RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2417
(391 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 = 131 bits (332), Expect = 3e-34
Identities = 56/249 (22%), Positives = 93/249 (37%), Gaps = 21/249 (8%)
Query: 117 YNQALLRARNFGSGLLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLGPD 176
+ L RA SGLL GV+ G V I SQNC E I I++ + L D
Sbjct: 34 HRDYLARAERLASGLLRDGVHTGDRVAILSQNCSEMIELIGAVALIGAILLPVNYRLNAD 93
Query: 177 ACAFIINQAEISVLIVDDD--SKCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIEII 234
AF++ SV++ D ++ +KK +I +
Sbjct: 94 EIAFVLGDGAPSVVVAGTDYRDIVAGVLPSLG-GVKKAYAIGDGSGP------------- 139
Query: 235 RFDEIERVGAQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVIAAISAALLQLSD 294
F + + + F D I +T+ G P+G +++ GN++ A +
Sbjct: 140 -FAPFKDLASDTPFSAPEFGAADGFVIIHTAAVGGRPRGALISQGNLLI---AQSSLVDA 195
Query: 295 HRPKYSDVLISFLPLAHMLERTCESAMFLVGGSIGYYSG-DIKNLTEDMKTLKPTIMPAV 353
R +DV + LPL H+ + GG+ + D D++ K T+M
Sbjct: 196 WRLTEADVNLGMLPLFHVTGLGLMLTLQQAGGASVIAAKFDPAQAARDIEAHKVTVMAEF 255
Query: 354 PRLLNRMYD 362
+L + D
Sbjct: 256 APMLGNILD 264
>2v7b_A Benzoate-coenzyme A ligase; benzoate oxidation, benzoate COA
ligase; 1.84A {Burkholderia xenovorans}
Length = 529
Score = 129 bits (328), Expect = 2e-33
Identities = 49/255 (19%), Positives = 84/255 (32%), Gaps = 28/255 (10%)
Query: 117 YNQALLRARNFGSGLLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLGPD 176
Y + RAR F S L LGV+P + + + + GA ++ V L P
Sbjct: 51 YGELEERARRFASALRTLGVHPEERILLVMLDTVALPVAFLGALYAGVVPVVANTLLTPA 110
Query: 177 ACAFIINQAEISVLIVDDD--SKCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIEII 234
+++ + +I Q ++ A ++I Q S
Sbjct: 111 DYVYMLTHSHARAVIASGALVQNVTQALESAEHDGCQLI--------VSQPRESEPRLAP 162
Query: 235 RFDEIERVGAQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVIAAISAALLQLSD 294
F+E+ A + D+ Y+SG+TG PKG + TH N+ +
Sbjct: 163 LFEELID-AAAPAAKAAATGCDDIAFWLYSSGSTGKPKGTVHTHANLYWTAELYAKPILG 221
Query: 295 HRPKYSDVLISFLPLAH-------MLERTCESAMFLVGGSIGYYSG--DIKNLTEDMKTL 345
+DV+ S L + VG + + + +
Sbjct: 222 IAE--NDVVFSAAKLFFAYGLGNGLT------FPLSVGATAILMAERPTADAIFARLVEH 273
Query: 346 KPTIMPAVPRLLNRM 360
+PT+ VP L M
Sbjct: 274 RPTVFYGVPTLYANM 288
>3ipl_A 2-succinylbenzoate--COA ligase; structural genomics, acyl-protein
synthetase, PSI-2, protein structure initiative; 2.30A
{Staphylococcus aureus subsp}
Length = 501
Score = 126 bits (318), Expect = 3e-32
Identities = 39/249 (15%), Positives = 78/249 (31%), Gaps = 13/249 (5%)
Query: 117 YNQALLRARNFGSGLLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLGPD 176
Y A L S VG+Y N + II + ++ I + L P+
Sbjct: 29 YQNLYCEASLLAKRL---KAYQQSRVGLYIDNSIQSIILIHACWLANIEIAMINTRLTPN 85
Query: 177 ACAFIINQAEISVLIVDDDSKCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIEIIRF 236
+ ++ ++ + + + R++ +
Sbjct: 86 EMTNQMRSIDVQLIFCTLPLE--LRGFQIVSLDDIEFAGRDITTNGLLDNTMGIQYDTSN 143
Query: 237 DEIERVGAQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVI--AAISAALLQLSD 294
+ + + D+ +I +TSGTTG K V T N A L
Sbjct: 144 ETVVPKESPSNILNTSFNLDDIASIMFTSGTTGPQKAVPQTFRNHYASAIGCKESLGFDR 203
Query: 295 HRPKYSDVLISFLPLAHMLERTCESAMFLVGGSIGYYSG-DIKNLTEDMKTLKPTIMPAV 353
+S LP+ H+ + + G ++ + + + +K + T + V
Sbjct: 204 D-----TNWLSVLPIYHISGLSVLLRAVIEGFTVRIVDKFNAEQILTMIKNERITHISLV 258
Query: 354 PRLLNRMYD 362
P+ LN +
Sbjct: 259 PQTLNWLMQ 267
>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 = 7e-32
Identities = 59/283 (20%), Positives = 112/283 (39%), Gaps = 26/283 (9%)
Query: 84 TLYDAFRKGAKESNNGRCL--GWRQNISRPYQWIHYNQALLRARNFGSGLLGLGVNPGSF 141
+L D A++ + + S + +++ + + SG+ GV G
Sbjct: 20 SLADRIDAAAEKFGEKTAIISAEPKFPSEFPESMNFLEICEVTKKLASGISRKGVRKGEH 79
Query: 142 VGIYSQNCPEWIITEQGAYCYSMIIVALYDTLGPDACAFIINQAEISVLIVDDD--SKCN 199
VG+ N ++++T + + V + I+N +E + L+V
Sbjct: 80 VGVCIPNSIDYVMTIYALWRVAATPVPINPMYKSFELEHILNDSEATTLVVHSMLYENFK 139
Query: 200 QIIDRAPRCLKKIISIREVRMATMQRARSRAIEIIRFDEIERVGAQKMFEEVPPKPTDLC 259
++++ ++++ + E+ E+ G++ D+
Sbjct: 140 PVLEKTG--VERVFVVGG--------------EVNSLSEVMDSGSEDFENVKVNPEEDVA 183
Query: 260 TICYTSGTTGNPKGVMLTHGNVIAAISAALLQLSD-HRPKYSDVLISFLPLAHMLERTCE 318
I YT GTTG PKGVMLTH N+ A LQL+ + D ++ +P+ H E
Sbjct: 184 LIPYTGGTTGMPKGVMLTHFNLAANA----LQLAVATGLSHMDTIVGCMPMFHSAEFGLV 239
Query: 319 SAMFLVGGS-IGYYSGDIKNLTEDMKTLKPTIMPAVPRLLNRM 360
+ M VG + + + L E+++ K T AVP LN +
Sbjct: 240 NLMVTVGNEYVVMGMFNQEMLAENIEKYKGTFSWAVPPALNVL 282
>4fuq_A Malonyl COA synthetase; ANL superfamily, methylma malonate, ligase;
HET: MSE; 1.70A {Rhodopseudomonas palustris} PDB:
4fut_A*
Length = 503
Score = 124 bits (314), Expect = 1e-31
Identities = 54/246 (21%), Positives = 92/246 (37%), Gaps = 22/246 (8%)
Query: 117 YNQALLRARNFGSGLLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLGPD 176
Y + + RA + L+ G+ G V ++ E ++ + + L
Sbjct: 31 YAELVARAGRVANVLVARGLQVGDRVAAQTEKSVEALVLYLATVRAGGVYLPLNTAYTLH 90
Query: 177 ACAFIINQAEISVLIVDDDSKCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIEIIRF 236
+ I AE +++ D + + I A + + ++ ++ A + A E
Sbjct: 91 ELDYFITDAEPKIVVCDPSKR-DGIAAIAAKVGATVETLGPDGRGSLTDAAAGASEA--- 146
Query: 237 DEIERVGAQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVIAAISAALLQLSDHR 296
F + DL I YTSGTTG KG ML+H N+ + S L+
Sbjct: 147 -----------FATIDRGADDLAAILYTSGTTGRSKGAMLSHDNLASN-SLTLVDYWRFT 194
Query: 297 PKYSDVLISFLPLAHMLERTCES-AMFLVGGSIGYYSG-DIKNLTEDMKTLKPTIMPAVP 354
P DVLI LP+ H S GS+ + D + + M + T++ VP
Sbjct: 195 PD--DVLIHALPIYHTHGLFVASNVTLFARGSMIFLPKFDPDKILDLMA--RATVLMGVP 250
Query: 355 RLLNRM 360
R+
Sbjct: 251 TFYTRL 256
>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 = 123 bits (311), Expect = 3e-31
Identities = 62/248 (25%), Positives = 89/248 (35%), Gaps = 21/248 (8%)
Query: 117 YNQALLRARNFGSGLLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLGPD 176
Y Q A L LG+ G V + N E+ GA + V + L
Sbjct: 46 YAQMNALANRCADVLTALGIAKGDRVALLMPNSVEFCCLFYGAAKLGAVAVPINTRLAAP 105
Query: 177 ACAFIINQAEISVLIVDDDSKCNQIIDRAPRCLKKIISIREVR-MATMQRARSRAIEIIR 235
+FI++ + V+I AP I +R A + I
Sbjct: 106 EVSFILSDSGSKVVIYGAP--------SAPV-------IDAIRAQADPPGTVTDWIGADS 150
Query: 236 FDEIERVGAQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVIAAISAALLQLSDH 295
E A V D I YTSGTTG+PKGV+ TH +V + AA S
Sbjct: 151 LAER-LRSAAADEPAVECGGDDNLFIMYTSGTTGHPKGVVHTHESVHS---AASSWASTI 206
Query: 296 RPKYSDVLISFLPLAHMLERTCESAMFLVGGSIGYYSG-DIKNLTEDMKTLKPTIMPAVP 354
+Y D L+ LP+ H+ T + G ++ D + + + I AVP
Sbjct: 207 DVRYRDRLLLPLPMFHVAALTTVIFSAMRGVTLISMPQFDATKVWSLIVEERVCIGGAVP 266
Query: 355 RLLNRMYD 362
+LN M
Sbjct: 267 AILNFMRQ 274
>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 = 121 bits (307), Expect = 1e-30
Identities = 40/249 (16%), Positives = 81/249 (32%), Gaps = 7/249 (2%)
Query: 115 IHYNQALLRARNFGSGLLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLG 174
I Y + + + G+N + + S+N ++ + GA + + D
Sbjct: 51 ITYAEYFEMSVRLAEAMKRYGLNTNHRIVVCSENSLQFFMPVLGALFIGVAVAPANDIYN 110
Query: 175 PDACAFIINQAEISVLIVDDDS--KCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIE 232
+N ++ +V+ V K + + P ++KII + T +
Sbjct: 111 ERELLNSMNISQPTVVFVSKKGLQKILNVQKKLP-IIQKIIIMDS---KTDYQGFQSMYT 166
Query: 233 IIRFDEIERVGAQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVIAAISAALLQL 292
+ E + + I +SG+TG PKGV L H S A +
Sbjct: 167 FVTSHLPPGFNEYDFVPESFDRDKTIALIMNSSGSTGLPKGVALPHRTACVRFSHARDPI 226
Query: 293 SDHRPKYSDVLISFLPLAHMLERTCESAMFLVGGSIGYYSG-DIKNLTEDMKTLKPTIMP 351
++ ++S +P H + G + + + ++ K
Sbjct: 227 FGNQIIPDTAILSVVPFHHGFGMFTTLGYLICGFRVVLMYRFEEELFLRSLQDYKIQSAL 286
Query: 352 AVPRLLNRM 360
VP L +
Sbjct: 287 LVPTLFSFF 295
>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 = 120 bits (304), Expect = 3e-30
Identities = 43/257 (16%), Positives = 85/257 (33%), Gaps = 23/257 (8%)
Query: 115 IHYNQALLRARNFGSGLLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLG 174
Y + L ++ G L G+ + + S+NC E+ I + + +
Sbjct: 53 YSYAEYLEKSCCLGKALQNYGLVVDGRIALCSENCEEFFIPVIAGLFIGVGVAPTNEIYT 112
Query: 175 PDACAFIINQAEISVLIVDDDS--KCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIE 232
+ ++ +++ K + +I +V Q
Sbjct: 113 LRELVHSLGISKPTIVFSSKKGLDKVITVQKTVTTIKTIVILDSKVDYRGYQCLD----T 168
Query: 233 IIRFDEIERVGAQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVIAAISAALLQL 292
I+ + A + + I +SG+TG PKGV LTH N++ S A +
Sbjct: 169 FIKRNTPPGFQASSFKTVEVDRKEQVALIMNSSGSTGLPKGVQLTHENIVTRFSHARDPI 228
Query: 293 SDHRPKYSDVLISFLPLAHMLERTCESAMFLVGGSIGYYSG---------DIKNLTEDMK 343
++ +++ +P H MF G + G D + + ++
Sbjct: 229 YGNQVSPGTAVLTVVPFHHG------FGMFTTLGYL--ICGFRVVMLTKFDEETFLKTLQ 280
Query: 344 TLKPTIMPAVPRLLNRM 360
K T + VP L +
Sbjct: 281 DYKCTSVILVPTLFAIL 297
>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 = 118 bits (299), Expect = 1e-29
Identities = 40/252 (15%), Positives = 82/252 (32%), Gaps = 29/252 (11%)
Query: 117 YNQALLRARNFGSGLLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLGPD 176
+ + R + L G+ P V + + N + +I + + L L
Sbjct: 32 HAELRARVEAVAARLHADGLRPQQRVAVVAPNSADVVIAILALHRLGAVPALLNPRLKSA 91
Query: 177 ACAFIINQAEISVLIVDDDSKCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIEIIRF 236
A +I + E++ ++ + +A II
Sbjct: 92 ELAELIKRGEMTAAVIAVGRQ----------------------VADAIFQSGSGARIIFL 129
Query: 237 DEIERVG----AQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVIAAISAALLQL 292
++ R G E+ +P I YTSGTTG PK ++ + +
Sbjct: 130 GDLVRDGEPYSYGPPIEDPQREPAQPAFIFYTSGTTGLPKAAIIPQRAAESR-VLFMSTQ 188
Query: 293 SDHRPKYSDVLISFLPLAHMLERTCE-SAMFLVGGSIGYYSG-DIKNLTEDMKTLKPTIM 350
R +V++ +PL H++ A + G+ + + ++ + T +
Sbjct: 189 VGLRHGRHNVVLGLMPLYHVVGFFAVLVAALALDGTYVVVEEFRPVDALQLVQQEQVTSL 248
Query: 351 PAVPRLLNRMYD 362
A P L+ +
Sbjct: 249 FATPTHLDALAA 260
>3ni2_A 4-coumarate:COA ligase; 4CL, phenylpropanoid biosynthesis; HET: AYL
EPE; 1.90A {Populus tomentosa} PDB: 3a9v_A* 3a9u_A*
Length = 536
Score = 113 bits (285), Expect = 9e-28
Identities = 61/255 (23%), Positives = 98/255 (38%), Gaps = 28/255 (10%)
Query: 115 IHYNQALLRARNFGSGLLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLG 174
Y L AR SGL +G+ G + ++ + PE+++ GA II A
Sbjct: 50 YTYADVELTARRVASGLNKIGIQQGDVIMLFLPSSPEFVLAFLGASHRGAIITAANPFST 109
Query: 175 PDACAFIINQAEISVLIVDDDSKCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIEII 234
P A + +LI ++ D A K++ + S +
Sbjct: 110 PAELAKHAKASRAKLLITQACY-YEKVKDFARESDVKVMCVD-----------SAPDGCL 157
Query: 235 RFDEIERVGAQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVIA-AISAALLQLS 293
F E+ + + +V P D+ + Y+SGTTG PKGVMLTH +I
Sbjct: 158 HFSELTQADENE-APQVDISPDDVVALPYSSGTTGLPKGVMLTHKGLITSVAQQVDGDNP 216
Query: 294 DHRPKYSDVLISFLPLAH-------MLERTCESAMFLVGGSIGYYSG-DIKNLTEDMKTL 345
+ DV++ LP+ H ML VG I +I +L ++
Sbjct: 217 NLYFHSEDVILCVLPMFHIYALNSIML------CGLRVGAPILIMPKFEIGSLLGLIEKY 270
Query: 346 KPTIMPAVPRLLNRM 360
K +I P VP ++ +
Sbjct: 271 KVSIAPVVPPVMMSI 285
>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 = 108 bits (272), Expect = 5e-26
Identities = 29/204 (14%), Positives = 61/204 (29%), Gaps = 27/204 (13%)
Query: 117 YNQALLRARNFGSGLLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLGPD 176
Y + + N + L G+ G + N E+ I ++++ +
Sbjct: 58 YIELDRLSTNLATRLAEKGLGKGDTALVQLPNVAEFYIVFFALLKAGVVVLNALYSHRQY 117
Query: 177 ACAFIINQAEISVLIVDDDSK-------CNQIIDRAPRCLKKIISIREVRMATMQRARSR 229
I Q + +LI + + + D + I+ +
Sbjct: 118 ELNAFIKQIQPKLLIGSRQHEVFSNNQFIDSLHDVNL-SPEIILMLNH------------ 164
Query: 230 AIEIIRFDEIERVGAQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVI--AAISA 287
+ A+ + ++ + G+TG PK + TH + SA
Sbjct: 165 QATDFGLLDWIETPAETFVDFSSTPADEVAFFQLSGGSTGTPKLIPRTHNDYDYSVRASA 224
Query: 288 ALLQLSDHRPKYSDVLISFLPLAH 311
+ L+ + L+ LP H
Sbjct: 225 EICGLNSN-----TRLLCALPAPH 243
>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 = 108 bits (273), Expect = 5e-26
Identities = 42/258 (16%), Positives = 79/258 (30%), Gaps = 32/258 (12%)
Query: 117 YNQALLRARNFGSGLLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLGPD 176
Y + A N L G+ PG + N E IT + V +
Sbjct: 53 YRELNQAADNLACSLRRQGIKPGETALVQLGNVAELYITFFALLKLGVAPVLALFSHQRS 112
Query: 177 ACAFIINQAEISVLIVDDDSK-------CNQIIDRAPRCLKKIISIREVRMATMQRARSR 229
+Q E ++LI D N + ++ + + + +Q A +
Sbjct: 113 ELNAYASQIEPALLIADRQHALFSGDDFLNTFVTEHS-SIRVVQLLNDSGEHNLQDAINH 171
Query: 230 AIEIIRFDEIERVGAQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVI--AAISA 287
E F P ++ + GTTG PK + TH + S
Sbjct: 172 PAED--------------FTATPSPADEVAYFQLSGGTTGTPKLIPRTHNDYYYSVRRSV 217
Query: 288 ALLQLSDHRPKYSDVLISFLPLAHMLERTCESAM--FLVGGSIGYYSG-DIKNLTEDMKT 344
+ Q + + +P AH + ++ FL GG++ + ++
Sbjct: 218 EICQFTQQ-----TRYLCAIPAAHNYAMSSPGSLGVFLAGGTVVLAADPSATLCFPLIEK 272
Query: 345 LKPTIMPAVPRLLNRMYD 362
+ + VP ++
Sbjct: 273 HQVNVTALVPPAVSLWLQ 290
>3tsy_A Fusion protein 4-coumarate--COA ligase 1, resvera synthase;
transferase; 3.10A {Arabidospis thaliana}
Length = 979
Score = 108 bits (273), Expect = 7e-26
Identities = 55/250 (22%), Positives = 102/250 (40%), Gaps = 10/250 (4%)
Query: 115 IHYNQALLRARNFGSGLLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLG 174
Y+ + +R + LGVN V + NCPE++++ A A
Sbjct: 89 YTYSDVHVISRQIAANFHKLGVNQNDVVMLLLPNCPEFVLSFLAASFRGATATAANPFFT 148
Query: 175 PDACAFIINQAEISVLIVDDDSKCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIEII 234
P A + ++I + ++I I+ I + + R E+
Sbjct: 149 PAEIAKQAKASNTKLIITEARY-VDKIKPLQNDDGVVIVCIDDNESVPIPEGCLRFTELT 207
Query: 235 RFDEIERVGAQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVIAAIS-AALLQLS 293
+ A ++ + V P D+ + Y+SGTTG PKGVMLTH ++ +++ +
Sbjct: 208 QSTT----EASEVIDSVEISPDDVVALPYSSGTTGLPKGVMLTHKGLVTSVAQQVDGENP 263
Query: 294 DHRPKYSDVLISFLPLAHM--LERTCESAMFLVGGSIGYYSG-DIKNLTEDMKTLKPTIM 350
+ DV++ LP+ H+ L + + G +I +I L E ++ K T+
Sbjct: 264 NLYFHSDDVILCVLPMFHIYALNSIMLCGLRV-GAAILIMPKFEINLLLELIQRCKVTVA 322
Query: 351 PAVPRLLNRM 360
P VP ++ +
Sbjct: 323 PMVPPIVLAI 332
>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 = 105 bits (265), Expect = 5e-25
Identities = 39/204 (19%), Positives = 68/204 (33%), Gaps = 31/204 (15%)
Query: 117 YNQALLRARNFGSGLLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLGPD 176
Y + RA +G LG+ V + N E+ + + V +
Sbjct: 53 YRELDTRADRLAAGFQKLGIQQKDRVVVQLPNIKEFFEVIFALFRLGALPVFALPSHRSS 112
Query: 177 ACAFIINQAEISVLIVDDDSK-------CNQIIDRAPRCLKKIISIREVRMATMQRARSR 229
+ AE + I+ D Q+ + P LK II E
Sbjct: 113 EITYFCEFAEAAAYIIPDAYSGFDYRSLARQVQSKLP-TLKNIIVAGE------------ 159
Query: 230 AIEIIRFDEIERVGAQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVI--AAISA 287
A E + +++ + K +D+ + + G+TG K + TH + I S
Sbjct: 160 AEEFLPLEDLHTEPV----KLPEVKSSDVAFLQLSGGSTGLSKLIPRTHDDYIYSLKRSV 215
Query: 288 ALLQLSDHRPKYSDVLISFLPLAH 311
+ L V ++ LP+AH
Sbjct: 216 EVCWLDHS-----TVYLAALPMAH 234
>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 = 103 bits (259), Expect = 2e-24
Identities = 44/237 (18%), Positives = 75/237 (31%), Gaps = 40/237 (16%)
Query: 129 SGLLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLGPDACAFIINQAEIS 188
+G + V +++ E + A + V L G A I++ + S
Sbjct: 58 AGATAGRIGGAGRVAVWATPAMETGVAVVAALLAGVAAVPLNPKSGDKELAHILSDSAPS 117
Query: 189 VLIVDDDSKCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIEIIRFDEIERVGAQKMF 248
+++ D++ A+E + D R
Sbjct: 118 LVLAPPDAE--------------------------LPPALGALERVDVDVRARGAV---- 147
Query: 249 EEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVIAAISAALLQLSDHRPKYSDVLISFLP 308
E D + YTSGTTG PKG ++ +A AL DVL+ LP
Sbjct: 148 PEDGADDGDPALVVYTSGTTGPPKGAVIPRRA-LATTLDALADAWQWTG--EDVLVQGLP 204
Query: 309 LAHMLERTCES-AMFLVGGSIGYYSG-DIKNLTEDMKTLKPTIMPAVP----RLLNR 359
L H+ GGS+ + + ++ T++ VP R+
Sbjct: 205 LFHVHGLVLGILGPLRRGGSVRHLGRFSTEGAARELND-GATMLFGVPTMYHRIAET 260
>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 = 94.4 bits (235), Expect = 2e-21
Identities = 50/266 (18%), Positives = 90/266 (33%), Gaps = 37/266 (13%)
Query: 70 SEGKFLSTLYDDVKTLYDAFRKGAKESNNG---RCLGWRQNISRPYQWIHYNQALLRARN 126
S G + V++L A R A+ + + + Q+ + ++Q R N
Sbjct: 11 SSGLVPRGSHMSVRSLPAALRACARLQPHDPAFTFMDYEQDWDGVAITLTWSQLYRRTLN 70
Query: 127 FGSGLLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLGPDAC---AFIIN 183
L G G V I + E+++ GA I V L G +++
Sbjct: 71 VAQELSRCGS-TGDRVVISAPQGLEYVVAFLGALQAGRIAVPLSVPQGGVTDERSDSVLS 129
Query: 184 QAEISVLIVDDDSKCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIEIIRFDEIERVG 243
+ ++ + + +V +R II D ++
Sbjct: 130 DSSPVAILTTSSA------------------VDDVVQHVARRPGESPPSIIEVDLLDLDA 171
Query: 244 AQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVIA---AISAALLQLSDHRPKYS 300
+ + + YTSG+T P GV+++H NV + + +D P +
Sbjct: 172 PNG-YTFKEDEYPSTAYLQYTSGSTRTPAGVVMSHQNVRVNFEQLMSGYFADTDGIPPPN 230
Query: 301 DVLISFLPLAHMLERTCESAMFLVGG 326
L+S+LP H M LV G
Sbjct: 231 SALVSWLPFYH--------DMGLVIG 248
>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 = 94.3 bits (235), Expect = 4e-21
Identities = 54/255 (21%), Positives = 84/255 (32%), Gaps = 42/255 (16%)
Query: 79 YDDVKTLYDAFRKGAKESNNGRCLGWRQNISRPYQWIHYNQALLRARNFGSGLLGLGVNP 138
Y D TL DA A S R + + Y RA LL L +
Sbjct: 17 YADFPTLVDALDYAALSSAGMNFYDRRCQLEDQ---LEYQTLKARAEAGAKRLLSLNLKK 73
Query: 139 GSFVGIYSQNCPEWIITEQGAYCYSMIIVALY--DTLGPDACAF-----IINQAEISVLI 191
G V + ++ E++ ++ V L +G ++ + + +I
Sbjct: 74 GDRVALIAETSSEFVEAFFACQYAGLVAVPLAIPMGVGQRDSWSAKLQGLLASCQPAAII 133
Query: 192 VDDDSKCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIEIIRFDEIERVGAQKMFEEV 251
D+ + V AT + F +
Sbjct: 134 TGDEW------------------LPLVNAATHDNPELHVLSHAWFKALPEADV----ALQ 171
Query: 252 PPKPTDLCTICYTSGTTGNPKGVMLTHGNVIAAISAALLQLSDHRPKYSDVLISFLPLAH 311
P P D+ + YTSG+T P+GV++TH V+A + A RP D +S+LP H
Sbjct: 172 RPVPNDIAYLQYTSGSTRFPRGVIITHREVMANLRAISHDGIKLRP--GDRCVSWLPFYH 229
Query: 312 MLERTCESAMFLVGG 326
M LVG
Sbjct: 230 --------DMGLVGF 236
>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 = 88.9 bits (221), Expect = 2e-19
Identities = 49/259 (18%), Positives = 88/259 (33%), Gaps = 42/259 (16%)
Query: 75 LSTLYDDVKTLYDAFRKGAKESNNGRCLGW---RQNISRPYQWIHYNQALLRARNFGSGL 131
L Y ++L D R A S N + + + Y+ Q A+ + L
Sbjct: 3 LKKEYLQCQSLVDVVRLRALHSPNKKSCTFLNKELEETMTYE-----QLDQHAKAIAATL 57
Query: 132 LGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLGPDAC---AFIINQAEIS 188
G PG V + I G I V +Y I+ ++
Sbjct: 58 QAEGAKPGDRVLLLFAPGLPLIQAFLGCLYAGCIAVPIYPPAQEKLLDKAQRIVTNSKPV 117
Query: 189 VLIVDDDSKCNQIIDRAPRCLKKIISIREVRMATM-QRARSRAIEIIRFDEIERVGAQKM 247
++++ D I++ + + I I + IE +
Sbjct: 118 IVLMIADH------------------IKKFTADELNTNPKFLKIPAIALESIELNRSSS- 158
Query: 248 FEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVIAAISAALLQLSDHRPKYSDVLISFL 307
++ K D+ + YTSG+T +PKGVM++H N++ + + ++ S+L
Sbjct: 159 WQPTSIKSNDIAFLQYTSGSTMHPKGVMVSHHNLLDNL-NKIFTSFHMND--ETIIFSWL 215
Query: 308 PLAHMLERTCESAMFLVGG 326
P H M L+G
Sbjct: 216 PPHH--------DMGLIGC 226
>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 = 86.8 bits (216), Expect = 9e-19
Identities = 65/276 (23%), Positives = 106/276 (38%), Gaps = 41/276 (14%)
Query: 117 YNQALLRARNFGSGLLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLGPD 176
Y + RAR GL LGV G V N + ++ L P
Sbjct: 50 YAEVYQRARRLMGGLRALGVGVGDRVATLGFNHFRHLEAYFAVPGMGAVLHTANPRLSPK 109
Query: 177 ACAFIINQAEISVLIVDDD--SKCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIEII 234
A+I+N AE VL+ D + I ++ + + E +A +
Sbjct: 110 EIAYILNHAEDKVLLFDPNLLPLVEAIRGELKT-VQHFVVMDE-------KAPEGYLA-- 159
Query: 235 RFDEIERVGAQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTH-GNVIAAISAAL---L 290
++E +G + VP C + YT+GTTG PKGV+ +H V+ +++A+L
Sbjct: 160 -YEEA--LGEEADPVRVPE--RAACGMAYTTGTTGLPKGVVYSHRALVLHSLAASLVDGT 214
Query: 291 QLSDHRPKYSDVLISFLPLAHMLERTCES-----AMFLVGGSIGYYSG---DIKNLTEDM 342
LS+ DV++ +P+ H + A LVG G D +L E
Sbjct: 215 ALSEK-----DVVLPVVPMFH-----VNAWCLPYAATLVGAKQ-VLPGPRLDPASLVELF 263
Query: 343 KTLKPTIMPAVPRLLNRMYDKVMAQ-IRPSFIKRLM 377
T VP + + D + + R ++RL+
Sbjct: 264 DGEGVTFTAGVPTVWLALADYLESTGHRLKTLRRLV 299
>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 = 85.8 bits (213), Expect = 3e-18
Identities = 25/166 (15%), Positives = 57/166 (34%), Gaps = 15/166 (9%)
Query: 117 YNQALLRARNFGSGLLG-LGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLGP 175
+ + ++ + L G G+ G V + PEW + G +I + +
Sbjct: 76 FRELSENSQQAANVLSGACGLQRGDRVAVVLPRVPEWWLVILGCIRAGLIFMPGTIQMKS 135
Query: 176 DACAFIINQAEISVLIVDDD--SKCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIEI 233
+ + ++ ++ D+ + + + P L+ + + E +S +
Sbjct: 136 TDILYRLQMSKAKAIVAGDEVIQEVDTVASECPS-LRIKLLVSE---------KSCDGWL 185
Query: 234 IRFDEIERVGAQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHG 279
+ A V + I +TSGT+G PK ++
Sbjct: 186 NFKKLLN--EASTTHHCVETGSQEASAIYFTSGTSGLPKMAEHSYS 229
>3etc_A AMP-binding protein; adenylate-forming acyl-COA synthetase ligase,
ligase; HET: PGE 1PE EPE; 2.10A {Methanosarcina
acetivorans}
Length = 580
Score = 84.5 bits (210), Expect = 6e-18
Identities = 31/206 (15%), Positives = 67/206 (32%), Gaps = 10/206 (4%)
Query: 86 YDAFRKGAKESNNGRCLGWRQNISRPYQWIHYNQALLRARNFGSGLLGLGVNPGSFVGIY 145
YD A++S + W + + + + + + G+ G +V +
Sbjct: 59 YDVVDVYARDSPEKLAMIWCDDYGNEKIF-TFKDLKYYSDKAANFFVKHGIGKGDYVMLT 117
Query: 146 SQNCPEWIITEQGAYCYSMIIVALYDTLGPDACAFIINQAEISVLIVDDDSKCNQIIDRA 205
++ ++ G + I V L + I +A + +++ + + +D A
Sbjct: 118 LKSRYDFWYCMLGLHKLGAIAVPATHMLKTRDIVYRIEKAGLKMIVCIAEDDVPEQVDEA 177
Query: 206 PRCLKKIISIREVRMATMQRARSRAIEIIRFDEIERVGAQKMFEEVPPKPT---DLCTIC 262
I + + I F + + T D+C +
Sbjct: 178 HAECGDIPLKKAKVGGDVLEGW------IDFRKELEESSPIFERPTGEVSTKNEDICLVY 231
Query: 263 YTSGTTGNPKGVMLTHGNVIAAISAA 288
++SGT G PK V + + I A
Sbjct: 232 FSSGTAGFPKMVEHDNTYPLGHILTA 257
>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 = 61.8 bits (151), Expect = 1e-10
Identities = 25/159 (15%), Positives = 44/159 (27%), Gaps = 44/159 (27%)
Query: 131 LLGLGVNPGSFVGIYSQNCPEWIITEQ------GAYCYSMIIVALYDTLGPDA-CAFIIN 183
LL PG +G+Y + E I Y + + D P A A +
Sbjct: 69 LLEHYPQPGVCLGVYGEYSRESITCLLAILLSGHHY------LYI-DLKQPAAWNAELCR 121
Query: 184 QAEISVLIVDDDSKCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIEIIRFDEIERVG 243
Q + +++ + + + +
Sbjct: 122 QVDCRLILDCST----------------------------TPTPANGLPCVPVRHLPAAP 153
Query: 244 AQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVI 282
A + I ++SGTTG PK + TH +
Sbjct: 154 ASV--ARPCFAADQIAYINFSSGTTGRPKAIACTHAGIT 190
>2vsq_A Surfactin synthetase subunit 3; ligase, peptidyl carrier protein,
ligase phosphoprotein, TER module, phosphopantetheine;
2.60A {Bacillus subtilis}
Length = 1304
Score = 59.9 bits (146), Expect = 8e-10
Identities = 33/159 (20%), Positives = 55/159 (34%), Gaps = 38/159 (23%)
Query: 131 LLGLGVNPGSFVGIYSQNCPEWIITEQ------GAYCYSMIIVALYDTLGPDA-CAFIIN 183
L G GS V +Y++ E +I AY + + D P+ ++++
Sbjct: 506 LQKHGAGKGSVVALYTKRSLELVIGILGVLKAGAAY------LPV-DPKLPEDRISYMLA 558
Query: 184 QAEISVLIVDDDSKCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIEIIRFDEIERVG 243
+ + L+ + + ++A + D+ R
Sbjct: 559 DSAAACLLTHQE-----MKEQAAEL-------------------PYTGTTLFIDDQTRFE 594
Query: 244 AQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVI 282
Q P D I YTSGTTG PKG + TH N+
Sbjct: 595 EQASDPATAIDPNDPAYIMYTSGTTGKPKGNITTHANIQ 633
>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 = 58.7 bits (143), Expect = 1e-09
Identities = 32/167 (19%), Positives = 52/167 (31%), Gaps = 56/167 (33%)
Query: 131 LLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTL--G-----------PDA 177
+ L + S V ++ + M+ G P+
Sbjct: 46 IDSLALLAKSPVLVFGAQTYD------------ML-ATFVALTKSGHAYIPVDVHSAPER 92
Query: 178 CAFIINQAEISVLIVDDDSKCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIEIIRFD 237
II A+ S++I ++ I ++
Sbjct: 93 ILAIIEIAKPSLIIAIEEF----------------------------PLTIEGISLVSLS 124
Query: 238 EIERVGAQKMFEEVPP--KPTDLCTICYTSGTTGNPKGVMLTHGNVI 282
EIE +M E K D I +TSGTTG PKGV ++H N++
Sbjct: 125 EIESAKLAEMPYERTHSVKGDDNYYIIFTSGTTGQPKGVQISHDNLL 171
>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 = 56.0 bits (136), Expect = 8e-09
Identities = 27/169 (15%), Positives = 47/169 (27%), Gaps = 58/169 (34%)
Query: 131 LLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTL--G-----------PDA 177
+ + S + +Y PE MI + + G D
Sbjct: 43 ISSEYPDDRSPIMVYGHMQPE------------MI-INFLGCVKAGHAYIPVDLSIPADR 89
Query: 178 CAFIINQAEISVLIVDDDSKCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIEIIRFD 237
I + +L+ + I+ D
Sbjct: 90 VQRIAENSGAKLLLSATAV----------------------------TVTDLPVRIVSED 121
Query: 238 EIERVGAQKMFEEVPP----KPTDLCTICYTSGTTGNPKGVMLTHGNVI 282
++ + P K + I YTSG+TGNPKGV +T+ ++
Sbjct: 122 NLKDIFFTHKGNTPNPEHAVKGDENFYIIYTSGSTGNPKGVQITYNCLV 170
>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 = 55.6 bits (133), Expect = 2e-08
Identities = 54/437 (12%), Positives = 130/437 (29%), Gaps = 111/437 (25%)
Query: 9 PAIRPPVDLNNQSEIIR------EQNLALVGTNETMRLRFYYQSDRSSNLRGRGREVVRV 62
A D + ++ + E + ++ + + + L + E+V+
Sbjct: 27 DAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWT-----LLSKQEEMVQ- 80
Query: 63 SKFFSGASEGKFLSTLYDDVKTLYDAFRKGAKES---------------NNGRCLGWRQN 107
KF L + K L + ++ N+ + + N
Sbjct: 81 -KFVEEV--------LRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA-KYN 130
Query: 108 ISRPYQWIHYNQALLRARN---------FGSG--------LLGLGVNPGSFVGIY----- 145
+SR ++ QALL R GSG L V I+
Sbjct: 131 VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLK 190
Query: 146 SQNCPEWIITEQGAYCYSMIIVALYDTLGPDACAFIINQAEISVLIVDDDSKCNQIIDRA 205
+ N PE ++ ++ L + P+ + + + I + I ++ +++
Sbjct: 191 NCNSPETVL---------EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241
Query: 206 --PRCLKKIISIREVRMATMQRA---RSRAIEIIRFDEI-ERVGAQKMFEEV-------- 251
CL ++ + V+ A A + + RF ++ + + A
Sbjct: 242 PYENCL--LV-LLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTL 298
Query: 252 -PPKPTDLCTICYTSGTTGNPKGVMLTHGNVIAAISAALLQLSDHRPKYSDVLISFLPLA 310
P + L P+ V+ T+ ++ I+ ++ + V L
Sbjct: 299 TPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCD--KLT 356
Query: 311 HMLERTCESAMFLVGGSIGYYSGDIKNLTEDMKTLKPTIMPA---VP-----RLLNRMYD 362
++E + L + + + + + ++ P +P + +
Sbjct: 357 TIIESSLNV---L-------EPAEYRKMFDRL-----SVFPPSAHIPTILLSLIWFDVIK 401
Query: 363 KVMAQIRPSFIKRLMFN 379
+ + K +
Sbjct: 402 SDVMVVVNKLHKYSLVE 418
>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 = 54.8 bits (133), Expect = 2e-08
Identities = 30/165 (18%), Positives = 54/165 (32%), Gaps = 50/165 (30%)
Query: 131 LLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTL--G-----------PDA 177
+ G+ + VGI + + + + + L G +
Sbjct: 81 FIEKGIGKDTLVGIMMEKSID------------LF-IGILAVLKAGGAYVPIDIEYPKER 127
Query: 178 CAFIINQAEISVLIVDDDSKCNQIIDRAPRCLKKIISIREVRMATMQRARSRAIEIIRFD 237
+I++ ++ +L+ ++ ++ F+
Sbjct: 128 IQYILDDSQARMLLTQ-----KHLVHLIHNI-------------------QFNGQVEIFE 163
Query: 238 EIERVGAQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVI 282
E + VP K TDL + YTSGTTGNPKG ML H +
Sbjct: 164 EDTIKIREGTNLHVPSKSTDLAYVIYTSGTTGNPKGTMLEHKGIS 208
>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 = 54.0 bits (131), Expect = 4e-08
Identities = 16/53 (30%), Positives = 28/53 (52%)
Query: 230 AIEIIRFDEIERVGAQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVI 282
I+ + +E+ + ++ K + I YTSG+TGNPKGV ++ N+
Sbjct: 117 QIQTVSAEELLENEGGSVSQDQWVKEHETFYIIYTSGSTGNPKGVQISAANLQ 169
>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 = 53.1 bits (127), Expect = 1e-07
Identities = 45/260 (17%), Positives = 85/260 (32%), Gaps = 80/260 (30%)
Query: 157 QGAYCYSMIIVALYDTLGPDACAFIINQAE--------ISVL-IVDDDSKCNQIIDRAPR 207
QG+ M + LY T A + N+A+ S+L IV ++ I +
Sbjct: 1624 QGSQEQGMGM-DLYKT--SKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEK 1680
Query: 208 CLKKIISIREVRMATMQRARSRAIEIIRFDEI--ERVGAQKMFEEVPPKPTDLCTICYTS 265
+ IRE A + F+ I ++ +K+F+E+ T + S
Sbjct: 1681 GKR----IRENYSA------------MIFETIVDGKLKTEKIFKEINEHSTS---YTFRS 1721
Query: 266 GTTGNPKGVM-LTHGN---VIAAISAALLQLSDHRPKYSDVLISFLPLAHMLERTCESAM 321
KG++ T + + A + + + A
Sbjct: 1722 -----EKGLLSATQ-FTQPALTLMEKAAFED-------------------LKSKGLIPAD 1756
Query: 322 FLVGG-SIGYYS-----GDIKNLTED-MKTLK---PTIMPAVPRLLNRMYDKVMAQIRPS 371
G S+G Y+ D+ ++ E ++ + T+ AVPR + M I P
Sbjct: 1757 ATFAGHSLGEYAALASLADVMSI-ESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPG 1815
Query: 372 FIKRLMFNMAMGSKENEIKK 391
+A + ++
Sbjct: 1816 -------RVAASFSQEALQY 1828
Score = 47.7 bits (113), Expect = 6e-06
Identities = 46/319 (14%), Positives = 87/319 (27%), Gaps = 108/319 (33%)
Query: 41 RF--YYQSDRSSNLRGRGREVVRVS-KFFSGASEGKFLSTLYDDVKTLYDAFRKGAKESN 97
+F Y S + G+ +V+ + F E +L +D+ L
Sbjct: 63 KFLGYVSSLVEPSKVGQFDQVLNLCLTEF----ENCYLEG--NDIHALAAKL-----LQE 111
Query: 98 NGRCLGWRQNISRPYQWIHYNQALLRARNFG----SGLLGLGVNPGSFVGIYS----QNC 149
N L + + + Y ++ R F S L V G+ + + Q
Sbjct: 112 NDTTLVKTKELIKNY----ITARIMAKRPFDKKSNSALFR-AVGEGN-AQLVAIFGGQGN 165
Query: 150 PEWIITEQGAYCYSMIIVALYDTLGPDACAFIINQAEISVLIVDDDSKCNQIIDRAPRCL 209
+ E + LY T +V D +I + L
Sbjct: 166 TDDYFEE---------LRDLYQTYHV---------------LVGD------LIKFSAETL 195
Query: 210 KKIISIREVRMATMQRARSRAIEIIRFDEIERVGAQKMFEEVPPKP-------------- 255
++I ++ ++ + I+ + +E P K
Sbjct: 196 SELIRTTL----DAEKVFTQGLNILEW--LENP------SNTPDKDYLLSIPISCPLIGV 243
Query: 256 TDLCTICYTSGTTG-NP-------KGVMLTHGNVIAAISAALLQLSDHRPKYSDVLISFL 307
L T+ G P KG H + ++A + +D SF
Sbjct: 244 IQLAHYVVTAKLLGFTPGELRSYLKGA-TGHSQGL--VTAVAIAETDSWE-------SFF 293
Query: 308 PLAH-MLERTCESAMFLVG 325
+ +F +G
Sbjct: 294 VSVRKAIT-----VLFFIG 307
Score = 34.3 bits (78), Expect = 0.080
Identities = 31/217 (14%), Positives = 62/217 (28%), Gaps = 87/217 (40%)
Query: 52 LRGRGREVVRVSKFFSG---------ASEGKFLSTLYDDVKTLYDAFRKGAKESNNGRCL 102
L+ +G ++ F+G AS +S + V+ ++ +R G +
Sbjct: 1747 LKSKG--LIPADATFAGHSLGEYAALASLADVMS-IESLVEVVF--YR--------GMTM 1793
Query: 103 GWRQNISRPYQWIHYNQALLRARNFGSGLLGLGVNPGSFVGIYSQNCPEWIITEQGAYCY 162
A+ R S + +NPG +SQ +++
Sbjct: 1794 ---------------QVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYV--------- 1829
Query: 163 SMIIVALYDTLGPDACAFIINQAEISVLIVDDDSKCNQII--------DRAPRCLKKIIS 214
+ + V IV+ + + Q + D L I
Sbjct: 1830 ---------------VERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFI-- 1872
Query: 215 IREVRMATMQRARSRAIEIIRFDE---IERVGAQKMF 248
+ + I+II + +E V +F
Sbjct: 1873 ------------KLQKIDIIELQKSLSLEEV-EGHLF 1896
>3ite_A SIDN siderophore synthetase; ligase, non-ribosomal peptide
synthesis, NRPS, sidna3, fungal, endophyte; HET: MSE;
2.00A {Neotyphodium lolii}
Length = 562
Score = 52.6 bits (127), Expect = 1e-07
Identities = 14/53 (26%), Positives = 24/53 (45%)
Query: 250 EVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVIAAISAALLQLSDHRPKYSDV 302
+ YTSG+TG PKGV ++ N+ + A + + PK ++
Sbjct: 169 LNNYPENLDAYLLYTSGSTGTPKGVRVSRHNLSSFSDAWGKLIGNVAPKSLEL 221
>3hgu_A EHPF; phenazine, antibiotic, biosynthetic protein; 1.95A {Pantoea
agglomerans} PDB: 3hgv_A 3l2k_A*
Length = 369
Score = 47.0 bits (111), Expect = 6e-06
Identities = 21/118 (17%), Positives = 43/118 (36%), Gaps = 4/118 (3%)
Query: 261 ICYTSGTTGNPKGVMLTHGNVIAAISAALLQLSDHR-PKYSDVLISFLPLAHMLERTCES 319
+ + GTTG PK V+ + A IS + + L + H++ +
Sbjct: 96 VYESGGTTGAPKYVVAYDAWIEALISWRMSGYQHRPGRPSGNTLAAIPTGPHIVGAINKE 155
Query: 320 AMFLVGGSIGYYSGDIKNLTEDMKTLKPTIMPAVPRLLNRMYDKVMAQIRPSFIKRLM 377
+GG D + + ++L V + + + D+V + I+ L+
Sbjct: 156 RALRLGGMFFSIDIDPRWV---KRSLSEGDTATVRKYTHHLVDQVQNTLMNQDIRFLV 210
>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 = 39.5 bits (93), Expect = 0.002
Identities = 45/211 (21%), Positives = 64/211 (30%), Gaps = 85/211 (40%)
Query: 115 IHYNQALLRARNFGSGLLGLGVNPGSFVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLG 174
I Y + F + LL LG+ G V IY PE + +M+
Sbjct: 108 ISYRELHRDVCRFANTLLDLGIKKGDVVAIYMPMVPEAAV--------AML--------- 150
Query: 175 PDACAFI-------------------INQAEISVLIVDDDSKCNQIIDRAPRC--LKKII 213
ACA I I + ++I D+ RA R LKK +
Sbjct: 151 --ACARIGAVHSVIFGGFSPEAVAGCIIDSSSRLVITADEGV------RAGRSIPLKKNV 202
Query: 214 SIREVRMATMQRARSRAIEIIRFDEIERV-------GAQKMFE-------EVPPKPTDLC 259
A++ +E V E ++ K +
Sbjct: 203 D--------------DALKNPNVTSVEHVIVLKRTGSDIDWQEGRDLWWRDLIEKASPEH 248
Query: 260 T-----------ICYTSGTTGNPKGVMLTHG 279
I YTSG+TG PKGV+ T G
Sbjct: 249 QPEAMNAEDPLFILYTSGSTGKPKGVLHTTG 279
>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 = 38.7 bits (91), Expect = 0.003
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 261 ICYTSGTTGNPKGVMLTHG 279
+ YTSG+TG PKGV +
Sbjct: 267 LLYTSGSTGAPKGVQHSTA 285
>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 = 30.7 bits (68), Expect = 0.42
Identities = 6/34 (17%), Positives = 11/34 (32%), Gaps = 9/34 (26%)
Query: 335 IKNLTEDMKTLKPTIMPAVPRLLNRMYDKVMAQI 368
+K L +K PA+ + A +
Sbjct: 22 LKKLQASLKLYADDSAPALA--IK-------ATM 46
>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 = 29.5 bits (67), Expect = 2.1
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 253 PKPTDLCTICYTSGTTGNPKGVMLT 277
D I +SGTTGNP ++ +
Sbjct: 83 DMKRDGVRIHSSSGTTGNPTVIVHS 107
>2jae_A L-amino acid oxidase; oxidoreductase, dimerisation mode, hydride
transfer mechanism, GR2-family, flavoenzyme, FAD
containing; HET: FAD; 1.25A {Rhodococcus opacus} PDB:
2jb1_A* 2jb2_A* 2jb3_A*
Length = 489
Score = 29.5 bits (66), Expect = 2.2
Identities = 30/236 (12%), Positives = 63/236 (26%), Gaps = 33/236 (13%)
Query: 81 DVKTLYDAFRKGAKESNNGRCLGWRQNISRPYQWIHYNQALLRARNFGSGLLGLGVNPGS 140
D L + S++GR LG + N + ++ G+
Sbjct: 160 DKDALSEFLSDFGDLSDDGRYLGSSRRGYDSEPGAGLNFGTEKKPFAMQEVIRSGIGRNF 219
Query: 141 FVGIYSQNCPEWIITEQGAYCYSMIIVALYDTLGPDACAFI-----INQAEISVLIVDDD 195
G I A D +G D F + V +
Sbjct: 220 SFDFGYDQAMMMFTPVGG---MDRIYYAFQDRIGTDNIVFGAEVTSMKNVSEGVTVEYTA 276
Query: 196 SKCNQII--DRA-----PRCLKKIISIREVRMATMQRARSRAIEIIRFDEIERVGAQ--K 246
+ I D A P + ++ + + A++ + ++G + +
Sbjct: 277 GGSKKSITADYAICTIPPHLVGRLQN-------NLPGDVLTALKAAKPSSSGKLGIEYSR 329
Query: 247 MFEEVPPKPT--------DLCTICYTSGTTGNPKGVMLTHGNVIAAISAALLQLSD 294
+ E + D+ I + + +GV++ A L+
Sbjct: 330 RWWETEDRIYGGASNTDKDISQIMFPYDHYNSDRGVVVA-YYSSGKRQEAFESLTH 384
>2y27_A Phenylacetate-coenzyme A ligase; phenylacetic acid degradation
pathway; HET: MSE PG4 ATP; 1.60A {Burkholderia
cenocepacia} PDB: 2y4n_A*
Length = 437
Score = 28.8 bits (65), Expect = 3.0
Identities = 11/27 (40%), Positives = 13/27 (48%), Gaps = 2/27 (7%)
Query: 251 VPPKPTDLCTICYTSGTTGNPKGVMLT 277
VP + I +SGTTG P V T
Sbjct: 87 VPQD--RISRIHASSGTTGKPTVVGYT 111
>1ak0_A P1 nuclease; endonuclease, reaction mechanism, thiophosphory
oligonucleotides, glycosylated protein; HET: NAG ADS
THS; 1.80A {Penicillium citrinum} SCOP: a.124.1.2
Length = 270
Score = 28.7 bits (63), Expect = 3.4
Identities = 21/151 (13%), Positives = 38/151 (25%), Gaps = 21/151 (13%)
Query: 234 IRFDEIERVGAQKMFEEVPPKPTDLCTICYTSGTTGNPKGVMLTHGNVIAAISAALLQLS 293
R + A F + P C + Y + G I+AI+ ++S
Sbjct: 47 YRLTSAGKWSASLHFIDAEDNPPTNCNVDYERDCGSS--------GCSISAIANYTQRVS 98
Query: 294 DHRPKYSDVLISFLPLAHMLERTCESAMFLVGGSIGY--------YSGDIKNLTE--DMK 343
D + + L H + + L + + G NL D
Sbjct: 99 DSSLSSENHAEALRFLVHFI---GDMTQPLHDEAYAVGGNKINVTFDGYHDNLHSDWDTY 155
Query: 344 TLKPTIMPAVPRLLNRMYDKVMAQIRPSFIK 374
+ I ++ I
Sbjct: 156 MPQKLIGGHALSDAESWAKTLVQNIESGNYT 186
>3llc_A Putative hydrolase; structural genomics, joint center for ST
genomics, JCSG, protein structure initiative, PSI-2;
HET: MSE PG4; 1.80A {Agrobacterium vitis}
Length = 270
Score = 28.1 bits (62), Expect = 4.8
Identities = 11/57 (19%), Positives = 16/57 (28%), Gaps = 4/57 (7%)
Query: 52 LRGRGREVVRVSKFFSGASEGKFLSTLY----DDVKTLYDAFRKGAKESNNGRCLGW 104
G +R GAS G F ++ + D F+ GW
Sbjct: 62 AASLGVGAIRFDYSGHGASGGAFRDGTISRWLEEALAVLDHFKPEKAILVGSSMGGW 118
>2y4o_A Phenylacetate-coenzyme A ligase; phenylacetic acid degradation
pathway; HET: DLL; 1.90A {Burkholderia cenocepacia}
Length = 443
Score = 28.0 bits (63), Expect = 5.4
Identities = 27/140 (19%), Positives = 53/140 (37%), Gaps = 21/140 (15%)
Query: 251 VPPKPTDLCTICYTSGTTGNPKGVMLTHG--NVIAAISAALLQLSDHRPKYSDVLISFLP 308
VP + + + +SGTTG P V T + A ++A ++ + RP D L +
Sbjct: 89 VPRE--QVVRVHASSGTTGKPTVVGYTARDIDTWANVTARSIRAAGGRPG--DTLHNAFG 144
Query: 309 L-----AHMLERTCES--AMFLVGGSIGYYSGDIKNLTEDMKTLKPTIMPAVPRLLNRMY 361
+ E M + G + + ++ +P I+ P + +
Sbjct: 145 YGLFTGGLGIHYGAERLGCMVVPMS-----GGQTEKQVQLIRDFEPKIILVTPSYMLNLI 199
Query: 362 DKVMAQ---IRPSFIKRLMF 378
D+++ Q S +K +F
Sbjct: 200 DEMVRQGMDPAESSLKIGIF 219
>3ilh_A Two component response regulator; NYSGXRC, PSI-II, protein S
initiative, structural genomics; 2.59A {Cytophaga
hutchinsonii}
Length = 146
Score = 27.3 bits (61), Expect = 5.7
Identities = 9/40 (22%), Positives = 18/40 (45%), Gaps = 3/40 (7%)
Query: 183 NQAEISVLIVDDDSKCNQIIDRAPRCLKKIISIREVRMAT 222
+ SVL++DDD N + ++ + E++ T
Sbjct: 6 TRKIDSVLLIDDDDIVNFLNTTI---IRMTHRVEEIQSVT 42
>4f1n_A Kpago; argonaute, RNAI, RNAse H, RNA binding protein-RNA complex;
3.19A {Vanderwaltozyma polyspora}
Length = 1046
Score = 27.7 bits (60), Expect = 7.9
Identities = 14/62 (22%), Positives = 27/62 (43%), Gaps = 7/62 (11%)
Query: 39 RLRFYYQSDRSSNLRGRGREVVRVSKFFSGASEGKFLSTLYDDVKTLYDAFRKGAKESNN 98
RL+ Y + G+ ++ F G S +F + +VK++ ++ RK + N
Sbjct: 820 RLKIYQK-------HNNGKLPTKIMYFRDGVSVDQFSQVVKIEVKSIKESVRKFGPQLNG 872
Query: 99 GR 100
G
Sbjct: 873 GN 874
>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 = 27.6 bits (62), Expect = 8.3
Identities = 9/40 (22%), Positives = 14/40 (35%)
Query: 226 ARSRAIEIIRFDEIERVGAQKMFEEVPPKPTDLCTICYTS 265
A+ + I D I G +E+ P D + S
Sbjct: 204 AKKHNVNIHTMDMIREKGLIPTIKEILPVVQDKTDFIFIS 243
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
0.322 0.137 0.407
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: 6,121,829
Number of extensions: 373983
Number of successful extensions: 910
Number of sequences better than 10.0: 1
Number of HSP's gapped: 859
Number of HSP's successfully gapped: 52
Length of query: 391
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 296
Effective length of database: 4,049,298
Effective search space: 1198592208
Effective search space used: 1198592208
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 (21.9 bits)
S2: 58 (26.0 bits)