RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8218
(228 letters)
>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 = 89.1 bits (222), Expect = 1e-20
Identities = 43/141 (30%), Positives = 67/141 (47%), Gaps = 19/141 (13%)
Query: 5 RAGAPTTVCDIRLVDWDEGNYRVCDKPFPR-----GEILIGGSNISPGYYKNPTKTKEDF 59
+ G P + +R+ D +EG P P+ GE+ + G I+ GYY N T+
Sbjct: 356 KTGLPIPLVRLRVAD-EEGR------PVPKDGKALGEVQLKGPWITGGYYGNEEATRSAL 408
Query: 60 FDEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCPVIENIC 119
+G +FRTGDI ++G + I DR KDL+K GE++S +E L P ++
Sbjct: 409 -TPDG--FFRTGDIAVWDEEGYVEIKDRLKDLIK-SGGEWISSVDLENALMGHPKVKEAA 464
Query: 120 VYG--DSRKDYT-VALVVPNP 137
V + +A+VVP
Sbjct: 465 VVAIPHPKWQERPLAVVVPRG 485
>4fuq_A Malonyl COA synthetase; ANL superfamily, methylma malonate, ligase;
HET: MSE; 1.70A {Rhodopseudomonas palustris} PDB:
4fut_A*
Length = 503
Score = 88.8 bits (221), Expect = 1e-20
Identities = 42/140 (30%), Positives = 67/140 (47%), Gaps = 16/140 (11%)
Query: 4 GRAGAPTTVCDIRLVDWDEGNYRVCDKPFPR---GEILIGGSNISPGYYKNPTKTKEDFF 60
G G R+ D + G PR G I + G N+ GY++ P KTK +F
Sbjct: 320 GAVGPALPGVSARVTDPETGK------ELPRGDIGMIEVKGPNVFKGYWRMPEKTKSEF- 372
Query: 61 DEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCPVIENICV 120
++G +F TGD+G++ + G + I+ R KDLV + G V ++E+E+ P + V
Sbjct: 373 RDDG--FFITGDLGKIDERGYVHILGRGKDLV-ITGGFNVYPKEIESEIDAMPGVVESAV 429
Query: 121 YG--DSRKDYTV-ALVVPNP 137
G + V A+VV +
Sbjct: 430 IGVPHADFGEGVTAVVVRDK 449
>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 = 88.8 bits (221), Expect = 1e-20
Identities = 42/144 (29%), Positives = 68/144 (47%), Gaps = 17/144 (11%)
Query: 4 GRAGAPTTVCDIRLVDWDEGNYRVCDKPFPR--GEILIGGSNISPGYYKNPTKTKEDFFD 61
G AG T D+ + D+G GE++I + Y+ P T++ F +
Sbjct: 337 GSAGRATMFTDVAVRG-DDGV------IREHGEGEVVIKSDILLKEYWNRPEATRDAFDN 389
Query: 62 EEGKRWFRTGDIGELHQDGVIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCPVIENICVY 121
G WFRTGDIGE+ +G + I DR KD++ GE V ++E+ + P + + V
Sbjct: 390 --G--WFRTGDIGEIDDEGYLYIKDRLKDMII-SGGENVYPAEIESVIIGVPGVSEVAVI 444
Query: 122 G--DSRKDYTV-ALVVPNPSRLKE 142
G D + A+VV + + + E
Sbjct: 445 GLPDEKWGEIAAAIVVADQNEVSE 468
>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 = 88.5 bits (220), Expect = 2e-20
Identities = 44/138 (31%), Positives = 63/138 (45%), Gaps = 9/138 (6%)
Query: 4 GRAGAPTTVCDIRLVDWDEGNYRVCDKPFPRGEILIGGSNISPGYYKNPTKTKEDFFDEE 63
G G P ++RLV+ ++G GEI + G N+ Y P T F E+
Sbjct: 324 GTVGVPLPGVELRLVE-EDGTPIAALDGESVGEIQVRGPNLFTEYLNRPDATAAAF-TED 381
Query: 64 GKRWFRTGDIGELHQDGVIRIIDRK-KDLVKLQAGEYVSLGKVEAELKTCPVIENICVYG 122
G +FRTGD+ DG +RI+ RK DL+K G + G++E L P + V G
Sbjct: 382 G--FFRTGDMAVRDPDGYVRIVGRKATDLIK-SGGYKIGAGEIENALLEHPEVREAAVTG 438
Query: 123 DSRKDY---TVALVVPNP 137
+ D VA +VP
Sbjct: 439 EPDPDLGERIVAWIVPAD 456
>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 = 86.9 bits (216), Expect = 6e-20
Identities = 39/151 (25%), Positives = 78/151 (51%), Gaps = 14/151 (9%)
Query: 3 TGRAGAPTTVCDIRLVDWDEGNYRVCDKPFPR---GEILIGGSNISPGYYKNPTKTKEDF 59
+ G P + +++++ ++G + GEI+I G NI GY+K + +E +
Sbjct: 355 STTQGVPMSDIELKVISLEDG------RELGVGESGEIVIRGPNIFKGYWKREKENQECW 408
Query: 60 -FDEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCPVIENI 118
+DE+G+++FRTGD+G + ++G + DR K+++K G ++ ++EA L + ++
Sbjct: 409 WYDEKGRKFFRTGDVGFIDEEGFLHFQDRVKEVIKY-KGYTIAPFELEALLMKHEAVMDV 467
Query: 119 CVYG--DSRKDYTV-ALVVPNPSRLKEIAEK 146
V G D A +V P ++ E+
Sbjct: 468 AVIGKPDEEAGEVPKAFIVLKPEYRGKVDEE 498
>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 = 84.1 bits (209), Expect = 5e-19
Identities = 44/142 (30%), Positives = 62/142 (43%), Gaps = 20/142 (14%)
Query: 4 GRAGAPTTVCDIRLVDWDEGNYRVCDKPFPR---GEILIGGSNISPGYYKNPTKTKEDFF 60
AG P + +VD E P P GEI++ G + GY+ N T+ F
Sbjct: 321 KSAGRPLFWRTVAVVD-AEDR------PLPPGEVGEIVLRGPTVFKGYWNNAAATQHAFR 373
Query: 61 DEEGKRWFRTGDIGELHQDGVIRIIDR--KKDLVKLQAGEYVSLGKVEAELKTCPVIENI 118
+ G W TGD+G DG + R +K+L+K GE V +VE LK P I +
Sbjct: 374 N--G--WHHTGDMGRFDADGYLFYAGRAPEKELIK-TGGENVYPAEVEGALKQHPAIADA 428
Query: 119 CVYG--DSRKDYTV-ALVVPNP 137
V G D + + A+ V P
Sbjct: 429 VVIGVPDPQWSEAIKAVCVCKP 450
>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 = 83.8 bits (208), Expect = 7e-19
Identities = 42/140 (30%), Positives = 60/140 (42%), Gaps = 16/140 (11%)
Query: 4 GRAGAPTTVCDIRLVDWDEGNYRVCDKPFP---RGEILIGGSNISPGYYKNPTKTKEDFF 60
G G + ++VD D G K RGE+ + G I GY NP T
Sbjct: 360 GAVGKVVPFFEAKVVDLDTG------KTLGVNQRGELCVRGPMIMSGYVNNPEATNALI- 412
Query: 61 DEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCPVIENICV 120
D++G W +GDI +D I+DR K L+K + G V+ ++E+ L P I + V
Sbjct: 413 DKDG--WLHSGDIAYWDEDEHFFIVDRLKSLIKYK-GYQVAPAELESILLQHPNIFDAGV 469
Query: 121 YG--DSRKDYTV-ALVVPNP 137
G D A+VV
Sbjct: 470 AGLPDDDAGELPAAVVVLEH 489
>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 = 82.7 bits (205), Expect = 2e-18
Identities = 33/144 (22%), Positives = 59/144 (40%), Gaps = 23/144 (15%)
Query: 2 STGRAGAPTTVCDIRLVDWDEGNYRVCDKPFPR---GEILIGGSNISPGYYKNPTKTKED 58
+ G P ++ + D EGN P P+ G ++ G GYYK+P
Sbjct: 356 TQGYPMCPDD--EVWVAD-AEGN------PLPQGEVGRLMTRGPYTFRGYYKSPQHNASA 406
Query: 59 FFDEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCPVIENI 118
F D G ++ +GD+ + +G I + R+KD + + GE ++ ++E L P +
Sbjct: 407 F-DANG--FYCSGDLISIDPEGYITVQGREKDQI-NRGGEKIAAEEIENLLLRHPAVIYA 462
Query: 119 CVYG--DSRKDY---TVALVVPNP 137
+ D + A +V
Sbjct: 463 ALVSMEDEL--MGEKSCAYLVVKE 484
>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 = 82.3 bits (204), Expect = 2e-18
Identities = 44/140 (31%), Positives = 62/140 (44%), Gaps = 16/140 (11%)
Query: 4 GRAGAPTTVCDIRLVDWDEGNYRVCDKPFP---RGEILIGGSNISPGYYKNPTKTKEDFF 60
G +G + +++D D K RGE+ + G + GY NP TKE
Sbjct: 362 GASGKVVPLFKAKVIDLDTK------KSLGPNRRGEVCVKGPMLMKGYVNNPEATKELI- 414
Query: 61 DEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCPVIENICV 120
DEEG W TGDIG ++ I+DR K L+K + G V ++E+ L P I + V
Sbjct: 415 DEEG--WLHTGDIGYYDEEKHFFIVDRLKSLIKYK-GYQVPPAELESVLLQHPSIFDAGV 471
Query: 121 YG--DSRKDYTV-ALVVPNP 137
G D A+VV
Sbjct: 472 AGVPDPVAGELPGAVVVLES 491
>3ni2_A 4-coumarate:COA ligase; 4CL, phenylpropanoid biosynthesis; HET: AYL
EPE; 1.90A {Populus tomentosa} PDB: 3a9v_A* 3a9u_A*
Length = 536
Score = 81.1 bits (201), Expect = 5e-18
Identities = 32/93 (34%), Positives = 44/93 (47%), Gaps = 12/93 (12%)
Query: 4 GRAGAPTTVCDIRLVDWDEGNYRVCDKPFP---RGEILIGGSNISPGYYKNPTKTKEDFF 60
G G ++++VD + G P GEI I G I GY +P T
Sbjct: 355 GACGTVVRNAEMKIVDPETG------ASLPRNQPGEICIRGDQIMKGYLNDPEATSRTI- 407
Query: 61 DEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVK 93
D+EG W TGDIG + D + I+DR K+L+K
Sbjct: 408 DKEG--WLHTGDIGYIDDDDELFIVDRLKELIK 438
>3tsy_A Fusion protein 4-coumarate--COA ligase 1, resvera synthase;
transferase; 3.10A {Arabidospis thaliana}
Length = 979
Score = 81.2 bits (201), Expect = 5e-18
Identities = 45/143 (31%), Positives = 63/143 (44%), Gaps = 22/143 (15%)
Query: 4 GRAGAPTTVCDIRLVDWDEGNYRVCDKPFP---RGEILIGGSNISPGYYKNPTKTKEDFF 60
G G ++++VD D G GEI I G I GY NP T E
Sbjct: 402 GACGTVVRNAEMKIVDPDTG------DSLSRNQPGEICIRGHQIMKGYLNNPAATAETI- 454
Query: 61 DEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVK---LQAGEYVSLGKVEAELKTCPVIEN 117
D++G W TGDIG + D + I+DR K+L+K Q V+ ++EA L P I +
Sbjct: 455 DKDG--WLHTGDIGLIDDDDELFIVDRLKELIKYKGFQ----VAPAELEALLIGHPDITD 508
Query: 118 ICVYGDSRKDYT---VALVVPNP 137
+ V + VA VV +
Sbjct: 509 VAVVAMKEEAAGEVPVAFVVKSK 531
>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 = 81.1 bits (201), Expect = 5e-18
Identities = 51/223 (22%), Positives = 86/223 (38%), Gaps = 47/223 (21%)
Query: 3 TGRAGAPTTVCDIRLVDWDEGNYRVCDKPFPR---GEILIGGSN-ISPGYYKNPTKTKED 58
TG AP ++R+V G + GE+++ S+ GY P T E
Sbjct: 320 TGTEMAPGFFSEVRIVRIGGGVDEIV----ANGEEGELIVAASDSAFVGYLNQPQATAEK 375
Query: 59 FFDEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCPVIENI 118
D G W+RT D+ +G +RI+ R D++ GE + ++E L T P + +
Sbjct: 376 LQD--G--WYRTSDVAVWTPEGTVRILGRVDDMII-SGGENIHPSEIERVLGTAPGVTEV 430
Query: 119 CVYG--DSRKDYTV-ALVVPNPSRLKEIAEKLNLDSLTFQQLCTHPEIEKQVLVELQEHG 175
V G D R +V A VVP ++L+ + L
Sbjct: 431 VVIGLADQRWGQSVTACVVPRLG-----------ETLS-------AD-------ALDTFC 465
Query: 176 KKSNLERFEIPNAVKLCSEVWSPDMGLVTAAFKLKRKDIQERY 218
+ S L F+ P + ++ P A K+ R+ + ++
Sbjct: 466 RSSELADFKRPKRYFILDQL--P----KNALNKVLRRQLVQQV 502
>2v7b_A Benzoate-coenzyme A ligase; benzoate oxidation, benzoate COA
ligase; 1.84A {Burkholderia xenovorans}
Length = 529
Score = 80.7 bits (200), Expect = 7e-18
Identities = 37/139 (26%), Positives = 55/139 (39%), Gaps = 17/139 (12%)
Query: 4 GRAGAPTTVCDIRLVDWDEGNYRVCDKPFPR---GEILIGGSNISPGYYKNPTKTKEDFF 60
G G P +I L D + G+ P G++ I G + + Y+ N K++ F
Sbjct: 352 GTTGRPVPGYEIELRD-EAGH------AVPDGEVGDLYIKGPSAAVMYWNNREKSRATFL 404
Query: 61 DEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCPVIENICV 120
E W R+GD +G R D++K +G+YVS +VE L + V
Sbjct: 405 GE----WIRSGDKYCRLPNGCYVYAGRSDDMLK-VSGQYVSPVEVEMVLVQHDAVLEAAV 459
Query: 121 YG--DSRKDYTVALVVPNP 137
G T A VV
Sbjct: 460 VGVDHGGLVKTRAFVVLKR 478
>3ipl_A 2-succinylbenzoate--COA ligase; structural genomics, acyl-protein
synthetase, PSI-2, protein structure initiative; 2.30A
{Staphylococcus aureus subsp}
Length = 501
Score = 79.9 bits (198), Expect = 1e-17
Identities = 34/138 (24%), Positives = 54/138 (39%), Gaps = 18/138 (13%)
Query: 4 GRAGAPTTVCDIRLVDWDEGNYRVCDKPFPRGEILIGGSNISPGYYKNPTKTKEDFFDEE 63
G P+ D+++ + GE++I G+N+ GY F +
Sbjct: 327 DTVGMPSANVDVKIKN-PNKE--------GHGELMIKGANVMNGYLYPT-DLTGTFEN-- 374
Query: 64 GKRWFRTGDIGELHQDGVIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCPVIENICVYG- 122
G +F TGDI E+ +G + I DR+KDL+ GE + ++E K P I + G
Sbjct: 375 G--YFNTGDIAEIDHEGYVMIYDRRKDLII-SGGENIYPYQIETVAKQFPGISDAVCVGH 431
Query: 123 -DSRKDYTV-ALVVPNPS 138
D V
Sbjct: 432 PDDTWGQVPKLYFVSESD 449
>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 = 79.1 bits (196), Expect = 3e-17
Identities = 37/149 (24%), Positives = 58/149 (38%), Gaps = 23/149 (15%)
Query: 2 STGRAGAPTTVCDIRLVDWDEGNYRVCDKPFPR---GEILIGGSNISPGYYKNPTKTKED 58
+ G+ +P + R+ D D G +L G GYYK
Sbjct: 352 TQGKPMSPYD--ESRVWD-DHDR------DVKPGETGHLLTRGPYTIRGYYKAEEHNAAS 402
Query: 59 FFDEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCPVIENI 118
F E+G ++RTGDI L +DG I + R KD + + GE V+ +VE L P + +
Sbjct: 403 F-TEDG--FYRTGDIVRLTRDGYIVVEGRAKDQI-NRGGEKVAAEEVENHLLAHPAVHDA 458
Query: 119 CVYG--DSRKDY---TVALVVPNPSRLKE 142
+ D + ++P K
Sbjct: 459 AMVSMPDQF--LGERSCVFIIPRDEAPKA 485
>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 = 79.1 bits (196), Expect = 3e-17
Identities = 32/153 (20%), Positives = 68/153 (44%), Gaps = 23/153 (15%)
Query: 2 STGRAGAPTTVCDIRLVDWDEGNYRVCDKPFPR---GEILIGGSNISPGYYKNPTKTKED 58
+ GR + +I++VD ++ P G + G GYY++P +
Sbjct: 361 TQGRPISS--DDEIKIVD-EQYR------EVPEGEIGMLATRGPYTFCGYYQSPEHNSQV 411
Query: 59 FFDEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCPVIENI 118
F DE+ ++ +GD+ + DG +R++ R KD + + GE ++ ++E + P + +
Sbjct: 412 F-DEDN--YYYSGDLVQRTPDGNLRVVGRIKDQI-NRGGEKIASEEIEKLILLHPEVMHA 467
Query: 119 CVYG--DSRKDY---TVALVVPNPSRLKEIAEK 146
+ D + + + A +V LK + +
Sbjct: 468 ALVAIVDEQ--FGEKSCAFIVSRNPELKAVVLR 498
>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 = 67.3 bits (165), Expect = 3e-13
Identities = 27/93 (29%), Positives = 47/93 (50%), Gaps = 15/93 (16%)
Query: 7 GAPTTVCDIRLVDWDEGNYRVCDKPFPR--GEILIGGSNISPGYYKNPTKTKEDF----- 59
G P + +++++D D CD GEI + ++++ GY+ P +T+ F
Sbjct: 377 GNP--IQEVKIIDPDTL--IPCD---FDQVGEIWVQSNSVAKGYWNQPEETRHAFAGKIK 429
Query: 60 FDEEGKRWFRTGDIGELHQDGVIRIIDRKKDLV 92
DE + RTGD+G LH + + + R KDL+
Sbjct: 430 DDERSAIYLRTGDLGFLH-ENELYVTGRIKDLI 461
>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 = 66.2 bits (162), Expect = 6e-13
Identities = 23/88 (26%), Positives = 34/88 (38%), Gaps = 13/88 (14%)
Query: 7 GAPTTVCDIRLVDWDEGNYRVCDKPFPR--GEILIGGSNISPGYYKNPTKTKEDFFDEEG 64
G I + + + G R G I I G ++ GY+ + E
Sbjct: 388 GKALPEHGIEIRN-EAG--MPVA---ERVVGHICISGPSLMSGYFGDQVSQDEIA----A 437
Query: 65 KRWFRTGDIGELHQDGVIRIIDRKKDLV 92
W TGD+G L DG + + R KDL+
Sbjct: 438 TGWLDTGDLGYLL-DGYLYVTGRIKDLI 464
>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 = 57.4 bits (139), Expect = 6e-10
Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 16/85 (18%)
Query: 13 CDIRLVDWDEGNYRVCDKPFPR--GEILIGGSNISPGYYKNPTKTKEDF--------FDE 62
+R+VD D C GEI + G N++ GY++ P +++ F
Sbjct: 402 PIVRIVDSDTC--IECP---DGTVGEIWVHGDNVANGYWQKPDESERTFGGKIVTPSPGT 456
Query: 63 EGKRWFRTGDIGELHQDGVIRIIDR 87
W RTGD G + DG + II R
Sbjct: 457 PEGPWLRTGDSGFVT-DGKMFIIGR 480
>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 = 53.8 bits (130), Expect = 1e-08
Identities = 34/119 (28%), Positives = 53/119 (44%), Gaps = 15/119 (12%)
Query: 4 GRAGAPTTVCDIRLVDWDEGNYRVCDKPFPRGEILIGGSNISP-----GYYKNPTKTKED 58
G G + D++++D D+GN V P G+I I I P GY NP KT +
Sbjct: 374 GYMGTAASCYDVQIID-DKGN--VLP-PGTEGDIGIRVKPIRPIGIFSGYVDNPDKTAAN 429
Query: 59 FFDEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCP-VIE 116
++ GD G +DG + + R D++ +G + +VE L P V+E
Sbjct: 430 IRG----DFWLLGDRGIKDEDGYFQFMGRADDIIN-SSGYRIGPSEVENALMEHPAVVE 483
>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 = 52.2 bits (126), Expect = 3e-08
Identities = 33/119 (27%), Positives = 54/119 (45%), Gaps = 5/119 (4%)
Query: 35 GEILIGGSNISPGYYKNPTKTKEDFFDEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVKL 94
GEI++ G +S GY NP KT E FF +G+ + TGDIG L +D ++ R +K
Sbjct: 349 GEIIVTGPAVSKGYLNNPEKTAEAFFTFKGQPAYHTGDIGSLTEDNILLYGGRLDFQIKY 408
Query: 95 QAGEYVSLGKVEAELKTCPVIENICV----YGDSRKDYTVALVVPNPSRLKEIAEKLNL 149
G + L V +L P++ + + + +A +V + +L L
Sbjct: 409 A-GYRIELEDVSQQLNQSPMVASAVAVPRYNKEHKVQNLLAYIVVKDGVKERFDRELEL 466
>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 = 50.2 bits (121), Expect = 2e-07
Identities = 28/122 (22%), Positives = 49/122 (40%), Gaps = 12/122 (9%)
Query: 35 GEILIGGSNISPGYYKNPTKTKEDF----FDEEGKRWFRTGDIGELHQDGVIRIIDRKKD 90
GEI+ G+ ++ GY + +T+ F + R +RTGD + G +R I R
Sbjct: 361 GEIVAFGAGLAQGYRNDAARTRASFVELPYRGRLLRAYRTGDRARYDEQGRLRFIGRGDG 420
Query: 91 LVKLQAGEYVSLGKVEAELKTCPVIENICV-----YGDSRKDYTVALVVPNPSRLKEIAE 145
VKL G + L +E + P I + + G + A + + +
Sbjct: 421 QVKLN-GYRLDLPALEQRFRRQPGILDCALLVRERNGVKQ--LLCAWTGKADASPQALLR 477
Query: 146 KL 147
+L
Sbjct: 478 QL 479
>3etc_A AMP-binding protein; adenylate-forming acyl-COA synthetase ligase,
ligase; HET: PGE 1PE EPE; 2.10A {Methanosarcina
acetivorans}
Length = 580
Score = 49.9 bits (120), Expect = 2e-07
Identities = 28/95 (29%), Positives = 46/95 (48%), Gaps = 13/95 (13%)
Query: 4 GRAGAPTTVCDIRLVDWDEGNYRVCDKPFPRGEILIGGSNISP-----GYYKNPTKTKED 58
G G PT I L+D +G +C+ GEI+I P Y K+P +T+E
Sbjct: 393 GSIGKPTPGYKIELMD-RDGR--LCE-VGEEGEIVINTMEGKPVGLFVHYGKDPERTEET 448
Query: 59 FFDEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVK 93
+ D ++ TGD+ + +DG + + R D++K
Sbjct: 449 WHDG----YYHTGDMAWMDEDGYLWFVGRADDIIK 479
>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 = 49.9 bits (118), Expect = 3e-07
Identities = 30/236 (12%), Positives = 67/236 (28%), Gaps = 58/236 (24%)
Query: 7 GAPTTVCDIRLVDWDEGNYRVCDKPFPRGEILIGGSNISPGY----------YKNPTKTK 56
+ V + W + K + + + Y + P+
Sbjct: 56 MSKDAVSGTLRLFW-----TLLSKQEEMVQKFVEEV-LRINYKFLMSPIKTEQRQPSMMT 109
Query: 57 EDFFDEEGKRWFRTGDIGELHQDGVIR---IIDRKKDLVKLQAGEYVSL------GKVEA 107
+ ++ + + D + V R + ++ L++L+ + V + G
Sbjct: 110 RMYIEQRDRLY---NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSG---- 162
Query: 108 ELKTCPVIENICVYGDSRKDYTVALVVPN------------PSRLKEIAEKLNLD-SLTF 154
KT ++ +C Y V + P + E+ +KL +
Sbjct: 163 --KTWVALD-VC------LSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNW 213
Query: 155 QQLCTHPEIEKQVLVELQEHGKKSNLERFEIPNAVKLCSEVWSPDMGLVTAAFKLK 210
H K + +Q + L+ N + + V + AF L
Sbjct: 214 TSRSDHSSNIKLRIHSIQAE-LRRLLKSKPYENCLLVLLNVQNAK---AWNAFNLS 265
Score = 32.1 bits (72), Expect = 0.17
Identities = 28/153 (18%), Positives = 54/153 (35%), Gaps = 44/153 (28%)
Query: 73 IGELHQDGVIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCPVIENICVYGDSRKDYTVAL 132
I E +DG+ D K +V+ K+ +++ + + + RK + L
Sbjct: 333 IAESIRDGLAT-WDNWK---------HVNCDKLTTIIESS--LNVLEPA-EYRKMF-DRL 378
Query: 133 VV-PN----PSRL-------------KEIAEKLNLDSLTFQQLCT--------HPEIEKQ 166
V P P+ L + KL+ SL +Q + E++ +
Sbjct: 379 SVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVK 438
Query: 167 VLVELQEHGKKSNLERFEIPNAVKLCSEVWSPD 199
+ E H +S ++ + IP S+ P
Sbjct: 439 LENEYALH--RSIVDHYNIPK--TFDSDDLIPP 467
Score = 29.8 bits (66), Expect = 0.75
Identities = 21/101 (20%), Positives = 37/101 (36%), Gaps = 18/101 (17%)
Query: 136 NPSRLKEIAEKLNLDSLTFQQLCTHPEIEKQV------LVELQEHGKKSNLERFEI-PNA 188
NP RL IAE + T+ H +K L L+ + +R + P +
Sbjct: 326 NPRRLSIIAESIRDGLATWDNW-KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPS 384
Query: 189 VKLCSEV----WSP----DMGLVTAAFKLKRKDIQERYQHE 221
+ + + W D+ +V KL + + E+ E
Sbjct: 385 AHIPTILLSLIWFDVIKSDVMVVVN--KLHKYSLVEKQPKE 423
>3ite_A SIDN siderophore synthetase; ligase, non-ribosomal peptide
synthesis, NRPS, sidna3, fungal, endophyte; HET: MSE;
2.00A {Neotyphodium lolii}
Length = 562
Score = 48.4 bits (116), Expect = 7e-07
Identities = 38/184 (20%), Positives = 79/184 (42%), Gaps = 29/184 (15%)
Query: 35 GEILIGGSNISPGYYKNPTKTKEDFFDEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVKL 94
GE++I GS ++ GY P F D G++ +RTGDI + D I + RK + VK+
Sbjct: 375 GELVIEGSLVANGYLNRPDAKG--FCDINGRKMYRTGDIVRMDADSSILFLGRKDEQVKV 432
Query: 95 QAGEYVSLGKVEAELKTCPVIENICV------YGDSRKDYTVALVVPNPSRLKEIAEKLN 148
+ G+ + LG+V +++ + V G S++ + V+ V + + ++ +N
Sbjct: 433 R-GQRLELGEVSEVIRSLSPTDIDVVTLLLNHPGTSKQ-FLVSFVASSGAAVRGELRWIN 490
Query: 149 LDSLTFQQLCTHPEIEKQVLVELQEHGKKSNLERFEIPNAVKLCSEVWSPDMGLVTAAFK 208
+ L++ +++ L + +P+ + + + L + K
Sbjct: 491 ENYKEINN-------------SLRQACEQT-LPAYMVPDFI-----IPISFIPLRDTSAK 531
Query: 209 LKRK 212
K
Sbjct: 532 TDAK 535
>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 = 45.6 bits (109), Expect = 6e-06
Identities = 34/106 (32%), Positives = 53/106 (50%), Gaps = 5/106 (4%)
Query: 35 GEILIGGSNISPGYYKNPTKTKEDFFDEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVKL 94
GEI+I G ++S GY P T++ FF EG+ +RTGD G + DG I R +KL
Sbjct: 345 GEIVIAGPSVSRGYLGEPELTEKAFFSHEGQWAYRTGDAGFIQ-DGQIFCQGRLDFQIKL 403
Query: 95 QAGEYVSLGKVEAELKTCPVIENICV--YGDSRKD-YTVALVVPNP 137
G + L ++E ++ + + V Y + Y +A +VP
Sbjct: 404 H-GYRMELEEIEFHVRQSQYVRSAVVIPYQPNGTVEYLIAAIVPEE 448
>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 = 44.8 bits (107), Expect = 1e-05
Identities = 33/106 (31%), Positives = 56/106 (52%), Gaps = 5/106 (4%)
Query: 35 GEILIGGSNISPGYYKNPTKTKEDFFDEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVKL 94
GEI+I G ++S GY +P T++ F +G+R ++TGD G + +G++ R +KL
Sbjct: 346 GEIVIVGPSVSVGYLGSPELTEKAFTMIDGERAYKTGDAGYVE-NGLLFYNGRLDFQIKL 404
Query: 95 QAGEYVSLGKVEAELKTCPVIENICV--YGDSRKD-YTVALVVPNP 137
G + L ++E L+ C +E + K Y +A+VVP
Sbjct: 405 H-GYRMELEEIEHHLRACSYVEGAVIVPIKKGEKYDYLLAVVVPGE 449
>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 = 44.0 bits (105), Expect = 2e-05
Identities = 34/110 (30%), Positives = 52/110 (47%), Gaps = 7/110 (6%)
Query: 35 GEILIGGSNISPGYYKNPTKTKEDFFD---EEGKRWFRTGDIGELHQDGVIRIIDRKKDL 91
GE+ IGG ++ GY+K P T + F D G++ ++TGD DG I + R +
Sbjct: 373 GELCIGGEGLARGYWKRPELTSQKFVDNPFVPGEKLYKTGDQARWLSDGNIEYLGRIDNQ 432
Query: 92 VKLQAGEYVSLGKVEAELKTCPVIENICV--YGDSRKD-YTVALVVPNPS 138
VK++ G V L +VE+ L I V + D ++ Y A V
Sbjct: 433 VKIR-GHRVELEEVESILLKHMYISETAVSVHKDHQEQPYLCAYFVSEKH 481
>2vsq_A Surfactin synthetase subunit 3; ligase, peptidyl carrier protein,
ligase phosphoprotein, TER module, phosphopantetheine;
2.60A {Bacillus subtilis}
Length = 1304
Score = 43.4 bits (103), Expect = 4e-05
Identities = 35/125 (28%), Positives = 56/125 (44%), Gaps = 14/125 (11%)
Query: 35 GEILIGGSNISPGYYKNPTKTKEDF----FDEEGKRWFRTGDIGELHQDGVIRIIDRKKD 90
GE+ I G +S GY TKE F F + G+ +RTGD+ DG I R D
Sbjct: 804 GELCISGMGVSKGYVNRADLTKEKFIENPF-KPGETLYRTGDLARWLPDGTIEYAGRIDD 862
Query: 91 LVKLQAGEYVSLGKVEAELKTCPVIENICV--YGDSRKD-----YTVALVVPNPSRLKE- 142
VK++ G + L ++E +L+ P +++ V D Y V + +K
Sbjct: 863 QVKIR-GHRIELEEIEKQLQEYPGVKDAVVVADRHESGDASINAYLVNRTQLSAEDVKAH 921
Query: 143 IAEKL 147
+ ++L
Sbjct: 922 LKKQL 926
>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 = 41.6 bits (97), Expect = 1e-04
Identities = 46/251 (18%), Positives = 74/251 (29%), Gaps = 101/251 (40%)
Query: 20 WDEGNYRVCDKPFPRGEILIGGSNISPGYYKNPTKTKEDFFDEEGKRW--------FRTG 71
W+ D F + G +I NP F E+GKR F T
Sbjct: 1646 WNR-----ADNHF--KDTY--GFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETI 1696
Query: 72 DIGELHQDGVIRIID------------------------------------RKKDLVKLQ 95
G+L + + + I+ + K L+
Sbjct: 1697 VDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPAD 1756
Query: 96 A-------GEY---VSLGKV---EAELKT-----------CPVIENICVYGDSRKDYTVA 131
A GEY SL V E+ ++ P E R +Y +
Sbjct: 1757 ATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDEL------GRSNYGMI 1810
Query: 132 LVVPNPSRLKEIAEKLNLDSLTFQQLCTHPEIEKQVLVEL-------QEH---GKKSNLE 181
+ NP R +A + ++L Q + LVE+ Q++ G L+
Sbjct: 1811 AI--NPGR---VAASFSQEAL--QYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALD 1863
Query: 182 RF-EIPNAVKL 191
+ N +KL
Sbjct: 1864 TVTNVLNFIKL 1874
Score = 30.4 bits (68), Expect = 0.49
Identities = 30/161 (18%), Positives = 48/161 (29%), Gaps = 55/161 (34%)
Query: 57 EDFFDEEGKRWFRTGDIGELHQDGVIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCPVIE 116
+D+F+E R D+ + + V +I + E +S EL +
Sbjct: 167 DDYFEE-----LR--DLYQTYHVLVGDLIKF--------SAETLS------ELIRTTL-- 203
Query: 117 NICVYGDSRKDYTVAL----------VVPNPSRLKEIAEKLNLDSLTFQQLCTHPEIEKQ 166
D+ K +T L P+ L I L + QL
Sbjct: 204 ------DAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVI--QLA-------H 248
Query: 167 VLVELQEHGKKSNLERFEIPNAVKLCSEVWSPDMGLVTAAF 207
+V + G + E S+ GLVTA
Sbjct: 249 YVVTAKLLG-FTPGELRSYLKGATGHSQ------GLVTAVA 282
>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 = 33.8 bits (76), Expect = 0.020
Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 23/48 (47%)
Query: 164 EKQVLVELQEHGKKSNLERFEIPNAVKLCSEVWSPDMGLVTA-AFKLK 210
EKQ L KK L+ ++KL ++ D +A A +K
Sbjct: 18 EKQAL-------KK--LQ-----ASLKL----YADD----SAPALAIK 43
Score = 29.9 bits (66), Expect = 0.40
Identities = 11/37 (29%), Positives = 16/37 (43%), Gaps = 12/37 (32%)
Query: 98 EYVSLGKVEAELKTCPVIENICVYGDSRKDYTVALVV 134
E +L K++A LK +Y D D AL +
Sbjct: 18 EKQALKKLQASLK---------LYAD---DSAPALAI 42
>1ecf_A Glutamine phosphoribosylpyrophosphate amidotransf; purine
biosynthesis, transferase, glycosyltransferase, gluta
amidotransferase; HET: PIN; 2.00A {Escherichia coli}
SCOP: c.61.1.1 d.153.1.1 PDB: 1ecb_A* 1ecc_A* 1ecg_A*
1ecj_A*
Length = 504
Score = 30.6 bits (70), Expect = 0.43
Identities = 14/49 (28%), Positives = 19/49 (38%), Gaps = 8/49 (16%)
Query: 112 CPVIENICVYG---DSRKDYTVALVVPNPSRLKEIAEKLNLDSLTFQQL 157
P I VYG S + L+ + EI + + D L FQ L
Sbjct: 396 APEIRFPNVYGIDMPSATE----LIAHGRE-VDEIRQIIGADGLIFQDL 439
>2nvw_A Galactose/lactose metabolism regulatory protein GAL80;
transcription, galactose metabolism, repressor; 2.10A
{Kluyveromyces lactis} SCOP: c.2.1.3 d.81.1.5 PDB:
3e1k_A
Length = 479
Score = 29.3 bits (65), Expect = 1.2
Identities = 9/39 (23%), Positives = 15/39 (38%), Gaps = 4/39 (10%)
Query: 130 VALVVPNPSRLKEIAEKLNLDSLT----FQQLCTHPEIE 164
VAL P + E+L L T + + +I+
Sbjct: 72 VALYNPTLKSSLQTIEQLQLKHATGFDSLESFAQYKDID 110
>1js3_A DDC;, DOPA decarboxylase; carbidopa, parkinson'S disease, vitamin;
HET: PLP 142; 2.25A {Sus scrofa} SCOP: c.67.1.6 PDB:
1js6_A* 3rch_A* 3rbl_A 3rbf_A*
Length = 486
Score = 28.9 bits (65), Expect = 1.4
Identities = 7/54 (12%), Positives = 15/54 (27%), Gaps = 6/54 (11%)
Query: 10 TTVCDIRLVDWDEGNYRVCDKPFPRGEILIGGSNISPGYY-----KNPTKTKED 58
VC RL D N + ++ +I + + + +
Sbjct: 407 GLVC-FRLKGSDGLNEALLERINSARKIHLVPCRLRGQFVLRFAICSRKVESGH 459
>3iv0_A SUSD homolog; NP_809186.1, structural genomics, joint center for
structural genomics, JCSG, protein structure initiative;
HET: MSE; 1.35A {Bacteroides thetaiotaomicron vpi-5482}
Length = 481
Score = 28.6 bits (64), Expect = 1.6
Identities = 6/39 (15%), Positives = 11/39 (28%), Gaps = 14/39 (35%)
Query: 51 NPTKTKEDFFDE-----------EGKRWF---RTGDIGE 75
+ + D EG ++ RTG +
Sbjct: 403 EINTSGSELMDAIFWERCRELIGEGHYYYDLVRTGKVYN 441
>3f4s_A Alpha-DSBA1, putative uncharacterized protein; thioredoxin-fold,
oxidoreductase; HET: PGE; 1.55A {Wolbachia pipientis}
PDB: 3f4r_A* 3f4t_A*
Length = 226
Score = 28.3 bits (63), Expect = 1.7
Identities = 9/47 (19%), Positives = 18/47 (38%)
Query: 135 PNPSRLKEIAEKLNLDSLTFQQLCTHPEIEKQVLVELQEHGKKSNLE 181
+ + L+ IA NL F Q +I +++ + K +
Sbjct: 124 SDLTLLQRIAALSNLKQDAFNQCINDKKIMDKIVNDKSLAINKLGIT 170
>1yf2_A Type I restriction-modification enzyme, S subunit; structura
genomics, PSI, protein structure initiative; 2.40A
{Methanocaldococcus jannaschii} SCOP: d.287.1.2
d.287.1.2
Length = 425
Score = 28.4 bits (64), Expect = 2.0
Identities = 8/39 (20%), Positives = 17/39 (43%)
Query: 50 KNPTKTKEDFFDEEGKRWFRTGDIGELHQDGVIRIIDRK 88
P+ K ++++ W D+ L++ I +RK
Sbjct: 243 TTPSTKKSEYWENGEINWITPLDLSRLNEKIYIGSSERK 281
>3cer_A Possible exopolyphosphatase-like protein; NESG, BLR13, Q8G5J2,
X-RAY, structure, structural genomics, PSI-2; 2.40A
{Bifidobacterium longum NCC2705}
Length = 343
Score = 28.0 bits (63), Expect = 2.4
Identities = 5/25 (20%), Positives = 12/25 (48%)
Query: 73 IGELHQDGVIRIIDRKKDLVKLQAG 97
I + DG+ ++ R +++L
Sbjct: 32 IARVDADGMHEVVPRILRVIRLGQD 56
>3db2_A Putative NADPH-dependent oxidoreductase; two domain protein,
rossman fold, putative dehydrogenase, ST genomics; 1.70A
{Desulfitobacterium hafniense dcb-2}
Length = 354
Score = 28.1 bits (63), Expect = 2.7
Identities = 4/36 (11%), Positives = 12/36 (33%), Gaps = 1/36 (2%)
Query: 130 VALVVPNPSRLKEIAEKLNLDSLT-FQQLCTHPEIE 164
V + ++ ++ N + L ++E
Sbjct: 33 VTCYSRTEDKREKFGKRYNCAGDATMEALLAREDVE 68
>4e1o_A HDC, histidine decarboxylase; lyase; HET: PLP PVH; 1.80A {Homo
sapiens}
Length = 481
Score = 28.1 bits (63), Expect = 2.7
Identities = 8/54 (14%), Positives = 16/54 (29%), Gaps = 6/54 (11%)
Query: 10 TTVCDIRLVDWDEGNYRVCDKPFPRGEILIGGSNISPGYY-----KNPTKTKED 58
V RL + V + G + + + I + T++D
Sbjct: 411 GLVV-FRLKGPNSLTENVLKEIAKAGRLFLIPATIQDKLIIRFTVTSQFTTRDD 463
>3btv_A Galactose/lactose metabolism regulatory protein GAL80; eukaryotic
transcription repressor, acetylation, carbohydrate
metabolism; 2.10A {Saccharomyces cerevisiae} PDB: 3bts_A
3v2u_A* 3btu_A
Length = 438
Score = 28.0 bits (62), Expect = 2.8
Identities = 7/39 (17%), Positives = 13/39 (33%), Gaps = 4/39 (10%)
Query: 130 VALVVPNPSRLKEIAEKLNLDSLT----FQQLCTHPEIE 164
AL P ++L L + T + + I+
Sbjct: 53 TALYSPKIETSIATIQRLKLSNATAFPTLESFASSSTID 91
>3k40_A Aromatic-L-amino-acid decarboxylase; PLP dependent protein, alpha
beta protein, alternative splicing, catecholamine
biosynthesis, lyase; HET: LLP; 1.75A {Drosophila
melanogaster}
Length = 475
Score = 27.8 bits (62), Expect = 3.2
Identities = 13/54 (24%), Positives = 20/54 (37%), Gaps = 6/54 (11%)
Query: 10 TTVCDIRLVDWDEGNYRVCDKPFPRGEILIGGSNISPGYY-----KNPTKTKED 58
VC RL +E N + + RG I + + I Y+ + ED
Sbjct: 404 GLVC-FRLKGSNERNEALLKRINGRGHIHLVPAKIKDVYFLRMAICSRFTQSED 456
>2dew_X Protein-arginine deiminase type IV; histone modification enzyme,
hydrolase; 2.10A {Homo sapiens} SCOP: b.2.9.1 b.6.1.6
d.126.1.5 PDB: 2dex_X 2dey_X 3b1u_A* 3b1t_A* 2dw5_A*
3apn_A 3apm_A 1wda_A* 1wd9_A* 1wd8_A 4dkt_A*
Length = 671
Score = 27.7 bits (61), Expect = 4.1
Identities = 10/37 (27%), Positives = 14/37 (37%)
Query: 25 YRVCDKPFPRGEILIGGSNISPGYYKNPTKTKEDFFD 61
V K +P G IL G S + + +DF
Sbjct: 424 VTVRGKEYPLGRILFGDSCYPSNDSRQMHQALQDFLS 460
>3hdx_A SUSD homolog, SUSD superfamily protein; NP_809182.1, structural
genomics, joint center for structural genomics, JCSG;
HET: MSE; 1.50A {Bacteroides thetaiotaomicron vpi-5482}
Length = 478
Score = 27.1 bits (60), Expect = 5.2
Identities = 10/50 (20%), Positives = 17/50 (34%), Gaps = 16/50 (32%)
Query: 40 GGSNISPGYYKNPTKTKEDFFDE-----------EGKRWF---RTGDIGE 75
G +S + K+ +E E EG RW+ R + +
Sbjct: 395 GLREVS--FKKDFGNNRESLIAEIFEERRRELMGEGWRWYDLVRRQKLMK 442
>3kst_A Endo-1,4-beta-xylanase; structural genomics, joint center for
structural genomics, JCSG, protein structure initiative;
HET: MSE; 1.70A {Bacteroides thetaiotaomicron vpi-5482}
Length = 306
Score = 26.9 bits (60), Expect = 5.2
Identities = 15/95 (15%), Positives = 28/95 (29%), Gaps = 17/95 (17%)
Query: 31 PF--PRGEILIGGSNISPGYYKNPTKTKEDFFDEEGKRWFRTGDIGELHQDGVIRIIDRK 88
PF + + +I F D++G + + VI +
Sbjct: 114 PFRQEVKQPIWSEKSIDTSL----------FIDDDGTPYLYFVRFTD---GNVIWVAQMT 160
Query: 89 KDLVKL--QAGEYVSLGKVEAELKTCPVIENICVY 121
DL+ + + +V EL V E +
Sbjct: 161 DDLMSIKTETLNQCIKAEVSWELLQGKVAEGPSLL 195
>2y27_A Phenylacetate-coenzyme A ligase; phenylacetic acid degradation
pathway; HET: MSE PG4 ATP; 1.60A {Burkholderia
cenocepacia} PDB: 2y4n_A*
Length = 437
Score = 27.3 bits (61), Expect = 5.4
Identities = 20/134 (14%), Positives = 42/134 (31%), Gaps = 31/134 (23%)
Query: 68 FRTGDIGELHQDG------VIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCPVIEN---I 118
+RT D+ L + +I R D++ ++ G V ++E +L + I
Sbjct: 306 YRTRDLTRLLPGTARTMRRMEKITGRSDDMMIVR-GVNVFPTQIEEQLLKQRALAPHYQI 364
Query: 119 CVYGDSRKDYTVALVVPNPSRLKEIAEKLNLDSLTFQQLCTHPEIEKQ--------VLVE 170
+ + D + L V E + D+ Q + ++
Sbjct: 365 VLTKEGPLD-VLTLNV-------EPCPETAPDTAAIQVAKQ--ALAYDIKSLIGVTAVIN 414
Query: 171 LQEHGKKSNLERFE 184
+ +ER
Sbjct: 415 VLPVNG---IERSV 425
>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 = 26.9 bits (60), Expect = 6.4
Identities = 23/137 (16%), Positives = 52/137 (37%), Gaps = 34/137 (24%)
Query: 68 FRTGDIGELHQDG---------VIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCPVIEN- 117
+RT D+ + + RI R D+ ++ G + +VE L P + +
Sbjct: 301 YRTRDLTRILPGKCPCGRTHLRIDRIKGRSDDMFIIK-GVNIFPMQVEKILVQFPELGSN 359
Query: 118 --ICVYGDSRKDYTVALVVPNPSRLKEIAEKLNLDSLTFQQLCTHPEIEKQ--------V 167
I + + +D + + V E+++ + + +++ +I +Q
Sbjct: 360 YLITLETVNNQD-EMIVEV-------ELSDLSTDNYIELEKIRR--DIIRQLKDEILVTP 409
Query: 168 LVELQEHGKKSNLERFE 184
V+L + G L + E
Sbjct: 410 KVKLVKKGS---LPQSE 423
>3kez_A Putative sugar binding protein; structural genomics, joint C
structural genomics, JCSG, protein structure initiative;
1.90A {Bacteroides vulgatus atcc 8482}
Length = 461
Score = 26.6 bits (59), Expect = 6.9
Identities = 7/42 (16%), Positives = 12/42 (28%), Gaps = 14/42 (33%)
Query: 48 YYKNPTKTKEDFFDE-----------EGKRWF---RTGDIGE 75
+N + K + EG R + R G +
Sbjct: 369 NPENSVEGKTLTLENVLDERRKELVAEGHRMYDVIRNGMTVK 410
>3nqp_A SUSD superfamily protein; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; 1.90A {Bacteroides fragilis nctc 9343}
Length = 514
Score = 26.7 bits (59), Expect = 7.9
Identities = 8/51 (15%), Positives = 11/51 (21%), Gaps = 15/51 (29%)
Query: 40 GGSNISPGYYKNPT-KTKEDFFDE-----------EGKRWF---RTGDIGE 75
G+ Y P EG+RW+ R
Sbjct: 414 YGNAWDETLYAYPETADFTTNELAILHEKDKEFIQEGQRWWDLRRMTLTKG 464
>3moi_A Probable dehydrogenase; structural genomics, PSI2, MCSG, protein
structure initiativ midwest center for structural
genomics; 2.50A {Bordetella bronchiseptica}
Length = 387
Score = 26.7 bits (59), Expect = 8.1
Identities = 5/36 (13%), Positives = 14/36 (38%), Gaps = 1/36 (2%)
Query: 130 VALVVPNPSRLKEIAEKLNLDSLT-FQQLCTHPEIE 164
VA PN + ++ + ++ H +++
Sbjct: 31 VAACDPNEDVRERFGKEYGIPVFATLAEMMQHVQMD 66
>1gy8_A UDP-galactose 4-epimerase; oxidoreductase; HET: NAD UDP; 2.0A
{Trypanosoma brucei} SCOP: c.2.1.2 PDB: 2cnb_A*
Length = 397
Score = 26.5 bits (59), Expect = 8.4
Identities = 10/58 (17%), Positives = 22/58 (37%), Gaps = 8/58 (13%)
Query: 71 GDIGELHQDGVIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCPVIENICVYGDSRKDY 128
GDIGE +Q I ++ + ++ + + + + ++G DY
Sbjct: 212 GDIGEHYQGSTHLI-----PIILGRVMSDIAPDQRLTIHEDASTDKRMPIFGT---DY 261
>3do5_A HOM, homoserine dehydrogenase; NP_069768.1, putative homoserine
dehydrogenase, structural G joint center for structural
genomics, JCSG; 2.20A {Archaeoglobus fulgidus}
Length = 327
Score = 26.4 bits (59), Expect = 8.5
Identities = 16/92 (17%), Positives = 33/92 (35%), Gaps = 20/92 (21%)
Query: 80 GVIRIIDRKKDLVKLQAGEYVSLGKVEAELKTCPVIENICVYGDSRKDYTVALVVPNPSR 139
GV ++ RK++ ++ GE + V DS+ + + R
Sbjct: 16 GVAELLIRKREEIEKAIGE-FKVTAV----------------ADSKSSISGDFSLVEALR 58
Query: 140 LKEIAEKLNLDSLTFQQLCTHPEIEKQVLVEL 171
+K L D+ ++ + + VL+E
Sbjct: 59 MKRETGMLRDDA-KAIEVVRSADYD--VLIEA 87
>1ao0_A Glutamine phosphoribosylpyrophosphate amidotransferase; glutamine
amidotransferase, prtase, purine biosynthesis,
phosphoribosyltransferase; HET: 5GP ADP; 2.80A {Bacillus
subtilis} SCOP: c.61.1.1 d.153.1.1 PDB: 1gph_1*
Length = 459
Score = 26.3 bits (59), Expect = 8.7
Identities = 12/46 (26%), Positives = 25/46 (54%), Gaps = 8/46 (17%)
Query: 112 CPVIENICVYG---DSRKDYTVALVVPNPSRLKEIAEKLNLDSLTF 154
P I + C YG + ++ L+ + S ++EI +++ D+L+F
Sbjct: 375 SPPIAHPCFYGIDTSTHEE----LIASSHS-VEEIRQEIGADTLSF 415
>2y4x_A PILP protein; biosynthetic protein; 1.70A {Pseudomonas aeruginosa
PAO1} PDB: 2y4y_A
Length = 93
Score = 25.0 bits (55), Expect = 8.9
Identities = 5/20 (25%), Positives = 12/20 (60%)
Query: 135 PNPSRLKEIAEKLNLDSLTF 154
P+ +R+K+ E N+++
Sbjct: 7 PDETRVKQFLEGFNIETFEM 26
>3k9t_A Putative peptidase; structural genomics, joint center for ST
genomics, JCSG, protein structure initiative, PSI-2,
aminop hydrolase; 2.37A {Clostridium acetobutylicum}
Length = 435
Score = 26.5 bits (57), Expect = 9.4
Identities = 15/143 (10%), Positives = 39/143 (27%), Gaps = 17/143 (11%)
Query: 13 CDIRLVDWDEGNYRVCDKPFPRGEILIGGSNISPGYYK--NPTKTKEDFFDEEGKRWFRT 70
+ + D+ P + +G S + + + + +++G
Sbjct: 285 SEYYVADFFPWGSDERQFSSPGINLSVGSLMRSCYGFDGYHTSADNLCYMNKDGLADSYK 344
Query: 71 GDIGELHQDGVIRIIDRKKDLVKLQAGE---YVSLGKVEAELKTCPVIENICVYGDSRKD 127
+ ++ R + Q G+ Y +G + + D +
Sbjct: 345 TYLEVIYTIENNRTYLNLNPKCEPQLGKRGIYRMIGGGSDYPFDEFAMFWVLNMSDGKNS 404
Query: 128 YTVALVVPNPSRLKEIAEKLNLD 150
L +IA K ++
Sbjct: 405 ------------LLDIAYKSGME 415
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
0.317 0.137 0.411
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: 3,720,297
Number of extensions: 226089
Number of successful extensions: 697
Number of sequences better than 10.0: 1
Number of HSP's gapped: 667
Number of HSP's successfully gapped: 81
Length of query: 228
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 138
Effective length of database: 4,188,903
Effective search space: 578068614
Effective search space used: 578068614
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (24.8 bits)