RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10058
(59 letters)
>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 = 129 bits (326), Expect = 2e-37
Identities = 33/56 (58%), Positives = 40/56 (71%)
Query: 3 SYPQKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHVLTP 58
SY + H L SLR LGSVGEPI E W+WY IG + IVDT+WQTE+G H++TP
Sbjct: 376 SYIENHSLKSLRCLGSVGEPIAAEVWEWYSEKIGKNEIPIVDTYWQTESGSHLVTP 431
>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 = 128 bits (323), Expect = 5e-37
Identities = 35/56 (62%), Positives = 44/56 (78%)
Query: 3 SYPQKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHVLTP 58
+ D +SLR+LGSVGEPINPEAW+WY+ IG KC +VDT+WQTETGG ++TP
Sbjct: 370 KAIEGTDRSSLRILGSVGEPINPEAWEWYWKKIGKEKCPVVDTWWQTETGGFMITP 425
>3etc_A AMP-binding protein; adenylate-forming acyl-COA synthetase ligase,
ligase; HET: PGE 1PE EPE; 2.10A {Methanosarcina
acetivorans}
Length = 580
Score = 85.3 bits (212), Expect = 8e-22
Identities = 13/52 (25%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 1 MLSYPQKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETG 52
+ ++ ++L+ GEP+NPE + + G +++ F QTET
Sbjct: 331 IKEDLSHYNFSTLKYAVVAGEPLNPEVFNRFLEFTG---IKLMEGFGQTETV 379
>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 = 77.7 bits (192), Expect = 3e-19
Identities = 13/59 (22%), Positives = 25/59 (42%), Gaps = 3/59 (5%)
Query: 1 MLSYPQKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHVLTPR 59
+ + L+ +VGE + PE + + G I +++ QTETG + +
Sbjct: 312 LQQDLSSYKFPHLQNCVTVGESLLPETLENWRAQTG---LDIRESYGQTETGLTCMVSK 367
>2v7b_A Benzoate-coenzyme A ligase; benzoate oxidation, benzoate COA
ligase; 1.84A {Burkholderia xenovorans}
Length = 529
Score = 48.7 bits (117), Expect = 6e-09
Identities = 15/59 (25%), Positives = 23/59 (38%), Gaps = 6/59 (10%)
Query: 1 MLSYP--QKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHVLT 57
ML P ++R+ S GE + E + + G C I+D TE H+
Sbjct: 288 MLVSPNLPARADVAIRICTSAGEALPREIGERFTAHFG---CEILDGIGSTEM-LHIFL 342
>3hgu_A EHPF; phenazine, antibiotic, biosynthetic protein; 1.95A {Pantoea
agglomerans} PDB: 3hgv_A 3l2k_A*
Length = 369
Score = 32.8 bits (74), Expect = 0.002
Identities = 8/47 (17%), Positives = 15/47 (31%), Gaps = 1/47 (2%)
Query: 7 KHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGG 53
SL + G +N + ++ I C ++ T G
Sbjct: 227 LQMKQSLAQITLGGTELNLDEIKFIASEILPD-CEFSASYGSTSALG 272
>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 = 32.1 bits (74), Expect = 0.004
Identities = 14/61 (22%), Positives = 21/61 (34%), Gaps = 7/61 (11%)
Query: 1 MLSYPQKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGG--HVLTP 58
+L L SLR + + P E ++ + TF Q+ET G
Sbjct: 262 ILDQAAPAQLASLRAVTGLDTPETIERFEATC-----PNATFWATFGQSETSGLSTFAPY 316
Query: 59 R 59
R
Sbjct: 317 R 317
>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 = 29.2 bits (66), Expect = 0.053
Identities = 6/21 (28%), Positives = 10/21 (47%)
Query: 9 DLNSLRVLGSVGEPINPEAWQ 29
DL+S + EP+ E +
Sbjct: 287 DLSSWVTAFNGAEPVREETME 307
>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 = 28.5 bits (64), Expect = 0.082
Identities = 4/21 (19%), Positives = 9/21 (42%)
Query: 9 DLNSLRVLGSVGEPINPEAWQ 29
DL ++ + S E + +
Sbjct: 309 DLGNILTILSGSERVQAATIK 329
>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 = 28.0 bits (63), Expect = 0.11
Identities = 9/21 (42%), Positives = 11/21 (52%)
Query: 9 DLNSLRVLGSVGEPINPEAWQ 29
DL+ RV G EPI+ E
Sbjct: 297 DLSCWRVAGIGAEPISAEQLH 317
>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 = 26.7 bits (60), Expect = 0.31
Identities = 15/62 (24%), Positives = 23/62 (37%), Gaps = 8/62 (12%)
Query: 1 MLSYP--QKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGG--HVL 56
M P + D R + G P+ PEA Y + +V + TE+ G +L
Sbjct: 272 MRQVPEFAELDAPDFRYFITGGAPM-PEALIKIYAAKN---IEVVQGYALTESCGGGTLL 327
Query: 57 TP 58
Sbjct: 328 LS 329
>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 = 26.0 bits (58), Expect = 0.61
Identities = 9/65 (13%), Positives = 22/65 (33%), Gaps = 9/65 (13%)
Query: 1 MLSYPQ----KHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGG--H 54
+ + L+SLR + G + + + + V+ + TE +
Sbjct: 258 LAAAAAHAGSSLKLDSLRHVTFAGATMPDAVLETVHQHLP---GEKVNIYGTTEAMNSLY 314
Query: 55 VLTPR 59
+ P+
Sbjct: 315 MRQPK 319
>4fuq_A Malonyl COA synthetase; ANL superfamily, methylma malonate, ligase;
HET: MSE; 1.70A {Rhodopseudomonas palustris} PDB:
4fut_A*
Length = 503
Score = 25.6 bits (57), Expect = 0.91
Identities = 11/61 (18%), Positives = 24/61 (39%), Gaps = 5/61 (8%)
Query: 1 MLSYP--QKHDLNSLRVLGSVGEPINPEAWQWYYHSIGGGKCSIVDTFWQTETGGHVLTP 58
+L P K +R+ S P+ + + + G ++++ + TET + P
Sbjct: 256 LLQSPRLTKETTGHMRLFISGSAPLLADTHREWSAKTG---HAVLERYGMTETNMNTSNP 312
Query: 59 R 59
Sbjct: 313 Y 313
>1yhu_D Hemoglobin B2 chain; globin fold, oxygen storage-transport complex;
HET: HEM; 3.15A {Riftia pachyptila}
Length = 149
Score = 24.3 bits (52), Expect = 2.3
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 13 LRVLGSVGEPINPEAWQWYYHSIGGG 38
LRV+ V NP+AW ++ I G
Sbjct: 117 LRVMPQVASCFNPDAWSRCFNRITTG 142
>1yhu_C Hemoglobin B1A chain; globin fold, oxygen storage-transport
complex; HET: HEM; 3.15A {Riftia pachyptila}
Length = 148
Score = 24.2 bits (52), Expect = 2.8
Identities = 8/23 (34%), Positives = 10/23 (43%)
Query: 13 LRVLGSVGEPINPEAWQWYYHSI 35
+ L V E NP+AW I
Sbjct: 118 MESLPQVVEGFNPDAWASCLAGI 140
>2zs0_D Extracellular giant hemoglobin major globin subun; annelida,
magnesium, cooperativity, heme, iron, binding, oxygen
transport, secreted; HET: HEM; 1.60A {Oligobrachia
mashikoi} PDB: 2zfo_D* 2zs1_D* 2d2m_D* 2d2n_D*
Length = 145
Score = 24.2 bits (52), Expect = 3.0
Identities = 6/26 (23%), Positives = 10/26 (38%)
Query: 13 LRVLGSVGEPINPEAWQWYYHSIGGG 38
V+ V + +AW + I G
Sbjct: 115 SSVVAQVLPSAHIDAWGYCMAYIAAG 140
>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 = 24.0 bits (53), Expect = 3.0
Identities = 6/28 (21%), Positives = 9/28 (32%), Gaps = 2/28 (7%)
Query: 1 MLSYPQ--KHDLNSLRVLGSVGEPINPE 26
L K + SL++L G
Sbjct: 295 WLEKAAQYKDQIQSLKLLQVGGASFPES 322
>2zs0_C Extracellular giant hemoglobin major globin subun; annelida,
magnesium, cooperativity, heme, iron, binding, oxygen
transport, secreted; HET: HEM; 1.60A {Oligobrachia
mashikoi} PDB: 2d2n_C* 2d2m_C* 2zfo_C* 2zs1_C*
Length = 147
Score = 23.9 bits (51), Expect = 3.2
Identities = 5/26 (19%), Positives = 10/26 (38%)
Query: 13 LRVLGSVGEPINPEAWQWYYHSIGGG 38
V+ V + ++W + I G
Sbjct: 117 AEVMPQVSSCFSSDSWNRCFARIANG 142
>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 = 23.6 bits (52), Expect = 3.9
Identities = 8/28 (28%), Positives = 13/28 (46%), Gaps = 2/28 (7%)
Query: 1 MLSYPQ--KHDLNSLRVLGSVGEPINPE 26
+ + DL+SL+VL G + E
Sbjct: 286 WMDAASSRRDDLSSLQVLQVGGAKFSAE 313
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 0.137 0.469
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: 970,400
Number of extensions: 40422
Number of successful extensions: 95
Number of sequences better than 10.0: 1
Number of HSP's gapped: 92
Number of HSP's successfully gapped: 19
Length of query: 59
Length of database: 6,701,793
Length adjustment: 30
Effective length of query: 29
Effective length of database: 5,864,163
Effective search space: 170060727
Effective search space used: 170060727
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: 51 (23.3 bits)