RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13807
(204 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 = 213 bits (544), Expect = 6e-67
Identities = 56/237 (23%), Positives = 89/237 (37%), Gaps = 47/237 (19%)
Query: 6 IVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEE-LSSPVIALTAGAPCSPTLFNKIR 64
I +EK T+ P + + + + + + LSS + GA S +++
Sbjct: 268 IEREKVTITALVPPLAMVWM--------DAASSRRDDLSSLQVLQVGGAKFSAEAARRVK 319
Query: 65 DTFGIK----------------------------------HLIVKVVDKKGNIVPMGMCG 90
FG + +V D V G G
Sbjct: 320 AVFGCTLQQVFGMAEGLVNYTRLDDPEEIIVNTQGKPMSPYDESRVWDDHDRDVKPGETG 379
Query: 91 EVCYRGYNVMLGYYG--EEN-KILENDEWFPSGDFFILHENGYGQVVGRIKDIIIRGGEN 147
+ RG + GYY E N D ++ +GD L +GY V GR KD I RGGE
Sbjct: 380 HLLTRGPYTIRGYYKAEEHNAASFTEDGFYRTGDIVRLTRDGYIVVEGRAKDQINRGGEK 439
Query: 148 IIPKEIEYVLQTHPDVVEAQVYGVPDERLGEVVVANIELKPGASLTQDDIKTYCKGK 204
+ +E+E L HP V +A + +PD+ LGE I + A ++K + + +
Sbjct: 440 VAAEEVENHLLAHPAVHDAAMVSMPDQFLGERSCVFIIPRDEA-PKAAELKAFLRER 495
>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 = 211 bits (539), Expect = 4e-66
Identities = 53/237 (22%), Positives = 90/237 (37%), Gaps = 46/237 (19%)
Query: 6 IVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEE-LSSPVIALTAGAPCSPTLFNKIR 64
I + + + P+ + + E ++ + S + GA +L ++
Sbjct: 277 IQRHQVNMASLVPSAVIMWL--------EKAAQYKDQIQSLKLLQVGGASFPESLARQVP 328
Query: 65 DTFGIK----------------------------------HLIVKVVDKKGNIVPMGMCG 90
+ K +K+VD++ VP G G
Sbjct: 329 EVLNCKLQQVFGMAEGLVNYTRLDDSDEQIFTTQGRPISSDDEIKIVDEQYREVPEGEIG 388
Query: 91 EVCYRGYNVMLGYYG--EEN-KILENDEWFPSGDFFILHENGYGQVVGRIKDIIIRGGEN 147
+ RG GYY E N ++ + D ++ SGD +G +VVGRIKD I RGGE
Sbjct: 389 MLATRGPYTFCGYYQSPEHNSQVFDEDNYYYSGDLVQRTPDGNLRVVGRIKDQINRGGEK 448
Query: 148 IIPKEIEYVLQTHPDVVEAQVYGVPDERLGEVVVANIELKPGASLTQDDIKTYCKGK 204
I +EIE ++ HP+V+ A + + DE+ GE A I + + +
Sbjct: 449 IASEEIEKLILLHPEVMHAALVAIVDEQFGEKSCAFIVSRNPELKAVVLRRHLMELG 505
>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 = 211 bits (539), Expect = 2e-65
Identities = 58/236 (24%), Positives = 89/236 (37%), Gaps = 44/236 (18%)
Query: 6 IVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAPCSPTLFNKIRD 65
I K + V P + ++ +L+S + GA S TL +I
Sbjct: 270 IEKHQVNVTALVPPAVSLWLQALIEGESR-----AQLASLKLLQVGGARLSATLAARIPA 324
Query: 66 TFGIK----------------------------------HLIVKVVDKKGNIVPMGMCGE 91
G + V V D +GN +P G G
Sbjct: 325 EIGCQLQQVFGMAEGLVNYTRLDDSAEKIIHTQGYPMCPDDEVWVADAEGNPLPQGEVGR 384
Query: 92 VCYRGYNVMLGYYG--EEN-KILENDEWFPSGDFFILHENGYGQVVGRIKDIIIRGGENI 148
+ RG GYY + N + + ++ SGD + GY V GR KD I RGGE I
Sbjct: 385 LMTRGPYTFRGYYKSPQHNASAFDANGFYCSGDLISIDPEGYITVQGREKDQINRGGEKI 444
Query: 149 IPKEIEYVLQTHPDVVEAQVYGVPDERLGEVVVANIELKPGASLTQDDIKTYCKGK 204
+EIE +L HP V+ A + + DE +GE A + +K L ++ + + +
Sbjct: 445 AAEEIENLLLRHPAVIYAALVSMEDELMGEKSCAYLVVKEP--LRAVQVRRFLREQ 498
>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 = 203 bits (518), Expect = 2e-63
Identities = 60/236 (25%), Positives = 93/236 (39%), Gaps = 46/236 (19%)
Query: 6 IVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEE---LSSPVIALTAGAPCSPTLFNK 62
+ +E+ T L+ TPT L ++ A L S AGA +
Sbjct: 240 VQQEQVTSLFATPTHLDALAAA--------AAHAGSSLKLDSLRHVTFAGATMPDAVLET 291
Query: 63 IRDTFGIK-----------------------------HLIVKVVDKKG---NIVPMGMCG 90
+ + V++V G IV G G
Sbjct: 292 VHQHLPGEKVNIYGTTEAMNSLYMRQPKTGTEMAPGFFSEVRIVRIGGGVDEIVANGEEG 351
Query: 91 EVCYRGYN-VMLGYYGEENKILE--NDEWFPSGDFFILHENGYGQVVGRIKDIIIRGGEN 147
E+ + +GY + E D W+ + D + G +++GR+ D+II GGEN
Sbjct: 352 ELIVAASDSAFVGYLNQPQATAEKLQDGWYRTSDVAVWTPEGTVRILGRVDDMIISGGEN 411
Query: 148 IIPKEIEYVLQTHPDVVEAQVYGVPDERLGEVVVANIELKPGASLTQDDIKTYCKG 203
I P EIE VL T P V E V G+ D+R G+ V A + + G +L+ D + T+C+
Sbjct: 412 IHPSEIERVLGTAPGVTEVVVIGLADQRWGQSVTACVVPRLGETLSADALDTFCRS 467
>4fuq_A Malonyl COA synthetase; ANL superfamily, methylma malonate, ligase;
HET: MSE; 1.70A {Rhodopseudomonas palustris} PDB:
4fut_A*
Length = 503
Score = 200 bits (510), Expect = 3e-62
Identities = 61/233 (26%), Positives = 93/233 (39%), Gaps = 45/233 (19%)
Query: 9 EKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEE-LSSPVIALTAGAPCSPTLFNKIRDTF 67
+ TVL G PT Y L+ S P + +E + ++ AP +
Sbjct: 241 ARATVLMGVPTFYTRLLQS--------PRLTKETTGHMRLFISGSAPLLADTHREWSAKT 292
Query: 68 GIK--------------------------------HLIVKVVDK-KGNIVPMGMCGEVCY 94
G + +V D G +P G G +
Sbjct: 293 GHAVLERYGMTETNMNTSNPYDGDRVPGAVGPALPGVSARVTDPETGKELPRGDIGMIEV 352
Query: 95 RGYNVMLGYYG--EEN-KILENDEWFPSGDFFILHENGYGQVVGRIKDIIIRGGENIIPK 151
+G NV GY+ E+ +D +F +GD + E GY ++GR KD++I GG N+ PK
Sbjct: 353 KGPNVFKGYWRMPEKTKSEFRDDGFFITGDLGKIDERGYVHILGRGKDLVITGGFNVYPK 412
Query: 152 EIEYVLQTHPDVVEAQVYGVPDERLGEVVVANIELKPGASLTQDDIKTYCKGK 204
EIE + P VVE+ V GVP GE V A + GA++ + + G+
Sbjct: 413 EIESEIDAMPGVVESAVIGVPHADFGEGVTAVVVRDKGATIDEAQVLHGLDGQ 465
>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 = 182 bits (464), Expect = 2e-55
Identities = 57/236 (24%), Positives = 89/236 (37%), Gaps = 48/236 (20%)
Query: 6 IVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAE-ELSSPVIALTAGAPCSPTLFNKIR 64
IV+E+ + P + + P AE + +T GAP L
Sbjct: 254 IVEERVCIGGAVPAILNFMRQV--------PEFAELDAPDFRYFITGGAPMPEALIKIYA 305
Query: 65 DTFGIK----------------------------------HLIVKVVDKKGNIVPMGMCG 90
I+ V V G I G G
Sbjct: 306 A-KNIEVVQGYALTESCGGGTLLLSEDALRKAGSAGRATMFTDVAVRGDDGVIREHGE-G 363
Query: 91 EVCYRGYNVMLGYYG--EENKILENDEWFPSGDFFILHENGYGQVVGRIKDIIIRGGENI 148
EV + ++ Y+ E + ++ WF +GD + + GY + R+KD+II GGEN+
Sbjct: 364 EVVIKSDILLKEYWNRPEATRDAFDNGWFRTGDIGEIDDEGYLYIKDRLKDMIISGGENV 423
Query: 149 IPKEIEYVLQTHPDVVEAQVYGVPDERLGEVVVANIELKPGASLTQDDIKTYCKGK 204
P EIE V+ P V E V G+PDE+ GE+ A + + +++ I YC +
Sbjct: 424 YPAEIESVIIGVPGVSEVAVIGLPDEKWGEIAAAIV-VADQNEVSEQQIVEYCGTR 478
>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 = 182 bits (463), Expect = 2e-55
Identities = 56/238 (23%), Positives = 93/238 (39%), Gaps = 44/238 (18%)
Query: 7 VKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAPCSPTLFNKIRDT 66
+ + T+L+G PTMY + ++ P +A+ L+ + ++ A +I
Sbjct: 240 LNDGATMLFGVPTMYHRIAETL----PADPELAKALAGARLLVSGSAALPVHDHERIAAA 295
Query: 67 FGIK--------------------------------HLIVKVVDKKGNIVP---MGMCGE 91
G + + +++V++ G + GE
Sbjct: 296 TGRRVIERYGMTETLMNTSVRADGEPRAGTVGVPLPGVELRLVEEDGTPIAALDGESVGE 355
Query: 92 VCYRGYNVMLGYYG--EEN-KILENDEWFPSGDFFILHENGYGQVVGR-IKDIIIRGGEN 147
+ RG N+ Y + D +F +GD + +GY ++VGR D+I GG
Sbjct: 356 IQVRGPNLFTEYLNRPDATAAAFTEDGFFRTGDMAVRDPDGYVRIVGRKATDLIKSGGYK 415
Query: 148 IIPKEIEYVLQTHPDVVEAQVYGVPDERLGEVVVANIEL-KPGASLTQDDIKTYCKGK 204
I EIE L HP+V EA V G PD LGE +VA I P A + + +
Sbjct: 416 IGAGEIENALLEHPEVREAAVTGEPDPDLGERIVAWIVPADPAAPPALGTLADHVAAR 473
>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 = 180 bits (460), Expect = 9e-55
Identities = 58/232 (25%), Positives = 86/232 (37%), Gaps = 42/232 (18%)
Query: 6 IVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAPCSPTLFNK--- 62
I K TV+ M +++ P +L+S P + F
Sbjct: 244 IEAHKVTVMAEFAPMLGNILDQAAP---------AQLASLRAVTGLDTPETIERFEATCP 294
Query: 63 ---IRDTFG-----------------------IKHLIVKVVDKKGNIVPMGMCGEVCYRG 96
TFG + V VVD + +P G GE+ RG
Sbjct: 295 NATFWATFGQSETSGLSTFAPYRDRPKSAGRPLFWRTVAVVDAEDRPLPPGEVGEIVLRG 354
Query: 97 YNVMLGYYG--EENKILENDEWFPSGDFFILHENGYGQVVGRI--KDIIIRGGENIIPKE 152
V GY+ + + W +GD +GY GR K++I GGEN+ P E
Sbjct: 355 PTVFKGYWNNAAATQHAFRNGWHHTGDMGRFDADGYLFYAGRAPEKELIKTGGENVYPAE 414
Query: 153 IEYVLQTHPDVVEAQVYGVPDERLGEVVVANIELKPGASLTQDDIKTYCKGK 204
+E L+ HP + +A V GVPD + E + A KPG S+ D + +
Sbjct: 415 VEGALKQHPAIADAVVIGVPDPQWSEAIKAVCVCKPGESIAADALAEFVASL 466
>3ipl_A 2-succinylbenzoate--COA ligase; structural genomics, acyl-protein
synthetase, PSI-2, protein structure initiative; 2.30A
{Staphylococcus aureus subsp}
Length = 501
Score = 175 bits (446), Expect = 9e-53
Identities = 49/237 (20%), Positives = 77/237 (32%), Gaps = 55/237 (23%)
Query: 4 RHIVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEE-LSSPVIALTAGAPCSPTLFNK 62
I E+ T + P L+ L L GA S T+
Sbjct: 245 TMIKNERITHISLVPQTLNWLMQQ--------GLHEPYNLQK---ILLGGAKLSATMIET 293
Query: 63 IRDTFG---------------------------------IKHLIVKVVDKKGNIVPMGMC 89
++ VK+ +
Sbjct: 294 ALQYNLPIYNSFGMTETCSQFLTATPEMLHARPDTVGMPSANVDVKIKNPNKEGH----- 348
Query: 90 GEVCYRGYNVMLGYYG--EENKILENDEWFPSGDFFILHENGYGQVVGRIKDIIIRGGEN 147
GE+ +G NVM GY + E + +F +GD + GY + R KD+II GGEN
Sbjct: 349 GELMIKGANVMNGYLYPTDLTGTFE-NGYFNTGDIAEIDHEGYVMIYDRRKDLIISGGEN 407
Query: 148 IIPKEIEYVLQTHPDVVEAQVYGVPDERLGEVVVANIELKPGASLTQDDIKTYCKGK 204
I P +IE V + P + +A G PD+ G+V + +++ + Y
Sbjct: 408 IYPYQIETVAKQFPGISDAVCVGHPDDTWGQVPKLYFVSESD--ISKAQLIAYLSKH 462
>2v7b_A Benzoate-coenzyme A ligase; benzoate oxidation, benzoate COA
ligase; 1.84A {Burkholderia xenovorans}
Length = 529
Score = 166 bits (423), Expect = 3e-49
Identities = 54/237 (22%), Positives = 97/237 (40%), Gaps = 47/237 (19%)
Query: 6 IVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAE-ELSSPVIALTAGAPCSPTLFNKIR 64
+V+ + TV YG PT+Y +++ S PN+ + I +AG + +
Sbjct: 270 LVEHRPTVFYGVPTLYANMLVS--------PNLPARADVAIRICTSAGEALPREIGERFT 321
Query: 65 DTFGIK-----------HLI---------------------VKVVDKKGNIVPMGMCGEV 92
FG + H+ +++ D+ G+ VP G G++
Sbjct: 322 AHFGCEILDGIGSTEMLHIFLSNRAGAVEYGTTGRPVPGYEIELRDEAGHAVPDGEVGDL 381
Query: 93 CYRGYNVMLGYYG--EENKILENDEWFPSGDFFILHENGYGQVVGRIKDIIIRGGENIIP 150
+G + + Y+ E+++ EW SGD + NG GR D++ G+ + P
Sbjct: 382 YIKGPSAAVMYWNNREKSRATFLGEWIRSGDKYCRLPNGCYVYAGRSDDMLKVSGQYVSP 441
Query: 151 KEIEYVLQTHPDVVEAQVYGVPDERLGEVVVANIELKPGAS---LTQDDIKTYCKGK 204
E+E VL H V+EA V GV A + LK + + +++K + K +
Sbjct: 442 VEVEMVLVQHDAVLEAAVVGVDHGG-LVKTRAFVVLKREFAPSEILAEELKAFVKDR 497
>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 = 164 bits (418), Expect = 2e-48
Identities = 57/238 (23%), Positives = 97/238 (40%), Gaps = 44/238 (18%)
Query: 4 RHIVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAPCSPTLFNKI 63
R + K PT++ S L ++ +LS+ + GAP S + +
Sbjct: 275 RSLQDYKIQSALLVPTLFSFFAKS--TLIDK-----YDLSNLHEIASGGAPLSKEVGEAV 327
Query: 64 RDTFGIKHLI---------------------------------VKVVD-KKGNIVPMGMC 89
F + + KVVD G + +
Sbjct: 328 AKRFHLPGIRQGYGLTETTSAILITPEGDDKPGAVGKVVPFFEAKVVDLDTGKTLGVNQR 387
Query: 90 GEVCYRGYNVMLGYYG--EENK-ILENDEWFPSGDFFILHENGYGQVVGRIKDIIIRGGE 146
GE+C RG +M GY E +++ D W SGD E+ + +V R+K +I G
Sbjct: 388 GELCVRGPMIMSGYVNNPEATNALIDKDGWLHSGDIAYWDEDEHFFIVDRLKSLIKYKGY 447
Query: 147 NIIPKEIEYVLQTHPDVVEAQVYGVPDERLGEVVVANIELKPGASLTQDDIKTYCKGK 204
+ P E+E +L HP++ +A V G+PD+ GE+ A + L+ G ++T+ +I Y +
Sbjct: 448 QVAPAELESILLQHPNIFDAGVAGLPDDDAGELPAAVVVLEHGKTMTEKEIVDYVASQ 505
>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 = 164 bits (417), Expect = 3e-48
Identities = 58/238 (24%), Positives = 97/238 (40%), Gaps = 44/238 (18%)
Query: 4 RHIVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAPCSPTLFNKI 63
+ + KCT + PT++ L S L + +LS+ V + GAP S + +
Sbjct: 277 KTLQDYKCTSVILVPTLFAILNKS--ELLNK-----YDLSNLVEIASGGAPLSKEVGEAV 329
Query: 64 RDTFGIKHLI---------------------------------VKVVD-KKGNIVPMGMC 89
F + + KV+D +
Sbjct: 330 ARRFNLPGVRQGYGLTETTSAIIITPEGDDKPGASGKVVPLFKAKVIDLDTKKSLGPNRR 389
Query: 90 GEVCYRGYNVMLGYYG--EENK-ILENDEWFPSGDFFILHENGYGQVVGRIKDIIIRGGE 146
GEVC +G +M GY E K +++ + W +GD E + +V R+K +I G
Sbjct: 390 GEVCVKGPMLMKGYVNNPEATKELIDEEGWLHTGDIGYYDEEKHFFIVDRLKSLIKYKGY 449
Query: 147 NIIPKEIEYVLQTHPDVVEAQVYGVPDERLGEVVVANIELKPGASLTQDDIKTYCKGK 204
+ P E+E VL HP + +A V GVPD GE+ A + L+ G ++T+ ++ Y +
Sbjct: 450 QVPPAELESVLLQHPSIFDAGVAGVPDPVAGELPGAVVVLESGKNMTEKEVMDYVASQ 507
>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 = 164 bits (417), Expect = 3e-48
Identities = 57/251 (22%), Positives = 97/251 (38%), Gaps = 55/251 (21%)
Query: 4 RHIVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAPCSPTLFNKI 63
+I K K T + P L+++++ + + S + T P +P L K+
Sbjct: 262 ENIEKYKGTFSWAVPPALNVLVNTLESSNKTY-----DWSYLKVFATGAWPVAPALVEKL 316
Query: 64 RDTFGIKHLI----------------------------------------VKVVDK-KGN 82
K +KV+ G
Sbjct: 317 LKLAAEKCNNPRLRHNQIWGMTEACPMVTTNPPLRLDKSTTQGVPMSDIELKVISLEDGR 376
Query: 83 IVPMGMCGEVCYRGYNVMLGYYG--EENK-----ILENDEWFPSGDFFILHENGYGQVVG 135
+ +G GE+ RG N+ GY+ +EN+ + ++F +GD + E G+
Sbjct: 377 ELGVGESGEIVIRGPNIFKGYWKREKENQECWWYDEKGRKFFRTGDVGFIDEEGFLHFQD 436
Query: 136 RIKDIIIRGGENIIPKEIEYVLQTHPDVVEAQVYGVPDERLGEVVVANIELKPG--ASLT 193
R+K++I G I P E+E +L H V++ V G PDE GEV A I LKP +
Sbjct: 437 RVKEVIKYKGYTIAPFELEALLMKHEAVMDVAVIGKPDEEAGEVPKAFIVLKPEYRGKVD 496
Query: 194 QDDIKTYCKGK 204
++DI + + +
Sbjct: 497 EEDIIEWVRER 507
>3ni2_A 4-coumarate:COA ligase; 4CL, phenylpropanoid biosynthesis; HET: AYL
EPE; 1.90A {Populus tomentosa} PDB: 3a9v_A* 3a9u_A*
Length = 536
Score = 156 bits (397), Expect = 2e-45
Identities = 59/243 (24%), Positives = 99/243 (40%), Gaps = 49/243 (20%)
Query: 4 RHIVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAPCSPTLFNKI 63
I K K ++ P + + + S P ++ +LSS + + GAP L + +
Sbjct: 265 GLIEKYKVSIAPVVPPVMMSIAKS--PDLDK-----HDLSSLRMIKSGGAPLGKELEDTV 317
Query: 64 RDTFGIKHLI--------------------------------------VKVVDK-KGNIV 84
R F L +K+VD G +
Sbjct: 318 RAKFPQARLGQGYGMTEAGPVLAMCLAFAKEPFDIKPGACGTVVRNAEMKIVDPETGASL 377
Query: 85 PMGMCGEVCYRGYNVMLGYYG--EENK-ILENDEWFPSGDFFILHENGYGQVVGRIKDII 141
P GE+C RG +M GY E ++ + W +GD + ++ +V R+K++I
Sbjct: 378 PRNQPGEICIRGDQIMKGYLNDPEATSRTIDKEGWLHTGDIGYIDDDDELFIVDRLKELI 437
Query: 142 IRGGENIIPKEIEYVLQTHPDVVEAQVYGVPDERLGEVVVANIELKPGASLTQDDIKTYC 201
G + P E+E +L HP++ +A V G+ DE GEV VA + + T+D+IK Y
Sbjct: 438 KYKGFQVAPAELEALLIAHPEISDAAVVGLKDEDAGEVPVAFVVKSEKSQATEDEIKQYI 497
Query: 202 KGK 204
+
Sbjct: 498 SKQ 500
>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 = 142 bits (361), Expect = 3e-40
Identities = 54/251 (21%), Positives = 92/251 (36%), Gaps = 56/251 (22%)
Query: 2 ISRHIVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAPCSPTLFN 61
+ E T G PT+++ L + + + L + + G+ +L
Sbjct: 259 LVELFDGEGVTFTAGVPTVWLALA-------DYLESTGHRLKTLRRLVVGGSAAPRSLIA 311
Query: 62 KIRDTFGIK------------------------------------------HLI-VKVVD 78
+ G++ L+ ++V D
Sbjct: 312 RFER-MGVEVRQGYGLTETSPVVVQNFVKSHLESLSEEEKLTLKAKTGLPIPLVRLRVAD 370
Query: 79 KKGNIVPM-GM-CGEVCYRGYNVMLGYYGEE---NKILENDEWFPSGDFFILHENGYGQV 133
++G VP G GEV +G + GYYG E L D +F +GD + E GY ++
Sbjct: 371 EEGRPVPKDGKALGEVQLKGPWITGGYYGNEEATRSALTPDGFFRTGDIAVWDEEGYVEI 430
Query: 134 VGRIKDIIIRGGENIIPKEIEYVLQTHPDVVEAQVYGVPDERLGEVVVANIELKPGASLT 193
R+KD+I GGE I ++E L HP V EA V +P + E +A + +
Sbjct: 431 KDRLKDLIKSGGEWISSVDLENALMGHPKVKEAAVVAIPHPKWQERPLAVVVPRGEKPTP 490
Query: 194 QDDIKTYCKGK 204
++ + K
Sbjct: 491 EELNEHLLKAG 501
>3tsy_A Fusion protein 4-coumarate--COA ligase 1, resvera synthase;
transferase; 3.10A {Arabidospis thaliana}
Length = 979
Score = 144 bits (365), Expect = 4e-40
Identities = 56/242 (23%), Positives = 102/242 (42%), Gaps = 47/242 (19%)
Query: 4 RHIVKEKCTVLYGTPTMYVDLI----------SSIQ-------PLTEEMPNIAEEL---- 42
I + K TV P + + + SSI+ PL +E+ +
Sbjct: 312 ELIQRCKVTVAPMVPPIVLAIAKSSETEKYDLSSIRVVKSGAAPLGKELEDAVNAKFPNA 371
Query: 43 ----------SSPVIALTAGAPCSPTLFNK------IRDTFGIKHLIVKVVD-KKGNIVP 85
+ PV+A++ G P +R+ +K+VD G+ +
Sbjct: 372 KLGQGYGMTEAGPVLAMSLGFAKEPFPVKSGACGTVVRNA------EMKIVDPDTGDSLS 425
Query: 86 MGMCGEVCYRGYNVMLGYYG--EENK-ILENDEWFPSGDFFILHENGYGQVVGRIKDIII 142
GE+C RG+ +M GY ++ D W +GD ++ ++ +V R+K++I
Sbjct: 426 RNQPGEICIRGHQIMKGYLNNPAATAETIDKDGWLHTGDIGLIDDDDELFIVDRLKELIK 485
Query: 143 RGGENIIPKEIEYVLQTHPDVVEAQVYGVPDERLGEVVVANIELKPGASLTQDDIKTYCK 202
G + P E+E +L HPD+ + V + +E GEV VA + + L++DD+K +
Sbjct: 486 YKGFQVAPAELEALLIGHPDITDVAVVAMKEEAAGEVPVAFVVKSKDSELSEDDVKQFVS 545
Query: 203 GK 204
+
Sbjct: 546 KQ 547
>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 = 115 bits (290), Expect = 3e-30
Identities = 57/241 (23%), Positives = 86/241 (35%), Gaps = 52/241 (21%)
Query: 6 IVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAPCSPTLFNKIRD 65
+ + G P +Y L+ Q L+ + + +T G P R
Sbjct: 293 LSSYPIKSMMGAPIVYRMLLQ--QDLS------SYKFPHLQNCVTVGESLLPETLENWRA 344
Query: 66 TFGIK-----------HLI---------------------VKVVDKKGNIVPMGMCGEVC 93
G+ V+++D KGN++P G G++
Sbjct: 345 QTGLDIRESYGQTETGLTCMVSKTMKIKPGYMGTAASCYDVQIIDDKGNVLPPGTEGDIG 404
Query: 94 YRG-----YNVMLGYYGEENKILEN--DEWFPSGDFFILHENGYGQVVGRIKDIIIRGGE 146
R + GY +K N +++ GD I E+GY Q +GR DII G
Sbjct: 405 IRVKPIRPIGIFSGYVDNPDKTAANIRGDFWLLGDRGIKDEDGYFQFMGRADDIINSSGY 464
Query: 147 NIIPKEIEYVLQTHPDVVEAQVYGVPDERLGEVVVANIELKPGASLTQ-----DDIKTYC 201
I P E+E L HP VVE V PD GEVV A + L +++ +
Sbjct: 465 RIGPSEVENALMEHPAVVETAVISSPDPVRGEVVKAFVVLASQFLSHDPEQLTKELQQHV 524
Query: 202 K 202
K
Sbjct: 525 K 525
>3etc_A AMP-binding protein; adenylate-forming acyl-COA synthetase ligase,
ligase; HET: PGE 1PE EPE; 2.10A {Methanosarcina
acetivorans}
Length = 580
Score = 106 bits (266), Expect = 5e-27
Identities = 57/239 (23%), Positives = 96/239 (40%), Gaps = 50/239 (20%)
Query: 6 IVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAPCSPTLFNK--- 62
K T PT+Y LI + L+ S+ A+ AG P +P +FN+
Sbjct: 312 ASKYGVTTFCAPPTIYRFLIK--EDLS------HYNFSTLKYAVVAGEPLNPEVFNRFLE 363
Query: 63 -----IRDTFG---------------IK---------HLIVKVVDKKGNIVPMGMCGEVC 93
+ + FG K ++++D+ G + +G GE+
Sbjct: 364 FTGIKLMEGFGQTETVVTIATFPWMEPKPGSIGKPTPGYKIELMDRDGRLCEVGEEGEIV 423
Query: 94 YRGYN-----VMLGYYGEENKILEN--DEWFPSGDFFILHENGYGQVVGRIKDIIIRGGE 146
+ + Y + + E D ++ +GD + E+GY VGR DII G
Sbjct: 424 INTMEGKPVGLFVHYGKDPERTEETWHDGYYHTGDMAWMDEDGYLWFVGRADDIIKTSGY 483
Query: 147 NIIPKEIEYVLQTHPDVVEAQVYGVPDERLGEVVVANIELKPGASLTQD---DIKTYCK 202
+ P E+E L HP V+E + GVPD G+V+ A I L + + +++ + K
Sbjct: 484 KVGPFEVESALIQHPAVLECAITGVPDPVRGQVIKATIVLTKDYTPSDSLKNELQDHVK 542
>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 = 96.2 bits (240), Expect = 2e-23
Identities = 31/130 (23%), Positives = 60/130 (46%), Gaps = 13/130 (10%)
Query: 74 VKVVDKKGNIVPMGMCGEVCYRGYNVMLGYYG--EENKILENDEWFPSGDFFILHENGYG 131
+++ ++ G V + G +C G ++M GY+G + W +GD L + G
Sbjct: 396 IEIRNEAGMPVAERVVGHICISGPSLMSGYFGDQVSQDEIAATGWLDTGDLGYLLD---G 452
Query: 132 Q--VVGRIKDIIIRGGENIIPKEIEYVLQTHPDVVEAQV--YGVPDERLGEVVVANIELK 187
V GRIKD+II G NI P++IEY+ + P++ + E++ ++ + +
Sbjct: 453 YLYVTGRIKDLIIIRGRNIWPQDIEYIAEQEPEIHSGDAIAFVTAQEKI--ILQI--QCR 508
Query: 188 PGASLTQDDI 197
+ +
Sbjct: 509 ISDEERRGQL 518
>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 = 76.6 bits (189), Expect = 1e-16
Identities = 34/139 (24%), Positives = 60/139 (43%), Gaps = 21/139 (15%)
Query: 74 VKVVDKKGNI-VPMGMCGEVCYRGYNVMLGYYG--EENK---------ILENDEWFPSGD 121
VK++D I GE+ + +V GY+ EE + + + +GD
Sbjct: 383 VKIIDPDTLIPCDFDQVGEIWVQSNSVAKGYWNQPEETRHAFAGKIKDDERSAIYLRTGD 442
Query: 122 FFILHENGYGQ--VVGRIKDIIIRGGENIIPKEIEY-VLQTHPDVVEAQV--YGVPDERL 176
LHE + V GRIKD+II G+N P++IE+ ++ + V + + + +E
Sbjct: 443 LGFLHE---NELYVTGRIKDLIIIYGKNHYPQDIEFSLMHSPLHHVLGKCAAFVIQEEHE 499
Query: 177 GEVVVANIELKPGASLTQD 195
++ V E+K
Sbjct: 500 YKLTVM-CEVKNRFMDDVA 517
>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 = 56.4 bits (137), Expect = 8e-10
Identities = 36/163 (22%), Positives = 62/163 (38%), Gaps = 17/163 (10%)
Query: 44 SPVIALTAGAPCSPTL-FNKIRDTFGIKHLIVKVVDKKGNIVPMGMCGEVCYRGY--NVM 100
+P+ S T F FG++ +VD +G+ G +
Sbjct: 424 TPLPGAIELKAGSATRPF------FGVQ---PALVDNEGHPQEGATEGNLVITDSWPGQA 474
Query: 101 LGYYGEENKILEN-----DEWFPSGDFFILHENGYGQVVGRIKDIIIRGGENIIPKEIEY 155
+G+ + + + SGD E+GY + GR+ D++ G + EIE
Sbjct: 475 RTLFGDHERFEQTYFSTFKNMYFSGDGARRDEDGYYWITGRVDDVLNVSGHRLGTAEIES 534
Query: 156 VLQTHPDVVEAQVYGVPDERLGEVVVANIELKPGASLTQDDIK 198
L HP + EA V G+P G+ + A + L G + +
Sbjct: 535 ALVAHPKIAEAAVVGIPHAIKGQAIYAYVTLNHGEEPSPELYA 577
>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 = 52.2 bits (126), Expect = 2e-08
Identities = 21/70 (30%), Positives = 35/70 (50%)
Query: 127 ENGYGQVVGRIKDIIIRGGENIIPKEIEYVLQTHPDVVEAQVYGVPDERLGEVVVANIEL 186
++GY ++GR+ D++ G + EIE + P V E V G D+ G+ V A + L
Sbjct: 515 KDGYIWILGRVDDVVNVSGHRLSTAEIEAAIIEDPIVAECAVVGFNDDLTGQAVAAFVVL 574
Query: 187 KPGASLTQDD 196
K +S +
Sbjct: 575 KNKSSWSTAT 584
>2y4o_A Phenylacetate-coenzyme A ligase; phenylacetic acid degradation
pathway; HET: DLL; 1.90A {Burkholderia cenocepacia}
Length = 443
Score = 44.2 bits (105), Expect = 9e-06
Identities = 40/232 (17%), Positives = 78/232 (33%), Gaps = 67/232 (28%)
Query: 10 KCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAPCSPTLFNKIRDTFGI 69
+ ++ TP+ ++LI + + SS I + P + L N++ GI
Sbjct: 184 EPKIILVTPSYMLNLIDEM----VRQ-GMDPAESSLKIGIFGAEPWTQALRNEVETRVGI 238
Query: 70 K-------------------------------HLIVKVVDKK-GNIVPMGMCGEVCYRGY 97
H +++D G ++P G GE+ +
Sbjct: 239 DALDIYGLSEVMGPGVACECVETKDGPVIWEDHFYPEIIDPVTGEVLPDGSQGELVFTSL 298
Query: 98 NVMLGYYGEENKILENDEWFP-----SGDFFILH-ENG-----YGQVVGRIKD-IIIRGG 145
E P + D L ++ GR D +I+RG
Sbjct: 299 TK---------------EAMPVIRYRTRDLTALLPPTARAMRRLAKITGRSDDMLIVRG- 342
Query: 146 ENIIPKEIEYVLQTHPDVV-EAQVYGVPDERLGEVVVANIELKPGASLTQDD 196
N+ P +IE ++ P + + Q+ D + + + +EL+ A+ + D
Sbjct: 343 VNVFPSQIEEIVVALPLLSGQFQITLSRDGHMDRLDL-AVELRSEAAASVTD 393
>2y27_A Phenylacetate-coenzyme A ligase; phenylacetic acid degradation
pathway; HET: MSE PG4 ATP; 1.60A {Burkholderia
cenocepacia} PDB: 2y4n_A*
Length = 437
Score = 43.8 bits (104), Expect = 1e-05
Identities = 38/237 (16%), Positives = 72/237 (30%), Gaps = 65/237 (27%)
Query: 10 KCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAPCSPTLFNKIRDTFGI 69
+ ++ TP+ + + I E + SS I + P + + I GI
Sbjct: 182 RPDIIMVTPSYMLSIADEI----ERQ-GLDPVQSSLRIGIFGAEPWTNDMRVAIEQRMGI 236
Query: 70 K-------------------------------HLIVKVVDKK-GNIVPMGMCGEVCYRGY 97
H +++D + G ++P G GE+ +
Sbjct: 237 DAVDIYGLSEVMGPGVASECVETKDGPTIWEDHFYPEIIDPETGEVLPDGELGELVFTSL 296
Query: 98 NVMLGYYGEENKILENDEWFP-----SGDFFILHENG------YGQVVGRIKDIIIRGGE 146
E P + D L ++ GR D++I G
Sbjct: 297 TK---------------EALPIIRYRTRDLTRLLPGTARTMRRMEKITGRSDDMMIVRGV 341
Query: 147 NIIPKEIEYVLQTHPDVV-EAQVYGVPDERLGEVVVANIELKPGASLTQDDIKTYCK 202
N+ P +IE L + Q+ + L + + N+E P + I+ +
Sbjct: 342 NVFPTQIEEQLLKQRALAPHYQIVLTKEGPLDVLTL-NVEPCPETAPDTAAIQVAKQ 397
>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 = 41.1 bits (97), Expect = 1e-04
Identities = 37/239 (15%), Positives = 73/239 (30%), Gaps = 67/239 (28%)
Query: 10 KCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAPCSPTLFNKIRDTFGI 69
K T L+ P+ + L +E I ++ + P + KI +
Sbjct: 178 KTTALHAIPSYAIRLAEVF----QEE-GIDPRETTLKTLVIGAEPHTDEQRRKIERMLNV 232
Query: 70 K------------------------------HLIVKVVDKK-GNIVPMGMCGEVCYRGYN 98
K +V+++D + G VP G GE+ +
Sbjct: 233 KAYNSFGMTEMNGPGVAFECQEQNGMHFWEDCYLVEIIDPETGEPVPEGEIGELVLTTLD 292
Query: 99 VMLGYYGEENKILENDEWFP-----SGDFFILHENG---------YGQVVGRIKDIIIRG 144
E P + D + ++ GR D+ I
Sbjct: 293 R---------------EMMPLIRYRTRDLTRILPGKCPCGRTHLRIDRIKGRSDDMFIIK 337
Query: 145 GENIIPKEIEYVLQTHPDVV-EAQVYGVPDERLGEVVVANIELKPGASLTQDDIKTYCK 202
G NI P ++E +L P++ + E++V +EL ++ +++ +
Sbjct: 338 GVNIFPMQVEKILVQFPELGSNYLITLETVNNQDEMIV-EVELSDLSTDNYIELEKIRR 395
>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 = 39.0 bits (92), Expect = 6e-04
Identities = 40/268 (14%), Positives = 70/268 (26%), Gaps = 90/268 (33%)
Query: 2 ISRHIVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAPCSPTLFN 61
+ + + V TP+ + E L + L G +
Sbjct: 227 LFASLEQSDIQVWTSTPSFA-------EMCLMEASFSESMLPNMKTFLFCGEVLPNEVAR 279
Query: 62 KIRDTFGIKHLI--------------------------------------VKVVDKKGNI 83
K+ + F ++ + ++ + G I
Sbjct: 280 KLIERFPKATIMNTYGPTEATVAVTGIHVTEEVLDQYKSLPVGYCKSDCRLLIMKEDGTI 339
Query: 84 VPMGMCGEVCYRGYNVMLGYYG-----EENKILENDE---------WFPSGDFFILHENG 129
P G GE+ G +V +GY G E+ + + E + +G F
Sbjct: 340 APDGEKGEIVIVGPSVSVGYLGSPELTEKAFTMIDGERAYKTGDAGYVENGLLFYN---- 395
Query: 130 YGQVVGRI----KDIIIRG-----GENIIPKEIEYVLQTHPDVVEAQVYGVPDE----RL 176
GR+ K + G E IE+ L+ V A + + L
Sbjct: 396 -----GRLDFQIK---LHGYRMELEE------IEHHLRACSYVEGAVIVPIKKGEKYDYL 441
Query: 177 GEVVVANIELKPGASLTQDDIKTYCKGK 204
VVV IK +
Sbjct: 442 LAVVVPGEHSFEKEFKLTSAIKKELNER 469
>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 = 38.9 bits (91), Expect = 6e-04
Identities = 21/81 (25%), Positives = 34/81 (41%), Gaps = 20/81 (24%)
Query: 73 IVKVVDKKGNI-VPMGMCGEVCYRGYNVMLGYYG--EENK------------ILENDEWF 117
IV++VD I P G GE+ G NV GY+ +E++ W
Sbjct: 403 IVRIVDSDTCIECPDGTVGEIWVHGDNVANGYWQKPDESERTFGGKIVTPSPGTPEGPWL 462
Query: 118 PSGDFFILHENGYGQ--VVGR 136
+GD + + G+ ++GR
Sbjct: 463 RTGDSGFVTD---GKMFIIGR 480
>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 = 38.6 bits (91), Expect = 7e-04
Identities = 36/265 (13%), Positives = 64/265 (24%), Gaps = 92/265 (34%)
Query: 6 IVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAPCSPTLFNKIRD 65
+ K V TP+ Q + + L + G ++ + +
Sbjct: 230 LKKSGLNVWTSTPSFV-------QMCLMDPGFSQDLLPHADTFMFCGEVLPVSVAKALLE 282
Query: 66 TFGIKHLI--------------------------------------VKVVDKKGNIVPMG 87
F + + ++D++G +P G
Sbjct: 283 RFPKAKIFNTYGPTEATVAVTSVEITNDVISRSESLPVGFAKPDMNIFIMDEEGQPLPEG 342
Query: 88 MCGEVCYRGYNVMLGYYG-----EENKILENDE----------WFPSGDFFILHENGYGQ 132
GE+ G +V GY G E+ ++ + G F
Sbjct: 343 EKGEIVIAGPSVSRGYLGEPELTEK-AFFSHEGQWAYRTGDAGFIQDGQIFCQ------- 394
Query: 133 VVGRI----KDIIIRG-----GENIIPKEIEYVLQTHPDVVEAQVYGVPDE----RLGEV 179
GR+ K + G E IE+ ++ V A V L
Sbjct: 395 --GRLDFQIK---LHGYRMELEE------IEFHVRQSQYVRSAVVIPYQPNGTVEYLIAA 443
Query: 180 VVANIELKPGASLTQDDIKTYCKGK 204
+V IK
Sbjct: 444 IVPEEHEFEKEFQLTSAIKKELAAS 468
>2vsq_A Surfactin synthetase subunit 3; ligase, peptidyl carrier protein,
ligase phosphoprotein, TER module, phosphopantetheine;
2.60A {Bacillus subtilis}
Length = 1304
Score = 36.1 bits (84), Expect = 0.006
Identities = 47/232 (20%), Positives = 68/232 (29%), Gaps = 98/232 (42%)
Query: 4 RHIVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAPCSPTLFNKI 63
I++E V++ T + LT+ + + L G S K
Sbjct: 691 DLILQENVNVMFATTAL-------FNLLTDAGE---DWMKGLRCILFGGERASVPHVRKA 740
Query: 64 RDTFGIKHLI-------------------------------------VKVVDKKGNIVPM 86
G LI V +++++ + P
Sbjct: 741 LRIMGPGKLINCYGPTEGTVFATAHVVHDLPDSISSLPIGKPISNASVYILNEQSQLQPF 800
Query: 87 GMCGEVCYRGYNVMLGYYG-----EENKILEN----DE----------WFPSG--DFFIL 125
G GE+C G V GY +E K +EN E W P G ++
Sbjct: 801 GAVGELCISGMGVSKGYVNRADLTKE-KFIENPFKPGETLYRTGDLARWLPDGTIEY--- 856
Query: 126 HENGYGQVVGRI----KDIIIRG-----GENIIPKEIEYVLQTHPDVVEAQV 168
GRI K IRG E IE LQ +P V +A V
Sbjct: 857 --------AGRIDDQVK---IRGHRIELEE------IEKQLQEYPGVKDAVV 891
>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 = 33.3 bits (77), Expect = 0.052
Identities = 30/225 (13%), Positives = 49/225 (21%), Gaps = 79/225 (35%)
Query: 2 ISRHIVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNI------AEELSSPVIALTAGAPC 55
+ I + + TP+ + S +MP + EEL+
Sbjct: 230 LFTTIAQLPVGIWTSTPSFADMAMLSDDFCQAKMPALTHFYFDGEELTVSTARKLFERFP 289
Query: 56 SPTLFN--------------KIRDTFG-----------IKHLIVKVVDKKGNIVPMGMCG 90
S + N +I ++D+ G + G G
Sbjct: 290 SAKIINAYGPTEATVALSAIEITREMVDNYTRLPIGYPKPDSPTYIIDEDGKELSSGEQG 349
Query: 91 EVCYRGYNVMLGYYG-----EENKILENDE-----------WFPSG--DFFILHENGYGQ 132
E+ G V GY E +
Sbjct: 350 EIIVTGPAVSKGYLNNPEKTAE-AFFTFKGQPAYHTGDIGSLTEDNILLY---------- 398
Query: 133 VVGRI----KDIIIRG-----GENIIPKEIEYVLQTHPDVVEAQV 168
GR+ K G + + L P V A
Sbjct: 399 -GGRLDFQIK---YAGYRIELED------VSQQLNQSPMVASAVA 433
>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 = 32.8 bits (76), Expect = 0.070
Identities = 27/123 (21%), Positives = 43/123 (34%), Gaps = 51/123 (41%)
Query: 76 VVDKKGNIVPMGMCGEVCYRGYNVMLGYYG-----EENKILEN----DE----------W 116
+VD+ + +G GE+C G + GY+ + K ++N E W
Sbjct: 359 IVDENLQLKSVGEAGELCIGGEGLARGYWKRPELTSQ-KFVDNPFVPGEKLYKTGDQARW 417
Query: 117 FPSG--DFFILHENGYGQVVGRI----KDIIIRG-----GENIIPKEIEYVLQTHPDVVE 165
G ++ +GRI K IRG E +E +L H + E
Sbjct: 418 LSDGNIEY-----------LGRIDNQVK---IRGHRVELEE------VESILLKHMYISE 457
Query: 166 AQV 168
V
Sbjct: 458 TAV 460
>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 = 31.1 bits (71), Expect = 0.081
Identities = 15/68 (22%), Positives = 28/68 (41%), Gaps = 2/68 (2%)
Query: 136 RIKDIIIRGGENIIPKEIEYVLQTHPDVV-EAQVYGVPDERLGEVVVANIELKPGASLTQ 194
D+II G NI P +IE +L ++ + + E E+ V +EL +
Sbjct: 2 NADDMIILKGVNIFPIQIETILLQFKELGSDYLITLETAESNDEMTV-EVELSQLFTDDY 60
Query: 195 DDIKTYCK 202
++ +
Sbjct: 61 GRLQALTR 68
>3hgu_A EHPF; phenazine, antibiotic, biosynthetic protein; 1.95A {Pantoea
agglomerans} PDB: 3hgv_A 3l2k_A*
Length = 369
Score = 31.6 bits (71), Expect = 0.13
Identities = 14/129 (10%), Positives = 26/129 (20%), Gaps = 43/129 (33%)
Query: 1 MISRHIVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAPCSPTLF 60
+ ++ + L TP + +L+ + + + S G +
Sbjct: 196 QVQNTLMNQDIRFLVTTPPVLRELL-------KRPEVVLQMKQSLAQITLGGTELNLDEI 248
Query: 61 NKIRDTFGIK-----------------------------------HLIVKVVDKK-GNIV 84
I + VVD V
Sbjct: 249 KFIASEILPDCEFSASYGSTSALGVSRSLLITSESQQVIYDSFSPFITYDVVDSITAQTV 308
Query: 85 PMGMCGEVC 93
G G V
Sbjct: 309 EYGERGNVI 317
>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 = 31.7 bits (73), Expect = 0.14
Identities = 7/67 (10%), Positives = 15/67 (22%), Gaps = 22/67 (32%)
Query: 134 VGRI----KDIIIRG-----GENIIPKEIEYVLQTHPDVVEAQVYGVPDE----RLGEVV 180
+GR K + G +E + P +++ + L
Sbjct: 415 IGRGDGQVK---LNGYRLDLPA------LEQRFRRQPGILDCALLVRERNGVKQLLCAWT 465
Query: 181 VANIELK 187
Sbjct: 466 GKADASP 472
>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 = 0.19
Identities = 6/25 (24%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 27 SIQPLTEEMPNIAEELSSPVIALTA 51
+++ L + A++ S+P +A+ A
Sbjct: 21 ALKKLQASLKLYADD-SAPALAIKA 44
>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 = 31.4 bits (70), Expect = 0.21
Identities = 14/66 (21%), Positives = 26/66 (39%), Gaps = 14/66 (21%)
Query: 107 ENKILEND-EWFPSG-------------DFFILHENGYGQVVGRIKDIIIRGGENIIPKE 152
E KI + W SG + ++ Y ++V I D + + EN+I +
Sbjct: 504 EQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSK 563
Query: 153 IEYVLQ 158
+L+
Sbjct: 564 YTDLLR 569
>3ite_A SIDN siderophore synthetase; ligase, non-ribosomal peptide
synthesis, NRPS, sidna3, fungal, endophyte; HET: MSE;
2.00A {Neotyphodium lolii}
Length = 562
Score = 31.1 bits (71), Expect = 0.24
Identities = 11/96 (11%), Positives = 23/96 (23%), Gaps = 36/96 (37%)
Query: 134 VGRI----KDIIIRG-----GENIIPKEIEYVLQTHPDVVEAQV---------------- 168
+GR K +RG GE + V+++ V
Sbjct: 423 LGRKDEQVK---VRGQRLELGE------VSEVIRSLSPTDIDVVTLLLNHPGTSKQFLVS 473
Query: 169 YGVPDERLGEVVVANIELKPGASLTQDDIKTYCKGK 204
+ V + + ++ C+
Sbjct: 474 FVASSG--AAVRGELRWINENYKEINNSLRQACEQT 507
>3n0w_A ABC branched chain amino acid family transporter, periplasmic
ligand binding protein...; receptor family ligand
binding region; HET: MSE; 1.88A {Burkholderia
xenovorans}
Length = 379
Score = 29.3 bits (66), Expect = 0.98
Identities = 9/82 (10%), Positives = 22/82 (26%), Gaps = 15/82 (18%)
Query: 6 IVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAP------CSPTL 59
++ ++ S + N+ ++ A A C+
Sbjct: 69 FDRDGVDAIFDVVN------SGT---ALAINNLVKDKKKLAFITAAAADQIGGTECNGYG 119
Query: 60 FNKIRDTFGIKHLIVKVVDKKG 81
+ + I +V+ KG
Sbjct: 120 IGFLYNFTSIVKTVVQAQLAKG 141
>3n0x_A Possible substrate binding protein of ABC transpo system; receptor
family ligand binding region, structural genomics; HET:
MSE; 1.50A {Rhodopseudomonas palustris} PDB: 3nnd_B
Length = 374
Score = 28.1 bits (63), Expect = 2.4
Identities = 13/82 (15%), Positives = 25/82 (30%), Gaps = 15/82 (18%)
Query: 6 IVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAP------CSPTL 59
+ + GT + S+ +AEE +I A A + +
Sbjct: 69 YQDDGADIAIGTSS------SAA---ALADLPVAEENKKILIVEPAVADQITGEKWNRYI 119
Query: 60 FNKIRDTFGIKHLIVKVVDKKG 81
F R++ + K+G
Sbjct: 120 FRTGRNSSQDAISNAVAIGKQG 141
>2btv_A T2A, T2B, protein (VP3 core protein); virus/viral protein,
icosahedral virus; 3.50A {Bluetongue virus} SCOP:
e.28.1.1
Length = 901
Score = 27.8 bits (61), Expect = 3.0
Identities = 35/175 (20%), Positives = 61/175 (34%), Gaps = 33/175 (18%)
Query: 4 RHIVKEKCTVLYGTPTMYVDLISSIQP--LTEEMPNIAEELSSPVIALTAGAPCSPTLFN 61
R I + +L+ P + +P L E N+ L++ A+ A + N
Sbjct: 135 RFIRGKGSFILHDIPARDHRGMEVAEPEVLGVEFKNVLPVLTAEHRAMIQNALDGSIIEN 194
Query: 62 KIRDTFGIKHLIVKVVDKKGNIVPMGMCGEVCYRGYNVMLGY--YGEENKILENDEWFPS 119
T + VD V +G C E YR YN + GY + ++ + W
Sbjct: 195 GNVAT--------RDVD-----VFIGACSEPIYRIYNRLQGYIEAVQLQELRNSIGWL-- 239
Query: 120 GDFFILHENGYGQVVGRIKDIIIRGG--ENIIPKEIEYVLQTHPDVVEAQVYGVP 172
+ +G+ K I + +++ +VL V V+ VP
Sbjct: 240 ------------ERLGQRKRITYSQEVLTDFRRQDMIWVLALQLPVNPQVVWDVP 282
>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 = 26.6 bits (58), Expect = 5.5
Identities = 4/30 (13%), Positives = 12/30 (40%)
Query: 131 GQVVGRIKDIIIRGGENIIPKEIEYVLQTH 160
G+++ + + E ++E L +
Sbjct: 195 GELLSNFISVTEQLAEEFFTGDVESFLNEY 224
>3i09_A Periplasmic branched-chain amino acid-binding Pro; type I
periplasmic binding protein, structural genomics, JOI
for structural genomics; HET: MSE CIT; 1.80A
{Burkholderia mallei}
Length = 375
Score = 26.6 bits (59), Expect = 7.1
Identities = 17/82 (20%), Positives = 27/82 (32%), Gaps = 15/82 (18%)
Query: 6 IVKEKCTVLYGTPTMYVDLISSIQPLTEEMPNIAEELSSPVIALTAGAP------CSPTL 59
+ + +L G S+ M +A E I + AGA C+P
Sbjct: 67 MDRGGLDLLVGGTN------SAT---ALSMNQVAAEKKKVYINIGAGADTLTNEQCTPYT 117
Query: 60 FNKIRDTFGIKHLIVKVVDKKG 81
+ DT + V K+G
Sbjct: 118 VHYAYDTMALAKGTGSAVVKQG 139
>3gm8_A Glycoside hydrolase family 2, candidate beta-GLYC; structural
genomics, glycosidase, PSI-2, protein initiative; 2.40A
{Bacteroides vulgatus}
Length = 801
Score = 26.7 bits (59), Expect = 7.8
Identities = 4/15 (26%), Positives = 7/15 (46%)
Query: 71 HLIVKVVDKKGNIVP 85
+ + + DK G P
Sbjct: 711 RIEIDITDKNGIPCP 725
>2ptr_A Adenylosuccinate lyase; mutant-substrate complex; HET: 2SA; 1.85A
{Escherichia coli} PDB: 2ptq_A* 2pts_A 3gzh_A
Length = 462
Score = 26.5 bits (58), Expect = 7.9
Identities = 15/102 (14%), Positives = 38/102 (37%), Gaps = 11/102 (10%)
Query: 24 LISSIQPLTEEMPNIAEELSS-PVIALTAGAPCSPTLFNKIRDTFGIKHLIVKVVDKKGN 82
++ + L + + ++A + P+++ TAG P +P+ K + + + +
Sbjct: 143 ILPYWRQLIDGLKDLAVQYRDIPLLSRTAGQPATPSTIGKEMANV--AYRMERQYRQLNQ 200
Query: 83 IVPMGMCGEVCYRGYNVMLGYYGEENKILENDEWFPSGDFFI 124
+ +G N +G Y +W + F+
Sbjct: 201 VEILGK--------INGAVGNYNAHIAAYPEVDWHQFSEEFV 234
>3kmh_A D-lyxose isomerase; cupin beta-barrel, structural genomics,
montreal-kingston BA structural genomics initiative,
BSGI; 1.58A {Escherichia coli O157} PDB: 3mpb_A*
Length = 246
Score = 26.1 bits (57), Expect = 8.9
Identities = 14/56 (25%), Positives = 21/56 (37%), Gaps = 3/56 (5%)
Query: 139 DIIIRGGENIIPKEIEYVLQTHPDVVEAQVYGVPDERLGEVVVAN-IELKPGASLT 193
DII RGG N+I + + V D + + + L PG S+
Sbjct: 130 DIINRGGGNLIVELWNADSNEQTADSDITVV--IDGCRQKHTAGSQLRLSPGESIC 183
>2q8p_A Iron-regulated surface determinant E; helical backbone metal
receptor superfamily, metal transport; HET: HEM; 1.95A
{Staphylococcus aureus subsp} PDB: 2q8q_A*
Length = 260
Score = 26.2 bits (58), Expect = 9.0
Identities = 16/69 (23%), Positives = 29/69 (42%), Gaps = 15/69 (21%)
Query: 115 EWFPSGDFFILHENGY-GQVVGRIKDIIIRGGENIIPKE--------IEYVLQTHPDVVE 165
G + + + Y G +V GGEN+I + E +L +PD++
Sbjct: 143 LMGVPGSYLVATDKSYIGDLVKIA------GGENVIKVKDRQYISSNTENLLNINPDIIL 196
Query: 166 AQVYGVPDE 174
+G+P+E
Sbjct: 197 RLPHGMPEE 205
>2trc_P Phosducin, MEKA, PP33; transducin, beta-gamma, signal transduction,
regulation, phosphorylation, G proteins, thioredoxin,
vision; 2.40A {Rattus norvegicus} SCOP: c.47.1.6
Length = 217
Score = 25.7 bits (56), Expect = 9.8
Identities = 4/30 (13%), Positives = 13/30 (43%)
Query: 131 GQVVGRIKDIIIRGGENIIPKEIEYVLQTH 160
G+++ + + E+ ++E L +
Sbjct: 182 GELISNFISVAEQFAEDFFAADVESFLNEY 211
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
0.319 0.141 0.420
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: 3,360,687
Number of extensions: 214446
Number of successful extensions: 671
Number of sequences better than 10.0: 1
Number of HSP's gapped: 617
Number of HSP's successfully gapped: 84
Length of query: 204
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 115
Effective length of database: 4,216,824
Effective search space: 484934760
Effective search space used: 484934760
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 (21.7 bits)
S2: 55 (24.8 bits)