RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5622
(269 letters)
>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 = 257 bits (659), Expect = 2e-85
Identities = 86/245 (35%), Positives = 127/245 (51%), Gaps = 25/245 (10%)
Query: 28 HLSELTKMEIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVISASLGNHAQAMCYHG 87
+ SE K EIFLK + Q TGSFK RGA L L+E +K+KGV++ S GNHAQ +
Sbjct: 48 YFSERCKGEIFLKFENMQRTGSFKIRGAFNKLSSLTEAEKRKGVVACSAGNHAQGVSLSC 107
Query: 88 SRLNIPVTVVMPIVAPIMKIQACRRYGATVIVEGADMKEAKNIALKKGAELGLTYINGYL 147
+ L I VVMP AP K+ A Y A V++ G + + + G +I
Sbjct: 108 AMLGIDGKVVMPKGAPKSKVAATCDYSAEVVLHGDNFNDTIAKVSEIVETEGRIFIP--- 164
Query: 148 SSGLSVLGYDHPDIMAGQGTVGLEIVDQVANIDAIVVPVGGGGLIAGVA----YDHPDIM 203
YD P ++AGQGT+GLEI++ + ++D ++VP+GGGGLIAG+A +P I
Sbjct: 165 -------PYDDPKVIAGQGTIGLEIMEDLYDVDNVIVPIGGGGLIAGIAIAIKSINPTI- 216
Query: 204 AGQGTVGLEIVDQGVESDRCASFSTAIKHGKPTPVSVQPTLADGLAVPLVGWNAFETAAP 263
+++ GV+++ + + G+ T TLADG V G +E
Sbjct: 217 --------KVI--GVQAENVHGMAASYYTGEITTHRTTGTLADGCDVSRPGNLTYEIVRE 266
Query: 264 LIDKM 268
L+D +
Sbjct: 267 LVDDI 271
>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 = 252 bits (645), Expect = 2e-83
Identities = 79/247 (31%), Positives = 121/247 (48%), Gaps = 25/247 (10%)
Query: 27 SHLSELTKMEIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVISASLGNHAQAMCYH 86
S +++ E+F K + FQ G+FK RGA AL L+E Q+K GV++ S GNHAQA+
Sbjct: 33 STVNKEFVAEVFFKCENFQKMGAFKFRGALNALSQLNEAQRKAGVLTFSSGNHAQAIALS 92
Query: 87 GSRLNIPVTVVMPIVAPIMKIQACRRYGATVIVEGADMKEAKNIALKKGAELGLTYINGY 146
L IP ++MP+ AP K+ A + YG VI+ + + +A + GLT I
Sbjct: 93 AKILGIPAKIIMPLDAPEAKVAATKGYGGQVIMYDRYKDDREKMAKEISEREGLTIIP-- 150
Query: 147 LSSGLSVLGYDHPDIMAGQGTVGLEIVDQVANIDAIVVPVGGGGLIAGVA----YDHPDI 202
YDHP ++AGQGT E+ ++V +DA+ V +GGGGL++G A + P+
Sbjct: 151 --------PYDHPHVLAGQGTAAKELFEEVGPLDALFVCLGGGGLLSGSALAARHFAPNC 202
Query: 203 MAGQGTVGLEIVDQGVESDRCASFSTAIKHGKPTPVSVQPTLADGLAVPLVGWNAFETAA 262
E+ GVE + + + G + T+ADG +G F
Sbjct: 203 ---------EVY--GVEPEAGNDGQQSFRKGSIVHIDTPKTIADGAQTQHLGNYTFSIIK 251
Query: 263 PLIDKMF 269
+D +
Sbjct: 252 EKVDDIL 258
>3l6b_A Serine racemase; pyridoxal phosphate, PLP, isomerase; HET: PLP;
1.50A {Homo sapiens} PDB: 3l6r_A* 3hmk_A* 3l6c_A*
Length = 346
Score = 238 bits (611), Expect = 5e-78
Identities = 81/251 (32%), Positives = 123/251 (49%), Gaps = 30/251 (11%)
Query: 27 SHLSELTKMEIFLKKDFFQVTGSFKERGACYALLMLSED---QKKKGVISASLGNHAQAM 83
S L++LT +F K + FQ TGSFK RGA A+ L D +K K V++ S GNH QA+
Sbjct: 32 SILNQLTGRNLFFKCELFQKTGSFKIRGALNAVRSLVPDALERKPKAVVTHSSGNHGQAL 91
Query: 84 CYHGSRLNIPVTVVMPIVAPIMKIQACRRYGATVIVEGADMKEAKNIALKKGAELGLTYI 143
Y IP +V+P AP K A + YGA+++ + +N+A + E +
Sbjct: 92 TYAAKLEGIPAYIVVPQTAPDCKKLAIQAYGASIVYCEPSDESRENVAKRVTEETEGIMV 151
Query: 144 NGYLSSGLSVLGYDHPDIMAGQGTVGLEIVDQVANIDAIVVPVGGGGLIAGVA----YDH 199
+ P ++AGQGT+ LE+++QV +DA+VVPVGGGG++AG+A
Sbjct: 152 H----------PNQEPAVIAGQGTIALEVLNQVPLVDALVVPVGGGGMLAGIAITVKALK 201
Query: 200 PDIMAGQGTVGLEIVDQGVESDRCASFSTAIKHGKPTPVSVQP-TLADGLAVPLVGWNAF 258
P + ++ E + GK P P T+ADG+ + G N +
Sbjct: 202 PSV---------KVY--AAEPSNADDCYQSKLKGKLMPNLYPPETIADGVKSSI-GLNTW 249
Query: 259 ETAAPLIDKMF 269
L+D +F
Sbjct: 250 PIIRDLVDDIF 260
>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 = 230 bits (590), Expect = 2e-75
Identities = 77/251 (30%), Positives = 111/251 (44%), Gaps = 33/251 (13%)
Query: 27 SHLSELTKMEIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVISASLGNHAQAMCYH 86
L L + LK + Q TGSFK RGA L L + KG+++ S GNHAQ + Y
Sbjct: 27 RLLDGLLGKRLLLKAEHLQKTGSFKARGALSKALAL---ENPKGLLAVSSGNHAQGVAYA 83
Query: 87 GSRLNIPVTVVMPIVAPIMKIQACRRYGATVIVEGADMKEAKNIALKKGAELGLTYINGY 146
L + VVMP A K R YGA V+ G K + +A E G I+
Sbjct: 84 AQVLGVKALVVMPEDASPYKKACARAYGAEVVDRGVTAKNREEVARALQEETGYALIH-- 141
Query: 147 LSSGLSVLGYDHPDIMAGQGTVGLEIVDQVANI----DAIVVPVGGGGLIAGVA----YD 198
+D P ++AGQGT GLE++ Q + A++ PVGGGGL+AG+A
Sbjct: 142 --------PFDDPLVIAGQGTAGLELLAQAGRMGVFPGAVLAPVGGGGLLAGLATAVKAL 193
Query: 199 HPDIMAGQGTVGLEIVDQGVESDRCASFSTAIKHGKPTPVSVQP-TLADGLAVPLVGWNA 257
P ++ GVE + +++ G+ + P T ADG+ +G
Sbjct: 194 SPTT---------LVL--GVEPEAADDAKRSLEAGRILRLEAPPRTRADGVRTLSLGERT 242
Query: 258 FETAAPLIDKM 268
F +D +
Sbjct: 243 FPILRERVDGI 253
>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 = 228 bits (584), Expect = 9e-74
Identities = 93/245 (37%), Positives = 127/245 (51%), Gaps = 25/245 (10%)
Query: 28 HLSELTKMEIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVISASLGNHAQAMCYHG 87
LS+ + ++K++ Q SFK RGA + LS ++ KGVI+AS GNHAQ + G
Sbjct: 68 KLSDRLGVNFYIKREDKQRVFSFKLRGAYNMMSNLSREELDKGVITASAGNHAQGVALAG 127
Query: 88 SRLNIPVTVVMPIVAPIMKIQACRRYGATVIVEGADMKEAKNIALKKGAELGLTYINGYL 147
RLN +VMP P +KI A R G V++ G EA+ AL+ + GL YI
Sbjct: 128 QRLNCVAKIVMPTTTPQIKIDAVRALGGDVVLYGKTFDEAQTHALELSEKDGLKYIP--- 184
Query: 148 SSGLSVLGYDHPDIMAGQGTVGLEIVDQVANIDAIVVPVGGGGLIAGVA----YDHPDIM 203
+D P ++ GQGT+G EI Q+ +I A+ +PVGGGGLIAGVA P+
Sbjct: 185 -------PFDDPGVIKGQGTIGTEINRQLKDIHAVFIPVGGGGLIAGVATFFKQIAPNT- 236
Query: 204 AGQGTVGLEIVDQGVESDRCASFSTAIKHGKPTPVSVQPTLADGLAVPLVGWNAFETAAP 263
+I+ GVE AS + ++ G +S T ADG+AV LVG F
Sbjct: 237 --------KII--GVEPYGAASMTLSLHEGHRVKLSNVDTFADGVAVALVGEYTFAKCQE 286
Query: 264 LIDKM 268
LID M
Sbjct: 287 LIDGM 291
>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 = 232 bits (594), Expect = 2e-73
Identities = 83/245 (33%), Positives = 127/245 (51%), Gaps = 25/245 (10%)
Query: 28 HLSELTKMEIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVISASLGNHAQAMCYHG 87
LS I +K++ Q SFK RGA + L+E+QK GVI+AS GNHAQ + +
Sbjct: 39 KLSSRLDNVILVKREDRQPVHSFKLRGAYAMMAGLTEEQKAHGVITASAGNHAQGVAFSS 98
Query: 88 SRLNIPVTVVMPIVAPIMKIQACRRYGATVIVEGADMKEAKNIALKKGAELGLTYINGYL 147
+RL + +VMP +K+ A R +G V++ GA+ EAK A++ + G T++
Sbjct: 99 ARLGVKALIVMPTATADIKVDAVRGFGGEVLLHGANFDEAKAKAIELSQQQGFTWVP--- 155
Query: 148 SSGLSVLGYDHPDIMAGQGTVGLEIVDQVANIDAIVVPVGGGGLIAGVA----YDHPDIM 203
+DHP ++AGQGT+ LE++ Q A++D + VPVGGGGL AGVA P I
Sbjct: 156 -------PFDHPMVIAGQGTLALELLQQDAHLDRVFVPVGGGGLAAGVAVLIKQLMPQI- 207
Query: 204 AGQGTVGLEIVDQGVESDRCASFSTAIKHGKPTPVSVQPTLADGLAVPLVGWNAFETAAP 263
+++ VE++ A A+ G P + A+G+AV +G F
Sbjct: 208 --------KVI--AVEAEDSACLKAALDAGHPVDLPRVGLFAEGVAVKRIGDETFRLCQE 257
Query: 264 LIDKM 268
+D +
Sbjct: 258 YLDDI 262
>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 = 221 bits (566), Expect = 1e-71
Identities = 57/247 (23%), Positives = 95/247 (38%), Gaps = 28/247 (11%)
Query: 28 HLSELTKMEIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVISASLGNHAQAMCYHG 87
LS++ M +FLK + Q +GSFK RG + +++ + + ++ +S GN A Y
Sbjct: 15 ALSQVAGMPVFLKCENVQPSGSFKIRGIGHFCQEMAK-KGCRHLVCSSGGNAGIAAAYAA 73
Query: 88 SRLNIPVTVVMPIVAPIMKIQACRRYGATVIVEGADMKEAKNIALKKGAELGLTYINGYL 147
+L IP T+V+P + +Q + GA V + G EA A + G +
Sbjct: 74 RKLGIPATIVLPESTSLQVVQRLQGEGAEVQLTGKVWDEANLRAQELAKRDGWENVP--- 130
Query: 148 SSGLSVLGYDHPDIMAGQGTVGLEIVDQVAN--IDAIVVPVGGGGLIAGVAY----DHPD 201
+DHP I G ++ E+ + ++ GGG L VA
Sbjct: 131 -------PFDHPLIWKGHASLVQELKAVLRTPPGALVLAVGGGGLLAGVVAGLLEVGWQH 183
Query: 202 IMAGQGTVGLEIVDQGVESDRCASFSTAIKHGKPTPVSVQPTLADGLAVPLVGWNAFETA 261
+ I+ +E+ F+ AI GK + ++A L V A E
Sbjct: 184 V---------PII--AMETHGAHCFNAAITAGKLVTLPDITSVAKSLGAKTVAARALECM 232
Query: 262 APLIDKM 268
Sbjct: 233 QVCKIHS 239
>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 = 222 bits (567), Expect = 4e-71
Identities = 64/248 (25%), Positives = 100/248 (40%), Gaps = 29/248 (11%)
Query: 28 HLSELTKMEIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVISASLGNHAQAMCYHG 87
LS++ ++LK D Q +GSFK RG + ++ Q + +S GN A Y
Sbjct: 54 ALSKMAGTSVYLKMDSAQPSGSFKIRGIGHFCKRWAK-QGCAHFVCSSAGNAGMAAAYAA 112
Query: 88 SRLNIPVTVVMPIVAPIMKIQACRRYGATVIVEGADMKEAKNIALKKGAE-LGLTYINGY 146
+L +P T+V+P P + I+ + GAT V G + EA +A G YI
Sbjct: 113 RQLGVPATIVVPGTTPALTIERLKNEGATCKVVGELLDEAFELAKALAKNNPGWVYIP-- 170
Query: 147 LSSGLSVLGYDHPDIMAGQGTVGLEIVDQV-ANIDAIVVPVGGGGLIAGVA-----YDHP 200
+D P I G ++ E+ + + AI + VGGGGL+ GV
Sbjct: 171 --------PFDDPLIWEGHASIVKELKETLWEKPGAIALSVGGGGLLCGVVQGLQECGWG 222
Query: 201 DIMAGQGTVGLEIVDQGVESDRCASFSTAIKHGKPTPVSVQPTLADGLAVPLVGWNAFET 260
D+ ++ +E+ SF A GK + ++A L V VG A +
Sbjct: 223 DV---------PVI--AMETFGAHSFHAATTAGKLVSLPKITSVAKALGVKTVGSQALKL 271
Query: 261 AAPLIDKM 268
Sbjct: 272 FQEHPIFS 279
>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 = 157 bits (399), Expect = 7e-46
Identities = 46/265 (17%), Positives = 89/265 (33%), Gaps = 33/265 (12%)
Query: 27 SHLSELTKM-EIFLKKDFFQV-TGSFKERGACYALLMLSEDQ------------------ 66
L+ L + +I +K + + +F G YA+ L ++
Sbjct: 51 DDLANLFGVKKILVKDESKRFGLNAFXMLGGAYAIAQLLCEKYHLDIETLSFEHLKNAIG 110
Query: 67 KKKGVISASLGNHAQAMCYHGSRLNIPVTVVMPIVAPIMKIQACRRYGATVIVEGADMKE 126
+K + + GNH + + + +L + MP + ++ A GA IV + +
Sbjct: 111 EKMTFATTTDGNHGRGVAWAAQQLGQNAVIYMPKGSAQERVDAILNLGAECIVTDMNYDD 170
Query: 127 AKNIALKKGAELGLTYINGYLSSGLSVLGYDHPDIMAGQGTVGLEIVDQVAN----IDAI 182
+ ++ + G + G + IM G T+ E V+Q+ +
Sbjct: 171 TVRLTMQHAQQHGWEVVQDTAWEGYT---KIPTWIMQGYATLADEAVEQMREMGVTPTHV 227
Query: 183 VVPVGGGGLIAGVAYDHPDIMAGQGTVGLEIVDQGVESDRCASFSTAIKHGKPTPVSVQ- 241
++ G G + GV D+ + Q + VE D+ + G V
Sbjct: 228 LLQAGVGAMAGGVLGYLVDVYSPQNL---HSI--IVEPDKADCIYRSGVKGDIVNVGGDM 282
Query: 242 PTLADGLAVPLVGWNAFETAAPLID 266
T+ GLA +E
Sbjct: 283 ATIMAGLACGEPNPLGWEILRNCAT 307
>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 = 151 bits (384), Expect = 2e-43
Identities = 56/279 (20%), Positives = 81/279 (29%), Gaps = 70/279 (25%)
Query: 36 EIFLKKD-FFQVTGSFKERGACYALLMLSEDQ-------------------------KKK 69
++ LKKD ++GS K RG Y +L +E +
Sbjct: 102 QLLLKKDSHLPISGSIKARGGIYEVLAHAEKLALEAGLLTLDDDYSKLLSPEFKQFFSQY 161
Query: 70 GVISASLGNHAQAMCYHGSRLNIPVTVVMPIVAPIMKIQACRRYGATVIVEGADMKEAKN 129
+ S GN ++ +R+ VTV M A K R +G TV+ D A
Sbjct: 162 SIAVGSTGNLGLSIGIMSARIGFKVTVHMSADARAWKKAKLRSHGVTVVEYEQDYGVAVE 221
Query: 130 IALKKGAELGLTYINGYLSSGLSVLGYDHPDIMAGQGTVGLEIVDQVANIDA-------- 181
K + + + + G G + Q A
Sbjct: 222 EGRKAAQSDPNCFF---------IDDENSRTLFLGYSVAGQRLKAQFAQQGRIVDADNPL 272
Query: 182 -IVVPVGGGGLIAGVAY-------DHPDIMAGQGTVGLEIVDQGVESDRCASFSTAIKHG 233
+ +P G GG GVA+ DH E + G
Sbjct: 273 FVYLPCGVGGGPGGVAFGLKLAFGDHVHCF-------------FAEPTHSPCMLLGVHTG 319
Query: 234 KPTPVSVQ------PTLADGLAVPLVGWNAFETAAPLID 266
+SVQ T ADGLAV L+D
Sbjct: 320 LHDQISVQDIGIDNLTAADGLAVGRASGFVGRAMERLLD 358
>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 = 113 bits (284), Expect = 6e-29
Identities = 47/230 (20%), Positives = 83/230 (36%), Gaps = 31/230 (13%)
Query: 36 EIFLKKDFFQVTGSFKERGACYALLMLSEDQKK----KGVISASLGNHAQAMCYHGSRLN 91
++++K TGSFK+ G + ++ +K GV AS G+ + A+ + +
Sbjct: 148 DLWVKHCGISHTGSFKDLGMTVLVSQVNRLRKMKRPVVGVGCASTGDTSAALSAYCASAG 207
Query: 92 IPVTVVMPIVAPIM-KIQACRRYGATVIVEGADMKEAKNIALKKGAELGLTYINGYLSSG 150
IP V +P M ++ GA V+ D + + AEL + N
Sbjct: 208 IPSIVFLPANKISMAQLVQPIANGAFVLSIDTDFDGCMKLIREITAELPIYLANSL---- 263
Query: 151 LSVLGYDHPDIMAGQGTVGLEIVDQVANI--DAIVVPVGGGGLIAGVAYDHPDIMAGQGT 208
+ + GQ T +EI+ Q D ++VP G G I +
Sbjct: 264 -------NSLRLEGQKTAAIEILQQFDWQVPDWVIVPGGNLGNIYAFY------KGFKXC 310
Query: 209 VGLEIVDQ-----GVESDRCASFSTAIKHGK--PTPVSVQPTLADGLAVP 251
L +VD+ ++ K G P++ T A + +
Sbjct: 311 QELGLVDRIPRMVCAQAANANPLYLHYKSGWKDFKPMTASTTFASAIQIG 360
>2d1f_A Threonine synthase; amino acid synthesis, pyridoxal-5'-phosphate,
PLP, lyase; HET: PLP; 2.50A {Mycobacterium tuberculosis}
Length = 360
Score = 110 bits (276), Expect = 3e-28
Identities = 55/232 (23%), Positives = 92/232 (39%), Gaps = 32/232 (13%)
Query: 28 HLSELTKMEIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVISASLGNHAQAMCYHG 87
+LS+ T I LK + TGSFK+RG A+ ++ V+ AS GN + + +
Sbjct: 46 NLSKQTGCTIHLKVEGLNPTGSFKDRGMTMAVTDALA-HGQRAVLCASTGNTSASAAAYA 104
Query: 88 SRLNIPVTVVMPIVAPIM-KIQACRRYGATVI-VEGADMKEAKNIALKKGAELGLTYING 145
+R I V++P M K+ +GA +I ++G + + +A K A+ +
Sbjct: 105 ARAGITCAVLIPQGKIAMGKLAQAVMHGAKIIQIDG-NFDDCLELARKMAADFPTISLVN 163
Query: 146 YLSSGLSVLGYDHPDIMAGQGTVGLEIVDQVANI-DAIVVPVGGGGLIAGVAYDHPDIMA 204
+ +P + GQ T EIVD + D +PVG G I
Sbjct: 164 SV----------NPVRIEGQKTAAFEIVDVLGTAPDVHALPVGNAGNITAYW------KG 207
Query: 205 GQGTVGLEIVDQ-----GVESDRCASFSTAIKHGKPTPVSVQPTLADGLAVP 251
L ++D+ G ++ A PVS T+A + +
Sbjct: 208 YTEYHQLGLIDKLPRMLGTQAAGAAPLVLG------EPVSHPETIATAIRIG 253
>3aey_A Threonine synthase; PLP, pyridoxal phosphate, lyase; 1.92A {Thermus
thermophilus} PDB: 1uin_A* 1uim_A* 3aex_A* 1v7c_A
Length = 351
Score = 109 bits (274), Expect = 4e-28
Identities = 52/236 (22%), Positives = 88/236 (37%), Gaps = 33/236 (13%)
Query: 24 SKKSHLSELTKMEIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVISASLGNHAQAM 83
K + + ++ K + TGSFK+RG A+ E + V AS GN A +
Sbjct: 34 LKGPEEARKKGIRLYAKYEGLNPTGSFKDRGMTLAVSKAVE-GGAQAVACASTGNTAASA 92
Query: 84 CYHGSRLNIPVTVVMPIVAP-IMKIQACRRYGATVI-VEGADMKEAKNIALKKGAELGLT 141
+ +R I VV+P + K+ +GA ++ VEG + +A + K +
Sbjct: 93 AAYAARAGILAIVVLPAGYVALGKVAQSLVHGARIVQVEG-NFDDALRLTQKLTEAFPVA 151
Query: 142 YINGYLSSGLSVLGYDHPDIMAGQGTVGLEIVDQVANI-DAIVVPVGGGGLIAGVAYDHP 200
+N +P + GQ T+ E+VD++ + +PVG G I
Sbjct: 152 LVNSV-----------NPHRLEGQKTLAFEVVDELGDAPHYHALPVGNAGNITAHW---- 196
Query: 201 DIMAGQGTVGLEIVDQ-----GVESDRCASFSTAIKHGKPTPVSVQPTLADGLAVP 251
M + L + G ++ A PV TLA + +
Sbjct: 197 --MGYKAYHALGKAKRLPRMLGFQAAGAAPLVLG------RPVERPETLATAIRIG 244
>2zsj_A Threonine synthase; PLP dependent enzyme, lyase; HET: PLP; 1.80A
{Aquifex aeolicus}
Length = 352
Score = 104 bits (262), Expect = 2e-26
Identities = 55/226 (24%), Positives = 89/226 (39%), Gaps = 33/226 (14%)
Query: 34 KMEIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVISASLGNHAQAMCYHGSRLNIP 93
K +I+LK + TGSFK+RG A+ E K+ VI AS GN + + + +R +
Sbjct: 46 KGKIYLKYEGLNPTGSFKDRGMTLAISKAVE-AGKRAVICASTGNTSASAAAYAARAGLR 104
Query: 94 VTVVMPIVAP-IMKIQACRRYGATVI-VEGADMKEAKNIALKKGAELGLTYINGYLSSGL 151
V++P A I K+ YGA V+ ++G +A NI K G + +N
Sbjct: 105 AYVLLPKGAVAIGKLSQAMIYGAKVLAIQG-TFDDALNIVRKIGENFPVEIVNSV----- 158
Query: 152 SVLGYDHPDIMAGQGTVGLEIVDQVANI-DAIVVPVGGGGLIAGVAYDHPDIMAGQGTVG 210
+P + GQ T EI D + D +PVG G I +
Sbjct: 159 ------NPYRIEGQKTAAFEICDTLGEAPDYHFIPVGNAGNITAYW------KGFKIYYE 206
Query: 211 LEIVDQ-----GVESDRCASFSTAIKHGKPTPVSVQPTLADGLAVP 251
+ + G +++ A P+ T+A + +
Sbjct: 207 EGKITKLPRMMGWQAEGAAPIVKGY------PIKNPQTIATAIKIG 246
>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 = 42.7 bits (100), Expect = 6e-05
Identities = 42/195 (21%), Positives = 63/195 (32%), Gaps = 16/195 (8%)
Query: 27 SHLSELTKMEIFLKKDFFQ--VTGSFKERGACYALL-MLSEDQKKKGVISASLGNHAQAM 83
++S ++++K+D G K R Y L LS+ + A NHA
Sbjct: 28 PNISREIGADVYIKRDDLTGLGIGGNKIRKLEYLLGDALSKGADVVITVGAVHSNHAFVT 87
Query: 84 CYHGSRLNIPVTVVM---PIVAPIMKIQACRRYGATVIVEGADMKEAKNIALKKGAELGL 140
+L + +V+ + + V D E A + EL
Sbjct: 88 GLAAKKLGLDAILVLRGKEELKGNYLLDKIMGIETRVYDAK-DSFELMKYAEEIAEELKR 146
Query: 141 TYINGYLSSGLSVLGYDHPDIMAGQGTVGLEIVDQV-ANIDAIVVPVGGG----GLIAGV 195
Y+ G P G EI Q D+IVV G G GL G+
Sbjct: 147 EGRKPYVIPP----GGASPIGTLGYVRAVGEIATQSEVKFDSIVVAAGSGGTLAGLSLGL 202
Query: 196 AYDHPDIMAGQGTVG 210
+ + DI VG
Sbjct: 203 SILNEDIRPVGIAVG 217
>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 = 37.0 bits (85), Expect = 0.006
Identities = 47/245 (19%), Positives = 76/245 (31%), Gaps = 78/245 (31%)
Query: 8 HCGQDLGFVIRD----------QWFNSKKSH-LSE-LTKM-------------EIFLKKD 42
H GF I D F +K + E + M +IF + +
Sbjct: 1652 HFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEIN 1711
Query: 43 FFQVTGSFK-ERGACY-------ALLMLS----EDQKKKGVISA-------SLGNHAQAM 83
+ +F+ E+G AL ++ ED K KG+I A SLG +A A+
Sbjct: 1712 EHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYA-AL 1770
Query: 84 CYHGSRLNIPVTVVMPIV---------APIMKIQACRRYG-ATV----IVEGADMKEAKN 129
++I V +V A YG + + + +
Sbjct: 1771 ASLADVMSIESLV--EVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQY 1828
Query: 130 IALKKGAELG--LTYINGYLSSGLSVLGYDHPDIMAGQGTVGLEIVDQVAN------IDA 181
+ + G G + +N Y + AG L+ V V N ID
Sbjct: 1829 VVERVGKRTGWLVEIVN-YNVENQQY-------VAAGD-LRALDTVTNVLNFIKLQKIDI 1879
Query: 182 IVVPV 186
I +
Sbjct: 1880 IELQK 1884
Score = 30.0 bits (67), Expect = 0.88
Identities = 41/235 (17%), Positives = 74/235 (31%), Gaps = 91/235 (38%)
Query: 1 MSALKSVHCGQDLGFVIRDQWFNSKKSHLSELTKMEIFLK--KDFFQVTGSFKE-RGACY 57
M ++ ++ Q +V + NS HL ++EI L V+G + G
Sbjct: 338 MLSISNLTQEQVQDYVNK---TNS---HLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNL 391
Query: 58 ALLMLS----EDQ--------KKKGV-----ISA----SLGNHAQAM----------CYH 86
L DQ K K +++ L A + ++
Sbjct: 392 TLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFN 451
Query: 87 GSRLNIPVTVVMPIVAPIMKIQACRRYGATVIVEGADMKEAK-NIALK------------ 133
+ IPV Y T +G+D++ +I+ +
Sbjct: 452 AKDIQIPV------------------Y-DT--FDGSDLRVLSGSISERIVDCIIRLPVKW 490
Query: 134 -KGAELGLTYINGYL------SSGLSVLGYDHPDIMAGQGTVGLEIVDQVANIDA 181
+ T+I L +SGL VL + + D GT G+ ++ +D
Sbjct: 491 ETTTQFKATHI---LDFGPGGASGLGVLTHRNKD-----GT-GVRVI-VAGTLDI 535
>1y7l_A O-acetylserine sulfhydrylase, O-acetylserine (thiol)-lyase; X-RAY
crystallography, sulfhydrylase; HET: LLP; 1.55A
{Haemophilus influenzae} SCOP: c.79.1.1 PDB: 3iqg_X*
3iqh_X* 3iqi_X* 1fcj_A* 1oas_A* 1d6s_A*
Length = 316
Score = 35.6 bits (83), Expect = 0.012
Identities = 41/187 (21%), Positives = 69/187 (36%), Gaps = 53/187 (28%)
Query: 36 EIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVIS-------ASLGNHAQAMCYHGS 88
+ +K + + S K R M+ +K G ++ A+ GN A+ Y +
Sbjct: 27 NVVVKIEGRNPSYSVKCR---IGANMV-WQAEKDGTLTKGKEIVDATSGNTGIALAYVAA 82
Query: 89 RLNIPVTVVMPIVAPIMKIQACRR-----YGATVIV-EGAD-MKEAKNIALKKGAELGLT 141
+T+ MP M ++ R+ G +++ EGA MK A + K E+ +
Sbjct: 83 ARGYKITLTMP---ETMSLE--RKRLLCGLGVNLVLTEGAKGMKGA----IAKAEEIVAS 133
Query: 142 YINGYLSSGLSVLGYDHPDIMAGQ-----------GTVGLEIVDQVA-NIDAIVVPVGGG 189
+ Y +M Q T G EI +D +V VG G
Sbjct: 134 DPSRY--------------VMLKQFENPANPQIHRETTGPEIWKDTDGKVDVVVAGVGTG 179
Query: 190 GLIAGVA 196
G I G++
Sbjct: 180 GSITGIS 186
>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 = 35.8 bits (83), Expect = 0.012
Identities = 43/179 (24%), Positives = 67/179 (37%), Gaps = 35/179 (19%)
Query: 36 EIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKG-------VISASLGN-------HAQ 81
E+ K +FF GS K+R +L M+ ED ++ G +I + GN A
Sbjct: 126 ELLAKCEFFNAGGSVKDR---ISLRMI-EDAERDGTLKPGDTIIEPTSGNTGIGLALAAA 181
Query: 82 AMCYHGSRLNIPVTVVMPIVAPIMKIQACRRYGATVIV-EGADMKEAKNIALKKGAELGL 140
Y +VMP K+ R GA ++ ++ + L
Sbjct: 182 VRGYR-------CIIVMPEKMSSEKVDVLRALGAEIVRTPTNARFDSPESHVGVAWRLKN 234
Query: 141 TYINGYLSSGLSVLG-YDHPD-IMAGQGTVGLEIVDQVA-NIDAIVVPVGGGGLIAGVA 196
N + +L Y + +A T EI+ Q +D +V VG GG I G+A
Sbjct: 235 EIPNSH------ILDQYRNASNPLAHYDTTADEILQQCDGKLDMLVASVGTGGTITGIA 287
>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 = 34.8 bits (81), Expect = 0.021
Identities = 50/185 (27%), Positives = 73/185 (39%), Gaps = 53/185 (28%)
Query: 36 EIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVISASL-----GNHAQAMCYHGSRL 90
IFLK + GS K+R AL M+ D +K+G++ + GN A+ G++
Sbjct: 32 RIFLKLEKNNPGGSVKDR---PALFMI-LDAEKRGLLKNGIVEPTSGNMGIAIAMIGAKR 87
Query: 91 NIPVTVVMPIVAPIMKIQACRR-----YGATVIV-EGAD-MKEAKNIALKKGAELGLTYI 143
V + MP M ++ RR GA +++ G MK A ++K E+
Sbjct: 88 GHRVILTMP---ETMSVE--RRKVLKMLGAELVLTPGELGMKGA----VEKALEISRE-- 136
Query: 144 NGYLSSGLSVLGYDHPDIMAGQ-----------GTVGLEIVDQVA-NIDAIVVPVGGGGL 191
M Q T G EI+ Q+ IDA V VG GG
Sbjct: 137 --------------TGAHMLNQFENPYNVYSHQFTTGPEILKQMDYQIDAFVAGVGTGGT 182
Query: 192 IAGVA 196
I+GV
Sbjct: 183 ISGVG 187
>2pqm_A Cysteine synthase; OASS, PLP, lyase; HET: PLP; 1.86A {Entamoeba
histolytica} PDB: 3bm5_A*
Length = 343
Score = 34.5 bits (80), Expect = 0.024
Identities = 38/186 (20%), Positives = 66/186 (35%), Gaps = 52/186 (27%)
Query: 36 EIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVIS-------ASLGNHAQAMCYHGS 88
I +K ++F S K+R ++ K G + ++ GN A+C G+
Sbjct: 43 RILVKLEYFNPMSSVKDR---VGFNIV-YQAIKDGRLKPGMEIIESTSGNTGIALCQAGA 98
Query: 89 RLNIPVTVVMPIVAPIMKIQACRR-----YGATVIV-EGAD-MKEAKNIALKKGAELGLT 141
V + MP M ++ R+ +GA +I+ EG M A +++ ++
Sbjct: 99 VFGYRVNIAMP---STMSVE--RQMIMKAFGAELILTEGKKGMPGA----IEEVNKMIKE 149
Query: 142 YINGYLSSGLSVLGYDHPDIMAGQ----------GTVGLEIVDQVA-NIDAIVVPVGGGG 190
Y +A Q EI + +D +V VG G
Sbjct: 150 NPGKY--------------FVANQFGNPDNTAAHHYTANEIWEDTDGEVDIVVSAVGTSG 195
Query: 191 LIAGVA 196
+ GVA
Sbjct: 196 TVIGVA 201
>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 = 34.5 bits (80), Expect = 0.025
Identities = 34/201 (16%), Positives = 63/201 (31%), Gaps = 45/201 (22%)
Query: 17 IRDQWFNSKKSHLSELTKMEIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVIS--- 73
+ Q + + + + ++ K + TGS K+R A+ M+ E + G++
Sbjct: 19 VGLQRLSPRWDDGRDGPHVRLWAKLEDRNPTGSIKDR---PAVRMI-EQAEADGLLRPGA 74
Query: 74 ----ASLGNHAQAMCYHGSRLNIPVTVVMPIVAPIMKIQACRRYGATVI-VEGAD-MKEA 127
+ GN ++ + VMP + + Q YGA +I A
Sbjct: 75 TILEPTSGNTGISLAMAARLKGYRLICVMPENTSVERRQLLELYGAQIIFSAAEGGSNTA 134
Query: 128 KNIALKKGAELGLTYINGYLSSGLSVLGYDHPD-IMAGQ-----------GTVGLEIVDQ 175
A + A +P +M Q G E++
Sbjct: 135 VATAKELAAT--------------------NPSWVMLYQYGNPANTDSHYCGTGPELLAD 174
Query: 176 VANIDAIVVPVGGGGLIAGVA 196
+ I V +G G + G
Sbjct: 175 LPEITHFVAGLGTTGTLMGTG 195
>2q3b_A Cysteine synthase A; pyridoxal-5'-phosphate, sulphur metabolism,
cysteine biosynthesis, transferase; HET: LLP; 1.80A
{Mycobacterium tuberculosis} PDB: 2q3c_A* 2q3d_A* 3rr2_A
Length = 313
Score = 34.0 bits (79), Expect = 0.033
Identities = 45/196 (22%), Positives = 70/196 (35%), Gaps = 54/196 (27%)
Query: 27 SHLSELTKMEIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVIS-------ASLGNH 79
+++ +I K +FF S K+R + ML + ++ G+I + GN
Sbjct: 23 RRVTDGAVADIVAKLEFFNPANSVKDR---IGVAML-QAAEQAGLIKPDTIILEPTSGNT 78
Query: 80 AQAMCYHGSRLNIPVTVVMPIVAPIMKIQACRR-----YGATVIV-EGAD-MKEAKNIAL 132
A+ + + MP M ++ RR YGA +I+ GAD M A +
Sbjct: 79 GIALAMVCAARGYRCVLTMP---ETMSLE--RRMLLRAYGAELILTPGADGMSGA----I 129
Query: 133 KKGAELGLTYINGYLSSGLSVLGYDHPDIMAGQ-----------GTVGLEIVDQVA-NID 180
K EL T + + Q T E+ +D
Sbjct: 130 AKAEELAKTDQRYF---------------VPQQFENPANPAIHRVTTAEEVWRDTDGKVD 174
Query: 181 AIVVPVGGGGLIAGVA 196
+V VG GG I GVA
Sbjct: 175 IVVAGVGTGGTITGVA 190
>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 = 34.0 bits (79), Expect = 0.034
Identities = 43/191 (22%), Positives = 68/191 (35%), Gaps = 45/191 (23%)
Query: 27 SHLSELTKMEIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVIS-------ASLGNH 79
+ E++LK + GS K+R AL M+ + +K+G I A+ GN
Sbjct: 17 QRMGPDNGSEVWLKLEGNNPAGSVKDR---AALSMI-VEAEKRGEIKPGDVLIEATSGNT 72
Query: 80 AQAMCYHGSRLNIPVTVVMPIVAPIMKIQACRRYGATVI-VEGAD-MKEAKNIALKKGAE 137
A+ + + ++MP + A R YGA +I V M+ A+++AL+
Sbjct: 73 GIALAMIAALKGYRMKLLMPDNMSQERRAAMRAYGAELILVTKEQGMEGARDLALEMANR 132
Query: 138 LGLTYINGYLSSGLSVLGYDHPDIMAGQ-----------GTVGLEIVDQVA-NIDAIVVP 185
+ Q T G EI Q I V
Sbjct: 133 --------------------GEGKLLDQFNNPDNPYAHYTTTGPEIWQQTGGRITHFVSS 172
Query: 186 VGGGGLIAGVA 196
+G G I GV+
Sbjct: 173 MGTTGTITGVS 183
>4aec_A Cysteine synthase, mitochondrial; lyase, cysteine synthesis,
assimilatory sulfate reduction, S plant inorganic sulfur
uptake; HET: PLP; 2.40A {Arabidopsis thaliana}
Length = 430
Score = 34.3 bits (79), Expect = 0.038
Identities = 41/197 (20%), Positives = 69/197 (35%), Gaps = 55/197 (27%)
Query: 27 SHLSELTKMEIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVISASL--------GN 78
+ +++ I K + + S K+R M+ D ++KG IS GN
Sbjct: 130 NSIAKGCVANIAAKLEIMEPCCSVKDR---IGYSMV-TDAEQKGFISPGKSVLVEPTSGN 185
Query: 79 HAQAMCYHGSRLNIPVTVVMPIVAPIMKIQACRR-----YGATVIV-EGAD-MKEAKNIA 131
+ + + + + MP M ++ RR +GA +++ + A M A
Sbjct: 186 TGIGLAFIAASRGYRLILTMP---ASMSME--RRVLLKAFGAELVLTDPAKGMTGA---- 236
Query: 132 LKKGAELGLTYINGYLSSGLSVLGYDHPDIMAGQ-----------GTVGLEIVDQVA-NI 179
++K E+ + Y M Q T G EI D +
Sbjct: 237 VQKAEEILKNTPDAY---------------MLQQFDNPANPKIHYETTGPEIWDDTKGKV 281
Query: 180 DAIVVPVGGGGLIAGVA 196
D V +G GG I GV
Sbjct: 282 DIFVAGIGTGGTITGVG 298
>1z7w_A Cysteine synthase; transferase; HET: PLP; 2.20A {Arabidopsis
thaliana} SCOP: c.79.1.1 PDB: 1z7y_A* 2isq_A*
Length = 322
Score = 34.0 bits (79), Expect = 0.041
Identities = 39/192 (20%), Positives = 64/192 (33%), Gaps = 45/192 (23%)
Query: 27 SHLSELTKMEIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVISASL--------GN 78
++++E + K + + S K+R M+ D +KKG+I GN
Sbjct: 22 NNVAEGCVGRVAAKLEMMEPCSSVKDR---IGFSMI-SDAEKKGLIKPGESVLIEPTSGN 77
Query: 79 HAQAMCYHGSRLNIPVTVVMPIVAPIMKIQACRRYGATVIV-EGAD-MKEAKNIALKKGA 136
+ + + + + MP + +G +++ + A MK A + K
Sbjct: 78 TGVGLAFTAAAKGYKLIITMPASMSTERRIILLAFGVELVLTDPAKGMKGA----IAKAE 133
Query: 137 ELGLTYINGYLSSGLSVLGYDHPDIMAGQ-----------GTVGLEIVDQVA-NIDAIVV 184
E+ NGY M Q T G EI ID V
Sbjct: 134 EILAKTPNGY---------------MLQQFENPANPKIHYETTGPEIWKGTGGKIDGFVS 178
Query: 185 PVGGGGLIAGVA 196
+G GG I G
Sbjct: 179 GIGTGGTITGAG 190
>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 = 33.8 bits (78), Expect = 0.045
Identities = 41/183 (22%), Positives = 66/183 (36%), Gaps = 43/183 (23%)
Query: 36 EIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKG-------VISASLGN-------HAQ 81
E++ K +F GS K+R M+ +D +++G +I + GN
Sbjct: 78 EMYAKCEFLNPGGSVKDR---IGYRMV-QDAEEQGLLKPGYTIIEPTSGNTGIGLAMACA 133
Query: 82 AMCYHGSRLNIPVTVVMPIVAPIMKIQACRRYGATVIV----EGAD-MKEAKNIALKKGA 136
Y +VMP K+ A R GA +I D + +A +
Sbjct: 134 VKGYK-------CIIVMPEKMSNEKVSALRTLGAKIIRTPTEAAYDSPEGLIYVAQQLQR 186
Query: 137 ELGLTYINGYLSSGLSVLG-YDHPD-IMAGQGTVGLEIVDQVA-NIDAIVVPVGGGGLIA 193
E + VL Y + +A EI+ Q+ +D IVV G G I+
Sbjct: 187 E-----TPNSI-----VLDQYRNAGNPLAHYDGTAAEILWQLDNKVDMIVVSAGTAGTIS 236
Query: 194 GVA 196
G+
Sbjct: 237 GIG 239
>2egu_A Cysteine synthase; O-acetylserine sulfhydrase, structural genomics,
NPPSFA, NAT project on protein structural and functional
analyses; 1.90A {Geobacillus kaustophilus}
Length = 308
Score = 32.9 bits (76), Expect = 0.077
Identities = 49/196 (25%), Positives = 75/196 (38%), Gaps = 55/196 (28%)
Query: 27 SHLSELTKMEIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVIS-------ASLGNH 79
+ + + +++LK +F S K+R AL M+ E +K G + + GN
Sbjct: 21 NRIVDEDSADVYLKLEFMNPGSSVKDR---IALAMI-EAAEKAGKLKPGDTIVEPTSGNT 76
Query: 80 AQAMCYHGSRLNIPVTVVMPIVAPIMKIQACRR-----YGATVIV-EGAD-MKEAKNIAL 132
+ + +VMP M ++ RR YGA +++ GA M+ A +
Sbjct: 77 GIGLAMVAAAKGYKAVLVMP---DTMSLE--RRNLLRAYGAELVLTPGAQGMRGA----I 127
Query: 133 KKGAELGLTYINGYLSSGLSVLGYDHPDIMAGQ-----------GTVGLEIVDQVA-NID 180
K EL +GY M Q T G EIV+Q+ +D
Sbjct: 128 AKAEELVRE--HGY--------------FMPQQFKNEANPEIHRLTTGKEIVEQMGDQLD 171
Query: 181 AIVVPVGGGGLIAGVA 196
A V VG GG I G
Sbjct: 172 AFVAGVGTGGTITGAG 187
>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 = 33.3 bits (75), Expect = 0.086
Identities = 22/191 (11%), Positives = 63/191 (32%), Gaps = 51/191 (26%)
Query: 8 HCGQDLGFVIRDQW---FNSKKSHLSELTKMEIFLKKDFFQVTGSFKERGACYALLMLSE 64
+ +D+ V D + F+ K + ++ K I K++ + S L
Sbjct: 16 YQYKDILSVFEDAFVDNFDCK--DVQDMPK-SILSKEEIDHIIMSKDAVSGTLRLFWTLL 72
Query: 65 DQKKKGV--------------ISASLGNHAQA-------------MCYHGSRLNIPVTVV 97
++++ V + + + + Y+ +++ V
Sbjct: 73 SKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNV- 131
Query: 98 MPIVAPIMKIQAC---RRYGATVIVEGADMK---------EA-KNIALKKGAELGLTYIN 144
+ P +K++ R V+++G + + + ++ + + ++N
Sbjct: 132 -SRLQPYLKLRQALLELRPAKNVLIDG--VLGSGKTWVALDVCLSYKVQCKMDFKIFWLN 188
Query: 145 -GYLSSGLSVL 154
+S +VL
Sbjct: 189 LKNCNSPETVL 199
Score = 29.4 bits (65), Expect = 1.3
Identities = 37/221 (16%), Positives = 72/221 (32%), Gaps = 42/221 (19%)
Query: 15 FVIRDQWFNSKKSHLSELTKME-IFLKKDFFQVTGSFKERGACYALLML-SEDQKKK--- 69
V R Q + + L EL + + + V GS K AL + S + K
Sbjct: 130 NVSRLQPYLKLRQALLELRPAKNVLI----DGVLGSGK---TWVALDVCLSYKVQCKMDF 182
Query: 70 GVISASLGN---------HAQAMCYH-----GSRLNIPVTVVMPIV---APIMKIQACRR 112
+ +L N Q + Y SR + + + I A + ++ +
Sbjct: 183 KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKP 242
Query: 113 YGATVIVEGADMKEAKNI-ALKKGAELGLTYINGYLSSGLSVLGYDHPDIMAGQGTV--- 168
Y ++V +++ AK A ++ LT ++ LS H + T+
Sbjct: 243 YENCLLVL-LNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD 301
Query: 169 -GLEIVDQVANIDAIVVP---VGGG----GLIAGVAYDHPD 201
++ + + +P + +IA D
Sbjct: 302 EVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLA 342
>3tbh_A O-acetyl serine sulfhydrylase; cysteine synthase, type II PLP
dependent enzyme, serine ACET transferase; HET: LLP;
1.68A {Leishmania donovani} PDB: 3t4p_A* 3spx_A* 4air_A*
Length = 334
Score = 32.9 bits (76), Expect = 0.095
Identities = 39/183 (21%), Positives = 65/183 (35%), Gaps = 45/183 (24%)
Query: 36 EIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVISASL--------GNHAQAMCYHG 87
++ LK + S K+R + + +K+G + GN ++ + G
Sbjct: 36 KVVLKMECENPMASVKDR---LGFAIY-DKAEKEGKLIPGKSIVVESSSGNTGVSLAHLG 91
Query: 88 SRLNIPVTVVMPIVAPIMKIQACRRYGATVIV-EGAD-MKEAKNIALKKGAELGLTYING 145
+ V + MP + + R +GA VI+ A MK A + ++ N
Sbjct: 92 AIRGYKVIITMPESMSLERRCLLRIFGAEVILTPAALGMKGA----VAMAKKIVAANPNA 147
Query: 146 YLSSGLSVLGYDHPDIMAGQ-----------GTVGLEIVDQVA-NIDAIVVPVGGGGLIA 193
+A Q T G EI +Q N+D + VG GG +
Sbjct: 148 V---------------LADQFATKYNALIHEETTGPEIWEQTNHNVDCFIAGVGTGGTLT 192
Query: 194 GVA 196
GVA
Sbjct: 193 GVA 195
>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 = 31.5 bits (70), Expect = 0.16
Identities = 12/47 (25%), Positives = 16/47 (34%), Gaps = 21/47 (44%)
Query: 64 EDQK-KKGVISASLGNHAQAMCYHGSRLNIPVTVVMPIVAPIMKIQA 109
E Q KK + ASL +A AP + I+A
Sbjct: 18 EKQALKK--LQASLKLYA------------------DDSAPALAIKA 44
>1ve1_A O-acetylserine sulfhydrylase; PLP, transferase, riken structural
genomics/proteomics initi RSGI, structural genomics;
HET: PLP; 1.45A {Thermus thermophilus} SCOP: c.79.1.1
PDB: 2eco_A* 2ecq_A* 2efy_A*
Length = 304
Score = 31.7 bits (73), Expect = 0.21
Identities = 35/193 (18%), Positives = 68/193 (35%), Gaps = 47/193 (24%)
Query: 27 SHLSELTKMEIFLKKDFFQVTGSFKERGACYALLMLSEDQKKKGVISASL---------G 77
+ + E E+++K + GS K+R A M+ +D +++G++ G
Sbjct: 16 AKVVEPDMAEVWVKLEGLNPGGSIKDR---PAWYMI-KDAEERGILRPGSGQVIVEPTSG 71
Query: 78 NHAQAMCYHGSRLNIPVTVVMPIVAPIMKIQACRRYGATVIV-EGAD-MKEAKNIALKKG 135
N + + + + MP + + + +GA +++ + M A ++
Sbjct: 72 NTGIGLAMIAASRGYRLILTMPAQMSEERKRVLKAFGAELVLTDPERRMLAA----REEA 127
Query: 136 AELGLTYINGYLSSGLSVLGYDHPDIMAGQ-----------GTVGLEIVDQVA-NIDAIV 183
L + + M Q T G E+ + + IDA V
Sbjct: 128 LRLKEE-LGAF---------------MPDQFKNPANVRAHYETTGPELYEALEGRIDAFV 171
Query: 184 VPVGGGGLIAGVA 196
G GG I GV
Sbjct: 172 YGSGTGGTITGVG 184
>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 = 31.4 bits (71), Expect = 0.25
Identities = 34/204 (16%), Positives = 60/204 (29%), Gaps = 22/204 (10%)
Query: 34 KMEIFLKKDFFQVTGSF---KERGACYALLMLSEDQKKKGVIS--ASLGNHAQAMCYHGS 88
K+ ++ K++ +F K R Y L+ + Q ++S N + + +
Sbjct: 31 KVHLYAKREDCNSGLAFGGNKTRKLEY-LIPEALAQGCDTLVSIGGIQSNQTRQVAAVAA 89
Query: 89 RLNIPVTVVMPIVAPIMK--------IQACRRYGATVI-VEGADMKEAKNIALKKGAELG 139
L + +V IQ R GA V V + +
Sbjct: 90 HLGMKCVLVQENWVNYSDAVYDRVGNIQMSRILGADVRLVPDGFDIGFRRSWEDALESVR 149
Query: 140 LTYINGYLSSGLSVLGYDHPDIMAGQGTVGLEIVDQVA----NIDAIVVPVGGGGLIAGV 195
Y + DHP G E+ Q A D +VV G AG+
Sbjct: 150 AAGGKPYA---IPAGCSDHPLGGLGFVGFAEEVRAQEAELGFKFDYVVVCSVTGSTQAGM 206
Query: 196 AYDHPDIMAGQGTVGLEIVDQGVE 219
+G++ + +
Sbjct: 207 VVGFAADGRADRVIGVDASAKPAQ 230
>2cdc_A Glucose dehydrogenase glucose 1-dehydrogenase, DHG-1; reductase,
oxidoreductase, MDR family; HET: XYS XYP NAP; 1.50A
{Sulfolobus solfataricus} PDB: 2cdb_A* 2cd9_A 2cda_A*
Length = 366
Score = 30.8 bits (70), Expect = 0.44
Identities = 9/42 (21%), Positives = 15/42 (35%), Gaps = 2/42 (4%)
Query: 104 IMKIQACRRYGATVIVEGADMKEAKNIALKKGAELGLTYING 145
++ R YG V + A+ +E + E Y N
Sbjct: 194 VLFTLLFRTYGLEVWM--ANRREPTEVEQTVIEETKTNYYNS 233
>1wkv_A Cysteine synthase; homodimer, open alpha/beta folding, transferase;
HET: PLP; 2.00A {Aeropyrum pernix} SCOP: c.79.1.1
Length = 389
Score = 29.2 bits (66), Expect = 1.6
Identities = 32/191 (16%), Positives = 55/191 (28%), Gaps = 41/191 (21%)
Query: 26 KSHLSELTKMEIFLKKDFFQVTG-SFKERGACYALLMLSEDQKKKG--VISASLGNHAQA 82
+S L + ++LK +++ S K+R A ++ + +KG V A+ N A
Sbjct: 101 RSRLQLPNGVRVWLKLEWYNPFSLSVKDRPA-VEIISRLSRRVEKGSLVADATSSNFGVA 159
Query: 83 MCYHGSRLNIPVTVVMPIVAPIMKIQACRRYGATVI-VEGAD-MKEAKNIALKKGAELGL 140
+ V +P A R GA VI A +K
Sbjct: 160 LSAVARLYGYRARVYLPGAAEEFGKLLPRLLGAQVIVDPEAPSTVHLLPRVMKDSKN--- 216
Query: 141 TYINGYLSSGLSVLGYDHPDIMAGQ-----------GTVGLEIVDQ----VANIDAIVVP 185
G+ + Q EI Q + +
Sbjct: 217 ---EGF--------------VHVNQFYNDANFEAHMRGTAREIFVQSRRGGLALRGVAGS 259
Query: 186 VGGGGLIAGVA 196
+G G ++ A
Sbjct: 260 LGTSGHMSAAA 270
>2vdv_E TRNA (guanine-N(7)-)-methyltransferase; S-adenosyl-L-methionine,
phosphorylation, M7G, spout MT, tRNA processing; HET:
SAM; 2.30A {Saccharomyces cerevisiae} PDB: 2vdu_E
Length = 246
Score = 27.8 bits (62), Expect = 3.2
Identities = 9/34 (26%), Positives = 15/34 (44%), Gaps = 4/34 (11%)
Query: 187 GGGGLIAGVAYDHPDIMAGQGTVGLEIVDQGVES 220
G GGL+ ++ P+ +G+EI Q
Sbjct: 59 GFGGLMIDLSPAFPED----LILGMEIRVQVTNY 88
>2ad6_A Methanol dehydrogenase subunit 1; PQQ configuration, native,
oxidoredu; HET: PQQ; 1.50A {Methylophilus
methylotrophus} SCOP: b.70.1.1 PDB: 2ad7_A* 2ad8_A*
4aah_A* 1g72_A*
Length = 571
Score = 28.4 bits (63), Expect = 3.2
Identities = 12/30 (40%), Positives = 14/30 (46%), Gaps = 1/30 (3%)
Query: 182 IVVPVGGGGLIA-GVAYDHPDIMAGQGTVG 210
I G GG G+ +D D AG G VG
Sbjct: 522 IGSMYGVGGWPGVGLVFDLTDPSAGLGAVG 551
>3ckk_A TRNA (guanine-N(7)-)-methyltransferase; mettl1,
S-adenosyl-L-methionine, tRNA Pro structural genomics,
structural genomics consortium, SGC; HET: SAM; 1.55A
{Homo sapiens}
Length = 235
Score = 27.7 bits (62), Expect = 3.5
Identities = 10/33 (30%), Positives = 16/33 (48%), Gaps = 4/33 (12%)
Query: 187 GGGGLIAGVAYDHPDIMAGQGTVGLEIVDQGVE 219
G GGL+ ++ PD +GLEI + +
Sbjct: 56 GYGGLLVELSPLFPDT----LILGLEIRVKVSD 84
>2yb1_A Amidohydrolase; HET: AMP; 1.90A {Chromobacterium violaceum} PDB:
2yb4_A
Length = 292
Score = 27.6 bits (62), Expect = 4.3
Identities = 24/144 (16%), Positives = 44/144 (30%), Gaps = 36/144 (25%)
Query: 131 ALKKGAELGLTYING------YLSSGLSVLGY----DHPDIMAGQGTV-------GLEIV 173
A A G+ ++NG + + ++G P + AG ++ ++
Sbjct: 48 AAAAAARRGIPFLNGVEVSVSWGRHTVHIVGLGIDPAEPALAAGLKSIREGRLERARQMG 107
Query: 174 DQVAN------IDAIVVPVGGGGLIAGVAYDHPDIMAGQGTVGLEIVDQGVESDRCASFS 227
+ D + +I+ +VD G D F
Sbjct: 108 ASLEAAGIAGCFDGAMRWCDNPEMISR-----THFAR-------HLVDSGAVKDMRTVFR 155
Query: 228 TAIKHGKPTPVSVQ-PTLADGLAV 250
+ GKP VS Q +L D +
Sbjct: 156 KYLTPGKPGYVSHQWASLEDAVGW 179
>4ej6_A Putative zinc-binding dehydrogenase; structural genomics, nysgrc,
PSI-biology, NEW YORK structura genomics research
consortium; 1.89A {Sinorhizobium meliloti} PDB: 4ejm_A*
Length = 370
Score = 27.6 bits (62), Expect = 5.1
Identities = 9/40 (22%), Positives = 18/40 (45%), Gaps = 4/40 (10%)
Query: 104 IMKIQACRRYGATVIVEGADMKEAKNIALKKGAELGLTYI 143
++ +Q R GAT ++ + + K + E+G T
Sbjct: 196 LLTVQLARLAGATTVI-LSTRQATK---RRLAEEVGATAT 231
>3kr9_A SAM-dependent methyltransferase; class I rossmann-like
methyltransferase fold; 2.00A {Streptococcus pneumoniae}
PDB: 3ku1_A*
Length = 225
Score = 26.8 bits (59), Expect = 8.1
Identities = 9/40 (22%), Positives = 16/40 (40%)
Query: 169 GLEIVDQVANIDAIVVPVGGGGLIAGVAYDHPDIMAGQGT 208
GL ++ + I + GG LIA + + +A
Sbjct: 75 GLAAFEETDQVSVITIAGMGGRLIARILEEGLGKLANVER 114
>1e3j_A NADP(H)-dependent ketose reductase; oxidoreductase, fructose
reduction; 2.3A {Bemisia argentifolii} SCOP: b.35.1.2
c.2.1.1
Length = 352
Score = 26.8 bits (60), Expect = 8.3
Identities = 10/37 (27%), Positives = 16/37 (43%), Gaps = 5/37 (13%)
Query: 103 PI--MKIQACRRYGATVIVEGADMKEAK-NIALKKGA 136
PI + + A + YGA V+ + +A GA
Sbjct: 179 PIGLVSVLAAKAYGAFVVC--TARSPRRLEVAKNCGA 213
>4a2c_A Galactitol-1-phosphate 5-dehydrogenase; oxidoreductase, metal
binding-site; 1.87A {Escherichia coli}
Length = 346
Score = 26.4 bits (59), Expect = 9.4
Identities = 8/40 (20%), Positives = 12/40 (30%), Gaps = 4/40 (10%)
Query: 104 IMKIQACRRYGATVIVEGADMKEAKNIALKKGAELGLTYI 143
++ IQ GA + D+ K L G
Sbjct: 174 LLAIQCAVALGAKSVT-AIDISSEK---LALAKSFGAMQT 209
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 0.403
Gapped
Lambda K H
0.267 0.0774 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,214,622
Number of extensions: 266613
Number of successful extensions: 829
Number of sequences better than 10.0: 1
Number of HSP's gapped: 750
Number of HSP's successfully gapped: 60
Length of query: 269
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 177
Effective length of database: 4,133,061
Effective search space: 731551797
Effective search space used: 731551797
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: 56 (25.3 bits)