RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 011947
(474 letters)
>3nvs_A 3-phosphoshikimate 1-carboxyvinyltransferase; structural genomics,
center for structural genomics of infec diseases, csgid;
HET: S3P SKM GPJ EPE; 1.02A {Vibrio cholerae} PDB:
1g6s_A* 1g6t_A* 1x8r_A* 1x8t_A* 2aa9_A* 2aay_A* 2pq9_A*
1eps_A 1mi4_A* 3fjz_A* 3fjx_A* 2qfs_A* 2qft_A* 2qfq_A*
2qfu_A* 3fk0_A* 3fk1_A* 1q36_A* 3ti2_A* 1p88_A ...
Length = 450
Score = 589 bits (1522), Expect = 0.0
Identities = 222/407 (54%), Positives = 277/407 (68%), Gaps = 16/407 (3%)
Query: 67 QGTTVVDNLLSSEDIHHMLDALKKLGLNVEEDFAMKRAIVEGCGGLFPLAKQQTGEIELF 126
GTT + NLL S+DI HML+AL KLG+N VEG G F +ELF
Sbjct: 60 SGTTRLTNLLDSDDIRHMLNALTKLGVNYRLSADKTTCEVEGLGQAFHTT----QPLELF 115
Query: 127 LGNAGTAMRPLTAAVTAAGGNLSYILDGVPRMRERPIGDLVTGLKQLGADVDCILGTNCP 186
LGNAGTAMRPL AA+ G+ Y+L G PRM+ERPIG LV L+Q GA ++ + N P
Sbjct: 116 LGNAGTAMRPLAAALCLGQGD--YVLTGEPRMKERPIGHLVDALRQAGAQIEYLEQENFP 173
Query: 187 PVRINGKGGLPGGKVKLSGKLSSQYLTALLMAAPLALGNVEIEIIDKLISVPYVEMTLKL 246
P+RI G G L G V + G +SSQ+LTA LM+APLA G V I+I+ +L+S PY+++TL +
Sbjct: 174 PLRIQGTG-LQAGTVTIDGSISSQFLTAFLMSAPLAQGKVTIKIVGELVSKPYIDITLHI 232
Query: 247 MERFGVFVEHSDSWDRFFIQGGQKYKSPGNAFVEGDASSASYFVAGAAVTGGTVTVEGCG 306
ME+FGV V + D + F I GQ Y SPG VEGDASSASYF+A AA+ GG V V G G
Sbjct: 233 MEQFGVQVINHD-YQEFVIPAGQSYVSPGQFLVEGDASSASYFLAAAAIKGGEVKVTGIG 291
Query: 307 TSSLQGDVKFAEVLEKMGAKVTWTENSVTVTGPPRDPYGRKHLRAVDVNMNKMPDVAMTL 366
+S+QGD++FA+ LEKMGA++ W ++ V L AVD++ N +PD AMT+
Sbjct: 292 KNSIQGDIQFADALEKMGAQIEWGDDYVIARRGE--------LNAVDLDFNHIPDAAMTI 343
Query: 367 AVVALFADGPTAIRDVASWRVKETERMIAICTELRKLGATVEEGPDYCVITPPEKLKVAA 426
A ALFA G TAIR+V +WRVKET+R+ A+ TELRK+GATVEEG D+ VITPP KL AA
Sbjct: 344 ATTALFAKGTTAIRNVYNWRVKETDRLAAMATELRKVGATVEEGEDFIVITPPTKLIHAA 403
Query: 427 IDTYDDHRMAMAFSLAACADVPVTIKDPSCTRKTFPDYFDVLDSVTK 473
IDTYDDHRMAM FSL A +D PVTI DP CT KTFPDYFD +++
Sbjct: 404 IDTYDDHRMAMCFSLVALSDTPVTINDPKCTSKTFPDYFDKFAQLSR 450
>2o0b_A 3-phosphoshikimate 1-carboxyvinyltransferase; shikimate pathway,
EPSP synthase, structural genomics; HET: S3P; 1.15A
{Mycobacterium tuberculosis} PDB: 2o0d_A* 2o0e_A*
2o0x_A* 2o0z_A* 2o15_A 2bjb_A
Length = 450
Score = 546 bits (1410), Expect = 0.0
Identities = 114/410 (27%), Positives = 187/410 (45%), Gaps = 29/410 (7%)
Query: 67 QGTTVVDNLLSSEDIHHMLDALKKLGLNVEEDFAMKRAIVEGCGGLFPLAKQQTGEIELF 126
+G + + L S D MLDAL+ LGL V+ V G P +
Sbjct: 41 RGASTISGALRSRDTELMLDALQTLGLRVDGV--GSELTVSGRIEPGP-------GARVD 91
Query: 127 LGNAGTAMRPLTAAVTAAGGNLSYILDGVPRMRERPIGDLVTGLKQLGADVDCILGTNCP 186
G AGT +R + DG + R RPI L+ L++LG VD
Sbjct: 92 CGLAGTVLRFVPPLAALGSVP--VTFDGDQQARGRPIAPLLDALRELGVAVDG----TGL 145
Query: 187 PVRINGKGGLPGGKVKLSGKLSSQYLTALLMAAPLALGNVEIEII-DKLISVPYVEMTLK 245
P R+ G G L GG V + SSQ+++ LL++A + ++ L S P++ MT
Sbjct: 146 PFRVRGNGSLAGGTVAIDASASSQFVSGLLLSAASFTDGLTVQHTGSSLPSAPHIAMTAA 205
Query: 246 LMERFGVFVEHSDSWDRFFIQGGQKYKSPGNAFVEGDASSASYFVAGAAVTGGTVTVEGC 305
++ + GV ++ S +R+ ++ G + +E D ++A F++ A V+GGTV + G
Sbjct: 206 MLRQAGVDIDDST-PNRWQVRPGPV--AARRWDIEPDLTNAVAFLSAAVVSGGTVRITGW 262
Query: 306 GTSSLQGDVKFAEVLEKMGAKVTWTENSVTVTGPPRDPYGRKHLRAVDVNMNKMPDVAMT 365
S+Q +L ++ A V ++S+ V GP DV++ + ++ +
Sbjct: 263 PRVSVQPADHILAILRQLNAVVIHADSSLEVRGPTG-------YDGFDVDLRAVGELTPS 315
Query: 366 LAVVALFAD--GPTAIRDVASWRVKETERMIAICTELRKLGATVEEGPDYCVITPPEKLK 423
+A +A A + + +A R ET+R+ A+ TE+ +LG T E PD VIT L+
Sbjct: 316 VAALAALASPGSVSRLSGIAHLRGHETDRLAALSTEINRLGGTCRETPDGLVITAT-PLR 374
Query: 424 VAAIDTYDDHRMAMAFSLAACADVPVTIKDPSCTRKTFPDYFDVLDSVTK 473
Y DHRMAMA ++ V + D + T KT P++ + +
Sbjct: 375 PGIWRAYADHRMAMAGAIIGLRVAGVEVDDIAATTKTLPEFPRLWAEMVG 424
>3rmt_A 3-phosphoshikimate 1-carboxyvinyltransferase 1; structural
genomics, protein structure initiative; 2.80A {Bacillus
halodurans}
Length = 455
Score = 232 bits (595), Expect = 1e-71
Identities = 123/418 (29%), Positives = 200/418 (47%), Gaps = 32/418 (7%)
Query: 63 SLSFQGTTVVDNLLSSEDIHHMLDALKKLGLNVEEDFAMKRAIVEGCGGLFPLAKQQTGE 122
+L+ +GTT V+ L D + +KLG+++E+ +R V+G G
Sbjct: 36 ALA-KGTTTVEGFLPGADCLSTISCFQKLGVSIEQAE--ERVTVKGKGWDGLREPSDI-- 90
Query: 123 IELFLGNAGTAMRPLTAAVTAAGGNLSYILDGVPRMRERPIGDLVTGLKQLGADVDCILG 182
L +GN+GT R + + + ++ G + +RP+ + LK +GA +D
Sbjct: 91 --LDVGNSGTTTRLILGIL--STLPFHSVIIGDESIGKRPMKRVTEPLKSMGAQIDGRDH 146
Query: 183 TNCPPVRINGKGGLPGGKVKLSGKLSSQYLTALLMAAPLALGNVEIEIIDKLISVPYVEM 242
N P+ I G G L G S+Q +A+L+A A G + + + + +
Sbjct: 147 GNLTPLSIRG-GQLKGIDFHSP-VASAQMKSAILLAGLRAEG--KTSVTEPAKTRDH--- 199
Query: 243 TLKLMERFGVFVEHSDSWDRFFIQGGQKYKSPGNAFVEGDASSASYF-VAGAAVTGGTVT 301
T +++E FGV +E I+GGQ + V GD SSA++F VAGA V +T
Sbjct: 200 TERMLEAFGVNIEKDG--LTVSIEGGQMLT-GQHVVVPGDISSAAFFLVAGAMVPHSRIT 256
Query: 302 VEGCGT-SSLQGDVKFAEVLEKMGAKVTWTENSVTVTGPPR-DPYGR-KHLRAVDVNMNK 358
+ G + G EVL++MGA + EN G P D L+ V++ +
Sbjct: 257 LTNVGINPTRAG---ILEVLKQMGATLAM-ENERVQGGEPVADLTIETSVLQGVEIGGDI 312
Query: 359 MP---DVAMTLAVVALFADGPTAIRDVASWRVKETERMIAICTELRKLGATVEEGPDYCV 415
+P D +AV+A A G T I+D +VKET R+ + +EL KLGA++ D +
Sbjct: 313 IPRLIDEIPIIAVLATQASGRTVIKDAEELKVKETNRIDTVVSELTKLGASIHATDDGMI 372
Query: 416 ITPPEKLKVAA-IDTYDDHRMAMAFSLAA-CADVPVTIKDPSCTRKTFPDYFDVLDSV 471
I P LK + ++ DHR+ MA ++AA A+ PVT++ ++P +FD LD +
Sbjct: 373 IEGPTPLKGGVTVSSHGDHRIGMAMAIAALLAEKPVTVEGTEAIAVSYPSFFDHLDRL 430
>1rf6_A 5-enolpyruvylshikimate-3-phosphate synthase; shikimate pathway,
EPSP synthase, glyphosate, PEP, transferase; HET: GPJ
S3P; 1.90A {Streptococcus pneumoniae} SCOP: d.68.2.2
PDB: 1rf5_A 1rf4_A*
Length = 427
Score = 214 bits (547), Expect = 7e-65
Identities = 106/423 (25%), Positives = 191/423 (45%), Gaps = 41/423 (9%)
Query: 63 SLSFQGTTVVDNLLSSEDIHHMLDALKKLGLNVEEDFAMKRAIVEGCGGLFPLAKQQTGE 122
SL+ +G T V ++L ED+ + + LG+ +E+ V+G G A Q
Sbjct: 31 SLA-EGETKVYDILRGEDVLSTMQVFRDLGVEIEDKD--GVITVQGVGMAGLKAPQNA-- 85
Query: 123 IELFLGNAGTAMRPLTAAVTAAGGNLSYILDGVPRMRERPIGDLVTGLKQLGADVDCILG 182
L +GN+GT++R ++ + AG + + G + +RP+ + LK++G +
Sbjct: 86 --LNMGNSGTSIRLISGVL--AGADFEVEMFGDDSLSKRPMDRVTLPLKKMGVSISGQTE 141
Query: 183 TNCPPVRINGKGGLPGGKVKLSGKLSSQYLTALLMAAPLALGNVEIEIIDKLISVPYVEM 242
+ PP+R+ G L +L S+Q +AL+ AA A G E II+K + + E
Sbjct: 142 RDLPPLRLKGTKNLRPIHYELP-IASAQVKSALMFAALQAKG--ESVIIEKEYTRNHTE- 197
Query: 243 TLKLMERFGVFVEHSDSWDRFFIQGGQKYKSPGNAFVEGDASSASYFVAGAAVT-GGTVT 301
++++FG + + +QG QK V GD SSA++++ + +
Sbjct: 198 --DMLQQFGGHLSVDG--KKITVQGPQKLT-GQKVVVPGDISSAAFWLVAGLIAPNSRLV 252
Query: 302 VEGCGTSSLQGDVKFAEVLEKMGAKVTWTENS-------VTVTGPPRDPYGRKHLRAVDV 354
++ G + + +V+ MG K+ TE + V L+ ++
Sbjct: 253 LQNVGINETR--TGIIDVIRAMGGKLEITEIDPVAKSATLIVESSD--------LKGTEI 302
Query: 355 NMNKMP---DVAMTLAVVALFADGPTAIRDVASWRVKETERMIAICTELRKLGATVEEGP 411
+P D +A++A A G T I+D +VKET+R+ + L +GA +
Sbjct: 303 CGALIPRLIDELPIIALLATQAQGVTVIKDAEELKVKETDRIQVVADALNSMGADITPTA 362
Query: 412 DYCVITPPEKLKVAAIDTYDDHRMAMAFSLAA--CADVPVTIKDPSCTRKTFPDYFDVLD 469
D +I L A ++T+ DHR+ M ++AA AD V + ++P +FD L+
Sbjct: 363 DGMIIKGKSALHGARVNTFGDHRIGMMTAIAALLVADGEVELDRAEAINTSYPSFFDDLE 422
Query: 470 SVT 472
S+
Sbjct: 423 SLI 425
>3slh_A 3-phosphoshikimate 1-carboxyvinyltransferase; structural genomics,
center for structural genomics of infec diseases, csgid;
HET: S3P GPJ SKM PGE 1PE PG4; 1.70A {Coxiella burnetii}
PDB: 3roi_A* 4egr_A* 3tr1_A
Length = 441
Score = 205 bits (524), Expect = 3e-61
Identities = 119/416 (28%), Positives = 204/416 (49%), Gaps = 29/416 (6%)
Query: 63 SLSFQGTTVVDNLLSSEDIHHMLDALKKLGLNVEEDFAMKRAIVEGCGGLFPLAKQQTGE 122
+++ +G T VD L D M+ AL+++G +++ +VEG G A +
Sbjct: 35 AIA-EGQTQVDGFLMGADNLAMVSALQQMGASIQVIEDENILVVEGVGMTGLQAPPEA-- 91
Query: 123 IELFLGNAGTAMRPLTAAVTAAGGNLSYILDGVPRMRERPIGDLVTGLKQLGADVDCILG 182
L GN+GTA+R L+ + AG + +L G ++ RP+ ++ L +GA +D
Sbjct: 92 --LDCGNSGTAIRLLSGLL--AGQPFNTVLTGDSSLQRRPMKRIIDPLTLMGAKID--ST 145
Query: 183 TNCPPVRINGKGGLPGGKVKLSGKLSSQYLTALLMAAPLALGNVEIEIIDKLISVPYVEM 242
N PP++I G L G +L S+Q + LL+A A G + I + S + E
Sbjct: 146 GNVPPLKIYGNPRLTGIHYQLP-MASAQVKSCLLLAGLYARG--KTCITEPAPSRDHTE- 201
Query: 243 TLKLMERFGVFVEHSDSWDRFFIQGGQKYKSPGNAFVEGDASSASYFVAGAAVT-GGTVT 301
+L++ F ++ + GG K K + + GD SSA++F+ A +T G +
Sbjct: 202 --RLLKHFHYTLQKDK--QSICVSGGGKLK-ANDISIPGDISSAAFFIVAATITPGSAIR 256
Query: 302 VEGCGTSSLQGDVKFAEVLEKMGAKVTWTENSVTVTGPPR-DPYGR-KHLRAVDVNMNKM 359
+ G + + + +L+ MGA + + P D R L+ +D+ +++
Sbjct: 257 LCRVGVNPTR--LGVINLLKMMGADIEV-THYTEKNEEPTADITVRHARLKGIDIPPDQV 313
Query: 360 P---DVAMTLAVVALFADGPTAIRDVASWRVKETERMIAICTELRKLGATVEEGPDYCVI 416
P D L + A A G T +RD A RVKET+R+ A+ L+KLG E PD +I
Sbjct: 314 PLTIDEFPVLLIAAAVAQGKTVLRDAAELRVKETDRIAAMVDGLQKLGIAAESLPDGVII 373
Query: 417 TPPEKLKVAAIDTYDDHRMAMAFSLAA-CADVPVTIKDPSCTRKTFPDYFDVLDSV 471
L+ +++YDDHR+AMAF++A A PV I++ + +FP++ ++ + V
Sbjct: 374 QGG-TLEGGEVNSYDDHRIAMAFAVAGTLAKGPVRIRNCDNVKTSFPNFVELANEV 428
>2pqc_A 3-phosphoshikimate 1-carboxyvinyltransferase; inside-OUT alpha/beta
barrel; HET: RC1; 1.60A {Agrobacterium SP} PDB: 2pqb_A*
2gg6_A* 2gg4_A* 2gga_A* 2ggd_A* 2pqd_A*
Length = 445
Score = 203 bits (518), Expect = 2e-60
Identities = 103/425 (24%), Positives = 184/425 (43%), Gaps = 36/425 (8%)
Query: 63 SLSFQGTTVVDNLLSSEDIHHMLDALKKLGLNVEEDFAMKRAIVEGCGGLFPLAKQQTGE 122
L+ G T + LL ED+ + A++ +G + ++ I++G G LA +
Sbjct: 34 GLA-SGETRITGLLEGEDVINTGKAMQAMGARIRKEG--DTWIIDGVGNGGLLAPEAP-- 88
Query: 123 IELFLGNAGTAMRPLTAAVTAAGGNLSYILDGVPRMRERPIGDLVTGLKQLGADVDCILG 182
L GNA T R V + G + +RP+G ++ L+++G V G
Sbjct: 89 --LDFGNAATGCRLTMGLV--GVYDFDSTFIGDASLTKRPMGRVLNPLREMGVQVKSEDG 144
Query: 183 TNCPPVRINGKGGLPGGKVKLSGKLSSQYLTALLMAAPLALGNVEIEIIDKLISVPYVEM 242
+ PV + G ++ S+Q +A+L+A G +I+ +++ + E
Sbjct: 145 -DRLPVTLRGPKTPTPITYRVP-MASAQVKSAVLLAGLNTPG--ITTVIEPIMTRDHTE- 199
Query: 243 TLKLMERFGVFVE---HSDSWDRFFIQGGQKYKSPGNAFVEGDASSASYFVAGAAVT-GG 298
K+++ FG + +D ++G K V GD SS ++ + A + G
Sbjct: 200 --KMLQGFGANLTVETDADGVRTIRLEGRGKLT-GQVIDVPGDPSSTAFPLVAALLVPGS 256
Query: 299 TVTVEGCGTSSLQGDVKFAEVLEKMGAKVTWTENSVTVTGPPR-DPYGR-KHLRAVDVNM 356
VT+ + + L++MGA + N G D R L+ V V
Sbjct: 257 DVTILNVLMNPTR--TGLILTLQEMGADIEV-INPRLAGGEDVADLRVRSSTLKGVTVPE 313
Query: 357 NKMP---DVAMTLAVVALFADGPTAIRDVASWRVKETERMIAICTELRKLGATVEEGPDY 413
++ P D LAV A FA+G T + + RVKE++R+ A+ L+ G +EG
Sbjct: 314 DRAPSMIDEYPILAVAAAFAEGATVMNGLEELRVKESDRLSAVANGLKLNGVDCDEGETS 373
Query: 414 CVIT------PPEKLKVAAIDTYDDHRMAMAFSLAA-CADVPVTIKDPSCTRKTFPDYFD 466
V+ AA+ T+ DHR+AM+F + ++ PVT+ D + +FP++ D
Sbjct: 374 LVVRGRPDGKGLGNASGAAVATHLDHRIAMSFLVMGLVSENPVTVDDATMIATSFPEFMD 433
Query: 467 VLDSV 471
++ +
Sbjct: 434 LMAGL 438
>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 = 67.2 bits (163), Expect = 6e-12
Identities = 78/475 (16%), Positives = 143/475 (30%), Gaps = 142/475 (29%)
Query: 72 VDNLLSSEDIHHMLDALKKLGLNVEE--DFAMKRAIVEGCGGLF-PLAKQQTGEIELFLG 128
D + + D + D K + L+ EE M + V G LF L +Q ++ F+
Sbjct: 26 EDAFVDNFDCKDVQDMPKSI-LSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVE 84
Query: 129 NAGTAMRP----LTAAVTA-----AGGNLSYI-----LDGVPRM-------RERPIGDLV 167
+R L + + + YI L ++ R +P L
Sbjct: 85 ---EVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLR 141
Query: 168 TGLKQLGADVDCILGTNCPPVRINGKGGLPGGKVKLSGKLSSQYLTALLMAAP---LALG 224
L +L V I+G G GK ++ + Y M L L
Sbjct: 142 QALLEL---------RPAKNVLIDGVLGS--GKTWVALDVCLSYKVQCKMDFKIFWLNLK 190
Query: 225 NVE-----IEIIDKLISVPYVEMTLKLMERFGVFVEHSDS----------WDRFFIQGGQ 269
N +E++ KL ++ R +HS + R ++ +
Sbjct: 191 NCNSPETVLEMLQKL----LYQIDPNWTSR----SDHSSNIKLRIHSIQAELRRLLK-SK 241
Query: 270 KYKSPGNAF-----VEGDASSASYFVAGAA--VTGGTVTVEGCGTSSLQGDVKFAEVLEK 322
Y+ N V+ +A + + F +T V T L L+
Sbjct: 242 PYE---NCLLVLLNVQ-NAKAWNAFNLSCKILLTTRFKQV----TDFLSAATTTHISLDH 293
Query: 323 MGAKVTWTENSVTVTGPPRDPYGRKHLRAVDVNMNKMPDVAMTLA--VVALFADGPTAIR 380
+T E ++ L+ +D +P +T +++ A +IR
Sbjct: 294 HSMTLTPDE-VKSLL-----------LKYLDCRPQDLPREVLTTNPRRLSIIA---ESIR 338
Query: 381 DVAS----WR---VKETERMIAIC------TELRKLGATVEEGPDY--CVITP-----PE 420
D + W+ + +I E RK+ + + P P
Sbjct: 339 DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM---------FDRLSVFPPSAHIPT 389
Query: 421 K-LKV--AAIDTYDDHRMA---MAFSLAACADVPVTIKDPSCTRKTFPD-YFDVL 468
L + + D + +SL K P + + P Y ++
Sbjct: 390 ILLSLIWFDVIKSDVMVVVNKLHKYSLVE--------KQPKESTISIPSIYLELK 436
Score = 49.9 bits (118), Expect = 2e-06
Identities = 46/319 (14%), Positives = 82/319 (25%), Gaps = 81/319 (25%)
Query: 229 EIIDKLISVPYVEMTLKLM---------ERFGVFVEHSDS------WDRFFIQGGQK--- 270
E ID +I + E FVE + Q
Sbjct: 49 EEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMM 108
Query: 271 ---YKSPGNAFVEGDASSASYFVA-GAAVT-----------GGTVTVEG---CGTSSLQG 312
Y + + A Y V+ V ++G G + +
Sbjct: 109 TRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVAL 168
Query: 313 DV-KFAEVLEKMGAKVTWTENSVTVTGPPRDPYGR-----KHLRAVDVNMNKMPDVAMTL 366
DV +V KM K+ W + + P K L +D N D + +
Sbjct: 169 DVCLSYKVQCKMDFKIFW----LNL-KNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI 223
Query: 367 ---------AVVALFA--DGPTA---IRDVASWRVKE----------TERMIAICTELRK 402
+ L + +V + + T R + L
Sbjct: 224 KLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSA 283
Query: 403 LGAT---VEEGPDYCVITPPEKL----KVAAIDTYDDHRMAMAFSLAACADVPVTIKDPS 455
T ++ +TP E K D R + + + + +I+D
Sbjct: 284 ATTTHISLDHHSM--TLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGL 341
Query: 456 CTRKTFPDY-FDVLDSVTK 473
T + D L ++ +
Sbjct: 342 ATWDNWKHVNCDKLTTIIE 360
>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 = 66.2 bits (161), Expect = 1e-11
Identities = 87/531 (16%), Positives = 155/531 (29%), Gaps = 187/531 (35%)
Query: 11 VQSGLQLQLAQLRSNQKHRKLYCNPSERF--------PVRLLCRVLSLY--------PIG 54
V + +QL+ ++ K+ P+E F P L+ + L Y +G
Sbjct: 22 VPTASFFIASQLQ--EQFNKILPEPTEGFAADDEPTTPAELVGKFLG-YVSSLVEPSKVG 78
Query: 55 FFFSLPSLSL-SFQGTTVVDNLLSSEDIHHMLDALKKLGLNVEEDFAMKRAIVE------ 107
F + +L L F+ + L DIH KL + + +++
Sbjct: 79 QFDQVLNLCLTEFE-----NCYLEGNDIH---ALAAKLLQENDTTLVKTKELIKNYITAR 130
Query: 108 GCGG----------LFPLAKQQTGEIELFL--GNAGTAMRPLTAAVTAAG-GNLSYILDG 154
LF G +L G G GN D
Sbjct: 131 IMAKRPFDKKSNSALFRAV--GEGNAQLVAIFG----------------GQGN---TDDY 169
Query: 155 VPRMRE-----RP-IGDLVTG----LKQLGA---DVDCILGTNCPPVR-INGKGGLPGGK 200
+R+ +GDL+ L +L D + + + + P
Sbjct: 170 FEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTP--- 226
Query: 201 VKLSGKLSSQYLTALLMAAPL----ALGNVEIEIIDKLISVPYVEMTLKLMERFG----- 251
YL ++ ++ PL L + + KL+ E+ L G
Sbjct: 227 -------DKDYLLSIPISCPLIGVIQLAH--YVVTAKLLGFTPGELRSYLKGATGHSQGL 277
Query: 252 ---VFVEHSDSWDRF-----------FIQG--GQKYKSPGNAF--------VEGDASSAS 287
V + +DSW+ F F G + P + +E + S
Sbjct: 278 VTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEA-YPNTSLPPSILEDSLENNEGVPS 336
Query: 288 YFVAGAAVTGGTVTVEGCGTSSLQGDVKFAEVLEKMGAKVTWTE-------NS---VTVT 337
++ + +Q + + K + + + N + V+
Sbjct: 337 PMLS----------ISNLTQEQVQ------DYVNKTNSHLPAGKQVEISLVNGAKNLVVS 380
Query: 338 GPPRDPYG-RKHLRAV----DVNMNKMPDVAMTLAVVALF------------ADGPTAI- 379
GPP+ YG LR ++ +++P L F I
Sbjct: 381 GPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLIN 440
Query: 380 RDVA----SWRVKETERMIAI---CTE----LRKLGATVEEGPDYCVITPP 419
+D+ S+ K+ I I T LR L ++ E C+I P
Sbjct: 441 KDLVKNNVSFNAKD----IQIPVYDTFDGSDLRVLSGSISERIVDCIIRLP 487
Score = 39.6 bits (92), Expect = 0.002
Identities = 34/208 (16%), Positives = 52/208 (25%), Gaps = 85/208 (40%)
Query: 9 QFVQSGLQLQLAQLRSNQKHRKLYCNP---------SER---FPVRLLCRVLSLYPIGF- 55
V SG L L N RK SER F R L P+
Sbjct: 376 NLVVSGPPQSLYGL--NLTLRKAKAPSGLDQSRIPFSERKLKFSNRFL-------PVASP 426
Query: 56 FFSLPSLSLSFQGTTVVDNLLSSEDIHHMLDALKKLGLNVEEDFAMKRAIVEGCGGLFPL 115
F S H ++ A + +D +
Sbjct: 427 FHS-----------------------HLLVPASDL----INKDLVKNNVSFNAK----DI 455
Query: 116 AKQQTGEIELFLGNAGTAMRPLTAAVT----------------AAGGNLSYILD----GV 155
I ++ G+ +R L+ +++ ++ILD G
Sbjct: 456 Q------IPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGA 509
Query: 156 PRMRERPIGDLVTGLKQLGADVDCILGT 183
+G L K G V I+
Sbjct: 510 SG-----LGVLTHRNKD-GTGVRVIVAG 531
Score = 32.3 bits (73), Expect = 0.37
Identities = 23/126 (18%), Positives = 46/126 (36%), Gaps = 41/126 (32%)
Query: 280 EGDASSASYFVAG---------AAVTGGTVTVEGCGTSSLQGDVKFAEVLEKMGAKVTWT 330
+G + + F AG A++ +++E + EV+ G +
Sbjct: 1750 KGLIPADATF-AGHSLGEYAALASL-ADVMSIE---------SL--VEVVFYRGMTM--- 1793
Query: 331 ENSVTVTGPPRDPYGRKHLRAVDVNMNKMPDVAMTLAVVALFADGPTAIRDVASWRVKET 390
+ +V PRD GR + + +N ++ A F+ A++ V K T
Sbjct: 1794 QVAV-----PRDELGRSNYGMIAINPGRV---------AASFSQ--EALQYVVERVGKRT 1837
Query: 391 ERMIAI 396
++ I
Sbjct: 1838 GWLVEI 1843
Score = 30.8 bits (69), Expect = 1.4
Identities = 36/261 (13%), Positives = 61/261 (23%), Gaps = 124/261 (47%)
Query: 239 YVEMTLKLMERFGVFVEHSDSWDR---FFIQGGQKYK-SPGNAFVEGDASSASYFVA--G 292
M + L + D W+R F Y S + + + +F G
Sbjct: 1628 EQGMGMDLYKTSKAA---QDVWNRADNHF---KDTYGFSILDIVINNPVNLTIHFGGEKG 1681
Query: 293 AAVTGG--TVTVEGCGTSSLQGDVKFAEVLEKMGAKVTW---------TENSVTVTGPPR 341
+ + E L+ + F E+ E T+ T+ T P
Sbjct: 1682 KRIRENYSAMIFETIVDGKLKTEKIFKEINEHS-TSYTFRSEKGLLSATQF----TQP-- 1734
Query: 342 DPYGRKHLRAVDVNMNKMPDVAMTLAVVALFADGPTAIRDVASWRVKETERMIAICTELR 401
A+TL A F D L+
Sbjct: 1735 ---------------------ALTLMEKAAFED-------------------------LK 1748
Query: 402 KLGATVEEGPDYCVITPPEKLKVAAIDTYDDHRMAMA------FS-LAACADVPVTIKDP 454
+G + P + A ++ LA+ ADV
Sbjct: 1749 ------SKG-----LIPADA--------------TFAGHSLGEYAALASLADV------- 1776
Query: 455 SCTRKTFPDYF-DVLDSVTKR 474
+++ V R
Sbjct: 1777 ------MS--IESLVEVVFYR 1789
>1ejd_A MURA, EPT, UDP-N-acetylglucosamine enolpyruvyltransferase;
inside-OUT alpha/beta barrel; 1.55A {Enterobacter
cloacae} SCOP: d.68.2.2 PDB: 1ejc_A 1eyn_A* 1ybg_A*
3kqa_A* 3lth_A* 3spb_A 3swq_A* 3upk_A* 1naw_A 1dlg_A
1ryw_A* 1q3g_A* 3su9_A* 3swi_A* 3v4t_A* 3v5v_A* 3swa_A*
1uae_A* 3kqj_A* 3kr6_A* ...
Length = 419
Score = 54.0 bits (131), Expect = 5e-08
Identities = 51/210 (24%), Positives = 84/210 (40%), Gaps = 51/210 (24%)
Query: 161 RPIGDL-VTGLKQLGADVDCILGTNCPPVRINGKGGLPGGKVKLSGKLSSQYLTA---LL 216
RP+ DL + GL++LGA++ G V+ + G L G + + K+S + A ++
Sbjct: 120 RPV-DLHIFGLEKLGAEIKLEEGY----VKASVNGRLKGAHIVMD-KVS---VGATVTIM 170
Query: 217 MAAPLALG-----NV--EIEIIDKLISVPYVEMTLKLMERFGVFVEHSDSWDRFFIQG-- 267
AA LA G N E EI+D + L + G + + DR I+G
Sbjct: 171 SAATLAEGTTIIENAAREPEIVD-TANF------LVAL---GAKISGQGT-DRITIEGVE 219
Query: 268 ---GQKYKSPGNAFVEGDASSASYFVAGAAVTGGTVTVEGCGTSSLQGDVKFAEVLEKMG 324
G Y+ V D F+ AA++GG + +L L + G
Sbjct: 220 RLGGGVYR------VLPDRIETGTFLVAAAISGGKIVCRNAQPDTLD---AVLAKLREAG 270
Query: 325 AKVTWTENSVTVTGPPRDPYGRKHLRAVDV 354
A + E+ +++ K +AV V
Sbjct: 271 ADIETGEDWISLDMHG------KRPKAVTV 294
Score = 36.3 bits (85), Expect = 0.022
Identities = 25/117 (21%), Positives = 48/117 (41%), Gaps = 19/117 (16%)
Query: 317 AEVLEKMGAKVTWT-ENSVTVTGPPRDPYGRKHLRAVDVNMNKMPD--VAMTLAVVALFA 373
A L +GAK++ + +T+ G + L + +PD T V A +
Sbjct: 195 ANFLVALGAKISGQGTDRITIE-------GVERLGGGVYRV--LPDRIETGTFLVAAAIS 245
Query: 374 DGPTAIRDVASWRVKETERMIAICTELRKLGATVEEGPDYC-VITPPEKLKVAAIDT 429
G R+ + + + A+ +LR+ GA +E G D+ + ++ K + T
Sbjct: 246 GGKIVCRNA------QPDTLDAVLAKLREAGADIETGEDWISLDMHGKRPKAVTVRT 296
Score = 27.8 bits (63), Expect = 8.2
Identities = 25/99 (25%), Positives = 36/99 (36%), Gaps = 32/99 (32%)
Query: 320 LEKMGAKVTWTENSVTVTGPPR---------DPYGRKHLRAVDVNMNKMPDVAMTLAVVA 370
L +MGA N+V G + D LRA ++ LA
Sbjct: 338 LIRMGAHAEIESNTVICHGVEKLSGAQVMATD------LRA---------SASLVLA--G 380
Query: 371 LFADGPTAIRDVASWRVKETER-MIAICTELRKLGATVE 408
A+G T + R+ +R I +LR LGA +E
Sbjct: 381 CIAEGTTVVD-----RIYHIDRGYERIEDKLRALGANIE 414
Score = 27.8 bits (63), Expect = 9.1
Identities = 67/266 (25%), Positives = 99/266 (37%), Gaps = 85/266 (31%)
Query: 193 KGGLP-GGKVKLSG-KLSSQYLTALLMAAPLALGNVEIEIIDKLISVPY---VEMTLKLM 247
+G G+V +SG K ++ L +L AA LA VEI+ +VP ++ T+KL+
Sbjct: 7 QGPTRLQGEVTISGAKNAA--L-PILFAALLAEEPVEIQ------NVPKLKDIDTTMKLL 57
Query: 248 ERFGVFVEHSDSWDRFFIQGGQKYKSPGNAFVEGDASS---------------ASYFVAG 292
+ G VE S V DAS+ AS + G
Sbjct: 58 TQLGTKVERXGS-------------------VWIDASNVNNFSAPYDLVKTMRASIWALG 98
Query: 293 AAVT-GGTVTVE---GCGTSS------LQGDVKFAEVLEKMGAKVTWTENSVTVTGPPRD 342
V G V GC + + G LEK+GA++ E V + R
Sbjct: 99 PLVARFGQGQVSLPGGCAIGARPVDLHIFG-------LEKLGAEIKLEEGYVKASVNGR- 150
Query: 343 PYGRKHLRAVDVNMNKMPDVAMT----LAVVALFADGPTAIRDVASWRVKETERMIAICT 398
L+ + M+ V T A A A+G T I + A +E E ++
Sbjct: 151 ------LKGAHIVMD-KVSVGATVTIMSA--ATLAEGTTIIENAA----REPE-IVDTAN 196
Query: 399 ELRKLGATVE-EGPDYCVITPPEKLK 423
L LGA + +G D I E+L
Sbjct: 197 FLVALGAKISGQGTDRITIEGVERLG 222
>2yvw_A UDP-N-acetylglucosamine 1-carboxyvinyltransferase; peptidoglycan,
structu genomics, NPPSFA; HET: EPU; 1.81A {Aquifex
aeolicus} PDB: 3swg_A*
Length = 425
Score = 47.9 bits (115), Expect = 4e-06
Identities = 41/221 (18%), Positives = 68/221 (30%), Gaps = 76/221 (34%)
Query: 161 RPIGDL-VTGLKQLGADVDCILGTNCPPVRINGKG-GLPGGKVKLSGKLSSQYLTA---L 215
RPI D + K+ GADV+ G + K ++ +T
Sbjct: 129 RPI-DQHLKFFKEAGADVEVREG------YVYVNLKEKRRVHFKFD-LVT---VTGTENA 177
Query: 216 LMAAPLALG-----NV--EIEIIDK---LISVPYVEM--------TLKLMERFGV----F 253
L+ N+ E E++D L M ++ G
Sbjct: 178 LLYLASVPEESILENIALEPEVMDLIEVLKK-----MGAHVKVEGRSAYVK--GSENLKG 230
Query: 254 VEHSDSWDRFFIQGGQKYKSPGNAFVEGDASSASYFVAGAAVTGGTVTVEGCGTSSLQGD 313
HS DR I+ G ++ V A +T G + +E + L+
Sbjct: 231 FTHSVIPDR--IEAG------------------TFMVG-AVLTDGEILLENARINHLR-- 267
Query: 314 VKFAEVLEKMGAKVTWTENSVTVTGPPRDPYGRKHLRAVDV 354
E L+ +G +V ++ V LRA D+
Sbjct: 268 -AVVEKLKLIGGEVVEENGNLRVFRKES-------LRACDI 300
Score = 43.2 bits (103), Expect = 1e-04
Identities = 29/115 (25%), Positives = 47/115 (40%), Gaps = 17/115 (14%)
Query: 317 AEVLEKMGAKVTWTENSVTVTGPPRDPYGRKHLRAVDVNMNKMPD--VAMTLAVVALFAD 374
EVL+KMGA V S V G ++L+ ++ +PD A T V A+ D
Sbjct: 203 IEVLKKMGAHVKVEGRSAYVKG-------SENLKGFTHSV--IPDRIEAGTFMVGAVLTD 253
Query: 375 GPTAIRDVASWRVKETERMIAICTELRKLGATVEEGPDYCVITPPEKLKVAAIDT 429
G + + + A+ +L+ +G V E + E L+ I+T
Sbjct: 254 GEILLENA------RINHLRAVVEKLKLIGGEVVEENGNLRVFRKESLRACDIET 302
Score = 30.9 bits (71), Expect = 0.99
Identities = 20/96 (20%), Positives = 39/96 (40%), Gaps = 10/96 (10%)
Query: 261 DRFFIQGGQKYKSPGNAFVEGDASSASYFVAGAAVTGGTVTVEGCGTSSLQGDVK-FAEV 319
D F I+GG+ G + G ++A + +T T+ L DV+ +
Sbjct: 11 DYFVIRGGKPLT--GKVKISGAKNAALPIMFATILTEEPCTITNV--PDLL-DVRNTLLL 65
Query: 320 LEKMGAKVTWTENSVTVTGPPRD---PYGR-KHLRA 351
L ++GA++ + N+V + + +RA
Sbjct: 66 LRELGAELEFLNNTVFINPSINSFITNQEIIRRMRA 101
Score = 27.8 bits (63), Expect = 7.6
Identities = 21/72 (29%), Positives = 28/72 (38%), Gaps = 26/72 (36%)
Query: 320 LEKMGAKVTWTENSVTVTGPPR---------DPYGRKHLRAVDVNMNKMPDVAMTLAVVA 370
L ++GA +T N+ V G R D LRA ++ LA
Sbjct: 344 LNRLGANITVRGNTAYVEGVERLYGSEVYSTD------LRA---------SASLVLA--G 386
Query: 371 LFADGPTAIRDV 382
L A G T +RDV
Sbjct: 387 LVAQGETVVRDV 398
>3r38_A UDP-N-acetylglucosamine 1-carboxyvinyltransferase; biosynthesis and
degradation of murein sacculus and peptidog infectious
diseases; 2.23A {Listeria monocytogenes} PDB: 3sg1_A*
Length = 454
Score = 46.7 bits (112), Expect = 1e-05
Identities = 59/211 (27%), Positives = 84/211 (39%), Gaps = 55/211 (26%)
Query: 161 RPIGDL-VTGLKQLGADVDCILGTNCPPVRINGK-GGLPGGKVKLSGKLSSQYL-----T 213
RP+ DL + G + +GA V G I L G KV YL
Sbjct: 146 RPV-DLHLKGFEAMGAVVKIENG------YIEATAEKLVGAKV---------YLDFPSVG 189
Query: 214 A---LLMAAPLALG-----NV--EIEIIDKLISVPYVEMTLKLMERFGVFVEHSDSWDRF 263
A ++MAA LA G NV E EI+D + L M G V + + +
Sbjct: 190 ATQNIMMAATLAEGTTVIENVAREPEIVD-------LANFLNQM---GARVIGAGT-EVI 238
Query: 264 FIQGGQKYKSPGNAFVEGDASSASYFVAGAAVTGGTVTVEGCGTSSLQGDVKFAEVLEKM 323
I+G ++ + D A F+ AA+TGG V +E + LE+M
Sbjct: 239 RIEGVKELT-ATEHSIIPDRIEAGTFMIAAAITGGNVLIEDAVPEHISS---LIAKLEEM 294
Query: 324 GAKVTWTENSVTVTGPPRDPYGRKHLRAVDV 354
G ++ EN + V GP + L+AVDV
Sbjct: 295 GVQIIEEENGIRVIGPDK-------LKAVDV 318
Score = 36.7 bits (86), Expect = 0.015
Identities = 27/119 (22%), Positives = 47/119 (39%), Gaps = 24/119 (20%)
Query: 317 AEVLEKMGAKV----TWTENSVTVTGPPRDPYGRKHLRAVDVNMNKMPD--VAMTLAVVA 370
A L +MGA+V T + + G L A + ++ +PD A T + A
Sbjct: 220 ANFLNQMGARVIGAGT---EVIRIEGVKE-------LTATEHSI--IPDRIEAGTFMIAA 267
Query: 371 LFADGPTAIRDVASWRVKETERMIAICTELRKLGATVEEGPDYCVITPPEKLKVAAIDT 429
G I D E + ++ +L ++G + E + + P+KLK + T
Sbjct: 268 AITGGNVLIEDAVP------EHISSLIAKLEEMGVQIIEEENGIRVIGPDKLKAVDVKT 320
Score = 30.2 bits (69), Expect = 1.8
Identities = 13/45 (28%), Positives = 21/45 (46%), Gaps = 6/45 (13%)
Query: 313 DVK-FAEVLEKMGAKVTWTENSVTVTGPPRD----PYGR-KHLRA 351
DV EVL+ + A V++ + VTV P+ + +RA
Sbjct: 74 DVFTINEVLKYLNADVSFVNDEVTVDATGEITSDAPFEYVRKMRA 118
Score = 29.8 bits (68), Expect = 2.3
Identities = 10/35 (28%), Positives = 20/35 (57%)
Query: 64 LSFQGTTVVDNLLSSEDIHHMLDALKKLGLNVEED 98
L+ +GT+V+ N+ + D+ + + LK L +V
Sbjct: 58 LASKGTSVLKNVPNLSDVFTINEVLKYLNADVSFV 92
Score = 28.6 bits (65), Expect = 4.4
Identities = 59/259 (22%), Positives = 93/259 (35%), Gaps = 70/259 (27%)
Query: 193 KGGLP-GGKVKLSG-KLSSQYLTAL-LMAAPLALGNVEIEIIDKLISVPY---VEMTLKL 246
+GG G VK+ G K + L ++AA L L + ++ +VP V ++
Sbjct: 31 RGGKQLNGSVKMEGAKNA-----VLPVIAATL-LASKGTSVLK---NVPNLSDVFTINEV 81
Query: 247 MERFGVFVEHSDSWDRFFIQGGQKYKSPGNAFVEGDASS-------ASYFVAGAAVT-GG 298
++ V + D + + S DA AS V G + G
Sbjct: 82 LKYLNADVSFVN--DEVTVDATGEITS--------DAPFEYVRKMRASIVVMGPLLARTG 131
Query: 299 TVTVE---GCGTSS------LQGDVKFAEVLEKMGAKVTWTENSVTVTGPPRDPYGRKHL 349
+ V GC S L+G E MGA V + T L
Sbjct: 132 SARVALPGGCAIGSRPVDLHLKG-------FEAMGAVVKIENGYIEATAE--------KL 176
Query: 350 RAVDVNMNKMPDVAMT----LAVVALFADGPTAIRDVASWRVKETERMIAICTELRKLGA 405
V ++ P V T +A A A+G T I +VA +E E ++ + L ++GA
Sbjct: 177 VGAKVYLD-FPSVGATQNIMMA--ATLAEGTTVIENVA----REPE-IVDLANFLNQMGA 228
Query: 406 TVE-EGPDYCVITPPEKLK 423
V G + I ++L
Sbjct: 229 RVIGAGTEVIRIEGVKELT 247
Score = 28.2 bits (64), Expect = 5.9
Identities = 26/99 (26%), Positives = 39/99 (39%), Gaps = 32/99 (32%)
Query: 320 LEKMGAKVTWTENSVTVTGPPR---------DPYGRKHLRAVDVNMNKMPDVAMTLAVVA 370
+ +M A + +SV ++GP + D LRA A+ LA
Sbjct: 362 MRRMNADMKIEGHSVIISGPAKLQGAEVAATD------LRA---------AAALILA--G 404
Query: 371 LFADGPTAIRDVASWRVKETER-MIAICTELRKLGATVE 408
L ADG T + +K +R +L+ LGA VE
Sbjct: 405 LVADGYTQVT-----ELKYLDRGYNNFHGKLQALGADVE 438
>4fqd_A NIKO protein; beta/alpha inverse barrel, enolpyruvyl transferase,
fosfomyc binding, transferase; 2.50A {Streptomyces
tendae}
Length = 479
Score = 44.9 bits (107), Expect = 4e-05
Identities = 40/342 (11%), Positives = 91/342 (26%), Gaps = 113/342 (33%)
Query: 68 GTTVVDNLLSSEDIHHMLDALKKLGLNVEEDFAMKRAIVEGCGGL-----FPLAKQQTGE 122
++N + + + + G + D A + V+ L + G
Sbjct: 49 APVRIENCPDIVETAVLGEIFRAAGAHAHYDGADETFTVDASAWDRAELPADLVGRIHGS 108
Query: 123 IELFLGNAGTAMRPL-----TAAVTAAGG-NLSYILDGVPRMRERPIGDL-VTGLKQLGA 175
+ L L A ++A+GG + G R RP + + + + G
Sbjct: 109 L-YLLP-------ALVSRNGVARLSASGGCPI-----G-EGPRGRPD-EHLLDVMGRFGV 153
Query: 176 DVDCILGTNCPPVRING-----KGGLPGGKVKLSGKLSSQYLTA----------LLMAAP 220
+ +G L + + ++ L + L+
Sbjct: 154 TTR---------LTADGSVDLTAQRLTPCTIDMLDYTRNKALMSGPCYSGAVKTALLMGA 204
Query: 221 LALG-----NV--EIEIIDKLISVPYVEMTLKLM--------------ERFGV-----FV 254
+ G + + ++ D +++V L+ + G V
Sbjct: 205 VTHGTTTLQHPYLKPDVTD-MVTV------LRDLGADIEFAGPETWVIHGRGPESLHRPV 257
Query: 255 EHSDSWDRFFIQGGQKYKSPGNAFVEGDASSASYFVAGAAVTGGTVTVEGCGTSSLQGD- 313
+ + D I+ ++ A +
Sbjct: 258 DVTLIPDL--IEVV------------------TWICA-GVLLADEPLRITGPGIDRAVHA 296
Query: 314 -VKFAEVLEKMGAKVTWTENSVTVTGPPRDPYGRKHLRAVDV 354
++L++MG +V + VT + LR V+
Sbjct: 297 LAPEFDLLDRMGVRVDVGADEVTAHPLTKP------LRPVEF 332
Score = 36.4 bits (85), Expect = 0.016
Identities = 44/263 (16%), Positives = 76/263 (28%), Gaps = 75/263 (28%)
Query: 193 KGGLP-GGKVKLSG-KLSSQYLTALLMAAPLALGNVEIEIIDKLISVPY---VEMTLKLM 247
GG G V+ SG K S + AA A V IE + P + ++
Sbjct: 19 HGGNRLSGAVRTSGFKHSL---VTTVAAAATASAPVRIE------NCPDIVETAVLGEIF 69
Query: 248 ERFGVFVEHSDSWDRFFIQGGQKYKSPGNAFVEGDASS-------ASYFVAGAAVT-GGT 299
G + + + F + A+ + + S ++ A V+ G
Sbjct: 70 RAAGAHAHYDGADETFTVDAS--------AWDRAELPADLVGRIHGSLYLLPALVSRNGV 121
Query: 300 VTVE---GC--GTSS--------LQGDVKFAEVLEKMGAKVTWTENSVTVTGPPRDPYGR 346
+ GC G L + + G T + R
Sbjct: 122 ARLSASGGCPIGEGPRGRPDEHLLDV-------MGRFGVTTRLTADGSVDLTAQR----- 169
Query: 347 KHLRAVDVNMNKMPDVAMTLAVV------------ALFADGPTAIRDVASWRVKETERMI 394
L ++M ++ G T ++ + + +
Sbjct: 170 --LTPCTIDMLDYTRNKALMSGPCYSGAVKTALLMGAVTHGTTTLQHPY----LKPD-VT 222
Query: 395 AICTELRKLGATVE-EGPDYCVI 416
+ T LR LGA +E GP+ VI
Sbjct: 223 DMVTVLRDLGADIEFAGPETWVI 245
Score = 32.6 bits (75), Expect = 0.33
Identities = 18/78 (23%), Positives = 24/78 (30%), Gaps = 6/78 (7%)
Query: 261 DRFFIQGGQKYKSPGNAFVEGDASSASYFVAGAAVTGGTVTVEGCGTSSLQGDVK-FAEV 319
I GG + G G S VA AA V +E C + + E+
Sbjct: 14 PLLEIHGGNRLS--GAVRTSGFKHSLVTTVAAAATASAPVRIENC--PDIV-ETAVLGEI 68
Query: 320 LEKMGAKVTWTENSVTVT 337
GA + T T
Sbjct: 69 FRAAGAHAHYDGADETFT 86
Score = 31.4 bits (72), Expect = 0.59
Identities = 18/113 (15%), Positives = 29/113 (25%), Gaps = 20/113 (17%)
Query: 317 AEVLEKMGAKV------TWTENSVTVTGPPRDPYGRKHLRAVDVNMNKMPD--VAMTLAV 368
VL +GA + TW + GP + +PD +T
Sbjct: 225 VTVLRDLGADIEFAGPETWV---IHGRGPESLHRPVDV--TL------IPDLIEVVTWIC 273
Query: 369 VALFADGPTAIRDVASWRVKETERMIAICTELRKLGATVEEGPDYCVITPPEK 421
+ + L ++G V+ G D P K
Sbjct: 274 AGVLLADEPLRITGPGIDRA-VHALAPEFDLLDRMGVRVDVGADEVTAHPLTK 325
Score = 30.6 bits (70), Expect = 1.1
Identities = 28/122 (22%), Positives = 41/122 (33%), Gaps = 26/122 (21%)
Query: 320 LEKMGAKVTWTENSVTVTGPPRDPYGRKHLRAVDVNMNKMPD----VAMTLAVVALFADG 375
LE +G + + + V GP H D+ + D + LA AL G
Sbjct: 375 LEALGIRTAVDDTVLRVDGPCPP-----HRPGTDL---RATDLRAAAVLLLA--ALAVPG 424
Query: 376 PTAIRDVASWRVKETER-MIAICTELRKLGATVE--EGPDYCVITPPEKLKVAAIDTYDD 432
T +R R + +L KLGA + PD P+ A +D
Sbjct: 425 RTTLR-----NHHHLARGYRDLVEDLVKLGADIRHTTAPD----VRPKPPAGAGVDPAHH 475
Query: 433 HR 434
H
Sbjct: 476 HH 477
>2j0p_A HEMS, hemin transport protein HEMS; conformational changes, HAEM,
iron, trans ION transport, proteobacteria, iron
transport; HET: HEM 12P; 1.7A {Yersinia enterocolitica}
SCOP: e.62.1.1 PDB: 2j0r_A*
Length = 345
Score = 30.3 bits (68), Expect = 1.2
Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 8/62 (12%)
Query: 77 SSEDIHHMLDALKKLGLN-------VEEDFAMKRAIVEGCGGLFPLAKQQTGEIELFLGN 129
+ D+H LK+ L V D A + L +A+Q+ EI +F+GN
Sbjct: 191 AMTDVHEFFQLLKRNNLTRQQAFRAVGNDLA-YQVDNSSLTQLLNIAQQEQNEIMIFVGN 249
Query: 130 AG 131
G
Sbjct: 250 RG 251
>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 = 29.5 bits (65), Expect = 1.3
Identities = 7/27 (25%), Positives = 15/27 (55%), Gaps = 3/27 (11%)
Query: 346 RKHLRAVDVNMNKM--PDVAMTLAVVA 370
++ L+ + ++ K+ D A LA+ A
Sbjct: 19 KQALKKLQASL-KLYADDSAPALAIKA 44
Score = 28.0 bits (61), Expect = 5.0
Identities = 9/36 (25%), Positives = 16/36 (44%), Gaps = 8/36 (22%)
Query: 37 ERFPVRLLCRVLSLY-PIGFFFSLPSLSLSFQGTTV 71
E+ ++ L L LY S P+L++ T+
Sbjct: 18 EKQALKKLQASLKLYADD----SAPALAIK---ATM 46
>2hq2_A Putative heme/hemoglobin transport protein; heme oxygenase,
structural repeat; HET: HEM; 1.45A {Escherichia coli}
SCOP: e.62.1.1 PDB: 1u9t_A
Length = 354
Score = 30.3 bits (68), Expect = 1.4
Identities = 16/62 (25%), Positives = 25/62 (40%), Gaps = 8/62 (12%)
Query: 77 SSEDIHHMLDALKKLGLN-------VEEDFAMKRAIVEGCGGLFPLAKQQTGEIELFLGN 129
+ D+H LK+ L V +D A + + A+Q EI +F+GN
Sbjct: 200 AMTDVHQFFTLLKRHNLTRQQAFNLVADDLA-CKVSNSALAQILESAQQDGNEIMVFVGN 258
Query: 130 AG 131
G
Sbjct: 259 RG 260
>3iau_A Threonine deaminase; pyridoxal phosphate, amino-acid biosynthesis,
defensive PROT jasmonic acid pathway, jasmonic
acid,structural genomics; HET: LLP 15P; 2.35A {Solanum
lycopersicum}
Length = 366
Score = 29.5 bits (67), Expect = 2.3
Identities = 21/84 (25%), Positives = 32/84 (38%), Gaps = 24/84 (28%)
Query: 365 TLAVVALFADGPTAIRDVASWRVKETERMIAICTELRKLGATVEEGPDYCVITPPEKLKV 424
L+ V FADG A+ V + T C EL ++ ++
Sbjct: 260 KLSNVDTFADG-VAVALVG----EYTFA---KCQEL------IDG-----MVLVANDGIS 300
Query: 425 AAI-DTYDDHRM----AMAFSLAA 443
AAI D YD+ R + A ++A
Sbjct: 301 AAIKDVYDEGRNILETSGAVAIAG 324
>1spu_A Copper amine oxidase; oxidoreductase, TPQ, periplasmic, signal;
HET: PAQ; 2.00A {Escherichia coli} SCOP: b.30.2.1
d.17.2.1 d.17.2.1 d.82.1.1 PDB: 1d6y_A* 1d6u_A* 1d6z_A*
2wgq_A 1oac_A* 1dyu_A* 2w0q_A* 2wo0_A* 2wof_A* 2woh_A*
1lvn_A* 1jrq_A* 1qak_A* 1qaf_A* 1qal_A*
Length = 727
Score = 29.8 bits (66), Expect = 2.3
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 319 VLEKMGAKVTWTENSVTVTG 338
L++ GA V W + + T
Sbjct: 13 TLKEFGADVQWDDYAQLFTL 32
>3d1c_A Flavin-containing putative monooxygenase; NP_373108.1, struc
genomics, joint center for structural genomics, JCSG;
HET: FAD UNL; 2.40A {Staphylococcus aureus}
Length = 369
Score = 29.4 bits (66), Expect = 2.5
Identities = 13/65 (20%), Positives = 19/65 (29%), Gaps = 4/65 (6%)
Query: 296 TGGTVTVEGCGTSSLQGDVKFAEVLEKMGAKVTWTENSVTVTGPPRDPYGRKHLRAVDVN 355
G V G S A L K G+ + ++ + P DP R
Sbjct: 165 NKGQYVVIGGNESGFD----AAYQLAKNGSDIALYTSTTGLNDPDADPSVRLSPYTRQRL 220
Query: 356 MNKMP 360
N +
Sbjct: 221 GNVIK 225
>3jxe_A Tryptophanyl-tRNA synthetase; adenosine triphosphate, rossmann
fold, crystallography, X-RAY, P. horikoshii,
aminoacyl-tRNA synthetase; HET: TYM; 3.00A {Pyrococcus
horikoshii}
Length = 392
Score = 29.3 bits (66), Expect = 3.2
Identities = 20/102 (19%), Positives = 31/102 (30%), Gaps = 19/102 (18%)
Query: 214 ALLMAAPLALGNVEIEI---IDKLISVPYVEMTLKLMERFGVF---VEHSDSWDRFF--- 264
+ AP I ID+ PY + E G + HS +F
Sbjct: 195 PAIQIAPTFFERKRCLIPAAIDQD---PYWRLQRDFAESLGYYKTAALHS----KFVPSL 247
Query: 265 --IQGGQKYKSPGNA-FVEGDASSASYFVAGAAVTGGTVTVE 303
+ G P A ++ V +TGG T++
Sbjct: 248 TSLSGKMSASKPETAIYLTDSPEDVEKKVWKFTLTGGRPTLK 289
>1tdj_A Biosynthetic threonine deaminase; allostery, cooperative, tetramer,
regulation, pyridoxal PHOS isoleucine biosynthesis; HET:
PLP; 2.80A {Escherichia coli} SCOP: c.79.1.1 d.58.18.2
d.58.18.2
Length = 514
Score = 29.1 bits (66), Expect = 3.2
Identities = 22/84 (26%), Positives = 36/84 (42%), Gaps = 24/84 (28%)
Query: 365 TLAVVALFADGPTAIRDVASWRVKETERMIAICTELRKLGATVEEGPDYCVITPPEKLKV 424
L V LFA+G A++ + ET R +C E +++ +IT
Sbjct: 231 DLPRVGLFAEG-VAVKRIG----DETFR---LCQEY------LDD-----IITVDSDAIC 271
Query: 425 AAI-DTYDDHRM----AMAFSLAA 443
AA+ D ++D R + A +LA
Sbjct: 272 AAMKDLFEDVRAVAEPSGALALAG 295
>1d3c_A Cyclodextrin glycosyltransferase; alpha-amylase, product complex,
oligosaccharide, family 13 glycosyl hydrolase,
transglycosylation; HET: GLC; 1.78A {Bacillus circulans}
SCOP: b.1.18.2 b.3.1.1 b.71.1.1 c.1.8.1 PDB: 1cxf_A*
1cxk_A* 1cdg_A* 1cxe_A* 1cxh_A* 1cxi_A* 2cxg_A* 1cgv_A*
2dij_A* 1cgy_A* 1kck_A* 1cgx_A* 1cxl_A* 1cgw_A* 1tcm_A
1kcl_A* 1eo5_A* 1eo7_A* 1dtu_A* 1ot1_A* ...
Length = 686
Score = 29.4 bits (66), Expect = 3.4
Identities = 13/66 (19%), Positives = 22/66 (33%)
Query: 282 DASSASYFVAGAAVTGGTVTVEGCGTSSLQGDVKFAEVLEKMGAKVTWTENSVTVTGPPR 341
+ + A G T+T++G G S +G V F +W + + V P
Sbjct: 497 ATPTIGHVGPMMAKPGVTITIDGRGFGSSKGTVYFGTTAVSGADITSWEDTQIKVKIPAV 556
Query: 342 DPYGRK 347
Sbjct: 557 AGGNYN 562
>2q3z_A Transglutaminase 2; transglutaminase 2, tissue transglutaminase,
TG2, transferas; 2.00A {Homo sapiens} SCOP: b.1.18.9
b.1.5.1 b.1.5.1 d.3.1.4 PDB: 1kv3_A 3ly6_A*
Length = 687
Score = 29.2 bits (65), Expect = 3.8
Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 8/76 (10%)
Query: 294 AVTGGTVTVEGCGTSSLQGDVKFAEVLEKMGAKVTWTENSVTVTGPPRDPYGRKHLRAVD 353
A+ G T TVEG G + Q V+ + +E G +V + V P G L V+
Sbjct: 616 ALEGCTFTVEGAGLTEEQKTVEIPDPVE-AGEEVKVRMDLV----PLHM--GLHKL-VVN 667
Query: 354 VNMNKMPDVAMTLAVV 369
+K+ V V+
Sbjct: 668 FESDKLKAVKGFRNVI 683
>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A
{Anopheles gambiae}
Length = 390
Score = 28.9 bits (65), Expect = 4.4
Identities = 16/97 (16%), Positives = 23/97 (23%), Gaps = 26/97 (26%)
Query: 16 QLQLAQLRSNQ------------KHRKLYCNPSERFPVRLLCRVLSLY-------PIGFF 56
LQ QL SN+ H + N + + L
Sbjct: 166 SLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVN 225
Query: 57 FSLPSLSLSFQGTTVVDNLLSSEDIHHMLDALKKLGL 93
L L L N L+ L ++ L
Sbjct: 226 VELTILKLQ-------HNNLTDTAWLLNYPGLVEVDL 255
>1ulv_A Glucodextranase; GH family 15, (alpha-alpha)6-barrel, SLH domain,
hydrolase; HET: ACR; 2.42A {Arthrobacter globiformis}
SCOP: a.102.1.5 b.1.18.2 b.1.9.3 b.30.5.5 PDB: 1ug9_A*
Length = 1020
Score = 28.3 bits (62), Expect = 7.7
Identities = 16/111 (14%), Positives = 27/111 (24%), Gaps = 16/111 (14%)
Query: 250 FGVFVEHSDSWDRFFIQGGQKYKSPGNAFVEGDASSASYFVAGAAVTGGTVTVEGCGTSS 309
G + +WD + G + G D + S A + +
Sbjct: 860 PGTNINLEHAWDSVIVTDG---RFDGAGVYAPDGTRTSAVSLLAVPEARQIVTRVPKAAL 916
Query: 310 LQGDVKFAEVLEKMGAKVTWTENSVTVTGPPRDPYGRKHLRAVDVNMNKMP 360
D A + SV + G G ++R V
Sbjct: 917 GGLDPATARM-------------SVAMFGNAESGEGIGNVRPVYDGAYWEA 954
>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP:
a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*
Length = 549
Score = 28.0 bits (62), Expect = 8.8
Identities = 7/41 (17%), Positives = 15/41 (36%), Gaps = 1/41 (2%)
Query: 76 LSSEDIHHMLDALKKLGLNVEEDFAMKRAIVEGCGGLFPLA 116
L ++ + L+A E++ + +E G P
Sbjct: 293 LEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGN-PAT 332
>2hqx_A P100 CO-activator tudor domain; human P100 tudor domain,
proteolytic fragment, PSI, structural genomics; 1.42A
{Homo sapiens} SCOP: b.34.9.1 PDB: 2hqe_A 3omc_A*
3omg_A* 2o4x_A 2e6n_A 2o4x_B
Length = 246
Score = 27.3 bits (60), Expect = 9.5
Identities = 7/30 (23%), Positives = 12/30 (40%)
Query: 237 VPYVEMTLKLMERFGVFVEHSDSWDRFFIQ 266
+P +E + VFV F++Q
Sbjct: 6 MPVLEEKERSASYKPVFVTEITDDLHFYVQ 35
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
0.320 0.137 0.407
Gapped
Lambda K H
0.267 0.0781 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,562,243
Number of extensions: 486534
Number of successful extensions: 1627
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1520
Number of HSP's successfully gapped: 62
Length of query: 474
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 377
Effective length of database: 3,993,456
Effective search space: 1505532912
Effective search space used: 1505532912
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 (21.8 bits)
S2: 59 (26.4 bits)