
Sbjct: 432 GDFWLLGDRGIKDEDGYFQFMGRADDIINSSGYRIGPSEVENALMEHPAVVETAVISSPD 491
Query: 51 DVFGELPAAVVVPKP-----NSSVTAEEVKQFVEDQVNPSKRLSGGVFLCSFDFIPRTMS 105
V GE+ A VV + +E++Q V+ P K F+ +P+T++
Sbjct: 492 PVRGEVVKAFVVLASQFLSHDPEQLTKELQQHVKSVTAPYKYPRKIEFV---LNLPKTVT 548
Query: 106 GKVKRKDL 113
GK++R L
Sbjct: 549 GKIQRAKL 556
>3etc_A AMP-binding protein; adenylate-forming acyl-COA synthetase ligase,
ligase; HET: PGE 1PE EPE; 2.10A {Methanosarcina
acetivorans}
Length = 580
Score = 77.2 bits (191), Expect = 7e-18
Identities = 37/126 (29%), Positives = 62/126 (49%), Gaps = 20/126 (15%)
Query: 5 DGWLHTGDLAYRLPDG-THFI-------------ISPCELESIFRQHPDVEDVAVIGIPH 50
DG+ HTGD+A+ DG F+ + P E+ES QHP V + A+ G+P
Sbjct: 451 DGYYHTGDMAWMDEDGYLWFVGRADDIIKTSGYKVGPFEVESALIQHPAVLECAITGVPD 510
Query: 51 DVFGELPAAVVVPKPN---SSVTAEEVKQFVEDQVNPSKRLSGGVFLCSFDFIPRTMSGK 107
V G++ A +V + S E++ V++ P K F+ +P+T+SGK
Sbjct: 511 PVRGQVIKATIVLTKDYTPSDSLKNELQDHVKNVTAPYKYPRIIEFV---PELPKTISGK 567
Query: 108 VKRKDL 113
++R ++
Sbjct: 568 IRRVEI 573
>3gqw_A Fatty acid AMP ligase; FAAL, E. coli, ATP-dependent binding enzyme
family,, structural genomics, PSI-2, protein structure
initiative; HET: ZZ9; 3.00A {Escherichia coli O6} PDB:
3pbk_A*
Length = 576
Score = 54.2 bits (131), Expect = 7e-10
Identities = 28/125 (22%), Positives = 46/125 (36%), Gaps = 21/125 (16%)
Query: 2 LDDDGWLHTGDLAYRLPDGTHFI--------------ISPCELESIFRQHPDVE--DVAV 45
+ GWL TGDL Y L DG ++ I P ++E I Q P++ D
Sbjct: 435 IAATGWLDTGDLGY-LLDGYLYVTGRIKDLIIIRGRNIWPQDIEYIAEQEPEIHSGDAIA 493
Query: 46 IGIPHDVFGELPAAVVVPKPNSSVTAEEVKQFVEDQVNPSKRLSGGVFLCSFDFIPRTMS 105
E + + + ++ + ++ ++ + L IPRT S
Sbjct: 494 FVTA----QEKIILQIQCRISDEERRGQLIHALAARIQSEFGVTAAIDLLPPHSIPRTSS 549
Query: 106 GKVKR 110
GK R
Sbjct: 550 GKPAR 554
>1amu_A GRSA, gramicidin synthetase 1; peptide synthetase, adenylate
forming; HET: PHE AMP; 1.90A {Brevibacillus brevis}
SCOP: e.23.1.1
Length = 563
Score = 51.7 bits (125), Expect = 5e-09
Identities = 33/126 (26%), Positives = 49/126 (38%), Gaps = 35/126 (27%)
Query: 10 TGDLAYRLPDGT--------H------FIISPCELESIFRQHPDVEDVAVIGIPHDVFGE 55
TGD A L DG + + E+ESI +H + + AV D +
Sbjct: 411 TGDQARWLSDGNIEYLGRIDNQVKIRGHRVELEEVESILLKHMYISETAVSVHK-DHQEQ 469
Query: 56 --LPAAVVVPKPNSSVTAEEVKQFVEDQVNPSKRL------SGGVFLCSFDFIPRTMSGK 107
L A V + E+++QF S+ L S + L D +P T +GK
Sbjct: 470 PYLCAYFV---SEKHIPLEQLRQFS------SEELPTYMIPSYFIQL---DKMPLTSNGK 517
Query: 108 VKRKDL 113
+ RK L
Sbjct: 518 IDRKQL 523
>1pg4_A Acetyl-COA synthetase; AMP-forming, adenylate-forming,
thioester-forming, ligase; HET: COA PRX; 1.75A
{Salmonella enterica} SCOP: e.23.1.1 PDB: 1pg3_A*
2p2f_A* 2p2b_A* 2p2q_A* 2p2j_A* 2p20_A* 2p2m_A*
Length = 652
Score = 51.0 bits (123), Expect = 9e-09
Identities = 33/129 (25%), Positives = 51/129 (39%), Gaps = 32/129 (24%)
Query: 5 DGWLHTGDLAYRLPDGTHFI--------------ISPCELESIFRQHPDVEDVAVIGIPH 50
+GD A R DG ++I + E+ES HP + + AV+GIPH
Sbjct: 493 KNMYFSGDGARRDEDGYYWITGRVDDVLNVSGHRLGTAEIESALVAHPKIAEAAVVGIPH 552
Query: 51 DVFGELPAAVVVPKPNSSVTAE---EVKQFVEDQVNPSKRLSGGVFLCSFDFI------P 101
+ G+ A V + E EV+ +V ++ P D + P
Sbjct: 553 AIKGQAIYAYVTLNHGEEPSPELYAEVRNWVRKEIGPLATP---------DVLHWTDSLP 603
Query: 102 RTMSGKVKR 110
+T SGK+ R
Sbjct: 604 KTRSGKIMR 612
>2vsq_A Surfactin synthetase subunit 3; ligase, peptidyl carrier protein,
ligase phosphoprotein, TER module, phosphopantetheine;
2.60A {Bacillus subtilis}
Length = 1304
Score = 49.2 bits (118), Expect = 4e-08
Identities = 35/126 (27%), Positives = 55/126 (43%), Gaps = 35/126 (27%)
Query: 10 TGDLAYRLPDGT-HFI-------------ISPCELESIFRQHPDVEDVAVIGIPHDVFGE 55
TGDLA LPDGT + I E+E +++P V+D V+ G+
Sbjct: 842 TGDLARWLPDGTIEYAGRIDDQVKIRGHRIELEEIEKQLQEYPGVKDAVVV-ADRHESGD 900
Query: 56 --LPAAVVVPKPNSSVTAEEVKQFVEDQVNPSKRL------SGGVFLCSFDFIPRTMSGK 107
+ A +V + ++AE+VK + K+L FL D +P T +GK
Sbjct: 901 ASINAYLV---NRTQLSAEDVKAHL------KKQLPAYMVPQTFTFL---DELPLTTNGK 948
Query: 108 VKRKDL 113
V ++ L
Sbjct: 949 VNKRLL 954
>1ry2_A Acetyl-coenzyme A synthetase 1, acyl-activating enzyme 1; AMP
forming, related to firefly luciferase, ligase; HET:
AMP; 2.30A {Saccharomyces cerevisiae} SCOP: e.23.1.1
Length = 663
Score = 48.3 bits (116), Expect = 8e-08
Identities = 33/131 (25%), Positives = 49/131 (37%), Gaps = 39/131 (29%)
Query: 10 TGDLAYRLPDGTHFI--------------ISPCELESIFRQHPDVEDVAVIGIPHDVFGE 55
TGD A + DG +I +S E+E+ + P V + AV+G D+ G+
Sbjct: 507 TGDGAAKDKDGYIWILGRVDDVVNVSGHRLSTAEIEAAIIEDPIVAECAVVGFNDDLTGQ 566
Query: 56 LPAAVVVPKPNSSVT----------AEEVKQFVEDQVNPSKRLSGGVFLCSFDFI----- 100
AA VV K SS + + + V + P I
Sbjct: 567 AVAAFVVLKNKSSWSTATDDELQDIKKHLVFTVRKDIGPFAAP---------KLIILVDD 617
Query: 101 -PRTMSGKVKR 110
P+T SGK+ R
Sbjct: 618 LPKTRSGKIMR 628
>3l8c_A D-alanine--poly(phosphoribitol) ligase subunit 1; structural
genomics, DLTA, ATP-binding, cytoplasm,
nucleotide-binding; 2.41A {Streptococcus pyogenes
serotype M6} PDB: 3lgx_A*
Length = 521
Score = 47.9 bits (115), Expect = 1e-07
Identities = 22/134 (16%), Positives = 40/134 (29%), Gaps = 39/134 (29%)
Query: 9 HTGDLAYRLPDGT-HFI-------------ISPCELESIFRQHPDVEDVAVIGIPHDVFG 54
HTGD+ D + I ++ Q P V + ++
Sbjct: 383 HTGDIGSLTEDNILLYGGRLDFQIKYAGYRIELEDVSQQLNQSPMVASAVAV-PRYNKEH 441
Query: 55 ELP--AAVVVPKPNSSVT-------AEEVKQFVEDQVNPSKRL------SGGVFLCSFDF 99
++ A +V K + +K V + S ++ D
Sbjct: 442 KVQNLLAYIVVKDGVKERFDRELELTKAIKASV------KDHMMSYMMPSKFLYR---DS 492
Query: 100 IPRTMSGKVKRKDL 113
+P T +GK+ K L
Sbjct: 493 LPLTPNGKIDIKTL 506
>3kxw_A Saframycin MX1 synthetase B; fatty acid AMP ligase, SGX, acyl
adenylate, structural genom 2, protein structure
initiative; HET: 1ZZ; 1.85A {Legionella pneumophila
subsp} PDB: 3lnv_A*
Length = 590
Score = 46.1 bits (110), Expect = 4e-07
Identities = 23/127 (18%), Positives = 43/127 (33%), Gaps = 20/127 (15%)
Query: 3 DDDGWLHTGDLAYRLPDGTHFI--------------ISPCELE-SIFRQHPDVE--DVAV 45
+L TGDL + L + ++ P ++E S+ A
Sbjct: 433 RSAIYLRTGDLGF-LHENELYVTGRIKDLIIIYGKNHYPQDIEFSLMHSPLHHVLGKCAA 491
Query: 46 IGIPHDVFGELPAAVVVPKPNSS-VTAEEVKQFVEDQVNPSKRLS-GGVFLCSFDFIPRT 103
I + +L V V + + + + V + +L + L +P T
Sbjct: 492 FVIQEEHEYKLTVMCEVKNRFMDDVAQDNLFNEIFELVYENHQLEVHTIVLIPLKAMPHT 551
Query: 104 MSGKVKR 110
SGK++R
Sbjct: 552 TSGKIRR 558
>4dg8_A PA1221; ANL superfamily, adenylation domain, peptidyl carrier
protei ribosomal peptide synthetase, NRPS, valine
adenylation, LIG; HET: AMP; 2.15A {Pseudomonas
aeruginosa} PDB: 4dg9_A*
Length = 620
Score = 46.0 bits (110), Expect = 5e-07
Identities = 26/124 (20%), Positives = 41/124 (33%), Gaps = 36/124 (29%)
Query: 10 TGDLAYRLPDGT-HFI-------------ISPCELESIFRQHPDVEDVAVIGIPHDVFGE 55
TGD A G FI + LE FR+ P + D A++ + +
Sbjct: 400 TGDRARYDEQGRLRFIGRGDGQVKLNGYRLDLPALEQRFRRQPGILDCALLVRERNGVKQ 459
Query: 56 LPAAVVVPKPNSSVTAEEVKQFVEDQVNPSKRL------SGGVFLCSFDFIPRTMSGKVK 109
L A A+ Q + ++L V + + +P T GK+
Sbjct: 460 LLCAWTGK-------ADASPQAL------LRQLPTWQRPHACVRV---EALPLTAHGKLD 503
Query: 110 RKDL 113
R L
Sbjct: 504 RAAL 507
>3ite_A SIDN siderophore synthetase; ligase, non-ribosomal peptide
synthesis, NRPS, sidna3, fungal, endophyte; HET: MSE;
2.00A {Neotyphodium lolii}
Length = 562
Score = 43.4 bits (103), Expect = 4e-06
Identities = 22/140 (15%), Positives = 35/140 (25%), Gaps = 46/140 (32%)
Query: 10 TGDLAYRLPDGT-HFI-------------ISPCELESIFRQHPDVEDVAVI---GIPHDV 52
TGD+ D + F+ + E+ + R + V P
Sbjct: 408 TGDIVRMDADSSILFLGRKDEQVKVRGQRLELGEVSEVIRSLSPTDIDVVTLLLNHPGTS 467
Query: 53 FGELPAAVVVPKP------------NSSVTAEEVKQFVEDQVNPSKRL------SGGVFL 94
L + V N ++Q + L + +
Sbjct: 468 KQFL-VSFVASSGAAVRGELRWINENYKEINNSLRQAC------EQTLPAYMVPDFIIPI 520
Query: 95 CSFDFIP-RTMSGKVKRKDL 113
FIP R S K K L
Sbjct: 521 ---SFIPLRDTSAKTDAKAL 537
>3fce_A D-alanine--poly(phosphoribitol) ligase subunit 1; DLTA, AMP-forming
domain, adenylation, D-alanine protein ligase, ATP
complex; HET: ATP; 1.90A {Bacillus cereus} PDB: 3fcc_A*
3dhv_A*
Length = 512
Score = 42.1 bits (100), Expect = 1e-05
Identities = 30/130 (23%), Positives = 46/130 (35%), Gaps = 38/130 (29%)
Query: 10 TGDLAYRLPDGT--------H------FIISPCELESIFRQHPDVEDVAVIGIPHDVFGE 55
TGD Y + +G + + E+E R VE ++ I
Sbjct: 381 TGDAGY-VENGLLFYNGRLDFQIKLHGYRMELEEIEHHLRACSYVEGAVIVPI-KKGEKY 438
Query: 56 --LPAAVVVPKPNSSV----TAEEVKQFVEDQVNPSKRL------SGGVFLCSFDFIPRT 103
L AVVVP +S +K+ + ++RL ++ IP T
Sbjct: 439 DYL-LAVVVPGEHSFEKEFKLTSAIKKEL------NERLPNYMIPRKFMYQ---SSIPMT 488
Query: 104 MSGKVKRKDL 113
+GKV RK L
Sbjct: 489 PNGKVDRKKL 498
>3e7w_A D-alanine--poly(phosphoribitol) ligase subunit 1; DLTA,
non-ribosomal peptide synthetase, NRPS, adenylation
domain, D-alanylation; HET: AMP; 2.28A {Bacillus
subtilis} PDB: 3e7x_A*
Length = 511
Score = 40.9 bits (97), Expect = 3e-05
Identities = 25/130 (19%), Positives = 42/130 (32%), Gaps = 38/130 (29%)
Query: 10 TGDLAYRLPDGT--------H------FIISPCELESIFRQHPDVEDVAVIGIPHDVFGE 55
TGD + + DG + + E+E RQ V VI
Sbjct: 380 TGDAGF-IQDGQIFCQGRLDFQIKLHGYRMELEEIEFHVRQSQYVRSAVVI-PYQPNGTV 437
Query: 56 --LPAAVVVPKPNSSV----TAEEVKQFVEDQVNPSKRL------SGGVFLCSFDFIPRT 103
L A +VP+ + +K+ + + L ++ D I T
Sbjct: 438 EYL-IAAIVPEEHEFEKEFQLTSAIKKEL------AASLPAYMIPRKFIYQ---DHIQMT 487
Query: 104 MSGKVKRKDL 113
+GK+ RK +
Sbjct: 488 ANGKIDRKRI 497
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 33.3 bits (75), Expect = 0.013
Identities = 20/129 (15%), Positives = 40/129 (31%), Gaps = 41/129 (31%)
Query: 12 DL-AYRLPDGTHFIISPCELESIFRQHPDVEDVAVIGIPHDVFGELPAAVVVPKPNSSVT 70
+ + D I+S E++ I V + F L + K
Sbjct: 32 NFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRL------FWTL-----LSKQEEM-- 78
Query: 71 AEEVKQFVEDQVNPSKRLSGGVFLCSFDFI-------PRTMSGKVKR------KDLNETK 117
V++FVE+ + ++ F+ R S + + N+ +
Sbjct: 79 ---VQKFVEEVLRI-----------NYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ 124
Query: 118 VMRHDDVTR 126
V +V+R
Sbjct: 125 VFAKYNVSR 133
>3t5a_A Long-chain-fatty-acid--AMP ligase FADD28; acetyl-COA synthetase
like fold, AMP-binding; 2.05A {Mycobacterium
tuberculosis} PDB: 3e53_A
Length = 480
Score = 30.1 bits (68), Expect = 0.18
Identities = 7/18 (38%), Positives = 10/18 (55%), Gaps = 1/18 (5%)
Query: 3 DDDGWLHTGDLAYRLPDG 20
+ WL TGD + + DG
Sbjct: 457 PEGPWLRTGDSGF-VTDG 473
>3kuz_A Plexin-C1; structural genomics, structural genomics consortium,
SGC; 2.30A {Homo sapiens}
Length = 126
Score = 26.4 bits (58), Expect = 2.0
Identities = 14/96 (14%), Positives = 36/96 (37%), Gaps = 1/96 (1%)
Query: 31 ESIFRQHPDVEDVAVIGIPHDVFGELPAAVVVPKPNSSVTAEEVKQFVEDQVNPSKRLSG 90
E+++ Q +V IP + ++ + V T + K+ +
Sbjct: 12 ENLYFQGTVALNVVFEKIPENESADVCRNISV-NVLDCDTIGQAKEKIFQAFLSKNGSPY 70
Query: 91 GVFLCSFDFIPRTMSGKVKRKDLNETKVMRHDDVTR 126
G+ L + + + + D++ + V+ D +T+
Sbjct: 71 GLQLNEIGLELQMGTRQKELLDIDSSSVILEDGITK 106
>2z4i_A Copper homeostasis protein CUTF; outer memblane lipoprotein, beta
barrel, OB-fold, 3D domain swapping, signaling protein
activator; HET: P6G; 2.60A {Escherichia coli} PDB:
2z4h_A*
Length = 233
Score = 26.2 bits (57), Expect = 2.7
Identities = 9/41 (21%), Positives = 15/41 (36%), Gaps = 1/41 (2%)
Query: 1 MLDDDGWLHTGDLAYRL-PDGTHFIISPCELESIFRQHPDV 40
MLD +G Y L + ++P L ++ D
Sbjct: 99 MLDREGNPIESQFNYTLEAAQSSLPMTPMTLRGMYFYMADA 139
>2d00_A V-type ATP synthase subunit F; V-ATPase, CHEY, FRET, hydrolase;
2.20A {Thermus thermophilus} SCOP: c.149.1.1 PDB:
3a5c_H* 3a5d_H 3j0j_H*
Length = 109
Score = 25.1 bits (55), Expect = 4.5
Identities = 8/76 (10%), Positives = 25/76 (32%), Gaps = 13/76 (17%)
Query: 21 THFIISPCELESIFRQHPDVEDVAVIGIPHDVFGE-------------LPAAVVVPKPNS 67
+ S E +S+ + A++ + + + LP + +
Sbjct: 25 GYGASSAEEAQSLLETLVERGGYALVAVDEALLPDPERAVERLMRGRDLPVLLPIAGLKE 84
Query: 68 SVTAEEVKQFVEDQVN 83
+ +V+ ++ + V
Sbjct: 85 AFQGHDVEGYMRELVR 100
>2z69_A DNR protein; beta barrel, dimerization helix, transcription
regulator; 2.10A {Pseudomonas aeruginosa}
Length = 154
Score = 25.3 bits (56), Expect = 4.8
Identities = 7/30 (23%), Positives = 12/30 (40%), Gaps = 3/30 (10%)
Query: 43 VAVIGIPHDVFGELPAAVVVPKPNSSVTAE 72
+ V + F E + + PN TA+
Sbjct: 78 LEVTN-ERNTFAEA--MMFMDTPNYVATAQ 104
>2arc_A ARAC, arabinose operon regulatory protein; transcription factor,
carbohydrate binding, coiled-coil, jelly roll; HET:
ARA; 1.50A {Escherichia coli} SCOP: b.82.4.1 PDB:
2aac_A* 1xja_A 2ara_A
Length = 164
Score = 25.4 bits (55), Expect = 5.2
Identities = 4/24 (16%), Positives = 7/24 (29%)
Query: 6 GWLHTGDLAYRLPDGTHFIISPCE 29
G + + G + P E
Sbjct: 49 GVVKNQGREFVCRPGDILLFPPGE 72
>3nul_A Profilin I; cytoskeleton, actin binding protein; HET: MSE; 1.60A
{Arabidopsis thaliana} SCOP: d.110.1.1 PDB: 1a0k_A
1cqa_A 1g5u_A
Length = 130
Score = 25.4 bits (55), Expect = 5.4
Identities = 6/34 (17%), Positives = 13/34 (38%)
Query: 68 SVTAEEVKQFVEDQVNPSKRLSGGVFLCSFDFIP 101
+ +E+ +D P G+FL ++
Sbjct: 40 QLKPQEIDGIKKDFEEPGFLAPTGLFLGGEKYMV 73
>3u28_C H/ACA ribonucleoprotein complex subunit 1; pseudouridine synthase,
pseudouridylation, H/ACA RNA; 1.90A {Saccharomyces
cerevisiae} PDB: 3uai_C
Length = 114
Score = 24.9 bits (54), Expect = 5.6
Identities = 12/54 (22%), Positives = 19/54 (35%)
Query: 41 EDVAVIGIPHDVFGELPAAVVVPKPNSSVTAEEVKQFVEDQVNPSKRLSGGVFL 94
E+ +G ++ G L K V A K+ + + K L FL
Sbjct: 60 ENKTQVGKVDEILGPLNEVFFTIKCGDGVQATSFKEGDKFYIAADKLLPIERFL 113
>2a0m_A Arginase superfamily protein; structural genomics, PSI, protein
structure initia structural genomics of pathogenic
protozoa consortium; 1.60A {Trypanosoma cruzi} SCOP:
c.42.1.1
Length = 316
Score = 24.9 bits (55), Expect = 8.0
Identities = 7/34 (20%), Positives = 14/34 (41%), Gaps = 4/34 (11%)
Query: 22 HFIISPCELESIFR--QHPDVE--DVAVIGIPHD 51
H + + + + E D+ +IG P+D
Sbjct: 7 HHMAARTDDPRLLSLFSAQREEDADIVIIGFPYD 40
>3m1r_A Formimidoylglutamase; structural genomics, PSI-2, protein
structure initiative, midwest center for structural
genomics, MCSG; HET: CAC; 2.20A {Bacillus subtilis}
Length = 322
Score = 24.9 bits (55), Expect = 8.1
Identities = 5/13 (38%), Positives = 9/13 (69%)
Query: 39 DVEDVAVIGIPHD 51
D++ A+IG+P
Sbjct: 36 DIKGPALIGVPLS 48
>3niq_A 3-guanidinopropionase; GPUA, hydrolase; 2.07A {Pseudomonas
aeruginosa} PDB: 3nip_A
Length = 326
Score = 24.9 bits (55), Expect = 8.8
Identities = 5/10 (50%), Positives = 7/10 (70%)
Query: 42 DVAVIGIPHD 51
V +IG+P D
Sbjct: 36 QVGLIGVPWD 45
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.320 0.139 0.422
Gapped
Lambda K H
0.267 0.0789 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,086,743
Number of extensions: 120833
Number of successful extensions: 500
Number of sequences better than 10.0: 1
Number of HSP's gapped: 446
Number of HSP's successfully gapped: 68
Length of query: 126
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 44
Effective length of database: 4,412,271
Effective search space: 194139924
Effective search space used: 194139924
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: 51 (23.3 bits)