RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5015
(94 letters)
>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 = 129 bits (327), Expect = 3e-37
Identities = 28/81 (34%), Positives = 44/81 (54%), Gaps = 1/81 (1%)
Query: 14 VLREDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGIS 73
L DGY V GR KD I RGGE + +E+E + HP V +A +PD+ +GE +
Sbjct: 416 RLTRDGYIVVEGRAKDQINRGGEKVAAEEVENHLLAHPAVHDAAMVSMPDQFLGERSCVF 475
Query: 74 IKLKENAKLNADDIRTFCKGK 94
I ++ A A +++ F + +
Sbjct: 476 IIPRDEA-PKAAELKAFLRER 495
>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 = 127 bits (322), Expect = 1e-36
Identities = 32/80 (40%), Positives = 47/80 (58%)
Query: 14 VLREDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGIS 73
V +G +++GR+ DMII GGENI+P EIE + T P V E G+ D+R G+ V
Sbjct: 388 VWTPEGTVRILGRVDDMIISGGENIHPSEIERVLGTAPGVTEVVVIGLADQRWGQSVTAC 447
Query: 74 IKLKENAKLNADDIRTFCKG 93
+ + L+AD + TFC+
Sbjct: 448 VVPRLGETLSADALDTFCRS 467
>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 = 126 bits (318), Expect = 6e-36
Identities = 29/81 (35%), Positives = 38/81 (46%)
Query: 14 VLREDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGIS 73
DG +VVGRIKD I RGGE I +EIE+ I HP V+ A + DE+ GE+
Sbjct: 425 QRTPDGNLRVVGRIKDQINRGGEKIASEEIEKLILLHPEVMHAALVAIVDEQFGEKSCAF 484
Query: 74 IKLKENAKLNADDIRTFCKGK 94
I + R +
Sbjct: 485 IVSRNPELKAVVLRRHLMELG 505
>4fuq_A Malonyl COA synthetase; ANL superfamily, methylma malonate, ligase;
HET: MSE; 1.70A {Rhodopseudomonas palustris} PDB:
4fut_A*
Length = 503
Score = 125 bits (316), Expect = 8e-36
Identities = 29/78 (37%), Positives = 42/78 (53%)
Query: 17 EDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGISIKL 76
E GY ++GR KD++I GG N+YPKEIE I P V+E+ GVP GE V +
Sbjct: 388 ERGYVHILGRGKDLVITGGFNVYPKEIESEIDAMPGVVESAVIGVPHADFGEGVTAVVVR 447
Query: 77 KENAKLNADDIRTFCKGK 94
+ A ++ + G+
Sbjct: 448 DKGATIDEAQVLHGLDGQ 465
>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 = 125 bits (317), Expect = 1e-35
Identities = 30/81 (37%), Positives = 43/81 (53%), Gaps = 2/81 (2%)
Query: 14 VLREDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGIS 73
+ +GY V GR KD I RGGE I +EIE + HP V+ A + DE MGE+
Sbjct: 420 SIDPEGYITVQGREKDQINRGGEKIAAEEIENLLLRHPAVIYAALVSMEDELMGEKSCAY 479
Query: 74 IKLKENAKLNADDIRTFCKGK 94
+ +KE + A +R F + +
Sbjct: 480 LVVKEPLR--AVQVRRFLREQ 498
>3ipl_A 2-succinylbenzoate--COA ligase; structural genomics, acyl-protein
synthetase, PSI-2, protein structure initiative; 2.30A
{Staphylococcus aureus subsp}
Length = 501
Score = 114 bits (287), Expect = 1e-31
Identities = 22/78 (28%), Positives = 38/78 (48%), Gaps = 2/78 (2%)
Query: 17 EDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGISIKL 76
+GY + R KD+II GGENIYP +IE + P + +A G PD+ G+ +
Sbjct: 387 HEGYVMIYDRRKDLIISGGENIYPYQIETVAKQFPGISDAVCVGHPDDTWGQVPKLYFVS 446
Query: 77 KENAKLNADDIRTFCKGK 94
+ + ++ + +
Sbjct: 447 ESD--ISKAQLIAYLSKH 462
>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 = 111 bits (281), Expect = 8e-31
Identities = 27/80 (33%), Positives = 39/80 (48%), Gaps = 2/80 (2%)
Query: 17 EDGYGQVVGRI--KDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGISI 74
DGY GR K++I GGEN+YP E+E ++ HP + +A GVPD + E +
Sbjct: 387 ADGYLFYAGRAPEKELIKTGGENVYPAEVEGALKQHPAIADAVVIGVPDPQWSEAIKAVC 446
Query: 75 KLKENAKLNADDIRTFCKGK 94
K + AD + F
Sbjct: 447 VCKPGESIAADALAEFVASL 466
>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 = 110 bits (277), Expect = 2e-30
Identities = 28/86 (32%), Positives = 37/86 (43%), Gaps = 2/86 (2%)
Query: 11 DQFVLREDGYGQVVGR-IKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEE 69
D V DGY ++VGR D+I GG I EIE + HP V EA G PD +GE
Sbjct: 388 DMAVRDPDGYVRIVGRKATDLIKSGGYKIGAGEIENALLEHPEVREAAVTGEPDPDLGER 447
Query: 70 VGISIKLKE-NAKLNADDIRTFCKGK 94
+ I + A + +
Sbjct: 448 IVAWIVPADPAAPPALGTLADHVAAR 473
>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 (276), Expect = 4e-30
Identities = 29/78 (37%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 17 EDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGISIKL 76
++GY + R+KDMII GGEN+YP EIE I P V E G+PDE+ GE +
Sbjct: 402 DEGYLYIKDRLKDMIISGGENVYPAEIESVIIGVPGVSEVAVIGLPDEKWGEIAAAIVVA 461
Query: 77 KENAKLNADDIRTFCKGK 94
+ +++ I +C +
Sbjct: 462 DQ-NEVSEQQIVEYCGTR 478
>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 = 100 bits (252), Expect = 1e-26
Identities = 24/80 (30%), Positives = 39/80 (48%), Gaps = 2/80 (2%)
Query: 17 EDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGISIKL 76
E+G+ R+K++I G I P E+E + H V++ G PDE GE I L
Sbjct: 428 EEGFLHFQDRVKEVIKYKGYTIAPFELEALLMKHEAVMDVAVIGKPDEEAGEVPKAFIVL 487
Query: 77 KEN--AKLNADDIRTFCKGK 94
K K++ +DI + + +
Sbjct: 488 KPEYRGKVDEEDIIEWVRER 507
>2v7b_A Benzoate-coenzyme A ligase; benzoate oxidation, benzoate COA
ligase; 1.84A {Burkholderia xenovorans}
Length = 529
Score = 97.3 bits (243), Expect = 2e-25
Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 4/87 (4%)
Query: 11 DQFVLREDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEV 70
D++ +G GR DM+ G+ + P E+E + H VLEA GV +
Sbjct: 412 DKYCRLPNGCYVYAGRSDDMLKVSGQYVSPVEVEMVLVQHDAVLEAAVVGVDHGG-LVKT 470
Query: 71 GISIKLKENAK---LNADDIRTFCKGK 94
+ LK + A++++ F K +
Sbjct: 471 RAFVVLKREFAPSEILAEELKAFVKDR 497
>3ni2_A 4-coumarate:COA ligase; 4CL, phenylpropanoid biosynthesis; HET: AYL
EPE; 1.90A {Populus tomentosa} PDB: 3a9v_A* 3a9u_A*
Length = 536
Score = 94.9 bits (237), Expect = 1e-24
Identities = 20/78 (25%), Positives = 38/78 (48%)
Query: 17 EDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGISIKL 76
+D +V R+K++I G + P E+E + HP + +A G+ DE GE +
Sbjct: 423 DDDELFIVDRLKELIKYKGFQVAPAELEALLIAHPEISDAAVVGLKDEDAGEVPVAFVVK 482
Query: 77 KENAKLNADDIRTFCKGK 94
E ++ D+I+ + +
Sbjct: 483 SEKSQATEDEIKQYISKQ 500
>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 = 94.6 bits (236), Expect = 1e-24
Identities = 20/78 (25%), Positives = 38/78 (48%)
Query: 17 EDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGISIKL 76
E+ + +V R+K +I G + P E+E + HP++ +A GVPD GE G + L
Sbjct: 430 EEKHFFIVDRLKSLIKYKGYQVPPAELESVLLQHPSIFDAGVAGVPDPVAGELPGAVVVL 489
Query: 77 KENAKLNADDIRTFCKGK 94
+ + ++ + +
Sbjct: 490 ESGKNMTEKEVMDYVASQ 507
>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 = 93.1 bits (232), Expect = 4e-24
Identities = 21/78 (26%), Positives = 38/78 (48%)
Query: 17 EDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGISIKL 76
ED + +V R+K +I G + P E+E + HPN+ +A G+PD+ GE + L
Sbjct: 428 EDEHFFIVDRLKSLIKYKGYQVAPAELESILLQHPNIFDAGVAGLPDDDAGELPAAVVVL 487
Query: 77 KENAKLNADDIRTFCKGK 94
+ + +I + +
Sbjct: 488 EHGKTMTEKEIVDYVASQ 505
>3tsy_A Fusion protein 4-coumarate--COA ligase 1, resvera synthase;
transferase; 3.10A {Arabidospis thaliana}
Length = 979
Score = 82.0 bits (203), Expect = 4e-20
Identities = 18/78 (23%), Positives = 40/78 (51%)
Query: 17 EDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGISIKL 76
+D +V R+K++I G + P E+E + HP++ + + +E GE +
Sbjct: 470 DDDELFIVDRLKELIKYKGFQVAPAELEALLIGHPDITDVAVVAMKEEAAGEVPVAFVVK 529
Query: 77 KENAKLNADDIRTFCKGK 94
++++L+ DD++ F +
Sbjct: 530 SKDSELSEDDVKQFVSKQ 547
>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 = 79.9 bits (198), Expect = 2e-19
Identities = 21/81 (25%), Positives = 34/81 (41%)
Query: 14 VLREDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGIS 73
V E+GY ++ R+KD+I GGE I ++E + HP V EA +P + E
Sbjct: 421 VWDEEGYVEIKDRLKDLIKSGGEWISSVDLENALMGHPKVKEAAVVAIPHPKWQERPLAV 480
Query: 74 IKLKENAKLNADDIRTFCKGK 94
+ + + K
Sbjct: 481 VVPRGEKPTPEELNEHLLKAG 501
>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 = 61.5 bits (150), Expect = 6e-13
Identities = 18/69 (26%), Positives = 33/69 (47%), Gaps = 6/69 (8%)
Query: 23 VVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAY--AYGVPDERMGEEVGISIKLKENA 80
V GRIKD+II G NI+P++IE + P + A+ E+ + + I+ + +
Sbjct: 456 VTGRIKDLIIIRGRNIWPQDIEYIAEQEPEIHSGDAIAFVTAQEK----IILQIQCRISD 511
Query: 81 KLNADDIRT 89
+ +
Sbjct: 512 EERRGQLIH 520
>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 = 59.2 bits (144), Expect = 4e-12
Identities = 26/87 (29%), Positives = 38/87 (43%), Gaps = 5/87 (5%)
Query: 11 DQFVLREDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEV 70
D+ + EDGY Q +GR D+I G I P E+E + HP V+E PD GE V
Sbjct: 439 DRGIKDEDGYFQFMGRADDIINSSGYRIGPSEVENALMEHPAVVETAVISSPDPVRGEVV 498
Query: 71 GISIKLKENAKLN-----ADDIRTFCK 92
+ L + +++ K
Sbjct: 499 KAFVVLASQFLSHDPEQLTKELQQHVK 525
>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 = 53.9 bits (130), Expect = 4e-10
Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 3/51 (5%)
Query: 23 VVGRIKDMIIRGGENIYPKEIEEFIQ-THPNVLEAY--AYGVPDERMGEEV 70
V GRIKD+II G+N YP++IE + + + + A+ + +E +
Sbjct: 453 VTGRIKDLIIIYGKNHYPQDIEFSLMHSPLHHVLGKCAAFVIQEEHEYKLT 503
>3etc_A AMP-binding protein; adenylate-forming acyl-COA synthetase ligase,
ligase; HET: PGE 1PE EPE; 2.10A {Methanosarcina
acetivorans}
Length = 580
Score = 52.2 bits (126), Expect = 1e-09
Identities = 26/79 (32%), Positives = 40/79 (50%), Gaps = 3/79 (3%)
Query: 17 EDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGISIKL 76
EDGY VGR D+I G + P E+E + HP VLE GVPD G+ + +I L
Sbjct: 464 EDGYLWFVGRADDIIKTSGYKVGPFEVESALIQHPAVLECAITGVPDPVRGQVIKATIVL 523
Query: 77 KENAKLN---ADDIRTFCK 92
++ + ++++ K
Sbjct: 524 TKDYTPSDSLKNELQDHVK 542
>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 = 41.4 bits (98), Expect = 7e-06
Identities = 18/54 (33%), Positives = 28/54 (51%)
Query: 17 EDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEV 70
EDGY + GR+ D++ G + EIE + HP + EA G+P G+ +
Sbjct: 506 EDGYYWITGRVDDVLNVSGHRLGTAEIESALVAHPKIAEAAVVGIPHAIKGQAI 559
>3gxs_A Phenylacetate-coenzyme A ligase; APC62324.1, structural genomics,
PSI-2, protein structure initiative; 1.43A {Bacteroides
vulgatus atcc 8482} PDB: 3lax_A
Length = 109
Score = 40.0 bits (94), Expect = 8e-06
Identities = 13/67 (19%), Positives = 28/67 (41%)
Query: 26 RIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGISIKLKENAKLNAD 85
DMII G NI+P +IE + + Y + +E+ + ++L + +
Sbjct: 2 NADDMIILKGVNIFPIQIETILLQFKELGSDYLITLETAESNDEMTVEVELSQLFTDDYG 61
Query: 86 DIRTFCK 92
++ +
Sbjct: 62 RLQALTR 68
>2y27_A Phenylacetate-coenzyme A ligase; phenylacetic acid degradation
pathway; HET: MSE PG4 ATP; 1.60A {Burkholderia
cenocepacia} PDB: 2y4n_A*
Length = 437
Score = 41.1 bits (97), Expect = 9e-06
Identities = 14/72 (19%), Positives = 32/72 (44%)
Query: 21 GQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGISIKLKENA 80
++ GR DM+I G N++P +IEE + + Y + E + + ++++
Sbjct: 326 EKITGRSDDMMIVRGVNVFPTQIEEQLLKQRALAPHYQIVLTKEGPLDVLTLNVEPCPET 385
Query: 81 KLNADDIRTFCK 92
+ I+ +
Sbjct: 386 APDTAAIQVAKQ 397
>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 = 41.0 bits (97), Expect = 1e-05
Identities = 18/54 (33%), Positives = 27/54 (50%)
Query: 17 EDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEV 70
+DGY ++GR+ D++ G + EIE I P V E G D+ G+ V
Sbjct: 515 KDGYIWILGRVDDVVNVSGHRLSTAEIEAAIIEDPIVAECAVVGFNDDLTGQAV 568
>3qov_A Phenylacetate-coenzyme A ligase; acetyl-COA synthetase-like,
structural genomics, joint cente structural genomics,
JCSG; HET: MSE ADP COA; 2.20A {Bacteroides
thetaiotaomicron} PDB: 3s89_A*
Length = 436
Score = 40.3 bits (95), Expect = 2e-05
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 23 VVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAY 57
+ GR DM I G NI+P ++E+ + P + Y
Sbjct: 326 IKGRSDDMFIIKGVNIFPMQVEKILVQFPELGSNY 360
>2y4o_A Phenylacetate-coenzyme A ligase; phenylacetic acid degradation
pathway; HET: DLL; 1.90A {Burkholderia cenocepacia}
Length = 443
Score = 39.6 bits (93), Expect = 4e-05
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 23 VVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAY 57
+ GR DM+I G N++P +IEE + P + +
Sbjct: 330 ITGRSDDMLIVRGVNVFPSQIEEIVVALPLLSGQF 364
>3ite_A SIDN siderophore synthetase; ligase, non-ribosomal peptide
synthesis, NRPS, sidna3, fungal, endophyte; HET: MSE;
2.00A {Neotyphodium lolii}
Length = 562
Score = 29.9 bits (68), Expect = 0.095
Identities = 15/104 (14%), Positives = 29/104 (27%), Gaps = 36/104 (34%)
Query: 16 REDG---YGQVVGRIKDMI-IRG-----GENIYPKEIEEFIQTHPNVLEA---------- 56
D + +GR + + +RG GE + E I++
Sbjct: 415 DADSSILF---LGRKDEQVKVRGQRLELGE------VSEVIRSLSPTDIDVVTLLLNHPG 465
Query: 57 ------YAYGVPDERMGEEVGISIKLKENAKLNADDIRTFCKGK 94
++ G + EN K + +R C+
Sbjct: 466 TSKQFLVSFVASSG--AAVRGELRWINENYKEINNSLRQACEQT 507
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 28.9 bits (64), Expect = 0.20
Identities = 11/65 (16%), Positives = 18/65 (27%), Gaps = 14/65 (21%)
Query: 25 GRIKDMIIRGG---------E-----NIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEV 70
G + + I GG E Y + + I+ L D
Sbjct: 152 GNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQ 211
Query: 71 GISIK 75
G++I
Sbjct: 212 GLNIL 216
Score = 28.5 bits (63), Expect = 0.34
Identities = 18/66 (27%), Positives = 27/66 (40%), Gaps = 13/66 (19%)
Query: 15 LREDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGISI 74
LR G + RI D IIR + + +F TH +L+ +G P G G+ +
Sbjct: 468 LRVLS-GSISERIVDCIIR--LPVKWETTTQFKATH--ILD---FG-P----GGASGLGV 514
Query: 75 KLKENA 80
N
Sbjct: 515 LTHRNK 520
Score = 26.2 bits (57), Expect = 2.3
Identities = 13/65 (20%), Positives = 19/65 (29%), Gaps = 26/65 (40%)
Query: 22 QVVGRIKDMIIRGGENIYPKEIEEFIQTHP---NVLEAYAYGVPDERMGEEVGISIK--L 76
Q G M G ++Y +T +V A D + G SI +
Sbjct: 1627 QEQG----M----GMDLY--------KTSKAAQDVWNR-A----DNHFKDTYGFSILDIV 1665
Query: 77 KENAK 81
N
Sbjct: 1666 INNPV 1670
Score = 24.2 bits (52), Expect = 8.0
Identities = 7/21 (33%), Positives = 10/21 (47%), Gaps = 2/21 (9%)
Query: 44 EEFIQTHPNVLEAYAYGVPDE 64
E+F + P E +A DE
Sbjct: 35 EQFNKILPEPTEGFAAD--DE 53
>1g6h_A High-affinity branched-chain amino acid transport ATP-binding
protein; beta-core domain; HET: ADP; 1.60A
{Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB:
1gaj_A 1g9x_A*
Length = 257
Score = 27.9 bits (63), Expect = 0.38
Identities = 5/18 (27%), Positives = 10/18 (55%)
Query: 40 PKEIEEFIQTHPNVLEAY 57
+E + + + P V+E Y
Sbjct: 237 GEEEIKNVLSDPKVVEIY 254
>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 = 27.2 bits (59), Expect = 0.75
Identities = 7/15 (46%), Positives = 11/15 (73%), Gaps = 1/15 (6%)
Query: 73 SIK-LKENAKLNADD 86
++K L+ + KL ADD
Sbjct: 21 ALKKLQASLKLYADD 35
>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 = 27.5 bits (60), Expect = 0.76
Identities = 8/54 (14%), Positives = 21/54 (38%), Gaps = 6/54 (11%)
Query: 10 QDQFVLREDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQ---THPN---VLEAY 57
+ + Y ++V I D + + EN+ + + ++ + EA+
Sbjct: 531 KPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAH 584
>1fep_A FEPA, ferric enterobactin receptor; outer membrane, iron transport,
transport, TONB, signal, membrane protein; 2.40A
{Escherichia coli K12} SCOP: f.4.3.3
Length = 724
Score = 26.1 bits (57), Expect = 2.2
Identities = 8/59 (13%), Positives = 19/59 (32%), Gaps = 7/59 (11%)
Query: 26 RIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEEVGISIKLKENAKLNA 84
++ I G + + + NV +A G+ E +++ + E
Sbjct: 531 DYRNKIEAGYVAVGQNAVGTDLYQWDNVPKAVVEGL-------EGSLNVPVSETVMWTN 582
>2kp6_A Uncharacterized protein; unknown function, structural genomics,
PSI-2, protein struct initiative; NMR {Chromobacterium
violaceum}
Length = 82
Score = 25.1 bits (55), Expect = 2.4
Identities = 6/12 (50%), Positives = 7/12 (58%)
Query: 40 PKEIEEFIQTHP 51
P I FI +HP
Sbjct: 24 PAAIRAFIDSHP 35
>1a0r_P Phosducin, MEKA, PP33; transducin, beta-gamma, signal transduction,
regulation, phosphorylation, G proteins, thioredoxin,
vision; HET: FAR; 2.80A {Bos taurus} SCOP: c.47.1.6 PDB:
1b9y_C 1b9x_C
Length = 245
Score = 25.4 bits (55), Expect = 2.9
Identities = 8/49 (16%), Positives = 21/49 (42%), Gaps = 1/49 (2%)
Query: 21 GQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDERMGEE 69
G+++ + + E + ++E F+ + +L V ++ EE
Sbjct: 195 GELLSNFISVTEQLAEEFFTGDVESFLNEY-GLLPEKEMHVLEQTNMEE 242
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 701
Score = 25.3 bits (55), Expect = 4.0
Identities = 9/48 (18%), Positives = 12/48 (25%), Gaps = 22/48 (45%)
Query: 50 HPNVLEA-------YAYGVPDERMGEEVGISIKLKENA--KLNADDIR 88
P L G+ ER+ A N D+R
Sbjct: 321 SPVALSKYGIDVPVMNLGLGVERL-------------AMISGNFADVR 355
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 685
Score = 24.9 bits (54), Expect = 4.9
Identities = 9/48 (18%), Positives = 12/48 (25%), Gaps = 22/48 (45%)
Query: 50 HPNVLEA-------YAYGVPDERMGEEVGISIKLKENA--KLNADDIR 88
P L G+ ER+ A N D+R
Sbjct: 321 SPVALSKYGIDVPVMNLGLGVERL-------------AMISGNFADVR 355
>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 = 24.8 bits (55), Expect = 6.0
Identities = 13/61 (21%), Positives = 21/61 (34%), Gaps = 26/61 (42%)
Query: 24 VGRIKDMI-IRG-----GENIYPKEIEEFIQTHPNVLEA--------------YAYGVPD 63
+GRI + + IRG E +E + H + E AY V +
Sbjct: 426 LGRIDNQVKIRGHRVELEE------VESILLKHMYISETAVSVHKDHQEQPYLCAYFVSE 479
Query: 64 E 64
+
Sbjct: 480 K 480
>3d4i_A STS-2 protein; PGM, 2H-phosphatase, PTP, SH3 domain, hydrolase;
1.95A {Mus musculus} PDB: 3d6a_A 3db1_A
Length = 273
Score = 24.7 bits (53), Expect = 6.1
Identities = 10/66 (15%), Positives = 21/66 (31%), Gaps = 7/66 (10%)
Query: 5 ACGLKQDQFVLREDGYGQVVGRIKDMIIRGGENIYPKEIEEFIQTHPNVLEAYAYGVPDE 64
L++ + E G + + + +EE + + NV Y +P
Sbjct: 110 ELKLEKKLKIRVEPGIFEWMKWE-----ASKATLTFLTLEELKEANFNVDLDYRPALPRC 164
Query: 65 RM--GE 68
+ E
Sbjct: 165 SLMPAE 170
>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 = 24.4 bits (54), Expect = 6.4
Identities = 18/102 (17%), Positives = 26/102 (25%), Gaps = 42/102 (41%)
Query: 16 REDG---YGQVVGRIKDMI-IRG-----GENIYPKEIEEFIQTHPNVLEA---------- 56
E+G Y GR+ I + G E IE ++ V A
Sbjct: 387 VENGLLFY---NGRLDFQIKLHGYRMELEE------IEHHLRACSYVEGAVIVPIKKGEK 437
Query: 57 ----YAYGVPDERMGEEVGISIKLKENAKLNADDIRTFCKGK 94
A VP E E+ I+ +
Sbjct: 438 YDYLLAVVVPGEHSFEK----------EFKLTSAIKKELNER 469
>2oz8_A MLL7089 protein; structural genomics, unknown function, PSI-2,
protein struct initiative; 2.48A {Mesorhizobium loti}
Length = 389
Score = 24.6 bits (54), Expect = 6.5
Identities = 8/39 (20%), Positives = 15/39 (38%), Gaps = 2/39 (5%)
Query: 14 VLRED--GYGQVVGRIKDMIIRGGENIYPKEIEEFIQTH 50
+LR D G + + I GE + + ++ H
Sbjct: 227 ILRHDHDGLRTLRHAVTWTQINSGEYLDLQGKRLLLEAH 265
>2vsq_A Surfactin synthetase subunit 3; ligase, peptidyl carrier protein,
ligase phosphoprotein, TER module, phosphopantetheine;
2.60A {Bacillus subtilis}
Length = 1304
Score = 24.5 bits (54), Expect = 6.9
Identities = 20/70 (28%), Positives = 27/70 (38%), Gaps = 28/70 (40%)
Query: 16 REDG---YGQVVGRIKDMI-IRGGENIY---PKEIEEFIQTHPNVLEA------------ 56
DG Y GRI D + IRG + +EIE+ +Q +P V +A
Sbjct: 849 LPDGTIEY---AGRIDDQVKIRG----HRIELEEIEKQLQEYPGVKDAVVVADRHESGDA 901
Query: 57 --YAYGVPDE 64
AY V
Sbjct: 902 SINAYLVNRT 911
>3fkd_A L-threonine-O-3-phosphate decarboxylase; structural genomic, ,
structural genomics, PSI-2, protein structure
initiative; 2.50A {Porphyromonas gingivalis}
Length = 350
Score = 24.4 bits (54), Expect = 7.0
Identities = 6/29 (20%), Positives = 11/29 (37%), Gaps = 4/29 (13%)
Query: 40 PKEIEEFIQTHPNVL----EAYAYGVPDE 64
EI + HP+ ++Y +E
Sbjct: 148 RTEILRLLNDHPDTTFVLDQSYVSFTTEE 176
>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 = 24.0 bits (53), Expect = 8.7
Identities = 17/102 (16%), Positives = 25/102 (24%), Gaps = 42/102 (41%)
Query: 16 REDG---YGQVVGRIKDMI-IRG-----GENIYPKEIEEFIQTHPNVLEA---------- 56
+DG GR+ I + G E IE ++ V A
Sbjct: 386 IQDGQIFC---QGRLDFQIKLHGYRMELEE------IEFHVRQSQYVRSAVVIPYQPNGT 436
Query: 57 ----YAYGVPDERMGEEVGISIKLKENAKLNADDIRTFCKGK 94
A VP+E E+ I+
Sbjct: 437 VEYLIAAIVPEEHEFEK----------EFQLTSAIKKELAAS 468
>2iaf_A Hypothetical protein SDHL; MCSG, PSI2, MAD, structural genomics,
L-serine dehydratase, structure initiative; 2.05A
{Legionella pneumophila} SCOP: d.81.2.1 PDB: 2iqq_A
Length = 151
Score = 23.9 bits (52), Expect = 8.9
Identities = 8/31 (25%), Positives = 14/31 (45%)
Query: 44 EEFIQTHPNVLEAYAYGVPDERMGEEVGISI 74
+E + H N + A+ + E+V SI
Sbjct: 108 KELLPKHSNGMRFSAFDGNANLLIEQVYYSI 138
>3swr_A DNA (cytosine-5)-methyltransferase 1; epigenetics, DNA
methyltransferase fold, maintenance methyla transferase;
HET: DNA SFG MES; 2.49A {Homo sapiens} PDB: 3pta_A*
3pt6_A* 3pt9_A* 4da4_A*
Length = 1002
Score = 24.5 bits (52), Expect = 9.0
Identities = 7/39 (17%), Positives = 14/39 (35%), Gaps = 4/39 (10%)
Query: 28 KDMIIRGGENIYPKEIEEFI----QTHPNVLEAYAYGVP 62
++ + + + + Q VL+A YGV
Sbjct: 671 RNFVSFKRSMVLKLTLRCLVRMGYQCTFGVLQAGQYGVA 709
>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 = 24.0 bits (53), Expect = 9.1
Identities = 9/45 (20%), Positives = 18/45 (40%), Gaps = 8/45 (17%)
Query: 16 REDGYGQVVGRIKDMI-IRGGENIY---PKEIEEFIQTHPNVLEA 56
E G + +GR + + G Y +E+ + P +L+
Sbjct: 407 DEQGRLRFIGRGDGQVKLNG----YRLDLPALEQRFRRQPGILDC 447
>2odr_A Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 665
Score = 24.2 bits (52), Expect = 9.2
Identities = 9/48 (18%), Positives = 12/48 (25%), Gaps = 22/48 (45%)
Query: 50 HPNVLEA-------YAYGVPDERMGEEVGISIKLKENA--KLNADDIR 88
P L G+ ER+ A N D+R
Sbjct: 321 SPVALSKYGIDVPVMNLGLGVERL-------------AMISGNFADVR 355
>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 = 24.0 bits (53), Expect = 9.2
Identities = 17/103 (16%), Positives = 27/103 (26%), Gaps = 40/103 (38%)
Query: 16 REDG---YGQVVGRIKDMI-IRG-----GENIYPKEIEEFIQTHPNVLEA---------- 56
ED Y GR+ I G + + + + P V A
Sbjct: 391 TEDNILLY---GGRLDFQIKYAGYRIELED------VSQQLNQSPMVASAVAVPRYNKEH 441
Query: 57 -----YAYGVPDERMGEEVGISIKLKENAKLNADDIRTFCKGK 94
AY V + + E ++L I+ K
Sbjct: 442 KVQNLLAYIVVKDGVKERFDRELEL-------TKAIKASVKDH 477
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
0.318 0.142 0.415
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: 1,567,534
Number of extensions: 89508
Number of successful extensions: 327
Number of sequences better than 10.0: 1
Number of HSP's gapped: 318
Number of HSP's successfully gapped: 77
Length of query: 94
Length of database: 6,701,793
Length adjustment: 61
Effective length of query: 33
Effective length of database: 4,998,612
Effective search space: 164954196
Effective search space used: 164954196
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 (21.6 bits)
S2: 51 (23.3 bits)