RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8157
(191 letters)
>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 = 34.8 bits (81), Expect = 0.014
Identities = 10/33 (30%), Positives = 19/33 (57%)
Query: 53 VAQKDLTIADIFREHAVRSPNKVIFMFENTEWT 85
++ D T+AD++R +A P++ FM + T
Sbjct: 1 MSLHDFTLADVYRRNAALFPDRTAFMVDGVRLT 33
>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 = 32.9 bits (74), Expect = 0.068
Identities = 19/100 (19%), Positives = 35/100 (35%), Gaps = 26/100 (26%)
Query: 11 FPKV--------TKPKHDSSTLNDKPPKKASINLLKALQRYLRFLWAARRVAQKDLTIAD 62
F V K +HDS+ N +N L+ L+ Y ++ + + +
Sbjct: 493 FRMVFLDFRFLEQKIRHDSTAWNASGS---ILNTLQQLKFYKPYI--CDNDPKYERLVNA 547
Query: 63 IFR------EHAVRSPN----KVIFMFENT---EWTAQQV 89
I E+ + S ++ M E+ E +QV
Sbjct: 548 ILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQV 587
Score = 31.4 bits (70), Expect = 0.20
Identities = 23/176 (13%), Positives = 50/176 (28%), Gaps = 49/176 (27%)
Query: 37 LKALQRYLRFLWAARRVAQKDLTIADIFREHAVRSPNKVIFMFEN---TEWTAQQVPGYE 93
+ ++Q LR L ++ + L + V++ K F T +
Sbjct: 227 IHSIQAELRRLLKSKPY-ENCLLVLL-----NVQNA-KAWNAFNLSCKILLTTRF----- 274
Query: 94 GRAGMAAILDINKSLDVTAVS-EGIKKAL-PSYARPLFIRCLREVEMTGTYKLKKLDLQK 151
+ D + T +S + L P + L ++ L + + L +
Sbjct: 275 -----KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC-------RPQDLPREV 322
Query: 152 EGFDPNVI-------QDRL----YYLSS---------KGVYEELTPEVYKDLVQEF 187
+P + +D L + + L P Y+ +
Sbjct: 323 LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRL 378
Score = 26.4 bits (57), Expect = 8.7
Identities = 12/65 (18%), Positives = 19/65 (29%), Gaps = 21/65 (32%)
Query: 137 EMTGTYKLKKLDLQ---KEGFDPNVIQDRLYYLSSKGVYEELTPEVYKDLVQE------- 186
E YK + + FD +QD K + L+ E ++
Sbjct: 13 EHQYQYKDILSVFEDAFVDNFDCKDVQDMP-----KSI---LSKEEIDHIIMSKDAVSGT 64
Query: 187 ---FW 188
FW
Sbjct: 65 LRLFW 69
>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 = 32.3 bits (73), Expect = 0.092
Identities = 34/189 (17%), Positives = 58/189 (30%), Gaps = 50/189 (26%)
Query: 11 FPKVTKPKHDSSTLNDKPPKKASINLLKALQRYLRFLWAARRVAQKDLTIADIFREHAVR 70
F K+ + +D+P L+ ++L ++ + V + D +
Sbjct: 37 FNKILPEPTEGFAADDEP--TTPAELV---GKFLGYV--SSLVEPSKVGQFDQVLNLCLT 89
Query: 71 SPNKVIFMFENTEWTAQQVPGY-EGRA--GMAAILDINKSLDVTAVSEGIKKALPSY--A 125
FEN Y EG +AA L + E IK +Y A
Sbjct: 90 E-------FENC---------YLEGNDIHALAAKLLQENDTTLVKTKELIK----NYITA 129
Query: 126 RPLFIRCLREVEMTGTYKLKKLDLQKEGFDPNVIQDRLYYL-----SSKGVYEELTP--E 178
R + R + L EG +L + ++ +EEL +
Sbjct: 130 RIM---AKRPFDKKSNSAL--FRAVGEG------NAQLVAIFGGQGNTDDYFEELRDLYQ 178
Query: 179 VYKDLVQEF 187
Y LV +
Sbjct: 179 TYHVLVGDL 187
Score = 31.6 bits (71), Expect = 0.18
Identities = 21/121 (17%), Positives = 39/121 (32%), Gaps = 32/121 (26%)
Query: 76 IFMFENT--------EWTAQQVPGYE-GRA--GMAAILD--INKSLDVTAVSEGIKKALP 122
+ E+ VP E GR+ GM AI + S A+ +++
Sbjct: 1776 VMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGK 1835
Query: 123 SYARPLFI----------------RCLREV-EMTGTYKLKKLDLQK--EGFDPNVIQDRL 163
+ I R L V + KL+K+D+ + + ++ L
Sbjct: 1836 RTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEVEGHL 1895
Query: 164 Y 164
+
Sbjct: 1896 F 1896
>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 = 31.8 bits (73), Expect = 0.12
Identities = 7/34 (20%), Positives = 12/34 (35%), Gaps = 2/34 (5%)
Query: 58 LTIADIFREHAVRSPNK--VIFMFENTEWTAQQV 89
I + R+ A SP + + T Q+
Sbjct: 16 KNIGWMLRQRATVSPRLQAYVEPSTDVRMTYAQM 49
>3ipl_A 2-succinylbenzoate--COA ligase; structural genomics, acyl-protein
synthetase, PSI-2, protein structure initiative; 2.30A
{Staphylococcus aureus subsp}
Length = 501
Score = 31.0 bits (71), Expect = 0.23
Identities = 2/28 (7%), Positives = 11/28 (39%)
Query: 58 LTIADIFREHAVRSPNKVIFMFENTEWT 85
+++ + A ++ + + +T
Sbjct: 1 MSLDFWLYKQAQQNGHHIAITDGQESYT 28
>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 = 31.0 bits (71), Expect = 0.25
Identities = 6/29 (20%), Positives = 12/29 (41%), Gaps = 2/29 (6%)
Query: 59 TIADIFREHAVRSPNK--VIFMFENTEWT 85
T+ ++ R A R+P+ + T
Sbjct: 3 TVNEMLRRAATRAPDHCALAVPARGLRLT 31
>2vsq_A Surfactin synthetase subunit 3; ligase, peptidyl carrier protein,
ligase phosphoprotein, TER module, phosphopantetheine;
2.60A {Bacillus subtilis}
Length = 1304
Score = 30.7 bits (70), Expect = 0.30
Identities = 9/55 (16%), Positives = 20/55 (36%), Gaps = 1/55 (1%)
Query: 32 ASINLLKALQRY-LRFLWAARRVAQKDLTIADIFREHAVRSPNKVIFMFENTEWT 85
++INL+ +R L A + + F+E +P+ + +
Sbjct: 437 STINLVDDREREFLLTGLNPPAQAHETKPLTYWFKEAVNANPDAPALTYSGQTLS 491
>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 = 30.2 bits (69), Expect = 0.37
Identities = 6/45 (13%), Positives = 12/45 (26%)
Query: 41 QRYLRFLWAARRVAQKDLTIADIFREHAVRSPNKVIFMFENTEWT 85
+ +R + T+ F E A P++
Sbjct: 10 KAIVRMSQNSLLDLYAHPTVVARFSEMAALHPHREAIRDRFGSVD 54
>3rui_B Autophagy-related protein 8; autophagosome formation,
non-canonical E1, ATP BI UBL, ATG8, ATG12, ATG10, ATG3,
UBL activation, thiolation; 1.91A {Saccharomyces
cerevisiae} PDB: 2kq7_A 2zpn_A 2kwc_A 2li5_A 3vh3_B
3vh4_B*
Length = 118
Score = 28.8 bits (64), Expect = 0.59
Identities = 15/67 (22%), Positives = 30/67 (44%), Gaps = 3/67 (4%)
Query: 18 KHDSSTLNDKPPKKASINLLKALQRYLRFLWAARRVAQKDLTIAD---IFREHAVRSPNK 74
K +S + D+ + + KA + + + + + DLT+ + R+ + P K
Sbjct: 17 KAESERIADRFKNRIPVICEKAEKSDIPEIDKRKYLVPADLTVGQFVYVIRKRIMLPPEK 76
Query: 75 VIFMFEN 81
IF+F N
Sbjct: 77 AIFIFVN 83
>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 = 29.4 bits (67), Expect = 0.63
Identities = 7/29 (24%), Positives = 14/29 (48%)
Query: 57 DLTIADIFREHAVRSPNKVIFMFENTEWT 85
T D+ R+ A + +++ NT W+
Sbjct: 24 GETFGDLLRDRAAKYGDRIAITCGNTHWS 52
>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 = 28.3 bits (64), Expect = 1.5
Identities = 5/45 (11%), Positives = 12/45 (26%), Gaps = 7/45 (15%)
Query: 48 WAARRVAQ-------KDLTIADIFREHAVRSPNKVIFMFENTEWT 85
W+ R D + I P+ + + + +
Sbjct: 13 WSPERAQHYRNKGYWIDQPLTRILTVGVQSHPHSLAIICGERQLS 57
>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 = 28.2 bits (64), Expect = 1.7
Identities = 4/28 (14%), Positives = 15/28 (53%)
Query: 58 LTIADIFREHAVRSPNKVIFMFENTEWT 85
+ + + + A +P++ F++ + + T
Sbjct: 1 MKLLEQIEKWAAETPDQTAFVWRDAKIT 28
>2c3n_A Glutathione S-transferase theta 1; glutathione transferase,
polymorphism; 1.5A {Homo sapiens} PDB: 2c3q_A* 2c3t_A
Length = 247
Score = 27.3 bits (61), Expect = 3.0
Identities = 8/55 (14%), Positives = 18/55 (32%), Gaps = 1/55 (1%)
Query: 11 FPKVTKPKHDSSTLNDKPPKKASINLLKALQRYLRFLWAARR-VAQKDLTIADIF 64
+ KV P ++ + L LQ + + +++AD+
Sbjct: 122 WHKVMFPVFLGEPVSPQTLAATLAELDVTLQLLEDKFLQNKAFLTGPHISLADLV 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 = 27.5 bits (62), Expect = 3.4
Identities = 5/28 (17%), Positives = 9/28 (32%)
Query: 58 LTIADIFREHAVRSPNKVIFMFENTEWT 85
+ + + HA P F + T
Sbjct: 1 MKLLHAIQTHAETYPQTDAFRSQGQSLT 28
>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 = 26.9 bits (60), Expect = 5.4
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 59 TIADIFREHAVRSPNKVIFMF 79
++ D+ R A+ SPNK F
Sbjct: 12 SLVDVVRLRALHSPNKKSCTF 32
>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 = 26.3 bits (59), Expect = 7.3
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 56 KDLTIADIFREHAVRSPNKVIFMFENTEWT 85
+D TI +F E + PN V + EN + T
Sbjct: 37 RDKTIHQLFEEQVSKRPNNVAIVCENEQLT 66
>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 = 26.2 bits (58), Expect = 8.4
Identities = 5/21 (23%), Positives = 8/21 (38%)
Query: 59 TIADIFREHAVRSPNKVIFMF 79
++ R A P+ F F
Sbjct: 25 SLPAALRACARLQPHDPAFTF 45
>2b9v_A Alpha-amino acid ester hydrolase; catalytic triad,
alpha/beta-hydrolase; 2.00A {Acetobacter pasteurianus}
SCOP: b.18.1.13 c.69.1.21 PDB: 2b4k_A 1nx9_A* 1ryy_A
Length = 652
Score = 26.3 bits (57), Expect = 8.8
Identities = 7/16 (43%), Positives = 8/16 (50%)
Query: 83 EWTAQQVPGYEGRAGM 98
+W VP GR GM
Sbjct: 146 DWLVHNVPESNGRVGM 161
>2x24_A Acetyl-COA carboxylase; fatty acid biosynthesis, ligase, lipid
synthesis; HET: X24; 2.40A {Bos taurus} PDB: 3ff6_A*
3tdc_A*
Length = 793
Score = 26.3 bits (58), Expect = 8.9
Identities = 8/28 (28%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 162 RLYYLSSKGVYEELTPEVYKDLVQEFWK 189
R+Y ++ G L E+ K + Q W
Sbjct: 159 RVYLAANSGARIGLAEEI-KHMFQVAWV 185
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 0.134 0.391
Gapped
Lambda K H
0.267 0.0649 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,944,330
Number of extensions: 169098
Number of successful extensions: 384
Number of sequences better than 10.0: 1
Number of HSP's gapped: 383
Number of HSP's successfully gapped: 31
Length of query: 191
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 103
Effective length of database: 4,244,745
Effective search space: 437208735
Effective search space used: 437208735
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 (21.7 bits)
S2: 54 (24.7 bits)