RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 022573
(295 letters)
>2o2e_A Tryptophan synthase beta chain; amino-acid biosynthesis, tryptophan
biosynthesis, structural genomics; 2.20A {Mycobacterium
tuberculosis} PDB: 2o2j_A
Length = 422
Score = 485 bits (1251), Expect = e-173
Identities = 154/295 (52%), Positives = 207/295 (70%), Gaps = 3/295 (1%)
Query: 1 MIAKRMGRKSIVAATGAGQHGVATAAACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQ 60
++A+RMG+ ++A TGAGQHGVATA ACA L LDC ++MG D +Q+ V M+LLGA+
Sbjct: 122 LLARRMGKTRVIAETGAGQHGVATATACALLGLDCVIYMGGIDTARQALNVARMRLLGAE 181
Query: 61 VKAVD---GCFKEASSEAIRNWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQ 117
V AV K+A +EA R+WV N + +YY GT GPHP P MVR+FQ IIG E R Q
Sbjct: 182 VVAVQTGSKTLKDAINEAFRDWVANADNTYYCFGTAAGPHPFPTMVRDFQRIIGMEARVQ 241
Query: 118 AMEKWGGKPDVLLACVGSGSNALGLFHEFINDEDVRLIGVEAAGFGLDSGKHAATLAKGE 177
+ G PD ++ACVG GSNA+G+FH F++D VRL+G EAAG G+++G+HAAT G
Sbjct: 242 IQGQAGRLPDAVVACVGGGSNAIGIFHAFLDDPGVRLVGFEAAGDGVETGRHAATFTAGS 301
Query: 178 VGVYHGAMSYLLQDEEGQILGTHSVGVGLEYPGVGPEISFLRDTGRAEFYTATDQEAVQA 237
G +HG+ SYLLQDE+GQ + +HS+ GL+YPGVGPE ++L++ GR ++ TD EA+ A
Sbjct: 302 PGAFHGSFSYLLQDEDGQTIESHSISAGLDYPGVGPEHAWLKEAGRVDYRPITDSEAMDA 361
Query: 238 YQRLCRLEGIFPALEASHALAFLEKLCPTLPNGAKVVVNCSGGGDKDVDTVVNYR 292
+ LCR+EGI PA+E++HA+A KL L GA +VVN SG GDKDV+T +
Sbjct: 362 FGLLCRMEGIIPAIESAHAVAGALKLGVELGRGAVIVVNLSGRGDKDVETAAKWF 416
>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 = 483 bits (1246), Expect = e-173
Identities = 155/295 (52%), Positives = 213/295 (72%), Gaps = 3/295 (1%)
Query: 1 MIAKRMGRKSIVAATGAGQHGVATAAACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQ 60
++AK MG+ ++A TGAGQHGVATA A A L + ++MG D+E+Q V MKLLGA
Sbjct: 91 LLAKFMGKTRLIAETGAGQHGVATAMAGALLGMKVDIYMGAEDVERQKMNVFRMKLLGAN 150
Query: 61 VKAVD---GCFKEASSEAIRNWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQ 117
V V+ K+A +EA+R+WV E ++YL G+VVGPHP P +VR+FQS+IG+E + Q
Sbjct: 151 VIPVNSGSRTLKDAINEALRDWVATFEYTHYLIGSVVGPHPYPTIVRDFQSVIGREAKAQ 210
Query: 118 AMEKWGGKPDVLLACVGSGSNALGLFHEFINDEDVRLIGVEAAGFGLDSGKHAATLAKGE 177
+E G PDV++ACVG GSNA+G+F+ F+ND+ V+L+GVEA G GL+SGKH+A+L G+
Sbjct: 211 ILEAEGQLPDVIVACVGGGSNAMGIFYPFVNDKKVKLVGVEAGGKGLESGKHSASLNAGQ 270
Query: 178 VGVYHGAMSYLLQDEEGQILGTHSVGVGLEYPGVGPEISFLRDTGRAEFYTATDQEAVQA 237
VGV+HG +SY LQDEEGQI THS+ GL+YPGVGPE ++L+ RAE+ T TD+EA++A
Sbjct: 271 VGVFHGMLSYFLQDEEGQIKPTHSIAPGLDYPGVGPEHAYLKKIQRAEYVTVTDEEALKA 330
Query: 238 YQRLCRLEGIFPALEASHALAFLEKLCPTLPNGAKVVVNCSGGGDKDVDTVVNYR 292
+ L R EGI PALE++HA+A+ KL + ++VN SG GDKD+D V+
Sbjct: 331 FHELSRTEGIIPALESAHAVAYAMKLAKEMSRDEIIIVNLSGRGDKDLDIVLKVS 385
>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 = 483 bits (1246), Expect = e-173
Identities = 144/295 (48%), Positives = 204/295 (69%), Gaps = 4/295 (1%)
Query: 1 MIAKRMGRKSIVAATGAGQHGVATAAACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQ 60
++AKRMG+ I+A TGAGQHGVA+A A A L L C ++MG D+E+QS V M+L+GA+
Sbjct: 95 LLAKRMGKSEIIAETGAGQHGVASALASALLGLKCRIYMGAKDVERQSPNVFRMRLMGAE 154
Query: 61 VKAVD---GCFKEASSEAIRNWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQ 117
V V K+A +EA+R+W G+ E ++Y+ GT GPHP P +VREFQ +IG+ET+ Q
Sbjct: 155 VIPVHSGSATLKDACNEALRDWSGSYETAHYMLGTAAGPHPYPTIVREFQRMIGEETKAQ 214
Query: 118 AMEKWGGKPDVLLACVGSGSNALGLFHEFINDEDVRLIGVEAAGFGLDSGKHAATLAKGE 177
++K G PD ++ACVG GSNA+G+F +FIND V LIGVE G G+++G+H A L G
Sbjct: 215 ILDKEGRLPDAVIACVGGGSNAIGMFADFINDTSVGLIGVEPGGHGIETGEHGAPLKHGR 274
Query: 178 VGVYHGAMSYLLQDEEGQILGTHSVGVGLEYPGVGPEISFLRDTGRAEFYTATDQEAVQA 237
VG+Y G + ++Q +GQI ++S+ GL++P VGP+ ++L GRA++ + TD EA++A
Sbjct: 275 VGIYFGMKAPMMQTADGQIEESYSISAGLDFPSVGPQHAYLNSIGRADYVSITDDEALEA 334
Query: 238 YQRLCRLEGIFPALEASHALAFLEKLCPTLPN-GAKVVVNCSGGGDKDVDTVVNY 291
++ LCR EGI PALE+SHALA K+ P +VVN SG GDKD+ TV +
Sbjct: 335 FKTLCRHEGIIPALESSHALAHALKMMREQPEKEQLLVVNLSGRGDKDIFTVHDI 389
>1x1q_A Tryptophan synthase beta chain; structural genomics, riken
structural genomics/proteomics initiative, RSGI, NPPSFA;
2.50A {Thermus thermophilus}
Length = 418
Score = 482 bits (1242), Expect = e-172
Identities = 147/297 (49%), Positives = 210/297 (70%), Gaps = 5/297 (1%)
Query: 1 MIAKRMGRKSIVAATGAGQHGVATAAACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQ 60
++A+RMG++ ++A TGAGQHGV+ A A L+C V+MG D+ +Q+ V MKLLGA+
Sbjct: 118 LLARRMGKRRVIAETGAGQHGVSVATVAALFGLECVVYMGEEDVRRQALNVFRMKLLGAE 177
Query: 61 VKAVD---GCFKEASSEAIRNWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQ 117
V+ V K+A++EAIR+W+ N+ ++Y+ G+VVGPHP P+MVR+FQS+IG+E ++Q
Sbjct: 178 VRPVAAGSRTLKDATNEAIRDWITNVRTTFYILGSVVGPHPYPMMVRDFQSVIGEEVKRQ 237
Query: 118 AMEKWGGKPDVLLACVGSGSNALGLFHEF--INDEDVRLIGVEAAGFGLDSGKHAATLAK 175
++E +G PD L+A VG GSNA+GLF F + + +LIGVEAAG GL +G+HAA++
Sbjct: 238 SLELFGRLPDALIAAVGGGSNAIGLFAPFAYLPEGRPKLIGVEAAGEGLSTGRHAASIGA 297
Query: 176 GEVGVYHGAMSYLLQDEEGQILGTHSVGVGLEYPGVGPEISFLRDTGRAEFYTATDQEAV 235
G+ GV HG+ YLL D +GQI HSV GL+YPGVGPE S+ D G AE+ + TD+EA+
Sbjct: 298 GKRGVLHGSYMYLLYDHDGQITPAHSVSAGLDYPGVGPEHSYYADAGVAEYASVTDEEAL 357
Query: 236 QAYQRLCRLEGIFPALEASHALAFLEKLCPTLPNGAKVVVNCSGGGDKDVDTVVNYR 292
+ ++ L RLEGI PALE++HA+A+ K+ P + VV+N SG GDKDV V+
Sbjct: 358 EGFKLLARLEGIIPALESAHAIAYAAKVVPEMDKDQVVVINLSGRGDKDVTEVMRLL 414
>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 = 127 bits (320), Expect = 1e-34
Identities = 50/291 (17%), Positives = 95/291 (32%), Gaps = 42/291 (14%)
Query: 3 AKRMGRKSIVAATGAGQ-HGVATAAACAKLALDCTVFMG-----TADMEKQSSKVLLMKL 56
A G ++V+ G AA A L + C + + + + + + ++
Sbjct: 62 ALAQGCDTLVSIGGIQSNQTRQVAAVAAHLGMKCVLVQENWVNYSDAVYDRVGNIQMSRI 121
Query: 57 LGAQVKAVDGCF---KEASSEAIRNWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKE 113
LGA V+ V F S E V Y HP + + E
Sbjct: 122 LGADVRLVPDGFDIGFRRSWEDALESVRAAGGKPYAIPAGCSDHPLGGL----GFVGFAE 177
Query: 114 TRKQAMEKWGGKPDVLLACVGSGSNALGLFHEF-INDEDVRLIGVEAAGFGLDSGKHAAT 172
+ + G K D ++ C +GS G+ F + R+IGV+A+ + +
Sbjct: 178 EVRAQEAELGFKFDYVVVCSVTGSTQAGMVVGFAADGRADRVIGVDASAKPAQTREQITR 237
Query: 173 LAKGEVGVYHGAMSYLLQDEEGQILGTHSVGVGLEYPGVGPEISFLRDTGRAEFYTATDQ 232
+A+ + VGLE + ++ E Y ++
Sbjct: 238 IARQ-----------------------TAEKVGLERDIMRADVVLDERFAGPE-YGLPNE 273
Query: 233 EAVQAYQRLCRLEGIF--PALE--ASHALAFLEKLCPTLPNGAKVVVNCSG 279
++A + R EG+ P E + H + + + + + G
Sbjct: 274 GTLEAIRLCARTEGMLTDPVYEGKSMHGMIEMVRNGEFPEGSRVLYAHLGG 324
>2d1f_A Threonine synthase; amino acid synthesis, pyridoxal-5'-phosphate,
PLP, lyase; HET: PLP; 2.50A {Mycobacterium tuberculosis}
Length = 360
Score = 96.6 bits (241), Expect = 3e-23
Identities = 65/301 (21%), Positives = 116/301 (38%), Gaps = 53/301 (17%)
Query: 3 AKRMGRKSIVAATGAGQHGVATAAACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQVK 62
A G+++++ A+ G + AA A+ + C V + + K+ + GA++
Sbjct: 80 ALAHGQRAVLCAS-TGNTSASAAAYAARAGITCAVLIPQGKIAMG--KLAQAVMHGAKII 136
Query: 63 AVDGCFKEASSEAIRNWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQAMEKW 122
+DG F + A + + + L +V +P I E Q E ++
Sbjct: 137 QIDGNFDDCLELARK--MAADFPTISLVNSV---NPVRI---EGQKTAAFEI----VDVL 184
Query: 123 GGKPDVLLACVGSGSNALGL---FHEFIN----DEDVRLIGVEAAGFGLDSGKHAATLAK 175
G PDV VG+ N + E+ D+ R++G +AAG AA L
Sbjct: 185 GTAPDVHALPVGNAGNITAYWKGYTEYHQLGLIDKLPRMLGTQAAG--------AAPLVL 236
Query: 176 GEVGVYHGAMSYLLQDEEGQILGTHSVGVGLE--YPGVGPEI-SFLRDTGRAEFYTATDQ 232
GE + ++ + P + + F A+D+
Sbjct: 237 GEP-----------------VSHPETIATAIRIGSPASWTSAVEAQQQSK-GRFLAASDE 278
Query: 233 EAVQAYQRLCRLEGIFPALEASHALAFLEKLC--PTLPNGAKVVVNCSGGGDKDVDTVVN 290
E + AY + R+EG+F ++ ++A L K + G+ VV +G G KD DT +
Sbjct: 279 EILAAYHLVARVEGVFVEPASAASIAGLLKAIDDGWVARGSTVVCTVTGNGLKDPDTALK 338
Query: 291 Y 291
Sbjct: 339 D 339
>3aey_A Threonine synthase; PLP, pyridoxal phosphate, lyase; 1.92A {Thermus
thermophilus} PDB: 1uin_A* 1uim_A* 3aex_A* 1v7c_A
Length = 351
Score = 90.0 bits (224), Expect = 7e-21
Identities = 61/301 (20%), Positives = 105/301 (34%), Gaps = 54/301 (17%)
Query: 3 AKRMGRKSIVAATGAGQHGVATAAACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQVK 62
A G +++ A+ G + AA A+ + V + + KV + GA++
Sbjct: 72 AVEGGAQAVACAS-TGNTAASAAAYAARAGILAIVVLPAGYVALG--KVAQSLVHGARIV 128
Query: 63 AVDGCFKEASSEAIRNWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQAMEKW 122
V+G F +A + L +V +P + E Q + E +++
Sbjct: 129 QVEGNFDDALRLTQK---LTEAFPVALVNSV---NPHRL---EGQKTLAFEV----VDEL 175
Query: 123 GGKPDVLLACVGSGSNALGL---FHEFIN----DEDVRLIGVEAAGFGLDSGKHAATLAK 175
G P VG+ N + + R++G +AAG AA L
Sbjct: 176 GDAPHYHALPVGNAGNITAHWMGYKAYHALGKAKRLPRMLGFQAAG--------AAPLVL 227
Query: 176 GEVGVYHGAMSYLLQDEEGQILGTHSVGVGLE--YPGVGPEI-SFLRDTGRAEFYTATDQ 232
G + ++ + P ++G TD+
Sbjct: 228 GRP-----------------VERPETLATAIRIGNPASWQGAVRAKEESG-GVIEAVTDE 269
Query: 233 EAVQAYQRLCRLEGIFPALEASHALAFLEKLCP--TLPNGAKVVVNCSGGGDKDVDTVVN 290
E + AY+ L R EGIF ++ A+A + KL L + VV+ +G G KD T
Sbjct: 270 EILFAYRYLAREEGIFCEPASAAAMAGVFKLLREGRLEPESTVVLTLTGHGLKDPATAER 329
Query: 291 Y 291
Sbjct: 330 V 330
>2zsj_A Threonine synthase; PLP dependent enzyme, lyase; HET: PLP; 1.80A
{Aquifex aeolicus}
Length = 352
Score = 89.3 bits (222), Expect = 1e-20
Identities = 61/299 (20%), Positives = 111/299 (37%), Gaps = 50/299 (16%)
Query: 3 AKRMGRKSIVAATGAGQHGVATAAACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQVK 62
A G+++++ A+ G + AA A+ L V + + K+ + GA+V
Sbjct: 74 AVEAGKRAVICAS-TGNTSASAAAYAARAGLRAYVLLPKGAVAIG--KLSQAMIYGAKVL 130
Query: 63 AVDGCFKEASSEAIRNWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQAMEKW 122
A+ G F +A + + + +V +P I E Q E +
Sbjct: 131 AIQGTFDDALNIVRK---IGENFPVEIVNSV---NPYRI---EGQKTAAFEI----CDTL 177
Query: 123 GGKPDVLLACVGSGSNALGL---FHEFIN----DEDVRLIGVEAAGFGLDSGKHAATLAK 175
G PD VG+ N F + + R++G +A G AA + K
Sbjct: 178 GEAPDYHFIPVGNAGNITAYWKGFKIYYEEGKITKLPRMMGWQAEG--------AAPIVK 229
Query: 176 GEVGVYHGAMSYLLQDEEGQILGTHSVGVGLEYPGVGPEI-SFLRDTGRAEFYTATDQEA 234
G Y +++ + T + + + P +++G + +D E
Sbjct: 230 G----------YPIKNPQ-----TIATAIKIGNPYSWKSALKAAQESG-GKIDAVSDSEI 273
Query: 235 VQAYQRLCRLEGIFPALEASHALAFLEKLCP--TLPNGAKVVVNCSGGGDKDVDTVVNY 291
+ AY+ + EG+F ++ ++A L KL G V +G G KD DT +
Sbjct: 274 LYAYKLIASTEGVFCEPASAASVAGLIKLVREGFFKGGEVVTCTLTGNGLKDPDTAIKV 332
>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 = 74.4 bits (183), Expect = 4e-15
Identities = 53/305 (17%), Positives = 96/305 (31%), Gaps = 50/305 (16%)
Query: 1 MIAKRMGRKSIVAATGAGQHGVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLG 58
+ + + A+ G A +A CA + VF+ M + ++ G
Sbjct: 177 LRKMKRPVVGVGCAS-TGDTSAALSAYCASAGIPSIVFLPANKISMAQ----LVQPIANG 231
Query: 59 AQVKAVDGCFKEASSEAIRNWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQA 118
A V ++D F E YL ++ + + E Q E
Sbjct: 232 AFVLSIDTDFDGCMKLIRE---ITAELPIYLANSL---NSLRL---EGQKTAAIEI---- 278
Query: 119 MEKWGGK-PDVLLACVGSGSNALGLFHEF-------INDEDVRLIGVEAAGFGLDSGKHA 170
++++ + PD ++ G+ N + F + D R++ +AA A
Sbjct: 279 LQQFDWQVPDWVIVPGGNLGNIYAFYKGFKXCQELGLVDRIPRMVCAQAAN--------A 330
Query: 171 ATLAKGEVGVYHGAMSYLLQDEEGQILGTHSVGVGLEYPGVGPEI-SFLRDT-GRAEFYT 228
L Y T + + + P L+ G E
Sbjct: 331 NPLYLH----YKSGWKDFKPMTAST---TFASAIQIGDPVSIDRAVYALKKCNGIVE--E 381
Query: 229 ATDQEAVQAYQRLCRLEGIFPALEASHALAFLEKLCP--TLPNGAKVVVNCSGGGDKDVD 286
AT++E + A G+F AL L KL + + VV + G K
Sbjct: 382 ATEEELMDA-MAQADSTGMFICPHTGVALTALFKLRNQGVIAPTDRTVVVSTAHGLKFTQ 440
Query: 287 TVVNY 291
+ ++Y
Sbjct: 441 SKIDY 445
>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 = 71.7 bits (175), Expect = 2e-14
Identities = 44/294 (14%), Positives = 85/294 (28%), Gaps = 46/294 (15%)
Query: 3 AKRMGRKSIVAATGA-GQHGVATAAACAKLALDCTVFM--------GTADMEKQSSKVLL 53
+V+ G AA AKL C + D+ + + L
Sbjct: 62 IVEGDYTHLVSIGGRQSNQTRMVAALAAKLGKKCVLIQEDWVPIPEAEKDVYNRVGNIEL 121
Query: 54 MKLLGAQVKAVDGCFKEASSEAIRNWVGNLEKSY---YLTGTVVGPHPCPIMVREFQSII 110
+++GA V+ ++ F ++ N + LE + Y H +
Sbjct: 122 SRIMGADVRVIEDGFDIGMRKSFANALQELEDAGHKPYPIPAGCSEHKYGGL---GFVGF 178
Query: 111 GKETRKQAMEKWGGKPDVLLACVGSGSNALGLFHEF-INDEDVRLIGVEAAGFGLDSGKH 169
E Q +E G K D ++ C +GS G+ +I ++A+ + +
Sbjct: 179 ADEVINQEVEL-GIKFDKIVVCCVTGSTTAGILAGMAQYGRQDDVIAIDASFTSEKTKEQ 237
Query: 170 AATLAKGEVGVYHGAMSYLLQDEEGQILGTHSVGVGLEYPGVGPEISFLRDTGRAEFYTA 229
+A G + + Y
Sbjct: 238 TLRIANN------------TAKLIGVEHEFKDFTLDTRFAYPC--------------YGV 271
Query: 230 TDQEAVQAYQRLCRLEGIFP-ALEASHALAFLEKLCP--TLPNGAKVVVNCSGG 280
++ ++A + EG+ + ++ L L GA V+ GG
Sbjct: 272 PNEGTIEAIRTCAEQEGVLTDPVYEGKSMQGLIALIKEDYFKPGANVLYVHLGG 325
>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 = 66.0 bits (161), Expect = 2e-12
Identities = 34/171 (19%), Positives = 61/171 (35%), Gaps = 22/171 (12%)
Query: 2 IAKRMGRKSIVAATGAGQHGVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLGA 59
+ +G K A T G HG A A +L + ++M G+A +V + LGA
Sbjct: 105 LKNAIGEKMTFATTTDGNHGRGVAWAAQQLGQNAVIYMPKGSAQ-----ERVDAILNLGA 159
Query: 60 QVKAVDGCFKEASSEAIR-----NWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKET 114
+ D + + ++ W G P + + + + E
Sbjct: 160 ECIVTDMNYDDTVRLTMQHAQQHGWE------VVQDTAWEGYTKIPTWIMQGYATLADEA 213
Query: 115 RKQAMEKWGGKPDVLLACVGSGSNALG---LFHEFINDEDVRLIGVEAAGF 162
+Q M + G P +L G G+ A G + + +++ I VE
Sbjct: 214 VEQ-MREMGVTPTHVLLQAGVGAMAGGVLGYLVDVYSPQNLHSIIVEPDKA 263
>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 = 53.8 bits (130), Expect = 2e-08
Identities = 37/161 (22%), Positives = 59/161 (36%), Gaps = 25/161 (15%)
Query: 7 GRKSIVAATGAGQHGVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLGAQVKAV 64
G V ++ AG G+A A A +L + T+ + T + + +K GA K V
Sbjct: 92 GCAHFVCSS-AGNAGMAAAYAARQLGVPATIVVPGTTPAL-----TIERLKNEGATCKVV 145
Query: 65 DGCFKEASSEAIRNWVGNLEKSYYLTGTVVGP--HPCPIMVREFQSIIGKETRKQAMEKW 122
EA A L K+ + P P ++ E + I KE ++
Sbjct: 146 GELLDEAFELAKA-----LAKNNP-GWVYIPPFDDP---LIWEGHASIVKELKETL---- 192
Query: 123 GGKPDVLLACVGSGS--NALGLFHEFINDEDVRLIGVEAAG 161
KP + VG G + + DV +I +E G
Sbjct: 193 WEKPGAIALSVGGGGLLCGVVQGLQECGWGDVPVIAMETFG 233
>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 = 52.1 bits (125), Expect = 7e-08
Identities = 44/302 (14%), Positives = 82/302 (27%), Gaps = 50/302 (16%)
Query: 2 IAKRMGRKSIVAATGAGQHGVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLGA 59
+ + SI + G G++ A++ TV M K ++ G
Sbjct: 154 FKQFFSQYSIAVGS-TGNLGLSIGIMSARIGFKVTVHMSADARA-----WKKAKLRSHGV 207
Query: 60 QVKAVDGCFKEASSEAIRNWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQ-- 117
V + + A E + + + + + S+ G+ + Q
Sbjct: 208 TVVEYEQDYGVAVEEGRK--AAQSDPNCFFIDDENSRT---LF--LGYSVAGQRLKAQFA 260
Query: 118 --AMEKWGGKPDVLLACVGSGSNALGLFHEFIN--DEDVRLIGVEAAGFGLDSGKHAATL 173
P + G G G+ + V E H+ +
Sbjct: 261 QQGRIVDADNPLFVYLPCGVGGGPGGVAFGLKLAFGDHVHCFFAEPT--------HSPCM 312
Query: 174 AKGEVGVYHGAMSYLLQDEEGQILGTHSVGVGLEYPGVGPEISF--LRDTGRAEFYTATD 231
GV+ G + + G T + G+ + + FYT +D
Sbjct: 313 LL---GVHTGLHDQISVQDIGIDNLTAADGLAVGRAS---GFVGRAMERLL-DGFYTLSD 365
Query: 232 QEAVQAYQRLCRLEGIF------------PALEASHALAFLEKLCPTLPNGAKVVVNCSG 279
Q L + EGI + AS + + +V +G
Sbjct: 366 QTMYDMLGWLAQEEGIRLEPSALAGMAGPQRVCASVSYQQMHGFSAEQLRNTTHLVWATG 425
Query: 280 GG 281
GG
Sbjct: 426 GG 427
>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 = 49.7 bits (118), Expect = 4e-07
Identities = 42/252 (16%), Positives = 71/252 (28%), Gaps = 37/252 (14%)
Query: 3 AKRMGRKSIVAATGAGQ--HGVATAAACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQ 60
A R G +++ A GA Q H TAA AKL L C + + + L
Sbjct: 76 ALREGADTLITA-GAIQSNHVRQTAAVAAKLGLHCVALLENPIGTTAENYLTNGNRLLLD 134
Query: 61 VKAVDGCFKEASSEA---IRNWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQ 117
+ +A ++ ++ +E + + + E +Q
Sbjct: 135 LFNTQIEMCDALTDPDAQLQTLATRIEAQGFRPYVIPVGGSSALGAM-GYVESALEIAQQ 193
Query: 118 AMEKWGGKPDVLLACVGSGSNALGLFHEF-INDEDVRLIGVEAAGFGLDSGKHAATLAKG 176
E ++ GS GL DV LIGV + + L +
Sbjct: 194 CEE--VVGLSSVVVASGSAGTHAGLAVGLEHLMPDVELIGVTVSRSVAEQKPKVIALQQ- 250
Query: 177 EVGVYHGAMSYLLQDEEGQILGTHSVGVGLEYPGVGPEISFLRDTGRAEFYTATDQEAVQ 236
+ + L D A Y + ++
Sbjct: 251 --------------------------AIAGQLALTATADIHLWDDYFAPGYGVPNDAGME 284
Query: 237 AYQRLCRLEGIF 248
A + L LEG+
Sbjct: 285 AVKLLASLEGVL 296
>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 = 49.5 bits (119), Expect = 4e-07
Identities = 35/162 (21%), Positives = 62/162 (38%), Gaps = 28/162 (17%)
Query: 7 GRKSIVAATGAGQHGVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLGAQVKAV 64
G + +V ++ G G+A A A KL + T+ + T+ V ++ GA+V+
Sbjct: 53 GCRHLVCSS-GGNAGIAAAYAARKLGIPATIVLPESTSLQ-----VVQRLQGEGAEVQLT 106
Query: 65 DGCFKEASSEAIRNWVGNLEKSYYLTGTVVGP--HPCPIMVREFQSIIGKETRKQAMEKW 122
+ EA+ A L K V P HP ++ + + + +E +
Sbjct: 107 GKVWDEANLRAQE-----LAKRDGW--ENVPPFDHP---LIWKGHASLVQELKAV----L 152
Query: 123 GGKPDVLLACVGSG---SNALGLFHEFINDEDVRLIGVEAAG 161
P L+ VG G + + E V +I +E G
Sbjct: 153 RTPPGALVLAVGGGGLLAGVVAGLLEVGWQ-HVPIIAMETHG 193
>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 = 50.0 bits (119), Expect = 5e-07
Identities = 68/365 (18%), Positives = 112/365 (30%), Gaps = 142/365 (38%)
Query: 2 IAKRMG------RKSIVAATGAGQHGVATAAACAKLALDCTVFMGTADMEKQSSKVLLMK 55
AK +G R + ATG Q G+ TA A A D +S
Sbjct: 252 TAKLLGFTPGELRSYLKGATGHSQ-GLVTAVAIA-----------ETD-SWES------- 291
Query: 56 LLGAQVKAVDGCFKEASSEAIRN--WVGNLE--KSY---YLTGTVV--------GPHPCP 100
F + +AI ++G + ++Y L +++ G P P
Sbjct: 292 ------------FFVSVRKAITVLFFIG-VRCYEAYPNTSLPPSILEDSLENNEGV-PSP 337
Query: 101 IM--VR-----EFQSIIGKETRKQAMEKW-------GGKPDVLLACVGSGS-NAL-GLFH 144
M + + Q + K K G K V+ SG +L GL
Sbjct: 338 -MLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVV-----SGPPQSLYGL-- 389
Query: 145 EFINDEDVRLIGVEAAGFGLDSGKHAATLAKGEVGV--------YHGAMSYLLQDEEGQI 196
++ L +A GLD + + K + +H S+LL I
Sbjct: 390 ------NLTLRKAKAPS-GLDQSRIPFSERKLKFSNRFLPVASPFH---SHLLVPASDLI 439
Query: 197 LGTHSVGVGLEYPGVGPEISFLR----DTGRAEFYTATDQEAVQAY--QRLCRLEGIF-- 248
V + + ++ DT + +D + +R+ I
Sbjct: 440 N-KDLVKNNVSFNA-----KDIQIPVYDT-----FDGSDLRVLSGSISERIVDC--IIRL 486
Query: 249 -------PALEASHALAF-------LEKLCPTLPN----GAKVVVNCSGGGDKDVDTVVN 290
+A+H L F L L T N G +V+V G D++ +
Sbjct: 487 PVKWETTTQFKATHILDFGPGGASGLGVL--THRNKDGTGVRVIV----AGTLDINPDDD 540
Query: 291 YRYNQ 295
Y + Q
Sbjct: 541 YGFKQ 545
Score = 38.1 bits (88), Expect = 0.004
Identities = 37/191 (19%), Positives = 54/191 (28%), Gaps = 85/191 (44%)
Query: 117 QAMEKWGGKP-DVLLACVG-SGSNALGLFHEFINDEDVRLIGVEAAGFGLDSGKHAATLA 174
+ ++ G P D A G S LG E+ AA L A+LA
Sbjct: 1745 EDLKSKGLIPADATFA--GHS----LG---EY------------AA---L------ASLA 1774
Query: 175 KGEVGVYHGAMSYLLQDEEGQILGTHSVGVGLEYPGVGPEISFLRDTGRAEFYTATDQEA 234
MS ++ V E+ F R G Q A
Sbjct: 1775 --------DVMS--IES-----------LV---------EVVFYR--GMTM------QVA 1796
Query: 235 VQAYQRLCRLEGIFPALEASHALAF----LEKLCPTLPNGAKVVV-----NCSG-----G 280
V + G+ A +F L+ + + +V N
Sbjct: 1797 VPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAA 1856
Query: 281 GD-KDVDTVVN 290
GD + +DTV N
Sbjct: 1857 GDLRALDTVTN 1867
Score = 35.8 bits (82), Expect = 0.020
Identities = 35/269 (13%), Positives = 76/269 (28%), Gaps = 69/269 (25%)
Query: 40 GTADMEKQSSKV-LLMKLLGAQVKAVDGCFKEASSEAIRNWVGNLEKSYYLTG----TVV 94
G A ++ ++ L+ K LG V+ + + + E YL G +
Sbjct: 47 GFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENC-YLEGNDIHALA 105
Query: 95 G--PHPCPIMVREFQSIIGKETRKQAMEKWGGKPDVLLACVGSGSNALGLFHEFINDEDV 152
+ + + +I + A +P ++A LF + + +
Sbjct: 106 AKLLQENDTTLVKTKELI--KNYITARIM-AKRPF-----DKKSNSA--LFRA-VGEGNA 154
Query: 153 RLIGVEAAGFGLDSGKHAATLAKGEVG-----------VYHGAMSYLLQDEEGQI--LGT 199
+L+ + FG G +G YH + L++ + L
Sbjct: 155 QLVAI----FG---G-------QGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIR 200
Query: 200 HSVGVGLEYPGVGPEISFLRDTGRA--EFYTATDQEA---------VQA--YQRLCRLEG 246
++ + + +L + + Y + +Q Y +L G
Sbjct: 201 TTLDAEKVFTQGLNILEWLENPSNTPDKDYLLS---IPISCPLIGVIQLAHYVVTAKLLG 257
Query: 247 IFPALEASHALAFLEKLCPTLPNGAKVVV 275
P L + +V
Sbjct: 258 FTPG-------ELRSYLKGATGHSQGLVT 279
Score = 31.6 bits (71), Expect = 0.39
Identities = 23/187 (12%), Positives = 54/187 (28%), Gaps = 65/187 (34%)
Query: 81 GNLEKSY------YLTGTVVGPHPCPIMVRE-FQSIIGKETRKQAMEKWGGKPDVLLACV 133
G+LE + + + +E F I+ + T A + +P
Sbjct: 14 GSLEHVLLVPTASFFIASQL---------QEQFNKILPEPTEGFAADD---EP------- 54
Query: 134 GSGSNALGLFHEFINDEDVRLIGVEAAGFGLDSGKHAATLAKGEVGVYHGAMSYLLQDEE 193
+ L +F+ G+ ++ + +VG + ++ L + E
Sbjct: 55 ---TTPAELVGKFL-------------GY------VSSLVEPSKVGQFDQVLNLCLTEFE 92
Query: 194 GQILGT---HSVGVGLEYPGVGPEISFLRDTGRAEFYTATDQEAVQAYQRLCRLEGIFPA 250
L H++ L + +E ++ Y +
Sbjct: 93 NCYLEGNDIHALAAKLL--------------QENDTTLVKTKELIKNYITARIMAKRPFD 138
Query: 251 LEASHAL 257
+++ AL
Sbjct: 139 KKSNSAL 145
>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 = 44.3 bits (104), Expect = 2e-05
Identities = 46/248 (18%), Positives = 72/248 (29%), Gaps = 37/248 (14%)
Query: 3 AKRMGRKSIVAATGAG-QHGVATAAACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQV 61
A G ++ H T A KL LD + + E+ LL K++G +
Sbjct: 65 ALSKGADVVITVGAVHSNHAFVTGLAAKKLGLDAILVLR--GKEELKGNYLLDKIMGIET 122
Query: 62 KAVDGCFKEASSEAIRNWVGNLEKSYYLTGTVVGPHPCPIMVREFQSIIGKETRKQAMEK 121
+ D + L++ + PI + + E Q+
Sbjct: 123 RVYDAKDSFELMKYAEEIAEELKREGRKPYVIPPGGASPIGTLGYVRAV-GEIATQS--- 178
Query: 122 WGGKPDVLLACVGSGSNALGLFHEF-INDEDVRLIGVEAAGFGLDSGKHAATLAKGEVGV 180
K D ++ GSG GL I +ED+R +G+ FG L K
Sbjct: 179 -EVKFDSIVVAAGSGGTLAGLSLGLSILNEDIRPVGIAVGRFGEVMTSKLDNLIKE---- 233
Query: 181 YHGAMSYLLQDEEGQILGTHSVGVGLEYPGVGPEISFLRDTGRAEFYTATDQEAVQAYQR 240
E GV E+ Y E Q ++
Sbjct: 234 ------------------------AAELLGVKVEVRPELYDYSFGEYGKITGEVAQIIRK 269
Query: 241 LCRLEGIF 248
+ EGI
Sbjct: 270 VGTREGII 277
>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 = 43.0 bits (102), Expect = 8e-05
Identities = 43/162 (26%), Positives = 65/162 (40%), Gaps = 34/162 (20%)
Query: 9 KSIVAATGAGQH--GVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLGAQVKAV 64
++ A+ AG H GVA + A+L + + M TAD+ KV ++ G +V
Sbjct: 80 HGVITAS-AGNHAQGVAFS--SARLGVKALIVMPTATADI-----KVDAVRGFGGEVLLH 131
Query: 65 DGCFKEASSEAIRNWVGNLEKSYYLTGTVVGP--HPCPIMVREFQSIIGKETRKQAMEKW 122
F EA ++AI L + T V P HP MV Q + E +Q
Sbjct: 132 GANFDEAKAKAIE-----LSQQQGFT--WVPPFDHP---MVIAGQGTLALELLQQD---- 177
Query: 123 GGKPDVLLACVGSGSNALGL---FHEFINDEDVRLIGVEAAG 161
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 = 41.4 bits (98), Expect = 2e-04
Identities = 40/162 (24%), Positives = 60/162 (37%), Gaps = 34/162 (20%)
Query: 9 KSIVAATGAGQH--GVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLGAQVKAV 64
K ++ A+ AG H GVA A +L + M T K+ ++ LG V
Sbjct: 109 KGVITAS-AGNHAQGVALA--GQRLNCVAKIVMPTTTPQ-----IKIDAVRALGGDVVLY 160
Query: 65 DGCFKEASSEAIRNWVGNLEKSYYLTGTVVGP--HPCPIMVREFQSIIGKETRKQAMEKW 122
F EA + A+ L + L + P P V + Q IG E +Q
Sbjct: 161 GKTFDEAQTHALE-----LSEKDGLK--YIPPFDDP---GVIKGQGTIGTEINRQL---- 206
Query: 123 GGKPDVLLACVGSGSNALGL---FHEFINDEDVRLIGVEAAG 161
+ VG G G+ F + + ++IGVE G
Sbjct: 207 -KDIHAVFIPVGGGGLIAGVATFFKQI--APNTKIIGVEPYG 245
>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 = 38.9 bits (91), Expect = 0.001
Identities = 36/157 (22%), Positives = 57/157 (36%), Gaps = 33/157 (21%)
Query: 123 GGKPDVLLACVGSGSNALGL---FHEFINDEDVRLIGVEAAGFGLDSGKHAATLAKGEVG 179
GK D+L+A VG+G G+ E R+IGV+ G L L + E
Sbjct: 267 DGKLDMLVASVGTGGTITGIARKLKE--KCPGCRIIGVDPEGSIL---AEPEELNQTEQT 321
Query: 180 VYHGAMSYLLQDEEGQILGTHSVGVGLEYPGVGPEISFLRDTGRA-EFYTATDQEAVQAY 238
+Y ++ G+G P + D +++ + D+EA
Sbjct: 322 ------TYEVE------------GIG---YDFIPTVL---DRTVVDKWFKSNDEEAFTFA 357
Query: 239 QRLCRLEGIFPALEASHALAFLEKLCPTLPNGAKVVV 275
+ L EG+ A +A K L G + VV
Sbjct: 358 RMLIAQEGLLCGGSAGSTVAVAVKAAQELQEGQRCVV 394
>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 = 38.9 bits (91), Expect = 0.001
Identities = 28/157 (17%), Positives = 50/157 (31%), Gaps = 33/157 (21%)
Query: 123 GGKPDVLLACVGSGSNALGL---FHEFINDEDVRLIGVEAAGFGLDSGKHAATLAKGEVG 179
K D+++ G+ G+ E +++GV+ G L A L K +V
Sbjct: 219 DNKVDMIVVSAGTAGTISGIGRKIKE--QVPSCQIVGVDPYGSIL---ARPAELNKTDVQ 273
Query: 180 VYHGAMSYLLQDEEGQILGTHSVGVGLEYPGVGPEISFLRDTGRA-EFYTATDQEAVQAY 238
Y ++ G+G P + D + D +
Sbjct: 274 ------FYEVE------------GIG---YDFPPTVF---DDTVVDVWTKIGDSDCFPMS 309
Query: 239 QRLCRLEGIFPALEASHALAFLEKLCPTLPNGAKVVV 275
+RL EG+ + A+ + L G + VV
Sbjct: 310 RRLNAEEGLLCGGSSGGAMHAALEHARKLKKGQRCVV 346
>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 = 36.4 bits (85), Expect = 0.007
Identities = 41/180 (22%), Positives = 66/180 (36%), Gaps = 38/180 (21%)
Query: 8 RKSIVAATGAGQH--GVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLGAQVKA 63
RK +VA + AG H GV+ + A L +D V M G SKV A+V
Sbjct: 88 RKGVVACS-AGNHAQGVSLSCA--MLGIDGKVVMPKGAPK-----SKVAATCDYSAEVVL 139
Query: 64 VDGCFKEASSEAIRNWVGNLEKSYYLTG-TVVGP--HPCPIMVREFQSIIGKETRKQAME 120
F + ++ + ++ G + P P V Q IG E +
Sbjct: 140 HGDNFNDTIAKVSE-----IVET---EGRIFIPPYDDP---KVIAGQGTIGLEIMEDL-- 186
Query: 121 KWGGKPDVLLACVGSGSNALG--LFHEFINDEDVRLIGVEAAGFGLDSGKHAATLAKGEV 178
D ++ +G G G + + IN +++IGV+A + GE+
Sbjct: 187 ---YDVDNVIVPIGGGGLIAGIAIAIKSINP-TIKVIGVQAENV--HGMAAS--YYTGEI 238
>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 = 35.9 bits (84), Expect = 0.010
Identities = 40/174 (22%), Positives = 59/174 (33%), Gaps = 29/174 (16%)
Query: 12 VAATGAGQHGVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLGAQVKAVDGCFK 69
+ A +G H A A L + V M + K + GA+V K
Sbjct: 68 LLAVSSGNHAQGVAYAAQVLGVKALVVMPEDAS-----PYKKACARAYGAEVVDRGVTAK 122
Query: 70 EASSEAIRNWVGNLEKSYYLTG-TVVGP--HPCPIMVREFQSIIGKETRKQAMEKWGGKP 126
A L++ TG ++ P P +V Q G E QA G P
Sbjct: 123 NREEVARA-----LQEE---TGYALIHPFDDP---LVIAGQGTAGLELLAQAGRM-GVFP 170
Query: 127 DVLLACVGSGSNALG--LFHEFINDEDVRLIGVEAAGFGLDSGKHAATLAKGEV 178
+LA VG G G + ++ ++GVE D K + L G +
Sbjct: 171 GAVLAPVGGGGLLAGLATAVKALSP-TTLVLGVEPEAA--DDAKRS--LEAGRI 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 = 34.0 bits (79), Expect = 0.040
Identities = 40/177 (22%), Positives = 59/177 (33%), Gaps = 39/177 (22%)
Query: 12 VAATGAGQHGVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLGAQVKAVDGCFK 69
V +G H A A + L + + M +KV K G QV D
Sbjct: 77 VLTFSSGNHAQAIALSAKILGIPAKIIMPLDAP-----EAKVAATKGYGGQVIMYDRYKD 131
Query: 70 EASSEAIRNWVGNLEKSYYLTG-TVVGP--HPCPIMVREFQSIIGKETRKQAMEKWGGKP 126
+ A + + G T++ P HP V Q KE ++ G
Sbjct: 132 DREKMAKE-----ISER---EGLTIIPPYDHP---HVLAGQGTAAKELFEEV-----GPL 175
Query: 127 DVLLACVG-----SGSNALGLFHEFINDEDVRLIGVEAAGFGLDSGKHAATLAKGEV 178
D L C+G SGS AL + + GVE + G+ + KG +
Sbjct: 176 DALFVCLGGGGLLSGS-ALAA--RHFAP-NCEVYGVEPEAG--NDGQQS--FRKGSI 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 = 33.7 bits (78), Expect = 0.057
Identities = 32/184 (17%), Positives = 55/184 (29%), Gaps = 40/184 (21%)
Query: 8 RKSIVAATGAGQHGVATAAACAKLALDCTVFM--GTADMEKQSSKVLLMKLLGAQVKAVD 65
+ V +G HG A A + + + K L ++ GA + +
Sbjct: 75 KPKAVVTHSSGNHGQALTYAAKLEGIPAYIVVPQTAP-----DCKKLAIQAYGASIVYCE 129
Query: 66 GCFKEASSEAIRNWVGNLEKSYYLTG-TVVGP--HPCPIMVREFQSIIGKETRKQAMEKW 122
+ + A R + + T +V P P V Q I E Q
Sbjct: 130 PSDESRENVAKR-----VTEE---TEGIMVHPNQEP---AVIAGQGTIALEVLNQV---- 174
Query: 123 GGKPDVLLACVG-----SGSNALGLFHEFINDEDVRLIGVEAAGF-----GLDSGKHAAT 172
D L+ VG +G A+ + + + V++ E + GK
Sbjct: 175 -PLVDALVVPVGGGGMLAGI-AITV--KALKP-SVKVYAAEPSNADDCYQSKLKGKLMPN 229
Query: 173 LAKG 176
L
Sbjct: 230 LYPP 233
>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 = 29.9 bits (66), Expect = 0.63
Identities = 14/42 (33%), Positives = 19/42 (45%), Gaps = 14/42 (33%)
Query: 45 EKQSSKVLLMKLLGAQVK--AVDGCFKEASSEAIRNWVGNLE 84
EKQ+ K K L A +K A D A + AI+ +E
Sbjct: 18 EKQALK----K-LQASLKLYADD----SAPALAIK---ATME 47
>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 = 30.4 bits (68), Expect = 0.73
Identities = 12/59 (20%), Positives = 21/59 (35%), Gaps = 3/59 (5%)
Query: 2 IAKRMGRKSIVAATGAGQHGVATAAACAKLALDCTVFMGTADMEKQSSKVLLMKLLGAQ 60
+ ++ G G +G+ CA A G EK+ S++ LL +
Sbjct: 296 LRTGPSNTEVIHNYGHGGYGLTIHWGCALEAAK---LFGRILEEKKLSRMPPSHLLVPR 351
>2v03_A Cysteine synthase B; pyridoxal phosphate, cysteine biosynthesis,
transferase, ENZ kinetics, enzymatic sythesis of novel
compounds; HET: LLP CIT; 1.33A {Escherichia coli} PDB:
2bhs_A* 2bht_A* 2jc3_A*
Length = 303
Score = 29.8 bits (68), Expect = 0.91
Identities = 13/56 (23%), Positives = 23/56 (41%)
Query: 225 EFYTATDQEAVQAYQRLCRLEGIFPALEASHALAFLEKLCPTLPNGAKVVVNCSGG 280
E ++A + L EGIF + + A+A ++ P+ V + C G
Sbjct: 228 EVLDIHQRDAENTMRELAVREGIFCGVSSGGAVAGALRVAAANPDAVVVAIICDRG 283
>1o58_A O-acetylserine sulfhydrylase; TM0665, structural genomics, J
protein structure initiative, joint center for
structural G transferase; 1.80A {Thermotoga maritima}
SCOP: c.79.1.1 PDB: 3fca_A*
Length = 303
Score = 28.6 bits (65), Expect = 2.0
Identities = 14/57 (24%), Positives = 24/57 (42%), Gaps = 1/57 (1%)
Query: 225 EFYTATDQEAVQAYQRLCRLEGIFPALEASHALAFLEKLCPTLPNGAKVVV-NCSGG 280
E T D+EA + + L + EG+ + + +A K+ L A+VV
Sbjct: 240 EVITVEDEEAYEMARYLAKKEGLLVGISSGANVAAALKVAQKLGPDARVVTVAPDHA 296
>2et6_A (3R)-hydroxyacyl-COA dehydrogenase; MFE-2, beta-oxidation,
peroxisome, SDR, oxido; 2.22A {Candida tropicalis}
Length = 604
Score = 28.5 bits (64), Expect = 3.0
Identities = 16/71 (22%), Positives = 25/71 (35%), Gaps = 7/71 (9%)
Query: 216 SFLRDTGRAEFYTATDQEAVQAYQRLCRLEGIFPALEASHALAFLEKLCPTLPNGAKVVV 275
+ + + A+ V ++ + G L +A F + GAKVVV
Sbjct: 299 TLTNEARKLPANDASGAPTVSLKDKVVLITGAGAGLGKEYAKWFAKY-------GAKVVV 351
Query: 276 NCSGGGDKDVD 286
N K VD
Sbjct: 352 NDFKDATKTVD 362
>4a9w_A Monooxygenase; baeyer-villiger, FAD, oxidoreductase; HET: FAD;
2.72A {Stenotrophomonas maltophilia}
Length = 357
Score = 27.7 bits (62), Expect = 4.4
Identities = 5/23 (21%), Positives = 9/23 (39%)
Query: 16 GAGQHGVATAAACAKLALDCTVF 38
G GQ G++ + L +
Sbjct: 10 GGGQSGLSAGYFLRRSGLSYVIL 32
>4eze_A Haloacid dehalogenase-like hydrolase; magnesium binding site,
enzyme function initiativ; 2.27A {Salmonella enterica
subsp}
Length = 317
Score = 27.8 bits (62), Expect = 4.7
Identities = 10/61 (16%), Positives = 19/61 (31%), Gaps = 15/61 (24%)
Query: 88 YLTGTVVGPHPCPIMVREFQSIIGKETRKQAMEKWGGKPDVLLA---CVGSGSNALGLFH 144
LT + P I+ +KQ + + ++ G G+N L +
Sbjct: 232 VLTDNITLP------------IMNAANKKQTLVDLAARLNIATENIIACGDGANDLPMLE 279
Query: 145 E 145
Sbjct: 280 H 280
>3n28_A Phosphoserine phosphatase; HAD family hydrolase, structural
genomics, PSI, protein STRU initiative, nysgrc; 2.30A
{Vibrio cholerae}
Length = 335
Score = 27.4 bits (61), Expect = 5.3
Identities = 21/103 (20%), Positives = 37/103 (35%), Gaps = 24/103 (23%)
Query: 54 MKLLGAQVKAVDGCFKEASSEAIRNWVG-------NLE-KSYYLTGTVVGPHPCPIMVRE 105
+ G +V G F S + ++ + LE S LTG V+G
Sbjct: 190 LHAFGWKVAIASGGFTYFS-DYLKEQLSLDYAQSNTLEIVSGKLTGQVLGE--------- 239
Query: 106 FQSIIGKETRKQAMEKWGGKPDVLLA---CVGSGSNALGLFHE 145
++ +T+ + + DV + VG G+N L +
Sbjct: 240 ---VVSAQTKADILLTLAQQYDVEIHNTVAVGDGANDLVMMAA 279
>3p96_A Phosphoserine phosphatase SERB; ssgcid, structural genomics,
structural genomics center for infectious disease,
hydrolas; 2.05A {Mycobacterium avium}
Length = 415
Score = 27.5 bits (61), Expect = 5.6
Identities = 24/102 (23%), Positives = 38/102 (37%), Gaps = 22/102 (21%)
Query: 54 MKLLGAQVKAVDGCFKEASSE-----AIRNWVGN-LE-KSYYLTGTVVGPHPCPIMVREF 106
++ LG V G F+ + N LE LTG VVGP
Sbjct: 268 LRRLGYACGVVSGGFRRIIEPLAEELMLDYVAANELEIVDGTLTGRVVGP---------- 317
Query: 107 QSIIGKETRKQAMEKWGGKPDVLLA---CVGSGSNALGLFHE 145
II + + A+ ++ + V +A VG G+N + +
Sbjct: 318 --IIDRAGKATALREFAQRAGVPMAQTVAVGDGANDIDMLAA 357
>3oml_A GH14720P, peroxisomal multifunctional enzyme type 2, CG3415;
rossmann fold, hot-DOG fold, hydratase 2 motif,
peroxisomes, oxidoreductase; 2.15A {Drosophila
melanogaster}
Length = 613
Score = 27.1 bits (60), Expect = 7.5
Identities = 15/44 (34%), Positives = 19/44 (43%), Gaps = 14/44 (31%)
Query: 254 SHALAFLEKLCPTLPNGAKVVVN-------CSGGGDKDVDTVVN 290
+AL F E+ GAKVVVN G + D VV+
Sbjct: 34 EYALLFAER-------GAKVVVNDLGGTHSGDGASQRAADIVVD 70
>1wkv_A Cysteine synthase; homodimer, open alpha/beta folding, transferase;
HET: PLP; 2.00A {Aeropyrum pernix} SCOP: c.79.1.1
Length = 389
Score = 26.9 bits (60), Expect = 7.9
Identities = 15/58 (25%), Positives = 22/58 (37%), Gaps = 2/58 (3%)
Query: 225 EFYTATDQEAVQAYQRLCRLEGIFPALEASHALAFLEKLC--PTLPNGAKVVVNCSGG 280
T +EA++A + R +G+ A+ L K L G VVV G
Sbjct: 314 TLAEVTLEEAMEAVVEVARSDGLVIGPSGGAAVKALAKKAAEGDLEPGDYVVVVPDTG 371
>3m1y_A Phosphoserine phosphatase (SERB); NYSGXRC, PSI II, phophoserine
phosphatase, protein structure initiative, structural
genomics; 2.40A {Helicobacter pylori}
Length = 217
Score = 26.8 bits (60), Expect = 8.3
Identities = 17/102 (16%), Positives = 34/102 (33%), Gaps = 22/102 (21%)
Query: 54 MKLLGAQVKAVDGCFKEASSE-----AIRNWVGN-LE-KSYYLTGTVVGPHPCPIMVREF 106
+K +V G F A++ + N L ++ L G V G
Sbjct: 87 LKEKNYKVVCFSGGFDLATNHYRDLLHLDAAFSNTLIVENDALNGLVTGH---------- 136
Query: 107 QSIIGKETRKQAMEKWGGKPDVLLA---CVGSGSNALGLFHE 145
++ ++ + + ++ VG G+N L +F
Sbjct: 137 --MMFSHSKGEMLLVLQRLLNISKTNTLVVGDGANDLSMFKH 176
>3dwg_A Cysteine synthase B; sulfur carrier protein complex, beta-grAsp
fold, amino-acid biosynthesis; HET: PLP; 1.53A
{Mycobacterium tuberculosis} PDB: 3fgp_A* 3dki_A*
3dwi_A*
Length = 325
Score = 26.8 bits (60), Expect = 8.4
Identities = 11/60 (18%), Positives = 19/60 (31%), Gaps = 4/60 (6%)
Query: 225 EFYTATDQEAVQAYQRLCRLEGIFPALEASHALAFLEKLCPTLPNGAK----VVVNCSGG 280
Y+ +AV+ + L EGIF + L + + +V G
Sbjct: 240 ARYSVGAVDAVRRTRELVHTEGIFAGISTGAVLHAALGVGAGALAAGERADIALVVADAG 299
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
0.318 0.135 0.401
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: 4,614,180
Number of extensions: 291394
Number of successful extensions: 879
Number of sequences better than 10.0: 1
Number of HSP's gapped: 841
Number of HSP's successfully gapped: 58
Length of query: 295
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 202
Effective length of database: 4,105,140
Effective search space: 829238280
Effective search space used: 829238280
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 (21.7 bits)
S2: 57 (25.9 bits)