RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 017391
(372 letters)
>1qop_B Tryptophan synthase beta chain; lyase, carbon-oxygen lyase,
tryptophan biosynthesis, pyridoxal phosphate; HET: IPL
PLP; 1.4A {Salmonella typhimurium} SCOP: c.79.1.1 PDB:
1k7e_B* 1k7f_B* 1kfb_B* 1k3u_B* 1tjp_B* 1wbj_B* 2cli_B*
2clk_B* 2cll_B* 2j9x_B* 3cep_B* 1kfc_B* 1k8x_B* 1kfj_B*
1kfk_B* 2rh9_B* 2rhg_B* 2j9y_B* 1cw2_B* 1a5s_B* ...
Length = 396
Score = 511 bits (1319), Expect = 0.0
Identities = 141/311 (45%), Positives = 198/311 (63%), Gaps = 16/311 (5%)
Query: 72 PGKFGRFGGKFVPETLITCLSLLEAEFNFVLQDTKFQEELSTALRDYVGRETPLYFAERL 131
FG FGG +VP+ L+ L+ LE F +D +FQ + + L++Y GR T L + +
Sbjct: 5 NPYFGEFGGMYVPQILMPALNQLEEAFVSAQKDPEFQAQFADLLKNYAGRPTALTKCQNI 64
Query: 132 TDHYRNEKGEGPEIYLKREDLNHVGAHKINNAIGQAMIAKRMGRKSIVAATGAGQHGVAT 191
T +YLKREDL H GAHK N +GQA++AKRMG+ I+A TGAGQHGVA+
Sbjct: 65 TAGT------RTTLYLKREDLLHGGAHKTNQVLGQALLAKRMGKSEIIAETGAGQHGVAS 118
Query: 192 AAACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQVKAVD---GCFKEASSEAIRNWVG 248
A A A L L C ++MG D+E+QS V M+L+GA+V V K+A +EA+R+W G
Sbjct: 119 ALASALLGLKCRIYMGAKDVERQSPNVFRMRLMGAEVIPVHSGSATLKDACNEALRDWSG 178
Query: 249 NLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQAMEKWGGKPDVLLACVGSGSNALG 308
+ E ++Y+ GT GPHP P +VREFQ +IG+ET+ Q ++K G PD ++ACVG GSNA+G
Sbjct: 179 SYETAHYMLGTAAGPHPYPTIVREFQRMIGEETKAQILDKEGRLPDAVIACVGGGSNAIG 238
Query: 309 LFHEFINDEDVRLIGVEAAGFGLDSGKHAATLAKGEVGVYHGAMSYLLQDEEGQILGTHS 368
+F +FIND V LIGVE G G+++G+H A L G VG+Y G + ++Q +GQI ++S
Sbjct: 239 MFADFINDTSVGLIGVEPGGHGIETGEHGAPLKHGRVGIYFGMKAPMMQTADGQIEESYS 298
Query: 369 V-------GVG 372
+ VG
Sbjct: 299 ISAGLDFPSVG 309
>1x1q_A Tryptophan synthase beta chain; structural genomics, riken
structural genomics/proteomics initiative, RSGI, NPPSFA;
2.50A {Thermus thermophilus}
Length = 418
Score = 504 bits (1300), Expect = e-179
Identities = 155/312 (49%), Positives = 217/312 (69%), Gaps = 17/312 (5%)
Query: 73 GKFGRFGGKFVPETLITCLSLLEAEFNFVLQDTKFQEELSTALRDYVGRETPLYFAERLT 132
G+FG +GG++VPETLI L LEA + +D F EEL LR + GR TPLY A+RL+
Sbjct: 28 GRFGPYGGRYVPETLIPALEELEAAYREAKKDPAFLEELDHYLRQFAGRPTPLYHAKRLS 87
Query: 133 DHYRNEKGEGPEIYLKREDLNHVGAHKINNAIGQAMIAKRMGRKSIVAATGAGQHGVATA 192
+++ G +++LKREDL H GAHKINN +GQA++A+RMG++ ++A TGAGQHGV+ A
Sbjct: 88 EYWG-----GAQVFLKREDLLHTGAHKINNTLGQALLARRMGKRRVIAETGAGQHGVSVA 142
Query: 193 AACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQVKAVD---GCFKEASSEAIRNWVGN 249
A L+C V+MG D+ +Q+ V MKLLGA+V+ V K+A++EAIR+W+ N
Sbjct: 143 TVAALFGLECVVYMGEEDVRRQALNVFRMKLLGAEVRPVAAGSRTLKDATNEAIRDWITN 202
Query: 250 LEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQAMEKWGGKPDVLLACVGSGSNALGL 309
+ ++Y+ G+VVGPHP P+MVR+FQS+IG+E ++Q++E +G PD L+A VG GSNA+GL
Sbjct: 203 VRTTFYILGSVVGPHPYPMMVRDFQSVIGEEVKRQSLELFGRLPDALIAAVGGGSNAIGL 262
Query: 310 FHEF--INDEDVRLIGVEAAGFGLDSGKHAATLAKGEVGVYHGAMSYLLQDEEGQILGTH 367
F F + + +LIGVEAAG GL +G+HAA++ G+ GV HG+ YLL D +GQI H
Sbjct: 263 FAPFAYLPEGRPKLIGVEAAGEGLSTGRHAASIGAGKRGVLHGSYMYLLYDHDGQITPAH 322
Query: 368 SV-------GVG 372
SV GVG
Sbjct: 323 SVSAGLDYPGVG 334
>1v8z_A Tryptophan synthase beta chain 1; beta+alpha, riken structural
genomics/proteomics initiative, structural genomics,
lyase; HET: PLP; 2.21A {Pyrococcus furiosus} SCOP:
c.79.1.1 PDB: 1wdw_B*
Length = 388
Score = 502 bits (1296), Expect = e-179
Identities = 164/308 (53%), Positives = 216/308 (70%), Gaps = 15/308 (4%)
Query: 75 FGRFGGKFVPETLITCLSLLEAEFNFVLQDTKFQEELSTALRDYVGRETPLYFAERLTDH 134
FG FGG++VPETLI L LE + D +F +L+ L+ + GR TPLY+A+RLT+
Sbjct: 3 FGEFGGQYVPETLIEPLKELEKAYKRFKDDEEFNRQLNYYLKTWAGRPTPLYYAKRLTEK 62
Query: 135 YRNEKGEGPEIYLKREDLNHVGAHKINNAIGQAMIAKRMGRKSIVAATGAGQHGVATAAA 194
G +IYLKREDL H GAHK NNAIGQA++AK MG+ ++A TGAGQHGVATA A
Sbjct: 63 IG-----GAKIYLKREDLVHGGAHKTNNAIGQALLAKFMGKTRLIAETGAGQHGVATAMA 117
Query: 195 CAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQVKAVD---GCFKEASSEAIRNWVGNLE 251
A L + ++MG D+E+Q V MKLLGA V V+ K+A +EA+R+WV E
Sbjct: 118 GALLGMKVDIYMGAEDVERQKMNVFRMKLLGANVIPVNSGSRTLKDAINEALRDWVATFE 177
Query: 252 KSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQAMEKWGGKPDVLLACVGSGSNALGLFH 311
++YL G+VVGPHP P +VR+FQS+IG+E + Q +E G PDV++ACVG GSNA+G+F+
Sbjct: 178 YTHYLIGSVVGPHPYPTIVRDFQSVIGREAKAQILEAEGQLPDVIVACVGGGSNAMGIFY 237
Query: 312 EFINDEDVRLIGVEAAGFGLDSGKHAATLAKGEVGVYHGAMSYLLQDEEGQILGTHSV-- 369
F+ND+ V+L+GVEA G GL+SGKH+A+L G+VGV+HG +SY LQDEEGQI THS+
Sbjct: 238 PFVNDKKVKLVGVEAGGKGLESGKHSASLNAGQVGVFHGMLSYFLQDEEGQIKPTHSIAP 297
Query: 370 -----GVG 372
GVG
Sbjct: 298 GLDYPGVG 305
>2o2e_A Tryptophan synthase beta chain; amino-acid biosynthesis, tryptophan
biosynthesis, structural genomics; 2.20A {Mycobacterium
tuberculosis} PDB: 2o2j_A
Length = 422
Score = 501 bits (1293), Expect = e-178
Identities = 152/313 (48%), Positives = 203/313 (64%), Gaps = 18/313 (5%)
Query: 73 GKFGR---FGGKFVPETLITCLSLLEAEFNFVLQDTKFQEELSTALRDYVGRETPLYFAE 129
G FG +GG++VPE L+ + + A + F ++L +Y GR +PLY A
Sbjct: 29 GHFGGPSGWGGRYVPEALMAVIEEVTAAYQKERVSQDFLDDLDRLQANYAGRPSPLYEAT 88
Query: 130 RLTDHYRNEKGEGPEIYLKREDLNHVGAHKINNAIGQAMIAKRMGRKSIVAATGAGQHGV 189
RL+ H I+LKREDLNH G+HKINN +GQA++A+RMG+ ++A TGAGQHGV
Sbjct: 89 RLSQHAG-----SARIFLKREDLNHTGSHKINNVLGQALLARRMGKTRVIAETGAGQHGV 143
Query: 190 ATAAACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQVKAVD---GCFKEASSEAIRNW 246
ATA ACA L LDC ++MG D +Q+ V M+LLGA+V AV K+A +EA R+W
Sbjct: 144 ATATACALLGLDCVIYMGGIDTARQALNVARMRLLGAEVVAVQTGSKTLKDAINEAFRDW 203
Query: 247 VGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQAMEKWGGKPDVLLACVGSGSNA 306
V N + +YY GT GPHP P MVR+FQ IIG E R Q + G PD ++ACVG GSNA
Sbjct: 204 VANADNTYYCFGTAAGPHPFPTMVRDFQRIIGMEARVQIQGQAGRLPDAVVACVGGGSNA 263
Query: 307 LGLFHEFINDEDVRLIGVEAAGFGLDSGKHAATLAKGEVGVYHGAMSYLLQDEEGQILGT 366
+G+FH F++D VRL+G EAAG G+++G+HAAT G G +HG+ SYLLQDE+GQ + +
Sbjct: 264 IGIFHAFLDDPGVRLVGFEAAGDGVETGRHAATFTAGSPGAFHGSFSYLLQDEDGQTIES 323
Query: 367 HSV-------GVG 372
HS+ GVG
Sbjct: 324 HSISAGLDYPGVG 336
>1tzj_A ACC deaminase, 1-aminocyclopropane-1-carboxylate deaminase;
substrate, PLP, crystal, complex, hydrolase; HET: PLP;
1.99A {Pseudomonas SP} SCOP: c.79.1.1 PDB: 1rqx_A*
1tz2_A* 1tyz_A* 1tzk_A* 1tzm_A*
Length = 338
Score = 149 bits (377), Expect = 4e-42
Identities = 50/240 (20%), Positives = 83/240 (34%), Gaps = 21/240 (8%)
Query: 117 DYVGRETPLYFAERLTDHYRNEKGEGPEIYLKREDLNHVGAHKINNAIGQAMI---AKRM 173
TP+ RL+ H G +Y KRED N A N + A
Sbjct: 10 PLTFGPTPIQPLARLSKHL----GGKVHLYAKREDCNSGLAFGGNKTRKLEYLIPEALAQ 65
Query: 174 GRKSIVAATGAGQ-HGVATAAACAKLALDCTVFMG-----TADMEKQSSKVLLMKLLGAQ 227
G ++V+ G AA A L + C + + + + + + ++LGA
Sbjct: 66 GCDTLVSIGGIQSNQTRQVAAVAAHLGMKCVLVQENWVNYSDAVYDRVGNIQMSRILGAD 125
Query: 228 VKAVDGCF---KEASSEAIRNWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQ 284
V+ V F S E V Y HP + + E +
Sbjct: 126 VRLVPDGFDIGFRRSWEDALESVRAAGGKPYAIPAGCSDHPLGGL----GFVGFAEEVRA 181
Query: 285 AMEKWGGKPDVLLACVGSGSNALGLFHEF-INDEDVRLIGVEAAGFGLDSGKHAATLAKG 343
+ G K D ++ C +GS G+ F + R+IGV+A+ + + +A+
Sbjct: 182 QEAELGFKFDYVVVCSVTGSTQAGMVVGFAADGRADRVIGVDASAKPAQTREQITRIARQ 241
>1f2d_A 1-aminocyclopropane-1-carboxylate deaminase; carbon-carbon L open
twisted alpha/beta, lyase; HET: PLP; 2.00A {Williopsis
saturnus} SCOP: c.79.1.1 PDB: 1j0e_A* 1j0d_A* 1j0c_A*
Length = 341
Score = 106 bits (265), Expect = 4e-26
Identities = 47/244 (19%), Positives = 82/244 (33%), Gaps = 24/244 (9%)
Query: 116 RDYVGRETPLYFAERLTDHYRNEKGEGPEIYLKREDLNHVGAHKINNAIGQAMIAKRM-- 173
+P+ RL+ H G +Y KRED N A N I +
Sbjct: 9 YPLTFGPSPISNLNRLSQHL----GSKVNVYAKREDCNSGLAFGGNKLRKLEYIVPDIVE 64
Query: 174 GRKSIVAATGAGQ--HGVATAAACAKLALDCTVFM--------GTADMEKQSSKVLLMKL 223
G + + + G Q AA AKL C + D+ + + L ++
Sbjct: 65 GDYTHLVSIGGRQSNQTRMVAALAAKLGKKCVLIQEDWVPIPEAEKDVYNRVGNIELSRI 124
Query: 224 LGAQVKAVDGCFKEASSEAIRNWVGNLEKSY---YLTGTVVGPHPCPIMVREFQSIIGKE 280
+GA V+ ++ F ++ N + LE + Y H + E
Sbjct: 125 MGADVRVIEDGFDIGMRKSFANALQELEDAGHKPYPIPAGCSEHKYGGL---GFVGFADE 181
Query: 281 TRKQAMEKWGGKPDVLLACVGSGSNALGLFHEF-INDEDVRLIGVEAAGFGLDSGKHAAT 339
Q +E G K D ++ C +GS G+ +I ++A+ + +
Sbjct: 182 VINQEVEL-GIKFDKIVVCCVTGSTTAGILAGMAQYGRQDDVIAIDASFTSEKTKEQTLR 240
Query: 340 LAKG 343
+A
Sbjct: 241 IANN 244
>2d1f_A Threonine synthase; amino acid synthesis, pyridoxal-5'-phosphate,
PLP, lyase; HET: PLP; 2.50A {Mycobacterium tuberculosis}
Length = 360
Score = 89.7 bits (223), Expect = 3e-20
Identities = 58/233 (24%), Positives = 92/233 (39%), Gaps = 42/233 (18%)
Query: 123 TPLYFAERLTDHYRNEKGEGPEIYLKREDLNHVGAHKINNAIGQAM---IAKRMGRKSIV 179
TPL A L+ G I+LK E LN G+ K G M A G+++++
Sbjct: 39 TPLIAATNLSKQT------GCTIHLKVEGLNPTGSFK---DRGMTMAVTDALAHGQRAVL 89
Query: 180 AATGAGQHGVATAAACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQVKAVDGCFKEAS 239
A+ G + AA A+ + C V + + K+ + GA++ +DG F +
Sbjct: 90 CAS-TGNTSASAAAYAARAGITCAVLIPQGKIAMG--KLAQAVMHGAKIIQIDGNFDDCL 146
Query: 240 SEAIRNWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQAMEKWGGKPDVLLAC 299
A + + + L +V +P I E Q E ++ G PDV
Sbjct: 147 ELARK--MAADFPTISLVNSV---NPVRI---EGQKTAAFEI----VDVLGTAPDVHALP 194
Query: 300 VGSGSNALGL---FHEFIN----DEDVRLIGVEAAGFGLDSGKHAATLAKGEV 345
VG+ N + E+ D+ R++G +AAG AA L GE
Sbjct: 195 VGNAGNITAYWKGYTEYHQLGLIDKLPRMLGTQAAG--------AAPLVLGEP 239
>3aey_A Threonine synthase; PLP, pyridoxal phosphate, lyase; 1.92A {Thermus
thermophilus} PDB: 1uin_A* 1uim_A* 3aex_A* 1v7c_A
Length = 351
Score = 82.3 bits (204), Expect = 1e-17
Identities = 48/232 (20%), Positives = 82/232 (35%), Gaps = 41/232 (17%)
Query: 123 TPLYFAERLTDHYRNEKGEGPEIYLKREDLNHVGAHKINNAIGQAM---IAKRMGRKSIV 179
TPL + + +G +Y K E LN G+ K G + A G +++
Sbjct: 29 TPLIPLKGP----EEARKKGIRLYAKYEGLNPTGSFK---DRGMTLAVSKAVEGGAQAVA 81
Query: 180 AATGAGQHGVATAAACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQVKAVDGCFKEAS 239
A+ G + AA A+ + V + + KV + GA++ V+G F +A
Sbjct: 82 CAS-TGNTAASAAAYAARAGILAIVVLPAGYVALG--KVAQSLVHGARIVQVEGNFDDAL 138
Query: 240 SEAIRNWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQAMEKWGGKPDVLLAC 299
+ L +V +P + E Q + E +++ G P
Sbjct: 139 RLTQK---LTEAFPVALVNSV---NPHRL---EGQKTLAFEV----VDELGDAPHYHALP 185
Query: 300 VGSGSNALGL---FHEFIN----DEDVRLIGVEAAGFGLDSGKHAATLAKGE 344
VG+ N + + R++G +AAG AA L G
Sbjct: 186 VGNAGNITAHWMGYKAYHALGKAKRLPRMLGFQAAG--------AAPLVLGR 229
>2zsj_A Threonine synthase; PLP dependent enzyme, lyase; HET: PLP; 1.80A
{Aquifex aeolicus}
Length = 352
Score = 82.3 bits (204), Expect = 1e-17
Identities = 54/231 (23%), Positives = 86/231 (37%), Gaps = 41/231 (17%)
Query: 123 TPLYFAERLTDHYRNEKGEGPEIYLKREDLNHVGAHKINNAIGQAMI---AKRMGRKSIV 179
TPL A+ L G +IYLK E LN G+ K G + A G+++++
Sbjct: 31 TPLIEADNLAR----AIGFKGKIYLKYEGLNPTGSFK---DRGMTLAISKAVEAGKRAVI 83
Query: 180 AATGAGQHGVATAAACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQVKAVDGCFKEAS 239
A+ G + AA A+ L V + + K+ + GA+V A+ G F +A
Sbjct: 84 CAS-TGNTSASAAAYAARAGLRAYVLLPKGAVAIG--KLSQAMIYGAKVLAIQGTFDDAL 140
Query: 240 SEAIRNWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQAMEKWGGKPDVLLAC 299
+ + + +V +P I E Q E + G PD
Sbjct: 141 NIVRK---IGENFPVEIVNSV---NPYRI---EGQKTAAFEI----CDTLGEAPDYHFIP 187
Query: 300 VGSGSNALGL---FHEFIN----DEDVRLIGVEAAGFGLDSGKHAATLAKG 343
VG+ N F + + R++G +A G AA + KG
Sbjct: 188 VGNAGNITAYWKGFKIYYEEGKITKLPRMMGWQAEG--------AAPIVKG 230
>1p5j_A L-serine dehydratase; lyase; HET: PLP; 2.50A {Homo sapiens} SCOP:
c.79.1.1 PDB: 1pwh_A* 1pwe_A*
Length = 372
Score = 81.9 bits (203), Expect = 2e-17
Identities = 51/241 (21%), Positives = 86/241 (35%), Gaps = 37/241 (15%)
Query: 96 AEFNFVLQDTKFQEELSTALRDYVGRETPLYFAERLTDHYRNEKGEGPEIYLKREDLNHV 155
A Q + E + + +V +TP+ + L+ G +YLK +
Sbjct: 22 ASMTGGQQMGRGSEFMMSGEPLHV--KTPIRDSMALSKMA------GTSVYLKMDSAQPS 73
Query: 156 GAHKINNAIGQAMIAK--RMGRKSIVAATGAGQHGVATAAACAKLALDCTVFM--GTADM 211
G+ KI + + G V ++ AG G+A A A +L + T+ + T +
Sbjct: 74 GSFKIRGI--GHFCKRWAKQGCAHFVCSS-AGNAGMAAAYAARQLGVPATIVVPGTTPAL 130
Query: 212 EKQSSKVLLMKLLGAQVKAVDGCFKEASSEAIRNWVGNLEKSYYLTGTVVGP--HPCPIM 269
+ +K GA K V EA A L K+ + P P +
Sbjct: 131 -----TIERLKNEGATCKVVGELLDEAFELAKA-----LAKNNP-GWVYIPPFDDP---L 176
Query: 270 VREFQSIIGKETRKQAMEKWGGKPDVLLACVGSGS--NALGLFHEFINDEDVRLIGVEAA 327
+ E + I KE ++ KP + VG G + + DV +I +E
Sbjct: 177 IWEGHASIVKELKETL----WEKPGAIALSVGGGGLLCGVVQGLQECGWGDVPVIAMETF 232
Query: 328 G 328
G
Sbjct: 233 G 233
>4d9b_A D-cysteine desulfhydrase; fold type II PLP-dependent enzyme or
tryptophan synthase BET like family, PLP dependent
enzyme, lyase; HET: PMP; 1.67A {Salmonella typhimurium}
PDB: 4d96_A* 4d9c_A* 4d9e_A* 4d9f_A* 4d97_A* 4d8w_A*
4d8u_A* 4d8t_A* 4d92_A* 4d99_A*
Length = 342
Score = 77.1 bits (189), Expect = 6e-16
Identities = 49/235 (20%), Positives = 83/235 (35%), Gaps = 18/235 (7%)
Query: 117 DYVGRETPLYFAERLTDHYRNEKGEGPEIYLKREDLNHV--GAHKINNAIGQAMIAKRMG 174
+++G TPL + RL+D+ G EIY+KR+D+ + G +K+ A R G
Sbjct: 27 EFIGAPTPLEYLPRLSDYL------GREIYIKRDDVTPIAMGGNKLRKLEFLVADALREG 80
Query: 175 RKSIVAATGAGQ--HGVATAAACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQVKAVD 232
+++ A GA Q H TAA AKL L C + + + L +
Sbjct: 81 ADTLITA-GAIQSNHVRQTAAVAAKLGLHCVALLENPIGTTAENYLTNGNRLLLDLFNTQ 139
Query: 233 GCFKEASSEA---IRNWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQAMEKW 289
+A ++ ++ +E + + + E +Q E
Sbjct: 140 IEMCDALTDPDAQLQTLATRIEAQGFRPYVIPVGGSSALGAM-GYVESALEIAQQCEE-- 196
Query: 290 GGKPDVLLACVGSGSNALGLFHEF-INDEDVRLIGVEAAGFGLDSGKHAATLAKG 343
++ GS GL DV LIGV + + L +
Sbjct: 197 VVGLSSVVVASGSAGTHAGLAVGLEHLMPDVELIGVTVSRSVAEQKPKVIALQQA 251
>2rkb_A Serine dehydratase-like; PLP bound enzyme, enzyme found in human
cells, lyase, pyridoxal phosphate; HET: PLP; 2.80A {Homo
sapiens}
Length = 318
Score = 75.7 bits (187), Expect = 1e-15
Identities = 45/218 (20%), Positives = 80/218 (36%), Gaps = 40/218 (18%)
Query: 121 RETPLYFAERLTDHYRNEKGEGPEIYLKREDLNHVGAHKI---NNAIGQAMIAKRMGRKS 177
TPL + L+ G ++LK E++ G+ KI + +
Sbjct: 6 VVTPLLESWALSQVA------GMPVFLKCENVQPSGSFKIRGIGHFCQEMAKKGCRH--- 56
Query: 178 IVAATGAGQHGVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLGAQVKAVDGCF 235
+V ++ G G+A A A KL + T+ + T+ V ++ GA+V+ +
Sbjct: 57 LVCSS-GGNAGIAAAYAARKLGIPATIVLPESTSLQ-----VVQRLQGEGAEVQLTGKVW 110
Query: 236 KEASSEAIRNWVGNLEKSYYLTGTVVGP--HPCPIMVREFQSIIGKETRKQAMEKWGGKP 293
EA+ A L K V P HP ++ + + + +E + P
Sbjct: 111 DEANLRAQE-----LAKRDGW--ENVPPFDHP---LIWKGHASLVQELKAV----LRTPP 156
Query: 294 DVLLACVGSG---SNALGLFHEFINDEDVRLIGVEAAG 328
L+ VG G + + E V +I +E G
Sbjct: 157 GALVLAVGGGGLLAGVVAGLLEVGWQ-HVPIIAMETHG 193
>4d9i_A Diaminopropionate ammonia-lyase; fold type II PLP-dependent enzyme,
tryptophan synthase beta like PLP-dependent enzymes
superfamily; HET: IT1; 2.00A {Escherichia coli} PDB:
4d9g_A* 4d9n_A* 4d9k_A* 4d9m_A*
Length = 398
Score = 76.0 bits (187), Expect = 2e-15
Identities = 45/238 (18%), Positives = 79/238 (33%), Gaps = 46/238 (19%)
Query: 121 RETPLYFAERLTDHYRNEKGEGPEIYLKREDL-NHVGA------------------HKIN 161
R TPL + L + + G +I +K E + A H
Sbjct: 43 RPTPLCALDDLANLF----GVK-KILVKDESKRFGLNAFXMLGGAYAIAQLLCEKYHLDI 97
Query: 162 NAIGQAMIAKRMGRKSIVAATGAGQHGVATAAACAKLALDCTVFM--GTADMEKQSSKVL 219
+ + +G K A T G HG A A +L + ++M G+A +V
Sbjct: 98 ETLSFEHLKNAIGEKMTFATTTDGNHGRGVAWAAQQLGQNAVIYMPKGSAQ-----ERVD 152
Query: 220 LMKLLGAQVKAVDGCFKEASSEAIR-----NWVGNLEKSYYLTGTVVGPHPCPIMVREFQ 274
+ LGA+ D + + ++ W G P + +
Sbjct: 153 AILNLGAECIVTDMNYDDTVRLTMQHAQQHGWE------VVQDTAWEGYTKIPTWIMQGY 206
Query: 275 SIIGKETRKQAMEKWGGKPDVLLACVGSGSNALG---LFHEFINDEDVRLIGVEAAGF 329
+ + E +Q M + G P +L G G+ A G + + +++ I VE
Sbjct: 207 ATLADEAVEQ-MREMGVTPTHVLLQAGVGAMAGGVLGYLVDVYSPQNLHSIIVEPDKA 263
>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 = 75.7 bits (187), Expect = 3e-15
Identities = 56/222 (25%), Positives = 87/222 (39%), Gaps = 45/222 (20%)
Query: 119 VGRETPLYFAERLTDHYRNEKGEGPEIYLKREDLNHVGAHKIN---NAIGQAMIAKRMGR 175
+ TPL E+L+ N I +KRED V + K+ + ++
Sbjct: 28 AAQVTPLQKMEKLSSRLDNV------ILVKREDRQPVHSFKLRGAYAMMAGLTEEQK--A 79
Query: 176 KSIVAATGAGQH--GVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLGAQVKAV 231
++ A+ AG H GVA + A+L + + M TAD+ KV ++ G +V
Sbjct: 80 HGVITAS-AGNHAQGVAF--SSARLGVKALIVMPTATADI-----KVDAVRGFGGEVLLH 131
Query: 232 DGCFKEASSEAIRNWVGNLEKSYYLTGTVVGP--HPCPIMVREFQSIIGKETRKQAMEKW 289
F EA ++AI L + T V P HP MV Q + E +Q
Sbjct: 132 GANFDEAKAKAIE-----LSQQQGF--TWVPPFDHP---MVIAGQGTLALELLQQD---- 177
Query: 290 GGKPDVLLACVGSGSNALGL---FHEFINDEDVRLIGVEAAG 328
D + VG G A G+ + +++I VEA
Sbjct: 178 -AHLDRVFVPVGGGGLAAGVAVLIKQL--MPQIKVIAVEAED 216
>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 = 74.9 bits (185), Expect = 3e-15
Identities = 57/226 (25%), Positives = 84/226 (37%), Gaps = 53/226 (23%)
Query: 119 VGRETPLYFAERLTDHYRNEKGEGPEIYLKREDLNHVGAHKIN---NAIGQAMIAKRMGR 175
V E+PL AE+L+D Y+KRED V + K+ N + +
Sbjct: 57 VAIESPLELAEKLSDRLGVN------FYIKREDKQRVFSFKLRGAYNMMSNLSREEL--D 108
Query: 176 KSIVAATGAGQH--GVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLGAQVKAV 231
K ++ A+ AG H GVA A +L + M T K+ ++ LG V
Sbjct: 109 KGVITAS-AGNHAQGVAL--AGQRLNCVAKIVMPTTTPQ-----IKIDAVRALGGDVVLY 160
Query: 232 DGCFKEASSEAIRNWVGNLEKSYYLTGTVVGP--HPCPIMVREFQSIIGKETRKQAMEKW 289
F EA + A+ L + L + P P V + Q IG E +Q
Sbjct: 161 GKTFDEAQTHALE-----LSEKDGL--KYIPPFDDP---GVIKGQGTIGTEINRQL---- 206
Query: 290 GGKPDVLLACVGSGSNALGL-------FHEFINDEDVRLIGVEAAG 328
+ VG G GL F + + ++IGVE G
Sbjct: 207 -KDIHAVFIPVGGG----GLIAGVATFFKQI--APNTKIIGVEPYG 245
>1e5x_A Threonine synthase; threonine biosynthesis, PLP enzyme,
S-adenosyl-methionine, allostery; 2.25A {Arabidopsis
thaliana} SCOP: c.79.1.1 PDB: 2c2b_A* 2c2g_A*
Length = 486
Score = 71.0 bits (174), Expect = 1e-13
Identities = 38/221 (17%), Positives = 80/221 (36%), Gaps = 37/221 (16%)
Query: 123 TPLYFAERLTDHYRNEKGEGPEIYLKREDLNHVGAHK---INNAIGQA--MIAKRMGRKS 177
+ L++AER + ++++K ++H G+ K + + Q + +
Sbjct: 131 SNLFWAERFGK----QFLGMNDLWVKHCGISHTGSFKDLGMTVLVSQVNRLRKMKRPVVG 186
Query: 178 IVAATGAGQHGVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLGAQVKAVDGCF 235
+ A+ G A +A CA + VF+ M +++ GA V ++D F
Sbjct: 187 VGCAS-TGDTSAALSAYCASAGIPSIVFLPANKISMA----QLVQPIANGAFVLSIDTDF 241
Query: 236 KEASSEAIRNWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQAMEKWGGK-PD 294
E YL ++ + + E Q E ++++ + PD
Sbjct: 242 DGCMKLIRE---ITAELPIYLANSL---NSLRL---EGQKTAAIEI----LQQFDWQVPD 288
Query: 295 VLLACVGSGSNALGLFHEF-------INDEDVRLIGVEAAG 328
++ G+ N + F + D R++ +AA
Sbjct: 289 WVIVPGGNLGNIYAFYKGFKXCQELGLVDRIPRMVCAQAAN 329
>2gn0_A Threonine dehydratase catabolic; TDCB, biodegradative threonine
deaminase, PLP, threonine DEH L-threonine metabolism;
HET: LLP; 1.70A {Salmonella typhimurium} PDB: 2gn1_A*
2gn2_A*
Length = 342
Score = 68.0 bits (167), Expect = 7e-13
Identities = 53/243 (21%), Positives = 92/243 (37%), Gaps = 50/243 (20%)
Query: 115 LRDYVGRETPLYFAERLTDHYRNEKGEGPEIYLKREDLNHVGAHKI---NNAIGQAMIAK 171
L + +T + + ++ + E I+LK E++ G+ KI N + A+
Sbjct: 34 LAGKI-YKTGMPRSNYFSERCKGE------IFLKFENMQRTGSFKIRGAFNKLSSLTEAE 86
Query: 172 RMGRKSIVAATGAGQH--GVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLGAQ 227
+ RK +VA + AG H GV+ + A L +D V M G SKV A+
Sbjct: 87 K--RKGVVACS-AGNHAQGVSLSC--AMLGIDGKVVMPKGAPK-----SKVAATCDYSAE 136
Query: 228 VKAVDGCFKEASSEAIRNWVGNLEKSYYLTG-TVVGP--HPCPIMVREFQSIIGKETRKQ 284
V F + ++ + ++ G + P P V Q IG E +
Sbjct: 137 VVLHGDNFNDTIAKVSE-----IVET---EGRIFIPPYDDP---KVIAGQGTIGLEIMED 185
Query: 285 AMEKWGGKPDVLLACVGSGSNALG--LFHEFINDEDVRLIGVEAAGFGLDSGKHAATLAK 342
D ++ +G G G + + IN +++IGV+A +
Sbjct: 186 L-----YDVDNVIVPIGGGGLIAGIAIAIKSINP-TIKVIGVQAENV--HGMAAS--YYT 235
Query: 343 GEV 345
GE+
Sbjct: 236 GEI 238
>1j0a_A 1-aminocyclopropane-1-carboxylate deaminase; PLP dependent, lyase;
HET: PLP; 2.50A {Pyrococcus horikoshii} SCOP: c.79.1.1
PDB: 1j0b_A*
Length = 325
Score = 66.6 bits (162), Expect = 2e-12
Identities = 48/236 (20%), Positives = 82/236 (34%), Gaps = 29/236 (12%)
Query: 117 DYVGRETPLYFAERLTDHYRNEKGEGPEIYLKREDLNHVG-----AHKINNAIGQAMIAK 171
+ + ETP+ + ++ G ++Y+KR+DL +G K+ +G A
Sbjct: 16 ELIPWETPIQYLPNISREI------GADVYIKRDDLTGLGIGGNKIRKLEYLLGD---AL 66
Query: 172 RMGRKSIVAATGAG-QHGVATAAACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQVKA 230
G ++ H T A KL LD + + E+ LL K++G + +
Sbjct: 67 SKGADVVITVGAVHSNHAFVTGLAAKKLGLDAILVLR--GKEELKGNYLLDKIMGIETRV 124
Query: 231 VDGCFKEASSEAIRNWVGNLEKSYYLTGTVVGPHPCPIMV--REFQSIIG-KETRKQAME 287
D + L++ G P I +G +
Sbjct: 125 YDAKDSFELMKYAEEIAEELKRE--------GRKPYVIPPGGASPIGTLGYVRAVGEIAT 176
Query: 288 KWGGKPDVLLACVGSGSNALGLFHEF-INDEDVRLIGVEAAGFGLDSGKHAATLAK 342
+ K D ++ GSG GL I +ED+R +G+ FG L K
Sbjct: 177 QSEVKFDSIVVAAGSGGTLAGLSLGLSILNEDIRPVGIAVGRFGEVMTSKLDNLIK 232
>1ve5_A Threonine deaminase; riken structural genomics/Pro initiative,
RSGI, structural genomics, lyase; HET: PLP; 2.15A
{Thermus thermophilus} SCOP: c.79.1.1
Length = 311
Score = 62.9 bits (154), Expect = 3e-11
Identities = 52/241 (21%), Positives = 77/241 (31%), Gaps = 45/241 (18%)
Query: 115 LRDYVGRETPLYFAERLTDHYRNEKGEGPEIYLKREDLNHVGAHKI---NNAIGQAMIAK 171
+ Y TPL + L G + LK E L G+ K +
Sbjct: 14 IAPYT-HRTPLLTSRLLDGLL------GKRLLLKAEHLQKTGSFKARGALSKALA----- 61
Query: 172 RMGRKSIVAATGAGQHGVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLGAQVK 229
+ + A +G H A A L + V M + K + GA+V
Sbjct: 62 -LENPKGLLAVSSGNHAQGVAYAAQVLGVKALVVMPEDAS-----PYKKACARAYGAEVV 115
Query: 230 AVDGCFKEASSEAIRNWVGNLEKSYYLTG-TVVGP--HPCPIMVREFQSIIGKETRKQAM 286
K A L++ TG ++ P P +V Q G E QA
Sbjct: 116 DRGVTAKNREEVARA-----LQEE---TGYALIHPFDDP---LVIAGQGTAGLELLAQAG 164
Query: 287 EKWGGKPDVLLACVGSGSNALG--LFHEFINDEDVRLIGVEAAGFGLDSGKHAATLAKGE 344
G P +LA VG G G + ++ ++GVE D K + L G
Sbjct: 165 RM-GVFPGAVLAPVGGGGLLAGLATAVKALSP-TTLVLGVEPEAA--DDAKRS--LEAGR 218
Query: 345 V 345
+
Sbjct: 219 I 219
>1v71_A Serine racemase, hypothetical protein C320.14 in chromosome III;
dimer, PLP, isomerase; HET: PLP; 1.70A
{Schizosaccharomyces pombe} SCOP: c.79.1.1 PDB: 1wtc_A*
2zpu_A* 2zr8_A*
Length = 323
Score = 58.7 bits (143), Expect = 7e-10
Identities = 52/244 (21%), Positives = 89/244 (36%), Gaps = 52/244 (21%)
Query: 115 LRDYVGRETPLYFAERLTDHYRNEKGEGPEIYLKREDLNHVGAHKI---NNAIGQAMIAK 171
++ + +TP+ + + + E++ K E+ +GA K NA+ Q A+
Sbjct: 20 IKKFA-NKTPVLTSSTVNKEF------VAEVFFKCENFQKMGAFKFRGALNALSQLNEAQ 72
Query: 172 RMGRKSIVAATGAGQHGVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLGAQVK 229
R + ++ + +G H A A + L + + M +KV K G QV
Sbjct: 73 R--KAGVLTFS-SGNHAQAIALSAKILGIPAKIIMPLDAP-----EAKVAATKGYGGQVI 124
Query: 230 AVDGCFKEASSEAIRNWVGNLEKSYYLTG-TVVGP--HPCPIMVREFQSIIGKETRKQAM 286
D + A + + G T++ P HP V Q KE ++
Sbjct: 125 MYDRYKDDREKMAKE-----ISER---EGLTIIPPYDHP---HVLAGQGTAAKELFEEV- 172
Query: 287 EKWGGKPDVLLACVG-----SGSNALGLFHEFINDEDVRLIGVEAAGFGLDSGKHAATLA 341
G D L C+G SGS AL + + GVE + G+ +
Sbjct: 173 ----GPLDALFVCLGGGGLLSGS-ALAA--RHFAP-NCEVYGVEPEAG--NDGQQS--FR 220
Query: 342 KGEV 345
KG +
Sbjct: 221 KGSI 224
>3l6b_A Serine racemase; pyridoxal phosphate, PLP, isomerase; HET: PLP;
1.50A {Homo sapiens} PDB: 3l6r_A* 3hmk_A* 3l6c_A*
Length = 346
Score = 57.2 bits (139), Expect = 2e-09
Identities = 47/253 (18%), Positives = 80/253 (31%), Gaps = 56/253 (22%)
Query: 115 LRDYVGRETPLYFAERLTDHYRNEKGEGPEIYLKREDLNHVGAHKI---NNAIGQAMIAK 171
+RD + TP+ + L G ++ K E G+ KI NA+ +
Sbjct: 19 IRDSI-HLTPVLTSSILNQLT------GRNLFFKCELFQKTGSFKIRGALNAVRSLVPDA 71
Query: 172 RMGRKSIVAATGAGQHGVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLGAQVK 229
+ V +G HG A A + + + K L ++ GA +
Sbjct: 72 LERKPKAVVTHSSGNHGQALTYAAKLEGIPAYIVVPQTAP-----DCKKLAIQAYGASIV 126
Query: 230 AVDGCFKEASSEAIRNWVGNLEKSYYLTG-TVVGP--HPCPIMVREFQSIIGKETRKQAM 286
+ + + A R + + T +V P P V Q I E Q
Sbjct: 127 YCEPSDESRENVAKR-----VTEE---TEGIMVHPNQEP---AVIAGQGTIALEVLNQV- 174
Query: 287 EKWGGKPDVLLACVG-----SGSNALGLFHEFINDEDVRLIGVEAAGF-----GLDSGK- 335
D L+ VG +G A+ + + + V++ E + GK
Sbjct: 175 ----PLVDALVVPVGGGGMLAGI-AITV--KALKP-SVKVYAAEPSNADDCYQSKLKGKL 226
Query: 336 -----HAATLAKG 343
T+A G
Sbjct: 227 MPNLYPPETIADG 239
>3ss7_X D-serine dehydratase; type II fold, ALFA,beta-elimination, P
5'-phosphate, lyase; HET: PLP; 1.55A {Escherichia coli}
PDB: 3ss9_X* 3r0x_A* 3r0z_A
Length = 442
Score = 54.4 bits (131), Expect = 2e-08
Identities = 33/246 (13%), Positives = 65/246 (26%), Gaps = 54/246 (21%)
Query: 122 ETPLY----FAERLTDHYRNEKGEGPEIYLKREDL-------------NHVGAHKINNAI 164
E+ L +RL Y+ ++ LK++ V AH A+
Sbjct: 78 ESELVAIPAMQKRLEKEYQQP--ISGQLLLKKDSHLPISGSIKARGGIYEVLAHAEKLAL 135
Query: 165 GQAMIA--------------KRMGRKSIVAATGAGQHGVATAAACAKLALDCTVFM--GT 208
++ + + SI + G G++ A++ TV M
Sbjct: 136 EAGLLTLDDDYSKLLSPEFKQFFSQYSIAVGS-TGNLGLSIGIMSARIGFKVTVHMSADA 194
Query: 209 ADMEKQSSKVLLMKLLGAQVKAVDGCFKEASSEAIRNWVGNLEKSYYLTGTVVGPHPCPI 268
K ++ G V + + A E + + + + +
Sbjct: 195 RA-----WKKAKLRSHGVTVVEYEQDYGVAVEEGRK--AAQSDPNCFFIDDENSRT---L 244
Query: 269 MVREFQSIIGKETRKQ----AMEKWGGKPDVLLACVGSGSNALGLFHEFIN--DEDVRLI 322
S+ G+ + Q P + G G G+ + V
Sbjct: 245 F--LGYSVAGQRLKAQFAQQGRIVDADNPLFVYLPCGVGGGPGGVAFGLKLAFGDHVHCF 302
Query: 323 GVEAAG 328
E
Sbjct: 303 FAEPTH 308
>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 = 42.1 bits (98), Expect = 3e-04
Identities = 32/214 (14%), Positives = 61/214 (28%), Gaps = 57/214 (26%)
Query: 4 VCNNISFQLPHKLSITRTPFTFTTTKSRTGPYCSL---QKYSTSSPIMRK--PLINSLLP 58
V + +S +S+ T T + ++ + + P S++
Sbjct: 277 VTDFLSAATTTHISLDHHSMTLTPDEVKS--LLLKYLDCRPQDLPREVLTTNPRRLSIIA 334
Query: 59 KTDHDHR---EYWK-----------------LNPGK----FGRFGGKFVPETLIT--CLS 92
++ D + WK L P + F R F P I LS
Sbjct: 335 ESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRL-SVFPPSAHIPTILLS 393
Query: 93 LL--EAEFNFVLQDTKFQEELSTALRDYVGRETP---LYFAE------------RLTDHY 135
L+ + + V+ + S + +Y + DHY
Sbjct: 394 LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHY 453
Query: 136 RNEKG-EGPEIYLKRED---LNHVGAH--KINNA 163
K + ++ D +H+G H I +
Sbjct: 454 NIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHP 487
>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 = 38.1 bits (88), Expect = 0.005
Identities = 63/336 (18%), Positives = 105/336 (31%), Gaps = 143/336 (42%)
Query: 6 NNISFQLPHKLSITRTPFTFTTTKSRTGPYCSLQKYSTSSPIMRKPL---INSLLPKTDH 62
N+I H L + TT +T ++ Y T+ + ++P NS L +
Sbjct: 99 NDI-----HAL-AAKLLQENDTTLVKTKEL--IKNYITARIMAKRPFDKKSNSALFRAVG 150
Query: 63 DHREYWKLNPGKFGRFGGKFVPETLITCLSLLEAEFNFVLQ---DTKFQEELSTALRD-- 117
+ +L FGG Q D F+E LRD
Sbjct: 151 EGNA--QL----VAIFGG----------------------QGNTDDYFEE-----LRDLY 177
Query: 118 --YVGRETPL--YFAERLTDHYRNEKGEGPEIYLKREDLNHVGAHKINNA---------- 163
Y L + AE L++ R + +++ + ++ + N
Sbjct: 178 QTYHVLVGDLIKFSAETLSELIRTTL-DAEKVFTQGLNILEW----LENPSNTPDKDYLL 232
Query: 164 --------IG--Q----AMIAKRMG------RKSIVAATGAGQHGVATAAACAKLALDCT 203
IG Q + AK +G R + ATG Q G+ TA A A
Sbjct: 233 SIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQ-GLVTAVAIA------- 284
Query: 204 VFMGTADMEKQSSKVLLMKLLGAQVKAVDGCFKEASSEAIRN--WVGNLE--KSY---YL 256
D +S F + +AI ++G + ++Y L
Sbjct: 285 ----ETD-SWES-------------------FFVSVRKAITVLFFIG-VRCYEAYPNTSL 319
Query: 257 TGTVV--------GPHPCPIMVREFQSIIGKETRKQ 284
+++ G P P M+ SI T++Q
Sbjct: 320 PPSILEDSLENNEGV-PSP-ML----SISN-LTQEQ 348
Score = 30.4 bits (68), Expect = 1.3
Identities = 20/117 (17%), Positives = 39/117 (33%), Gaps = 16/117 (13%)
Query: 207 GTADMEKQSSKV-LLMKLLGAQVKAVDGCFKEASSEAIRNWVGNLEKSYYLTG----TVV 261
G A ++ ++ L+ K LG V+ + + + E YL G +
Sbjct: 47 GFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENC-YLEGNDIHALA 105
Query: 262 G--PHPCPIMVREFQSII-----GKETRKQAMEKWGGKPDVLLACVGSGSNAL-GLF 310
+ + + +I + K+ +K L VG G+ L +F
Sbjct: 106 AKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKS--NSALFRAVGEGNAQLVAIF 160
Score = 30.0 bits (67), Expect = 1.6
Identities = 17/75 (22%), Positives = 30/75 (40%), Gaps = 16/75 (21%)
Query: 284 QAMEKWGGKP-DVLLACVG-S-G--SNALGLFHEFINDED-VRLIGVEAAGFGLDSGKHA 337
+ ++ G P D A G S G + AL + ++ E V + V G + + A
Sbjct: 1745 EDLKSKGLIPADATFA--GHSLGEYA-ALASLADVMSIESLVEV--VFYRG---MTMQVA 1796
Query: 338 ATLAKGEVGVYHGAM 352
+ E+G + M
Sbjct: 1797 V--PRDELGRSNYGM 1809
>3pc3_A CG1753, isoform A; CBS, synthase, PLP, heme, aminoacrylate, lyase;
HET: HEM P1T; 1.55A {Drosophila melanogaster} PDB:
3pc2_A* 3pc4_A*
Length = 527
Score = 37.3 bits (87), Expect = 0.007
Identities = 37/119 (31%), Positives = 56/119 (47%), Gaps = 19/119 (15%)
Query: 117 DYVGRETPLYFAERLTDHYRNEKGEGPEIYLKREDLNHVGAHKINNAIGQAMI--AKRMG 174
+ +G TPL +L + G E+Y K E LN G+ K + IG M+ A+ G
Sbjct: 56 EVIGC-TPLV---KLN-NIPASDGIECEMYAKCEFLNPGGSVK--DRIGYRMVQDAEEQG 108
Query: 175 R----KSIVAATGAGQHGVATAAACAKLALDCTVFMGTADMEKQSS-KVLLMKLLGAQV 228
+I+ T +G G+ A ACA C + M EK S+ KV ++ LGA++
Sbjct: 109 LLKPGYTIIEPT-SGNTGIGLAMACAVKGYKCIIVMP----EKMSNEKVSALRTLGAKI 162
>1jbq_A B, cystathionine beta-synthase, serine sulfhydrase; fold type II of
PLP enzymes, lyase; HET: HEM PLP; 2.60A {Homo sapiens}
SCOP: c.79.1.1 PDB: 1m54_A*
Length = 435
Score = 36.2 bits (84), Expect = 0.015
Identities = 35/119 (29%), Positives = 53/119 (44%), Gaps = 19/119 (15%)
Query: 117 DYVGRETPLYFAERLTDHYRNEKGEGPEIYLKREDLNHVGAHKINNAIGQAMI--AKRMG 174
+G TP+ R+ + G E+ K E N G+ K + I MI A+R G
Sbjct: 104 KKIGD-TPMV---RIN-KIGKKFGLKCELLAKCEFFNAGGSVK--DRISLRMIEDAERDG 156
Query: 175 R----KSIVAATGAGQHGVATAAACAKLALDCTVFMGTADMEKQSS-KVLLMKLLGAQV 228
+I+ T +G G+ A A A C + M EK SS KV +++ LGA++
Sbjct: 157 TLKPGDTIIEPT-SGNTGIGLALAAAVRGYRCIIVMP----EKMSSEKVDVLRALGAEI 210
>3g3e_A D-amino-acid oxidase; FAD, flavoprotein, oxidoreductase, PER; HET:
FAD G3E; 2.20A {Homo sapiens} PDB: 3cuk_A* 2e48_A*
2e49_A* 2e4a_A* 2e82_A* 2du8_A* 1ve9_A* 1dao_A* 1ddo_A*
1kif_A* 1an9_A* 1evi_A*
Length = 351
Score = 31.6 bits (71), Expect = 0.44
Identities = 12/59 (20%), Positives = 21/59 (35%), Gaps = 3/59 (5%)
Query: 169 IAKRMGRKSIVAATGAGQHGVATAAACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQ 227
+ ++ G G +G+ CA A G EK+ S++ LL +
Sbjct: 296 LRTGPSNTEVIHNYGHGGYGLTIHWGCALEAAK---LFGRILEEKKLSRMPPSHLLVPR 351
>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 = 29.1 bits (64), Expect = 1.3
Identities = 14/42 (33%), Positives = 19/42 (45%), Gaps = 14/42 (33%)
Query: 212 EKQSSKVLLMKLLGAQVK--AVDGCFKEASSEAIRNWVGNLE 251
EKQ+ K K L A +K A D A + AI+ +E
Sbjct: 18 EKQALK----K-LQASLKLYADD----SAPALAIK---ATME 47
>2ftc_P Mitochondrial ribosomal protein L33 isoform A, mitochondrial 39S
ribosomal protein L27; mitochondrial ribosome, large
ribosomal subunit, ribosomal R ribosome; 12.10A {Bos
taurus} PDB: 3iy9_P
Length = 52
Score = 27.0 bits (60), Expect = 1.4
Identities = 9/35 (25%), Positives = 17/35 (48%), Gaps = 3/35 (8%)
Query: 16 LSITRTPFTFTTTKSRTGPYCSLQKYSTSSPIMRK 50
+S T F F T ++R +L Y P++++
Sbjct: 13 VSEAGTGFCFNTKRNRLREKLTLLHY---DPVVKQ 44
>3p96_A Phosphoserine phosphatase SERB; ssgcid, structural genomics,
structural genomics center for infectious disease,
hydrolas; 2.05A {Mycobacterium avium}
Length = 415
Score = 29.4 bits (66), Expect = 2.2
Identities = 28/120 (23%), Positives = 42/120 (35%), Gaps = 36/120 (30%)
Query: 221 MKLLGAQVKAVDGCFKEASSE-----AIRNWVGN-LE-KSYYLTGTVVGPHPCPIMVREF 273
++ LG V G F+ + N LE LTG VVGP
Sbjct: 268 LRRLGYACGVVSGGFRRIIEPLAEELMLDYVAANELEIVDGTLTGRVVGP---------- 317
Query: 274 QSIIGKETRKQAMEKWGGKPDVLLA---CVGSGSNALGLFHEFINDEDVRLIGVEAAGFG 330
II + + A+ ++ + V +A VG G+N + + AAG G
Sbjct: 318 --IIDRAGKATALREFAQRAGVPMAQTVAVGDGANDIDML--------------AAAGLG 361
>3n28_A Phosphoserine phosphatase; HAD family hydrolase, structural
genomics, PSI, protein STRU initiative, nysgrc; 2.30A
{Vibrio cholerae}
Length = 335
Score = 28.6 bits (64), Expect = 3.2
Identities = 25/121 (20%), Positives = 41/121 (33%), Gaps = 38/121 (31%)
Query: 221 MKLLGAQVKAVDGCFKEASSEAIRNWVG-------NLE-KSYYLTGTVVGPHPCPIMVRE 272
+ G +V G F S + ++ + LE S LTG V+G
Sbjct: 190 LHAFGWKVAIASGGFTYFS-DYLKEQLSLDYAQSNTLEIVSGKLTGQVLGE--------- 239
Query: 273 FQSIIGKETRKQAMEKWGGKPDVLLA---CVGSGSNALGLFHEFINDEDVRLIGVEAAGF 329
++ +T+ + + DV + VG G+N L + AAG
Sbjct: 240 ---VVSAQTKADILLTLAQQYDVEIHNTVAVGDGANDLVMM--------------AAAGL 282
Query: 330 G 330
G
Sbjct: 283 G 283
>2nsm_A Carboxypeptidase N catalytic chain; caroxypeptidase, zinc
peptidase, transthyretin-like domain, processing,
peptide modification, hydrolase; HET: NAG; 2.10A {Homo
sapiens}
Length = 439
Score = 28.8 bits (64), Expect = 3.3
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 116 RDYVGRETPLYFAERLTDHYRNE 138
+ +GRE L +E L + +RN
Sbjct: 69 NEALGRELMLQLSEFLCEEFRNR 91
>4eze_A Haloacid dehalogenase-like hydrolase; magnesium binding site,
enzyme function initiativ; 2.27A {Salmonella enterica
subsp}
Length = 317
Score = 28.6 bits (64), Expect = 3.8
Identities = 14/79 (17%), Positives = 23/79 (29%), Gaps = 29/79 (36%)
Query: 255 YLTGTVVGPHPCPIMVREFQSIIGKETRKQAMEKWGGKPDVLLA---CVGSGSNALGLFH 311
LT + P I+ +KQ + + ++ G G+N L +
Sbjct: 232 VLTDNITLP------------IMNAANKKQTLVDLAARLNIATENIIACGDGANDLPML- 278
Query: 312 EFINDEDVRLIGVEAAGFG 330
E AG G
Sbjct: 279 -------------EHAGTG 284
>3m1y_A Phosphoserine phosphatase (SERB); NYSGXRC, PSI II, phophoserine
phosphatase, protein structure initiative, structural
genomics; 2.40A {Helicobacter pylori}
Length = 217
Score = 28.0 bits (63), Expect = 4.3
Identities = 17/102 (16%), Positives = 34/102 (33%), Gaps = 22/102 (21%)
Query: 221 MKLLGAQVKAVDGCFKEASSE-----AIRNWVGN-LE-KSYYLTGTVVGPHPCPIMVREF 273
+K +V G F A++ + N L ++ L G V G
Sbjct: 87 LKEKNYKVVCFSGGFDLATNHYRDLLHLDAAFSNTLIVENDALNGLVTGH---------- 136
Query: 274 QSIIGKETRKQAMEKWGGKPDVLLA---CVGSGSNALGLFHE 312
++ ++ + + ++ VG G+N L +F
Sbjct: 137 --MMFSHSKGEMLLVLQRLLNISKTNTLVVGDGANDLSMFKH 176
>4a9w_A Monooxygenase; baeyer-villiger, FAD, oxidoreductase; HET: FAD;
2.72A {Stenotrophomonas maltophilia}
Length = 357
Score = 28.1 bits (63), Expect = 4.3
Identities = 5/23 (21%), Positives = 9/23 (39%)
Query: 183 GAGQHGVATAAACAKLALDCTVF 205
G GQ G++ + L +
Sbjct: 10 GGGQSGLSAGYFLRRSGLSYVIL 32
>1h8l_A Carboxypeptidase GP180 residues 503-882; hydrolase, zinc-dependent
protease; HET: NAG BMA NDG GEM; 2.6A {Lophonetta
specularioides} SCOP: b.3.2.1 c.56.5.1 PDB: 1qmu_A*
Length = 380
Score = 27.9 bits (62), Expect = 5.7
Identities = 7/23 (30%), Positives = 11/23 (47%)
Query: 116 RDYVGRETPLYFAERLTDHYRNE 138
+ VGRE L E L ++ +
Sbjct: 73 NEVVGRELLLNLIEYLCKNFGTD 95
>1oaa_A Sepiapterin reductase; tetrahydrobiopterin, oxidoreductase; HET:
NAP; 1.25A {Mus musculus} SCOP: c.2.1.2 PDB: 1nas_A*
1sep_A* 1z6z_A*
Length = 259
Score = 27.7 bits (62), Expect = 6.3
Identities = 10/54 (18%), Positives = 16/54 (29%), Gaps = 3/54 (5%)
Query: 151 DLNHVGAHKINNAIGQAMIAKRMGRKSIVA-ATGAGQHGVATAAA-CA-KLALD 201
LN + + A K++V ++ CA K A D
Sbjct: 124 ALNLTSMLCLTSGTLNAFQDSPGLSKTVVNISSLCALQPYKGWGLYCAGKAARD 177
>1uwy_A Carboxypeptidase M; metallopeptidase, GPI-anchor, metalloprotease,
zinc, lipoprotein, hydrolase, structural proteomics in
europe, spine; HET: NAG; 3.0A {Homo sapiens} SCOP:
b.3.2.1 c.56.5.1
Length = 426
Score = 27.7 bits (61), Expect = 6.5
Identities = 6/23 (26%), Positives = 10/23 (43%)
Query: 116 RDYVGRETPLYFAERLTDHYRNE 138
+ VGRE L+ + L +
Sbjct: 68 DETVGRELLLHLIDYLVTSDGKD 90
>1l7m_A Phosphoserine phosphatase; rossmann fold, four-helix bundle,
B-hairpin, structural genomics, BSGC structure funded by
NIH; 1.48A {Methanocaldococcus jannaschii} SCOP:
c.108.1.4 PDB: 1f5s_A 1l7n_A 1l7p_A* 1l7o_A* 1j97_A*
Length = 211
Score = 27.5 bits (62), Expect = 6.7
Identities = 15/78 (19%), Positives = 26/78 (33%), Gaps = 29/78 (37%)
Query: 256 LTGTVVGPHPCPIMVREFQSIIGKETRKQAMEKWGGKPDVLLA---CVGSGSNALGLFHE 312
LTG V G ++ + + + +EK + L VG G+N + +F
Sbjct: 130 LTGDVEGE------------VLKENAKGEILEKIAKIEGINLEDTVAVGDGANDISMF-- 175
Query: 313 FINDEDVRLIGVEAAGFG 330
+ AG
Sbjct: 176 ------------KKAGLK 181
>1ct9_A Asparagine synthetase B; amidotransferase, substrate channeling,
asparagine biosynthesis, ligase; HET: AMP GLN; 2.00A
{Escherichia coli} SCOP: c.26.2.1 d.153.1.1
Length = 553
Score = 27.5 bits (61), Expect = 8.5
Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 3/39 (7%)
Query: 90 CLSLLEAEFNFVLQDTKFQEELSTALRDYVGRETPLYFA 128
L L+ F F L D++ L RD++G PLY
Sbjct: 113 FLDDLQGMFAFALYDSEKDAYL--IGRDHLG-IIPLYMG 148
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 0.135 0.403
Gapped
Lambda K H
0.267 0.0661 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,681,239
Number of extensions: 351693
Number of successful extensions: 892
Number of sequences better than 10.0: 1
Number of HSP's gapped: 835
Number of HSP's successfully gapped: 51
Length of query: 372
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 277
Effective length of database: 4,049,298
Effective search space: 1121655546
Effective search space used: 1121655546
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: 58 (26.3 bits)