RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 013596
(439 letters)
>1x1q_A Tryptophan synthase beta chain; structural genomics, riken
structural genomics/proteomics initiative, RSGI, NPPSFA;
2.50A {Thermus thermophilus}
Length = 418
Score = 716 bits (1851), Expect = 0.0
Identities = 227/373 (60%), Positives = 277/373 (74%), Gaps = 15/373 (4%)
Query: 55 PMEAKKESDPAPWQRPDVFGRFGRFGGKFVPETLMYALSELESALHKLADDRDFQEELSG 114
+ + PD GRFG +GG++VPETL+ AL ELE+A + D F EEL
Sbjct: 9 AFRERSMLTLPDFPLPDARGRFGPYGGRYVPETLIPALEELEAAYREAKKDPAFLEELDH 68
Query: 115 ILRDYVGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHKINNAVGQALLAKRL 174
LR + GR TPLY A+RL+E++ GG ++LKREDL HTGAHKINN +GQALLA+R+
Sbjct: 69 YLRQFAGRPTPLYHAKRLSEYW-----GGAQVFLKREDLLHTGAHKINNTLGQALLARRM 123
Query: 175 GKTRIIAETGAGQHGVATATVCARFGLQCIVYMGAQDMERQALNVFRMRLLGAEVRAVHS 234
GK R+IAETGAGQHGV+ ATV A FGL+C+VYMG +D+ RQALNVFRM+LLGAEVR V +
Sbjct: 124 GKRRVIAETGAGQHGVSVATVAALFGLECVVYMGEEDVRRQALNVFRMKLLGAEVRPVAA 183
Query: 235 GTATLKDATSEAIRDWVTNVETTHYILGSVAGPHPYPMMVRDFHAVIGKETRRQALEKWG 294
G+ TLKDAT+EAIRDW+TNV TT YILGSV GPHPYPMMVRDF +VIG+E +RQ+LE +G
Sbjct: 184 GSRTLKDATNEAIRDWITNVRTTFYILGSVVGPHPYPMMVRDFQSVIGEEVKRQSLELFG 243
Query: 295 GKPDVLIACVGGGSNAMGLFHEF--VNDKDVRLIGVEAAGFGLDSGKHAATLSKGEVGVL 352
PD LIA VGGGSNA+GLF F + + +LIGVEAAG GL +G+HAA++ G+ GVL
Sbjct: 244 RLPDALIAAVGGGSNAIGLFAPFAYLPEGRPKLIGVEAAGEGLSTGRHAASIGAGKRGVL 303
Query: 353 HGALSYLLQNEDGQIIEPHSISAGLDYPGVGPEHSFLKDEGRAEYYNVTDDEALEGMKLY 412
HG+ YLL + DGQI HS+SAGLDYPGVGPEHS+ D G AEY +VTD+EALEG
Sbjct: 304 HGSYMYLLYDHDGQITPAHSVSAGLDYPGVGPEHSYYADAGVAEYASVTDEEALEG---- 359
Query: 413 LILPFKLLSRHGG 425
FKLL+R G
Sbjct: 360 ----FKLLARLEG 368
>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 = 713 bits (1842), Expect = 0.0
Identities = 192/352 (54%), Positives = 248/352 (70%), Gaps = 14/352 (3%)
Query: 74 GRFGRFGGKFVPETLMYALSELESALHKLADDRDFQEELSGILRDYVGRETPLYFAERLT 133
FG FGG +VP+ LM AL++LE A D +FQ + + +L++Y GR T L + +T
Sbjct: 6 PYFGEFGGMYVPQILMPALNQLEEAFVSAQKDPEFQAQFADLLKNYAGRPTALTKCQNIT 65
Query: 134 EHYRRPNGGGPHIYLKREDLNHTGAHKINNAVGQALLAKRLGKTRIIAETGAGQHGVATA 193
+YLKREDL H GAHK N +GQALLAKR+GK+ IIAETGAGQHGVA+A
Sbjct: 66 AG------TRTTLYLKREDLLHGGAHKTNQVLGQALLAKRMGKSEIIAETGAGQHGVASA 119
Query: 194 TVCARFGLQCIVYMGAQDMERQALNVFRMRLLGAEVRAVHSGTATLKDATSEAIRDWVTN 253
A GL+C +YMGA+D+ERQ+ NVFRMRL+GAEV VHSG+ATLKDA +EA+RDW +
Sbjct: 120 LASALLGLKCRIYMGAKDVERQSPNVFRMRLMGAEVIPVHSGSATLKDACNEALRDWSGS 179
Query: 254 VETTHYILGSVAGPHPYPMMVRDFHAVIGKETRRQALEKWGGKPDVLIACVGGGSNAMGL 313
ET HY+LG+ AGPHPYP +VR+F +IG+ET+ Q L+K G PD +IACVGGGSNA+G+
Sbjct: 180 YETAHYMLGTAAGPHPYPTIVREFQRMIGEETKAQILDKEGRLPDAVIACVGGGSNAIGM 239
Query: 314 FHEFVNDKDVRLIGVEAAGFGLDSGKHAATLSKGEVGVLHGALSYLLQNEDGQIIEPHSI 373
F +F+ND V LIGVE G G+++G+H A L G VG+ G + ++Q DGQI E +SI
Sbjct: 240 FADFINDTSVGLIGVEPGGHGIETGEHGAPLKHGRVGIYFGMKAPMMQTADGQIEESYSI 299
Query: 374 SAGLDYPGVGPEHSFLKDEGRAEYYNVTDDEALEGMKLYLILPFKLLSRHGG 425
SAGLD+P VGP+H++L GRA+Y ++TDDEALE FK L RH G
Sbjct: 300 SAGLDFPSVGPQHAYLNSIGRADYVSITDDEALEA--------FKTLCRHEG 343
>2o2e_A Tryptophan synthase beta chain; amino-acid biosynthesis, tryptophan
biosynthesis, structural genomics; 2.20A {Mycobacterium
tuberculosis} PDB: 2o2j_A
Length = 422
Score = 709 bits (1833), Expect = 0.0
Identities = 209/382 (54%), Positives = 265/382 (69%), Gaps = 17/382 (4%)
Query: 47 TIARDPVVPMEAKKESDPAPWQRPDVFGRFGR---FGGKFVPETLMYALSELESALHKLA 103
T P +P + ++P PD G FG +GG++VPE LM + E+ +A K
Sbjct: 3 TDLSTPDLPRMSAAIAEP-TSHDPDSGGHFGGPSGWGGRYVPEALMAVIEEVTAAYQKER 61
Query: 104 DDRDFQEELSGILRDYVGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHKINN 163
+DF ++L + +Y GR +PLY A RL++H G I+LKREDLNHTG+HKINN
Sbjct: 62 VSQDFLDDLDRLQANYAGRPSPLYEATRLSQHA-----GSARIFLKREDLNHTGSHKINN 116
Query: 164 AVGQALLAKRLGKTRIIAETGAGQHGVATATVCARFGLQCIVYMGAQDMERQALNVFRMR 223
+GQALLA+R+GKTR+IAETGAGQHGVATAT CA GL C++YMG D RQALNV RMR
Sbjct: 117 VLGQALLARRMGKTRVIAETGAGQHGVATATACALLGLDCVIYMGGIDTARQALNVARMR 176
Query: 224 LLGAEVRAVHSGTATLKDATSEAIRDWVTNVETTHYILGSVAGPHPYPMMVRDFHAVIGK 283
LLGAEV AV +G+ TLKDA +EA RDWV N + T+Y G+ AGPHP+P MVRDF +IG
Sbjct: 177 LLGAEVVAVQTGSKTLKDAINEAFRDWVANADNTYYCFGTAAGPHPFPTMVRDFQRIIGM 236
Query: 284 ETRRQALEKWGGKPDVLIACVGGGSNAMGLFHEFVNDKDVRLIGVEAAGFGLDSGKHAAT 343
E R Q + G PD ++ACVGGGSNA+G+FH F++D VRL+G EAAG G+++G+HAAT
Sbjct: 237 EARVQIQGQAGRLPDAVVACVGGGSNAIGIFHAFLDDPGVRLVGFEAAGDGVETGRHAAT 296
Query: 344 LSKGEVGVLHGALSYLLQNEDGQIIEPHSISAGLDYPGVGPEHSFLKDEGRAEYYNVTDD 403
+ G G HG+ SYLLQ+EDGQ IE HSISAGLDYPGVGPEH++LK+ GR +Y +TD
Sbjct: 297 FTAGSPGAFHGSFSYLLQDEDGQTIESHSISAGLDYPGVGPEHAWLKEAGRVDYRPITDS 356
Query: 404 EALEGMKLYLILPFKLLSRHGG 425
EA++ F LL R G
Sbjct: 357 EAMDA--------FGLLCRMEG 370
>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 = 702 bits (1814), Expect = 0.0
Identities = 214/350 (61%), Positives = 263/350 (75%), Gaps = 13/350 (3%)
Query: 76 FGRFGGKFVPETLMYALSELESALHKLADDRDFQEELSGILRDYVGRETPLYFAERLTEH 135
FG FGG++VPETL+ L ELE A + DD +F +L+ L+ + GR TPLY+A+RLTE
Sbjct: 3 FGEFGGQYVPETLIEPLKELEKAYKRFKDDEEFNRQLNYYLKTWAGRPTPLYYAKRLTEK 62
Query: 136 YRRPNGGGPHIYLKREDLNHTGAHKINNAVGQALLAKRLGKTRIIAETGAGQHGVATATV 195
GG IYLKREDL H GAHK NNA+GQALLAK +GKTR+IAETGAGQHGVATA
Sbjct: 63 I-----GGAKIYLKREDLVHGGAHKTNNAIGQALLAKFMGKTRLIAETGAGQHGVATAMA 117
Query: 196 CARFGLQCIVYMGAQDMERQALNVFRMRLLGAEVRAVHSGTATLKDATSEAIRDWVTNVE 255
A G++ +YMGA+D+ERQ +NVFRM+LLGA V V+SG+ TLKDA +EA+RDWV E
Sbjct: 118 GALLGMKVDIYMGAEDVERQKMNVFRMKLLGANVIPVNSGSRTLKDAINEALRDWVATFE 177
Query: 256 TTHYILGSVAGPHPYPMMVRDFHAVIGKETRRQALEKWGGKPDVLIACVGGGSNAMGLFH 315
THY++GSV GPHPYP +VRDF +VIG+E + Q LE G PDV++ACVGGGSNAMG+F+
Sbjct: 178 YTHYLIGSVVGPHPYPTIVRDFQSVIGREAKAQILEAEGQLPDVIVACVGGGSNAMGIFY 237
Query: 316 EFVNDKDVRLIGVEAAGFGLDSGKHAATLSKGEVGVLHGALSYLLQNEDGQIIEPHSISA 375
FVNDK V+L+GVEA G GL+SGKH+A+L+ G+VGV HG LSY LQ+E+GQI HSI+
Sbjct: 238 PFVNDKKVKLVGVEAGGKGLESGKHSASLNAGQVGVFHGMLSYFLQDEEGQIKPTHSIAP 297
Query: 376 GLDYPGVGPEHSFLKDEGRAEYYNVTDDEALEGMKLYLILPFKLLSRHGG 425
GLDYPGVGPEH++LK RAEY VTD+EAL+ F LSR G
Sbjct: 298 GLDYPGVGPEHAYLKKIQRAEYVTVTDEEALKA--------FHELSRTEG 339
>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 = 190 bits (484), Expect = 5e-57
Identities = 62/304 (20%), Positives = 107/304 (35%), Gaps = 42/304 (13%)
Query: 118 DYVGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHKINNAVGQALL---AKRL 174
TP+ RL++H GG H+Y KRED N A N L A
Sbjct: 10 PLTFGPTPIQPLARLSKHL----GGKVHLYAKREDCNSGLAFGGNKTRKLEYLIPEALAQ 65
Query: 175 GKTRIIAETGAGQ-HGVATATVCARFGLQCIVYMGAQ-----DMERQALNVFRMRLLGAE 228
G +++ G A V A G++C++ + + N+ R+LGA+
Sbjct: 66 GCDTLVSIGGIQSNQTRQVAAVAAHLGMKCVLVQENWVNYSDAVYDRVGNIQMSRILGAD 125
Query: 229 VRAVHSGTATLKDATSEAIRDWVTNVETTHYILGSVAGPHPYPMMVRDFHAVIGKETRRQ 288
VR V G + E + V Y + + HP + V E R
Sbjct: 126 VRLVPDGFDIGFRRSWEDALESVRAAGGKPYAIPAGCSDHPLGGL----GFVGFAEEVRA 181
Query: 289 ALEKWGGKPDVLIACVGGGSNAMGLFHEF-VNDKDVRLIGVEAAGFGLDSGKHAATLSKG 347
+ G K D ++ C GS G+ F + + R+IGV+A+ + + +++
Sbjct: 182 QEAELGFKFDYVVVCSVTGSTQAGMVVGFAADGRADRVIGVDASAKPAQTREQITRIARQ 241
Query: 348 EVGVLHGALSYLLQNEDGQIIEPHSISAGLDYPGVGPEHSFLKDEGRAEYYNVTDDEALE 407
+ GL+ + + + E Y + ++ LE
Sbjct: 242 TAEKV-----------------------GLERDIMRADVVLDERFAGPE-YGLPNEGTLE 277
Query: 408 GMKL 411
++L
Sbjct: 278 AIRL 281
>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 = 120 bits (303), Expect = 6e-31
Identities = 47/308 (15%), Positives = 96/308 (31%), Gaps = 47/308 (15%)
Query: 117 RDYVGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHKINNAVGQALL---AKR 173
+P+ RL++H G ++Y KRED N A N +
Sbjct: 9 YPLTFGPSPISNLNRLSQHL----GSKVNVYAKREDCNSGLAFGGNKLRKLEYIVPDIVE 64
Query: 174 LGKTRIIAETGA-GQHGVATATVCARFGLQCIVYM--------GAQDMERQALNVFRMRL 224
T +++ G A + A+ G +C++ +D+ + N+ R+
Sbjct: 65 GDYTHLVSIGGRQSNQTRMVAALAAKLGKKCVLIQEDWVPIPEAEKDVYNRVGNIELSRI 124
Query: 225 LGAEVRAVHSGTATLKDATSEAIRDWVTNVETTHYILGSVAGPHPYPMMVRDFHAVIGKE 284
+GA+VR + G + + + Y + + H Y + E
Sbjct: 125 MGADVRVIEDGFDIGMRKSFANALQELEDAGHKPYPIPAGCSEHKYGGL---GFVGFADE 181
Query: 285 TRRQALEKWGGKPDVLIACVGGGSNAMGLFHEF-VNDKDVRLIGVEAAGFGLDSGKHAAT 343
Q +E G K D ++ C GS G+ + +I ++A+ + +
Sbjct: 182 VINQEVEL-GIKFDKIVVCCVTGSTTAGILAGMAQYGRQDDVIAIDASFTSEKTKEQTLR 240
Query: 344 LSKGEVGVLHGALSYLLQNEDGQIIEPHSISAGLDYPGVGPEHSFLKDEGRAEYYNVTDD 403
++ G E + + Y V ++
Sbjct: 241 IANN------------TAKLIGVEHEFKDFTLDTRFAYPC--------------YGVPNE 274
Query: 404 EALEGMKL 411
+E ++
Sbjct: 275 GTIEAIRT 282
>2d1f_A Threonine synthase; amino acid synthesis, pyridoxal-5'-phosphate,
PLP, lyase; HET: PLP; 2.50A {Mycobacterium tuberculosis}
Length = 360
Score = 78.9 bits (195), Expect = 3e-16
Identities = 69/321 (21%), Positives = 112/321 (34%), Gaps = 82/321 (25%)
Query: 124 TPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHKINNAVGQALL---AKRLGKTRII 180
TPL A L++ G I+LK E LN TG+ K G + A G+ ++
Sbjct: 39 TPLIAATNLSKQT------GCTIHLKVEGLNPTGSFK---DRGMTMAVTDALAHGQRAVL 89
Query: 181 AETGAGQHGVATATVCARFGLQCIVYMGAQDMERQALNVFRMRLLGAEVRAVHSGTATLK 240
+ G + A AR G+ C V + + + + + GA++ +
Sbjct: 90 CAS-TGNTSASAAAYAARAGITCAVLIPQGKIAMG--KLAQAVMHGAKIIQIDGNF---- 142
Query: 241 DATSEAIRDWVTNVETTHYILGSVAGPHPYPMMVRDFHAVIGKETRRQALEKW---GGKP 297
D E R + T ++ SV +P + G++T A E G P
Sbjct: 143 DDCLELARKMAADFP-TISLVNSV---NPV--------RIEGQKT--AAFEIVDVLGTAP 188
Query: 298 DVLIACVGGGSNAMGL---FHEFVN----DKDVRLIGVEAAGFGLDSGKHAATLSKGEVG 350
DV VG N + E+ DK R++G +AAG AA L GE
Sbjct: 189 DVHALPVGNAGNITAYWKGYTEYHQLGLIDKLPRMLGTQAAG--------AAPLVLGEP- 239
Query: 351 VLHGALSYLLQNEDGQIIEPHSISAGLD--YPGVGPEHSFLKDE--GRAEYYNVTDDEAL 406
+ P +I+ + P + + GR +D+E L
Sbjct: 240 ----------------VSHPETIATAIRIGSPASWTSAVEAQQQSKGRFL--AASDEEIL 281
Query: 407 EGMKLYLILPFKLLSRHGGLW 427
L++R G++
Sbjct: 282 AAY--------HLVARVEGVF 294
>2zsj_A Threonine synthase; PLP dependent enzyme, lyase; HET: PLP; 1.80A
{Aquifex aeolicus}
Length = 352
Score = 76.2 bits (188), Expect = 2e-15
Identities = 73/306 (23%), Positives = 103/306 (33%), Gaps = 75/306 (24%)
Query: 124 TPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHKINNAVGQALL---AKRLGKTRII 180
TPL A+ L G IYLK E LN TG+ K G L A GK +I
Sbjct: 31 TPLIEADNLARAI----GFKGKIYLKYEGLNPTGSFK---DRGMTLAISKAVEAGKRAVI 83
Query: 181 AETGAGQHGVATATVCARFGLQCIVYMGAQDMERQALNVFRMRLLGAEVRAVH-SGTATL 239
+ G + A AR GL+ V + + L+ + + GA+V A+ + L
Sbjct: 84 CAS-TGNTSASAAAYAARAGLRAYVLLPKGAVAIGKLS--QAMIYGAKVLAIQGTFDDAL 140
Query: 240 KDATSEAIRDWVTNVETTHYILGSVAGPHPYPMMVRDFHAVIGKETRRQALEKW---GGK 296
V I+ SV +PY + G++T A E G
Sbjct: 141 NIVRKIGENFPV-------EIVNSV---NPY--------RIEGQKT--AAFEICDTLGEA 180
Query: 297 PDVLIACVGGGSNAMGL---FHEFVN----DKDVRLIGVEAAGFGLDSGKHAATLSKGEV 349
PD VG N F + K R++G +A G AA + KG
Sbjct: 181 PDYHFIPVGNAGNITAYWKGFKIYYEEGKITKLPRMMGWQAEG--------AAPIVKGY- 231
Query: 350 GVLHGALSYLLQNEDGQIIEPHSISAGL--DYPGVGPEHSFLKDE--GRAEYYNVTDDEA 405
I P +I+ + P E G+ + V+D E
Sbjct: 232 ----------------PIKNPQTIATAIKIGNPYSWKSALKAAQESGGKID--AVSDSEI 273
Query: 406 LEGMKL 411
L KL
Sbjct: 274 LYAYKL 279
>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 = 75.4 bits (186), Expect = 4e-15
Identities = 48/222 (21%), Positives = 82/222 (36%), Gaps = 40/222 (18%)
Query: 120 VGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHKIN---NAVGQALLAKRLGK 176
+ +TP+ + L++ G +YLK + +G+ KI + AK+ G
Sbjct: 43 LHVKTPIRDSMALSKMA------GTSVYLKMDSAQPSGSFKIRGIGHFC--KRWAKQ-GC 93
Query: 177 TRIIAETGAGQHGVATATVCARFGLQCIVYM--GAQDMERQALNVFRMRLLGAEVRAVHS 234
+ + AG G+A A + G+ + + + + L + GA + V
Sbjct: 94 AHFVCSS-AGNAGMAAAYAARQLGVPATIVVPGTTPALTIERL-----KNEGATCK-VV- 145
Query: 235 GTATLKDATSEAIRDWVTNVETTHYILGSVAGPHPY--PMMVRDFHAVIGKETRRQALEK 292
G L +A A N YI P+ P ++ + HA I KE +
Sbjct: 146 G-ELLDEAFELAKALAKNNPGWV-YI-------PPFDDP-LIWEGHASIVKELKETL--- 192
Query: 293 WGGKPDVLIACVGGGS--NAMGLFHEFVNDKDVRLIGVEAAG 332
KP + VGGG + + DV +I +E G
Sbjct: 193 -WEKPGAIALSVGGGGLLCGVVQGLQECGWGDVPVIAMETFG 233
>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 = 75.2 bits (185), Expect = 5e-15
Identities = 56/318 (17%), Positives = 105/318 (33%), Gaps = 61/318 (19%)
Query: 122 RETPLYFAERLTEHYRRPNGGGPHIYLKREDLNH--------TGAHKINNAVGQAL---- 169
R TPL + L + G I +K E GA+ I + +
Sbjct: 43 RPTPLCALDDLANLF-----GVKKILVKDESKRFGLNAFXMLGGAYAIAQLLCEKYHLDI 97
Query: 170 -------LAKRLGKTRIIAETGAGQHGVATATVCARFGLQCIVYMGAQDMERQALNVFRM 222
L +G+ A T G HG A + G ++YM + ++ ++ +
Sbjct: 98 ETLSFEHLKNAIGEKMTFATTTDGNHGRGVAWAAQQLGQNAVIYM-PKGSAQERVD--AI 154
Query: 223 RLLGAEVRAVHSGTATLKDATSEAIRDWVTNVETTHYIL---GSVAGPHPYPMMVRDFHA 279
LGAE D ++ + + + + G P + +A
Sbjct: 155 LNLGAECIVTDMNYD---DTVRLTMQH----AQQHGWEVVQDTAWEGYTKIPTWIMQGYA 207
Query: 280 VIGKETRRQALEKWGGKPDVLIACVGGGSNAMG---LFHEFVNDKDVRLIGVEAAGFGLD 336
+ E Q + + G P ++ G G+ A G + + +++ I VE D
Sbjct: 208 TLADEAVEQ-MREMGVTPTHVLLQAGVGAMAGGVLGYLVDVYSPQNLHSIIVEPDKA--D 264
Query: 337 SGKHAATLSKGEVGVLHGALSYLLQNEDGQIIEPHSISAGLDYPGVGPE-HSFLKDEGRA 395
+ KG++ + G ++ +I AGL P L+
Sbjct: 265 C--IYRSGVKGDIVNVGGDMA--------------TIMAGLACGEPNPLGWEILR-NCAT 307
Query: 396 EYYNVTDDEALEGMKLYL 413
++ + D A GM++
Sbjct: 308 QFISCQDSVAALGMRVLG 325
>3aey_A Threonine synthase; PLP, pyridoxal phosphate, lyase; 1.92A {Thermus
thermophilus} PDB: 1uin_A* 1uim_A* 3aex_A* 1v7c_A
Length = 351
Score = 74.6 bits (184), Expect = 7e-15
Identities = 63/321 (19%), Positives = 101/321 (31%), Gaps = 81/321 (25%)
Query: 124 TPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHKINNAVGQALL---AKRLGKTRII 180
TPL + G +Y K E LN TG+ K G L A G +
Sbjct: 29 TPLIPLKGP----EEARKKGIRLYAKYEGLNPTGSFK---DRGMTLAVSKAVEGGAQAVA 81
Query: 181 AETGAGQHGVATATVCARFGLQCIVYMGAQDMERQALNVFRMRLLGAEVRAVHSGTATLK 240
+ G + A AR G+ IV + A + + + + GA + V
Sbjct: 82 CAS-TGNTAASAAAYAARAGILAIVVLPAGYVALGKVA--QSLVHGARIVQVE----GNF 134
Query: 241 DATSEAIRDWVTNVETTHYILGSVAGPHPYPMMVRDFHAVIGKETRRQALEKW---GGKP 297
D + ++ SV +P+ + G++T A E G P
Sbjct: 135 DDALRLTQKLTE--AFPVALVNSV---NPH--------RLEGQKT--LAFEVVDELGDAP 179
Query: 298 DVLIACVGGGSNAMGL---FHEFVN----DKDVRLIGVEAAGFGLDSGKHAATLSKGEVG 350
VG N + + + R++G +AAG AA L G
Sbjct: 180 HYHALPVGNAGNITAHWMGYKAYHALGKAKRLPRMLGFQAAG--------AAPLVLGRP- 230
Query: 351 VLHGALSYLLQNEDGQIIEPHSISAGLD--YPGVGPEHSFLKDE--GRAEYYNVTDDEAL 406
+ P +++ + P K+E G E VTD+E L
Sbjct: 231 ----------------VERPETLATAIRIGNPASWQGAVRAKEESGGVIE--AVTDEEIL 272
Query: 407 EGMKLYLILPFKLLSRHGGLW 427
+ L+R G++
Sbjct: 273 FAY--------RYLAREEGIF 285
>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 = 73.2 bits (179), Expect = 2e-14
Identities = 61/304 (20%), Positives = 95/304 (31%), Gaps = 52/304 (17%)
Query: 118 DYVGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNH--TGAHKINNAVGQALLAKRLG 175
+++G TPL + RL+++ G IY+KR+D+ G +K+ A R G
Sbjct: 27 EFIGAPTPLEYLPRLSDYL------GREIYIKRDDVTPIAMGGNKLRKLEFLVADALREG 80
Query: 176 KTRIIAETGAGQ--HGVATATVCARFGLQCIVYMGAQDME-----RQALNVFRMRLLGAE 228
+I GA Q H TA V A+ GL C+ + N + L +
Sbjct: 81 ADTLIT-AGAIQSNHVRQTAAVAAKLGLHCVALLENPIGTTAENYLTNGNRLLLDLFNTQ 139
Query: 229 VRAVHSGTATLKDATSEAIRDWVTNVETTHYILGSVAGPHPYPMMVRDFHAVIGKETRRQ 288
+ + + I V G M + E +Q
Sbjct: 140 IE-MCDALTDPDAQLQTLATRIEAQGFRPYVI--PVGGSSALGAM---GYVESALEIAQQ 193
Query: 289 ALEKWGGKPDVLIACVGGGSNAMGLFHEF-VNDKDVRLIGVEAAGFGLDSGKHAATLSKG 347
E ++ G GL DV LIGV + + K
Sbjct: 194 CEE--VVGLSSVVVASGSAGTHAGLAVGLEHLMPDVELIGVTVS--------RSVAEQKP 243
Query: 348 EVGVLHGALSYLLQNEDGQIIEPHSISAGLDYPGVGPEHSFLKDEGRAEYYNVTDDEALE 407
+V L A++ L L D+ A Y V +D +E
Sbjct: 244 KVIALQQAIAGQL-------------------ALTATADIHLWDDYFAPGYGVPNDAGME 284
Query: 408 GMKL 411
+KL
Sbjct: 285 AVKL 288
>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 = 69.9 bits (172), Expect = 2e-13
Identities = 44/221 (19%), Positives = 83/221 (37%), Gaps = 43/221 (19%)
Query: 122 RETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHKI---NNAVGQALLAKRLGKTR 178
TPL + L++ G ++LK E++ +G+ KI + +AK+ G
Sbjct: 6 VVTPLLESWALSQVA------GMPVFLKCENVQPSGSFKIRGIGHFC--QEMAKK-GCRH 56
Query: 179 IIAETGAGQHGVATATVCARFGLQCIVYM--GAQDMERQALNVFRMRLLGAEVRAVHSGT 236
++ + G G+A A + G+ + + Q L + GAEV+ + G
Sbjct: 57 LVCSS-GGNAGIAAAYAARKLGIPATIVLPESTSLQVVQRL-----QGEGAEVQ-LT-G- 107
Query: 237 ATLKDATSEAIRDWVTNVETTHYILGSVAGPHPY--PMMVRDFHAVIGKETRRQALEKWG 294
+A A + + + P+ P ++ HA + +E +
Sbjct: 108 KVWDEANLRAQE--LAKRDGWENV-------PPFDHP-LIWKGHASLVQELKAV----LR 153
Query: 295 GKPDVLIACVGGG---SNAMGLFHEFVNDKDVRLIGVEAAG 332
P L+ VGGG + + E + V +I +E G
Sbjct: 154 TPPGALVLAVGGGGLLAGVVAGLLEVGW-QHVPIIAMETHG 193
>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 = 70.2 bits (172), Expect = 3e-13
Identities = 55/308 (17%), Positives = 108/308 (35%), Gaps = 65/308 (21%)
Query: 124 TPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHK---INNAVGQALLAKRLGK-TRI 179
+ L++AER + + G +++K ++HTG+ K + V Q +++ +
Sbjct: 131 SNLFWAERFGKQF----LGMNDLWVKHCGISHTGSFKDLGMTVLVSQVNRLRKMKRPVVG 186
Query: 180 IAETGAGQHGVATATVCARFGLQCIVYMGAQDMERQALNVFRMRLLGAEVRAVHSGTATL 239
+ G A + CA G+ IV++ A + L GA V ++ T
Sbjct: 187 VGCASTGDTSAALSAYCASAGIPSIVFLPANKISMAQLVQ--PIANGAFVLSID----TD 240
Query: 240 KDATSEAIRDWVTNVETTHYILGSVAGPHPYPMMVRDFHAVIGKETRRQALEKW---GGK 296
D + IR+ E Y+ S+ + + G++T A+E +
Sbjct: 241 FDGCMKLIREITA--ELPIYLANSL---NSL--------RLEGQKT--AAIEILQQFDWQ 285
Query: 297 -PDVLIACVGGGSNAMGLFHEFVN-------DKDVRLIGVEAAGFGLDSGKHAATLSKGE 348
PD +I G N + F D+ R++ +AA A L
Sbjct: 286 VPDWVIVPGGNLGNIYAFYKGFKXCQELGLVDRIPRMVCAQAAN--------ANPLYLH- 336
Query: 349 VGVLHGALSYLLQNEDGQIIE-PHSISAGLD--YPGVGPEHSFLKDE--GRAEYYNVTDD 403
Y +D + + + ++ + P + + G E T++
Sbjct: 337 ---------YKSGWKDFKPMTASTTFASAIQIGDPVSIDRAVYALKKCNGIVEE--ATEE 385
Query: 404 EALEGMKL 411
E ++ M
Sbjct: 386 ELMDAMAQ 393
>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 = 62.7 bits (152), Expect = 5e-11
Identities = 51/301 (16%), Positives = 92/301 (30%), Gaps = 54/301 (17%)
Query: 118 DYVGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTG-----AHKINNAVGQALLAK 172
+ + ETP+ + ++ G +Y+KR+DL G K+ +G AL
Sbjct: 16 ELIPWETPIQYLPNISREI------GADVYIKRDDLTGLGIGGNKIRKLEYLLGDAL--- 66
Query: 173 RLGKTRIIAETGAG-QHGVATATVCARFGLQCIVYMGAQDMERQALNVFRMRLLGAEVRA 231
G +I H T + GL I+ + + E N +++G E R
Sbjct: 67 SKGADVVITVGAVHSNHAFVTGLAAKKLGLDAILVLRGK--EELKGNYLLDKIMGIETRV 124
Query: 232 VHSGTATLKDATSEAIRDWVTNVETTHYILGSVAGPHPYPMMVRDFHAVIGKETRRQALE 291
+ + +E I + + Y++ G P + + E Q+
Sbjct: 125 YDAKDSFELMKYAEEIAEELKREGRKPYVI-PPGGASPIGTLG---YVRAVGEIATQS-- 178
Query: 292 KWGGKPDVLIACVGGGSNAMGLFHEFV-NDKDVRLIGVEAAGFGLDSGKHAATLSKGEVG 350
K D ++ G G GL ++D+R +G+ FG L
Sbjct: 179 --EVKFDSIVVAAGSGGTLAGLSLGLSILNEDIRPVGIAVGRFGEVMTSKLDNL------ 230
Query: 351 VLHGALSYLLQNEDGQIIEPHSISAGLDYPGVGPEHSFLKDEGRAEYYNVTDDEALEGMK 410
I + GV E + Y E + ++
Sbjct: 231 ----------------------IKEAAELLGVKVEVRPELYDYSFGEYGKITGEVAQIIR 268
Query: 411 L 411
Sbjct: 269 K 269
>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 = 61.0 bits (149), Expect = 2e-10
Identities = 75/318 (23%), Positives = 110/318 (34%), Gaps = 82/318 (25%)
Query: 116 LRDYVGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHKI---NNAVGQALLAK 172
+ Y TPL + L G + LK E L TG+ K + L
Sbjct: 14 IAPYT-HRTPLLTSRLLDGLL------GKRLLLKAEHLQKTGSFKARGALSKALA--LEN 64
Query: 173 RLGKTRIIAETGAGQH--GVATATVCARFGLQCIVYM--GAQDMERQALNVFRMRLLGAE 228
G ++A + +G H GVA A G++ +V M A ++ R GAE
Sbjct: 65 PKG---LLAVS-SGNHAQGVAYA--AQVLGVKALVVMPEDASPYKKAC-----ARAYGAE 113
Query: 229 VRAVHSGTATLKDATSEAIRDWVTNVETTHYILGSVAGPHPYPMMVRDFHAVI------G 282
V V G T K+ A E T Y L + HP+ D VI G
Sbjct: 114 V--VDRG-VTAKNREEVARAL----QEETGYAL--I---HPF-----DDPLVIAGQGTAG 156
Query: 283 KETRRQALEKWGGKPDVLIACVGGGSNAMG--LFHEFVNDKDVRLIGVEAAGFGLDSGKH 340
E QA G P ++A VGGG G + ++ ++GVE D K
Sbjct: 157 LELLAQAGRM-GVFPGAVLAPVGGGGLLAGLATAVKALS-PTTLVLGVEPEAA--DDAKR 212
Query: 341 AATLSKGEVGVLHGALSYLLQNEDGQIIEPHSISAGLDYPGVGPEHSF-----LKDEGRA 395
+ L G + L P + + G+ +G E +F D
Sbjct: 213 S--LEAGRILRLEA--------------PPRTRADGVRTLSLG-ERTFPILRERVDGILT 255
Query: 396 EYYNVTDDEALEGMKLYL 413
V+++ LE +L
Sbjct: 256 ----VSEEALLEAERLLF 269
>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 = 61.5 bits (150), Expect = 2e-10
Identities = 57/227 (25%), Positives = 85/227 (37%), Gaps = 52/227 (22%)
Query: 120 VGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHKIN---NAVGQALLAKRLGK 176
V E+PL AE+L++ G + Y+KRED + K+ N + L++
Sbjct: 57 VAIESPLELAEKLSDRL------GVNFYIKREDKQRVFSFKLRGAYNMMSN--LSREELD 108
Query: 177 TRIIAETGAGQH--GVATATVCARFGLQCIVYMGAQDMERQALNVFRMRLLGAEVRAVHS 234
+I + AG H GVA A R + M + + V R LG +V V
Sbjct: 109 KGVITAS-AGNHAQGVALA--GQRLNCVAKIVMPTTTPQIKIDAV---RALGGDV--VLY 160
Query: 235 GTATLKDATSEAIRDWVTNVETTHYILGSVAGPHPYPMMVRDFHAVI------GKETRRQ 288
G T +A + A+ + YI P+ D VI G E RQ
Sbjct: 161 G-KTFDEAQTHALELSEKDGLK--YI-------PPF-----DDPGVIKGQGTIGTEINRQ 205
Query: 289 ALEKWGGKPDVLIACVGGGSNAMGL---FHEFVNDKDVRLIGVEAAG 332
+ VGGG G+ F + + ++IGVE G
Sbjct: 206 L-----KDIHAVFIPVGGGGLIAGVATFFKQI--APNTKIIGVEPYG 245
>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 = 61.5 bits (150), Expect = 2e-10
Identities = 52/227 (22%), Positives = 82/227 (36%), Gaps = 52/227 (22%)
Query: 120 VGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHKIN---NAVGQALLAKRLGK 176
+ TPL E+L+ I +KRED + K+ + L ++
Sbjct: 28 AAQVTPLQKMEKLSSRL------DNVILVKREDRQPVHSFKLRGAYAMMAG-LTEEQKAH 80
Query: 177 TRIIAETGAGQH--GVATATVCARFGLQCIVYMGAQDMERQALNVFRMRLLGAEVRAVHS 234
I A AG H GVA + AR G++ ++ M + + V R G EV +
Sbjct: 81 GVITAS--AGNHAQGVAFS--SARLGVKALIVMPTATADIKVDAV---RGFGGEV--LLH 131
Query: 235 GTATLKDATSEAIRDWVTNVETTHYILGSVAGPHPYPMMVRDFHAVI------GKETRRQ 288
G A +A ++AI T ++ P+ D VI E +Q
Sbjct: 132 G-ANFDEAKAKAIELSQQQGFT--WV-------PPF-----DHPMVIAGQGTLALELLQQ 176
Query: 289 ALEKWGGKPDVLIACVGGGSNAMGL---FHEFVNDKDVRLIGVEAAG 332
D + VGGG A G+ + +++I VEA
Sbjct: 177 D-----AHLDRVFVPVGGGGLAAGVAVLIKQL--MPQIKVIAVEAED 216
>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 = 57.9 bits (140), Expect = 3e-09
Identities = 49/337 (14%), Positives = 94/337 (27%), Gaps = 88/337 (26%)
Query: 123 ETPLY----FAERLTEHYRRPNGGGPHIYLKRED-LNHTGAHKI---NNAVGQAL----- 169
E+ L +RL + Y++P G + LK++ L +G+ K V
Sbjct: 78 ESELVAIPAMQKRLEKEYQQPISG--QLLLKKDSHLPISGSIKARGGIYEVLAHAEKLAL 135
Query: 170 ------------------LAKRLGKTRIIAETGAGQHGVATATVCARFGLQCIVYM--GA 209
+ + I + G G++ + AR G + V+M A
Sbjct: 136 EAGLLTLDDDYSKLLSPEFKQFFSQYSIAVGS-TGNLGLSIGIMSARIGFKVTVHMSADA 194
Query: 210 QDMERQALNVFRMRLLGAEVRAVHSGTATLKDATSEAIRDWVTNVETTHYILGSVAGPHP 269
+ ++ +R G V + A E + A P
Sbjct: 195 RAWKKAK-----LRSHGVTVV-EYEQDYG--VAVEEGRKA---------------AQSDP 231
Query: 270 YPMMVRDFH--------AVIGKETRRQ----ALEKWGGKPDVLIACVGGGSNAMGLFHEF 317
+ D + +V G+ + Q P + G G G+
Sbjct: 232 NCFFIDDENSRTLFLGYSVAGQRLKAQFAQQGRIVDADNPLFVYLPCGVGGGPGGVAFGL 291
Query: 318 VN--DKDVRLIGVEAAGFGLDSGKHAATLSKGEVGVLHGALSYLLQNEDGQIIEPHSISA 375
V E H+ + GV G + + G I+ + +
Sbjct: 292 KLAFGDHVHCFFAEPT--------HSPCMLL---GVHTGLHDQISVQDIG--IDNLTAAD 338
Query: 376 GLDYPGVGPE-HSFLKDEGRAEYYNVTDDEALEGMKL 411
GL ++ +Y ++D + +
Sbjct: 339 GLAVGRASGFVGRAMER-LLDGFYTLSDQTMYDMLGW 374
>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 = 55.6 bits (135), Expect = 1e-08
Identities = 57/255 (22%), Positives = 90/255 (35%), Gaps = 59/255 (23%)
Query: 116 LRDYVGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHKI---NNAVGQALLAK 172
L + +T + + +E I+LK E++ TG+ KI N + L +
Sbjct: 34 LAGKI-YKTGMPRSNYFSERC------KGEIFLKFENMQRTGSFKIRGAFNKLSS--LTE 84
Query: 173 RLGKTRIIAETGAGQH--GVATATVCARFGLQCIVYM--GAQDMERQALNVFRMRLLGAE 228
+ ++A + AG H GV+ + CA G+ V M GA + A AE
Sbjct: 85 AEKRKGVVACS-AGNHAQGVSLS--CAMLGIDGKVVMPKGAPKSKVAA-----TCDYSAE 136
Query: 229 VRAVHSGTATLKDATSEAIRDWVTNVETTHYILGSVAGPHPYPMMVRDFHAVI------G 282
V V G D ++ VET I + PY D VI G
Sbjct: 137 V--VLHG-DNFNDTIAKVSEI----VETEGRIF--I---PPY-----DDPKVIAGQGTIG 179
Query: 283 KETRRQALEKWGGKPDVLIACVGGGSNAMG--LFHEFVNDKDVRLIGVEAAGFGLDSGKH 340
E D +I +GGG G + + +N +++IGV+A
Sbjct: 180 LEIMEDL-----YDVDNVIVPIGGGGLIAGIAIAIKSIN-PTIKVIGVQAENV--HGMAA 231
Query: 341 AATLSKGEVGVLHGA 355
+ GE+
Sbjct: 232 S--YYTGEITTHRTT 244
>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 = 55.6 bits (135), Expect = 1e-08
Identities = 58/321 (18%), Positives = 106/321 (33%), Gaps = 90/321 (28%)
Query: 116 LRDYVGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHKI---NNAVGQALLAK 172
++ + +TP+ + + + + ++ K E+ GA K NA+ Q L +
Sbjct: 20 IKKFA-NKTPVLTSSTVNKEF------VAEVFFKCENFQKMGAFKFRGALNALSQ--LNE 70
Query: 173 RLGKTRIIAETGAGQHGVATATVCARFGLQCIVYM--GAQDMERQALNVFRMRLLGAEVR 230
K ++ + +G H A A G+ + M A + + A + G +V
Sbjct: 71 AQRKAGVLTFS-SGNHAQAIALSAKILGIPAKIIMPLDAPEAKVAA-----TKGYGGQV- 123
Query: 231 AVHSGTATLKDATSEAIRDWVTNVETTHYILGSVAGPHPYPMMVRDFHAVI------GKE 284
+ D A E + + PY D V+ KE
Sbjct: 124 -IMYD-RYKDDREKMAKEI----SEREGLTI--I---PPY-----DHPHVLAGQGTAAKE 167
Query: 285 TRRQALEKWGGKPDVLIACVGGGSNAMGLF-------HEFVNDKDVRLIGVEAAGFGLDS 337
+ G D L C+GGG GL F + + GVE +
Sbjct: 168 LFEEV-----GPLDALFVCLGGG----GLLSGSALAARHF--APNCEVYGVEPEAG--ND 214
Query: 338 GKHAATLSKGEVGVLHGALSYLLQNEDGQIIEPHSISAGLDYPGVGPEHSF-----LKDE 392
G+ + KG + + P +I+ G +G ++F D+
Sbjct: 215 GQQS--FRKGSIVHIDT---------------PKTIADGAQTQHLG-NYTFSIIKEKVDD 256
Query: 393 GRAEYYNVTDDEALEGMKLYL 413
V+D+E ++ +K Y
Sbjct: 257 ILT----VSDEELIDCLKFYA 273
>3l6b_A Serine racemase; pyridoxal phosphate, PLP, isomerase; HET: PLP;
1.50A {Homo sapiens} PDB: 3l6r_A* 3hmk_A* 3l6c_A*
Length = 346
Score = 52.9 bits (128), Expect = 7e-08
Identities = 52/252 (20%), Positives = 83/252 (32%), Gaps = 63/252 (25%)
Query: 116 LRDYVGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHKI---NNAVGQALLAK 172
+RD + TP+ + L + G +++ K E TG+ KI NAV +
Sbjct: 19 IRDSI-HLTPVLTSSILNQLT------GRNLFFKCELFQKTGSFKIRGALNAVRSLVPDA 71
Query: 173 RLGKTRIIAETGAGQHGVATATVCARFGLQCIVYM--GAQDMERQALNVFRMRLLGAEVR 230
K + + +G HG A G+ + + A D ++ A ++ GA +
Sbjct: 72 LERKPKAVVTHSSGNHGQALTYAAKLEGIPAYIVVPQTAPDCKKLA-----IQAYGASI- 125
Query: 231 AVHSGTATLKDATSEAIRDWVTNVETTHYILGSVAGPHPYPMMVRDFHAVI------GKE 284
V+ + + + A R E T I+ V HP AVI E
Sbjct: 126 -VYCE-PSDESRENVAKRV----TEETEGIM--V---HPN-----QEPAVIAGQGTIALE 169
Query: 285 TRRQALEKWGGKPDVLIACVGGGSNAMGL-------FHEFVNDKDVRLIGVEAAGF---- 333
Q D L+ VGGG G+ V++ E +
Sbjct: 170 VLNQV-----PLVDALVVPVGGG----GMLAGIAITVKAL--KPSVKVYAAEPSNADDCY 218
Query: 334 -GLDSGKHAATL 344
GK L
Sbjct: 219 QSKLKGKLMPNL 230
>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 = 47.2 bits (111), Expect = 1e-05
Identities = 70/481 (14%), Positives = 133/481 (27%), Gaps = 135/481 (28%)
Query: 42 TSIRCTIARDPVVPMEAKKESDPAPWQRPDVFGRFGRFGGKFVP-----ETLMYALSELE 96
+ I+ T R P + E + VF ++ V L AL EL
Sbjct: 96 SPIK-TEQRQPSMMTRMYIEQRDRLYNDNQVFAKY------NVSRLQPYLKLRQALLELR 148
Query: 97 SA----LH------K--LA----DDRDFQEELS-GILRDY---VGR-ETPLYFAERLTEH 135
A + K +A Q ++ I + + +P E L +
Sbjct: 149 PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI---FWLNLKNCNSPETVLEMLQKL 205
Query: 136 YRR--PNGGGPHIYLKREDLNHTGAHKINNAVGQALLAKRLGKTRIIAETGAGQHGVATA 193
+ PN + L H I + + L +K ++ V A
Sbjct: 206 LYQIDPNWTSRSDHSSNIKLR---IHSIQAELRRLLKSKPYENCLLVLL------NVQNA 256
Query: 194 TVCARFGLQCIVYMGAQDME-RQALNVFRMRLLGAEVRAVHSGTATLKDATSEAIRDWVT 252
F L C + + + + L+ + H D + ++
Sbjct: 257 KAWNAFNLSCKILLTTRFKQVTDFLSAATTT----HISLDHHSMTLTPDEVKSLLLKYLD 312
Query: 253 N--------VETTHYILGSVAGPHPYPMMVRDFHAVIG----------KETRRQALEKWG 294
V TT+ S+ +RD A +L
Sbjct: 313 CRPQDLPREVLTTNPRRLSIIA-----ESIRDGLATWDNWKHVNCDKLTTIIESSLNVL- 366
Query: 295 GKPDVLIACVGGGSNAMGLFHEFVN--------------DKDVRLIGVEAAGFGL-DSGK 339
+P + + +F + DV ++ + + L +
Sbjct: 367 -EPAEYRKMF----DRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQP 421
Query: 340 HAATLSKGEVGVLHG-ALSYLLQNED-----GQIIEPHSISAGLDYPGVGPEH------S 387
+T+S + L ++ E+ I++ ++I D + P + S
Sbjct: 422 KESTIS------IPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYS 475
Query: 388 F----LKDEGRAEYYNVTDDEALEGMKLYLILPF---KLLSRHGGL-WL----LVNCLHK 435
LK+ E ++L F K+ RH W ++N L +
Sbjct: 476 HIGHHLKNIEHPERMT-------LFRMVFLDFRFLEQKI--RHDSTAWNASGSILNTLQQ 526
Query: 436 L 436
L
Sbjct: 527 L 527
Score = 38.7 bits (89), Expect = 0.004
Identities = 70/466 (15%), Positives = 128/466 (27%), Gaps = 153/466 (32%)
Query: 46 CTIARDPVVPMEAKKESD-----PAPWQRPD-VFGRFGRFGG----KFVPETLMYALSEL 95
C +D + +K+E D +F KFV E L L
Sbjct: 35 CKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFL 94
Query: 96 ESALHKLADDRDFQEELSGILRDYVGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNH 155
S + S + R Y+ + LY ++ K N
Sbjct: 95 MSPIKTEQRQP------SMMTRMYIEQRDRLY--------------NDNQVFAKY---NV 131
Query: 156 TGAHKINNAVGQALLAKRLGKTRIIAETGAGQHGVATATVCARFGLQCIVYMGAQDMERQ 215
+ + QALL R K +I GV G + + Q
Sbjct: 132 SRLQPYLK-LRQALLELRPAKNVLI-------DGVLG------SGKTWVALDVCLSYKVQ 177
Query: 216 ALNVFRMRLLGAEVRAVHSGTATLKDATSEAIRDWVTNVETTHYILGS--VAGPHPYPMM 273
F++ L ++ +S L+ ++ Y + + +
Sbjct: 178 CKMDFKIFWLN--LKNCNSPETVLE------------MLQKLLYQIDPNWTSRSDHSSNI 223
Query: 274 VRDFHAVIGKETRRQALEKWGGKPDVLIACVGGGSNAMGLFHEFVNDKDV---------- 323
H++ + R+ L+ + +L+ L + V +
Sbjct: 224 KLRIHSI--QAELRRLLKSKPYENCLLV-----------LLN--VQNAKAWNAFNLSCKI 268
Query: 324 ----RLIGV-----EAAGFGLDSGKHAATLSKGEVGVLHGALSYLLQNEDGQIIE-PHSI 373
R V A + H+ TL+ E S LL+ D + + P +
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDE------VKSLLLKYLDCRPQDLPREV 322
Query: 374 SAGLDYPGVGPEH-----SFLKDE-GRAEYYNVTDDEALEGM--------------KLYL 413
P ++D + + + + L + K++
Sbjct: 323 LTT------NPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFD 376
Query: 414 IL---------PFKLLSRHGGLW---------LLVNCLHK--LIVR 439
L P LLS +W ++VN LHK L+ +
Sbjct: 377 RLSVFPPSAHIPTILLSL---IWFDVIKSDVMVVVNKLHKYSLVEK 419
>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 = 45.0 bits (106), Expect = 4e-05
Identities = 42/256 (16%), Positives = 72/256 (28%), Gaps = 76/256 (29%)
Query: 56 MEAKKESDPAP--WQRPDVFGRFGRFGGKFVPETLMYALSEL------ESALH-KLADDR 106
M+ K S A W R D +T +++ ++ +H +
Sbjct: 1633 MDLYKTSKAAQDVWNRAD----------NHFKDTYGFSILDIVINNPVNLTIHFGGEKGK 1682
Query: 107 DFQEELSGILRDYV--GRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHKINNA 164
+E S ++ + + G+ + + EH + L+ T
Sbjct: 1683 RIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSE-----KGLLSAT-----QFT 1732
Query: 165 VGQ-ALLAKRLGKTRIIAETG--------AGQH--G-----VATA----------TVCAR 198
Q AL + G AG H G + A V R
Sbjct: 1733 --QPALTLMEKAAFEDLKSKGLIPADATFAG-HSLGEYAALASLADVMSIESLVEVVFYR 1789
Query: 199 FG--LQCIVYMGAQDMERQ---ALNVFRMRLLGAEVRAVHSGTATLKDATS---EAIRDW 250
G +Q V A+N R+ ++ A+ + T E +
Sbjct: 1790 -GMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQ-EALQYVVERVGKRTGWLVEIVNY- 1846
Query: 251 VTNVETTHYILGSVAG 266
NVE Y+ AG
Sbjct: 1847 --NVENQQYV---AAG 1857
Score = 44.7 bits (105), Expect = 6e-05
Identities = 52/287 (18%), Positives = 81/287 (28%), Gaps = 100/287 (34%)
Query: 124 TPLYF-AERLTEHYRR--PNGGGPHIYLKREDLNHTGAHKINNAVGQALLAKRLG-KTRI 179
T +F A +L E + + P P +D T A L+ K LG + +
Sbjct: 24 TASFFIASQLQEQFNKILPE---PTEGFAADDEPTTPAE---------LVGKFLGYVSSL 71
Query: 180 IAETGAGQHGVATATVCARFGLQCIVYMGAQDMERQALNVFRMRLLGAEVRAVHSGTATL 239
+ + GQ F E + L G ++ H+ A L
Sbjct: 72 VEPSKVGQFDQVLNLCLTEF-------------ENC----Y---LEGNDI---HALAAKL 108
Query: 240 ---KDATSEAIRDWVTNVETTHYILGSVAGPHPYPMMVRD--FHAVIGKETRRQALEKWG 294
D T ++ + N YI + P+ F AV +
Sbjct: 109 LQENDTTLVKTKELIKN-----YITARIMAKRPFDKKSNSALFRAVGEGNAQ-------- 155
Query: 295 GKPDVLIACVGGGSNAMGLFHE----------FVNDKDVRLIGVEAAGFGLDSGKHAATL 344
L+A GG N F E V D LI A TL
Sbjct: 156 -----LVAIFGGQGNTDDYFEELRDLYQTYHVLVGD----LIKF-----------SAETL 195
Query: 345 SKGEVGVLHGALSYLLQNEDGQIIEPHSISAG--LDYPGVGPEHSFL 389
S + D + + ++ L+ P P+ +L
Sbjct: 196 S-----------ELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYL 231
Score = 44.7 bits (105), Expect = 6e-05
Identities = 55/283 (19%), Positives = 86/283 (30%), Gaps = 110/283 (38%)
Query: 115 ILRDYV----GRETPLYFA------ERLTEHYRRPNGGGP-----HIYLKREDLNHTGAH 159
IL D + G +P+ + E++ ++ + N P I L N GA
Sbjct: 323 ILEDSLENNEGVPSPM-LSISNLTQEQVQDYVNKTNSHLPAGKQVEISLV----N--GA- 374
Query: 160 KINNAV--G--QAL--LAKRLGKTRIIAETGAGQHGV----ATATVCARFG--------- 200
N V G Q+L L L K + A +G Q + RF
Sbjct: 375 --KNLVVSGPPQSLYGLNLTLRKAK--APSGLDQSRIPFSERKLKFSNRFLPVASPFHSH 430
Query: 201 -LQCIVYMGAQDMERQALNVFRMRLL--------GAEVRAVH-SGTATLKDA-TSEAIRD 249
L + +D+ + ++ + G+++R + S + + D +
Sbjct: 431 LLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPV-K 489
Query: 250 W--VTNVETTHYILGSVAGPHPYPMMVRDFHAVIGKETRRQALEKWGGKPDVLIACVGGG 307
W T + TH IL DF G P GG
Sbjct: 490 WETTTQFKATH-IL--------------DF-----------------G-P-------GGA 509
Query: 308 SNAMGLFHEFVNDKDVRLIGVEAAGFGLDSGKHAATLSKGEVG 350
S L H + VR+I AG LD + G
Sbjct: 510 SGLGVLTHRNKDGTGVRVI---VAG-TLDIN------PDDDYG 542
Score = 28.5 bits (63), Expect = 5.8
Identities = 17/124 (13%), Positives = 37/124 (29%), Gaps = 46/124 (37%)
Query: 288 QALEKWGGKP-DVLIA-----------CVGGG---SNAM------GLFHEFVNDKD---- 322
+ L+ G P D A + + + G+ + +D
Sbjct: 1745 EDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGR 1804
Query: 323 --VRLIGVE----AAGFGLDSGKHAATLSKGEVGVLHGALSYLLQ----NEDGQIIEPHS 372
+I + AA F ++ ++ G +L++ N + Q
Sbjct: 1805 SNYGMIAINPGRVAASFSQEALQYVVERVGKRTG-------WLVEIVNYNVENQQY---- 1853
Query: 373 ISAG 376
++AG
Sbjct: 1854 VAAG 1857
>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 = 41.9 bits (99), Expect = 3e-04
Identities = 46/181 (25%), Positives = 69/181 (38%), Gaps = 34/181 (18%)
Query: 57 EAKKESDPAPWQRPDVFGRFGRFGGKFVPETLMYALSELESALHKLADDRDFQEELSGIL 116
+ K PA + P P + L E + H Q+ IL
Sbjct: 8 QPKPYERPADFIDPGK------------PSKCKWHLGTAEKSPHIHRGIAHRQQITPNIL 55
Query: 117 RDYVGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHK-------INNAVGQAL 169
+ +G TPL +L + +G +Y K E LN G+ K + +A Q L
Sbjct: 56 -EVIGC-TPLV---KLN-NIPASDGIECEMYAKCEFLNPGGSVKDRIGYRMVQDAEEQGL 109
Query: 170 LAKRLGKTRIIAETGAGQHGVATATVCARFGLQCIVYM-GAQDMERQALNVFRMRLLGAE 228
L G T I E +G G+ A CA G +CI+ M E+ + +R LGA+
Sbjct: 110 LKP--GYT--IIEPTSGNTGIGLAMACAVKGYKCIIVMPEKMSNEKVSA----LRTLGAK 161
Query: 229 V 229
+
Sbjct: 162 I 162
Score = 28.8 bits (65), Expect = 4.4
Identities = 16/79 (20%), Positives = 28/79 (35%), Gaps = 17/79 (21%)
Query: 289 ALEKW---GGKPDVLIACVGGGSNAMGL---FHEFVNDKDVRLIGVEAAGFGLDSGKHAA 342
A E K D+++ G G+ E +++GV+ G L A
Sbjct: 211 AAEILWQLDNKVDMIVVSAGTAGTISGIGRKIKE--QVPSCQIVGVDPYGSIL---ARPA 265
Query: 343 TLSKGEVGVLHGALSYLLQ 361
L+K +V Y ++
Sbjct: 266 ELNKTDVQ------FYEVE 278
>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 = 40.0 bits (94), Expect = 0.001
Identities = 41/223 (18%), Positives = 81/223 (36%), Gaps = 34/223 (15%)
Query: 15 KPCAFTTSNSSQSPFKLKKFTASPAKSTSIRCTIARDPVVPMEAKKESDPAPWQRPDVFG 74
+ C + + +S S L T+S + ST R + P + + +
Sbjct: 28 RSCYTSMAATSSSALLLNPLTSSSSSSTLRRFRCS--PEISSLSFSSASDFSLAMKRQSR 85
Query: 75 RFGRFGGKFVPETLMYALSELESALHKLADDRDFQEELSGILRDYVGRETPLYFAERLTE 134
F + E +AD+ + +G+ TP+ + + +
Sbjct: 86 SFADGSERDPSVVCEAVKRETGPDGLNIADN----------VSQLIGK-TPMVYLNSIAK 134
Query: 135 HYRRPNGGGPHIYLKREDLNHTGAHK-------INNAVGQALLAKRLGKTRIIAETGAGQ 187
G +I K E + + K + +A + ++ GK+ ++ T +G
Sbjct: 135 ------GCVANIAAKLEIMEPCCSVKDRIGYSMVTDAEQKGFISP--GKSVLVEPT-SGN 185
Query: 188 HGVATATVCARFGLQCIVYMGAQ-DMERQALNVFRMRLLGAEV 229
G+ A + A G + I+ M A MER+ L ++ GAE+
Sbjct: 186 TGIGLAFIAASRGYRLILTMPASMSMERRVL----LKAFGAEL 224
>1z7w_A Cysteine synthase; transferase; HET: PLP; 2.20A {Arabidopsis
thaliana} SCOP: c.79.1.1 PDB: 1z7y_A* 2isq_A*
Length = 322
Score = 39.0 bits (92), Expect = 0.002
Identities = 28/118 (23%), Positives = 48/118 (40%), Gaps = 22/118 (18%)
Query: 120 VGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHK-------INNAVGQALLAK 172
+G TPL + + E G + K E + + K I++A + L+
Sbjct: 13 IGN-TPLVYLNNVAE------GCVGRVAAKLEMMEPCSSVKDRIGFSMISDAEKKGLIKP 65
Query: 173 RLGKTRIIAETGAGQHGVATATVCARFGLQCIVYMGAQ-DMERQALNVFRMRLLGAEV 229
G++ +I T +G GV A A G + I+ M A ER+ + + G E+
Sbjct: 66 --GESVLIEPT-SGNTGVGLAFTAAAKGYKLIITMPASMSTERRII----LLAFGVEL 116
>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 = 39.0 bits (92), Expect = 0.002
Identities = 30/120 (25%), Positives = 54/120 (45%), Gaps = 21/120 (17%)
Query: 118 DYVGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHK-------INNAVGQALL 170
+G+ TP+ ++ E +++K E LN G+ K I +A + +L
Sbjct: 5 GAIGK-TPVVRLAKVVE------PDMAEVWVKLEGLNPGGSIKDRPAWYMIKDAEERGIL 57
Query: 171 AKRLGKTRIIAETGAGQHGVATATVCARFGLQCIVYMGAQ-DMERQALNVFRMRLLGAEV 229
G ++I E +G G+ A + A G + I+ M AQ ER+ + ++ GAE+
Sbjct: 58 RP--GSGQVIVEPTSGNTGIGLAMIAASRGYRLILTMPAQMSEERKRV----LKAFGAEL 111
>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 = 37.5 bits (88), Expect = 0.007
Identities = 29/118 (24%), Positives = 50/118 (42%), Gaps = 23/118 (19%)
Query: 120 VGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHK-------INNAVGQALLAK 172
+G+ TP + +L + LK E N + K + A + L
Sbjct: 19 IGQ-TPALYLNKLN-------NTKAKVVLKMECENPMASVKDRLGFAIYDKAEKEGKLIP 70
Query: 173 RLGKTRIIAETGAGQHGVATATVCARFGLQCIVYMGAQ-DMERQALNVFRMRLLGAEV 229
GK+ ++ + +G GV+ A + A G + I+ M +ER+ L +R+ GAEV
Sbjct: 71 --GKSIVVESS-SGNTGVSLAHLGAIRGYKVIITMPESMSLERRCL----LRIFGAEV 121
>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 = 37.1 bits (87), Expect = 0.008
Identities = 31/120 (25%), Positives = 47/120 (39%), Gaps = 23/120 (19%)
Query: 118 DYVGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHK-------INNAVGQALL 170
+G TPL +R+ G ++LK E N G+ K I A + +
Sbjct: 6 QTIGN-TPLVKLQRMGP------DNGSEVWLKLEGNNPAGSVKDRAALSMIVEAEKRGEI 58
Query: 171 AKRLGKTRIIAETGAGQHGVATATVCARFGLQCIVYMGA-QDMERQALNVFRMRLLGAEV 229
G + E +G G+A A + A G + + M ER+A MR GAE+
Sbjct: 59 KP--GDV--LIEATSGNTGIALAMIAALKGYRMKLLMPDNMSQERRAA----MRAYGAEL 110
>1wkv_A Cysteine synthase; homodimer, open alpha/beta folding, transferase;
HET: PLP; 2.00A {Aeropyrum pernix} SCOP: c.79.1.1
Length = 389
Score = 37.3 bits (87), Expect = 0.008
Identities = 30/115 (26%), Positives = 47/115 (40%), Gaps = 26/115 (22%)
Query: 124 TPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGA--------HKINNAVGQALLAKRLG 175
TPL R R G ++LK E N I+ ++R+
Sbjct: 97 TPLV---RS----RLQLPNGVRVWLKLEWYNPFSLSVKDRPAVEIISRL------SRRVE 143
Query: 176 KTRIIAETGAGQHGVATATVCARFGLQCIVYM-GAQDMERQALNVFRMRLLGAEV 229
K ++A+ + GVA + V +G + VY+ GA + + L RLLGA+V
Sbjct: 144 KGSLVADATSSNFGVALSAVARLYGYRARVYLPGAAEEFGKLL----PRLLGAQV 194
>2pqm_A Cysteine synthase; OASS, PLP, lyase; HET: PLP; 1.86A {Entamoeba
histolytica} PDB: 3bm5_A*
Length = 343
Score = 36.8 bits (86), Expect = 0.011
Identities = 54/244 (22%), Positives = 89/244 (36%), Gaps = 47/244 (19%)
Query: 120 VGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHK-------INNAVGQALLAK 172
+G TPL +TEH R G I +K E N + K + A+ L
Sbjct: 21 IGG-TPLVELHGVTEHPRIKKGT--RILVKLEYFNPMSSVKDRVGFNIVYQAIKDGRLKP 77
Query: 173 RLGKTRIIAETGAGQHGVATATVCARFGLQCIVYMGAQ-DMERQALNVFRMRLLGAEVRA 231
G I E+ +G G+A A FG + + M + +ERQ + M+ GAE+
Sbjct: 78 --GME--IIESTSGNTGIALCQAGAVFGYRVNIAMPSTMSVERQMI----MKAFGAEL-I 128
Query: 232 VHSGTATLKDATSEAIRDWVTNVETTHYILGSVAGP-HPYPMMVRDFHAVIGKETRRQAL 290
+ G + A E + +++ P + H A
Sbjct: 129 LTEGKKGMPGAIEEV-NKMIKENPGKYFVANQFGNPDNT------AAH-------HYTAN 174
Query: 291 EKW---GGKPDVLIACVGGGSNAMGLFHEF-VNDKDVRLIGVEAAGFGLDSGKHAATLSK 346
E W G+ D++++ VG +G+ + K +++I VE +S A L
Sbjct: 175 EIWEDTDGEVDIVVSAVGTSGTVIGVAEKLKEKKKGIKIIAVEPE----ES----AVLEG 226
Query: 347 GEVG 350
G
Sbjct: 227 KAKG 230
>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 = 35.2 bits (82), Expect = 0.033
Identities = 34/118 (28%), Positives = 49/118 (41%), Gaps = 23/118 (19%)
Query: 120 VGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHK-------INNAVGQALLAK 172
+GR TPL R+T+ G I K E N + K + A L+
Sbjct: 14 IGR-TPLVRLRRVTD------GAVADIVAKLEFFNPANSVKDRIGVAMLQAAEQAGLIKP 66
Query: 173 RLGKTRIIAETGAGQHGVATATVCARFGLQCIVYMGAQ-DMERQALNVFRMRLLGAEV 229
I E +G G+A A VCA G +C++ M +ER+ L +R GAE+
Sbjct: 67 --DTI--ILEPTSGNTGIALAMVCAARGYRCVLTMPETMSLERRML----LRAYGAEL 116
>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 = 34.8 bits (81), Expect = 0.041
Identities = 31/118 (26%), Positives = 46/118 (38%), Gaps = 23/118 (19%)
Query: 120 VGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHK-------INNAVGQALLAK 172
+G TP R+ + +YLK E +N + K I A L
Sbjct: 12 IGD-TPAVKLNRIVD------EDSADVYLKLEFMNPGSSVKDRIALAMIEAAEKAGKLKP 64
Query: 173 RLGKTRIIAETGAGQHGVATATVCARFGLQCIVYMGAQ-DMERQALNVFRMRLLGAEV 229
G T I E +G G+ A V A G + ++ M +ER+ L +R GAE+
Sbjct: 65 --GDT--IVEPTSGNTGIGLAMVAAAKGYKAVLVMPDTMSLERRNL----LRAYGAEL 114
>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 = 33.9 bits (78), Expect = 0.093
Identities = 31/120 (25%), Positives = 46/120 (38%), Gaps = 21/120 (17%)
Query: 118 DYVGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHK-------INNAVGQALL 170
+G TP+ R+ + G + K E N G+ K I +A L
Sbjct: 104 KKIGD-TPMV---RIN-KIGKKFGLKCELLAKCEFFNAGGSVKDRISLRMIEDAERDGTL 158
Query: 171 AKRLGKTRIIAETGAGQHGVATATVCARFGLQCIVYM-GAQDMERQALNVFRMRLLGAEV 229
G T I E +G G+ A A G +CI+ M E+ + +R LGAE+
Sbjct: 159 KP--GDT--IIEPTSGNTGIGLALAAAVRGYRCIIVMPEKMSSEKVDV----LRALGAEI 210
>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 = 31.7 bits (73), Expect = 0.41
Identities = 28/118 (23%), Positives = 45/118 (38%), Gaps = 25/118 (21%)
Query: 120 VGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHTGAHK-------INNAVGQALLAK 172
+G TPL + G ++ +K E N + + K + A L K
Sbjct: 11 IGN-TPLVRLKHF--------GHNGNVVVKIEGRNPSYSVKCRIGANMVWQAEKDGTLTK 61
Query: 173 RLGKTRIIAETGAGQHGVATATVCARFGLQCIVYMGA-QDMERQALNVFRMRLLGAEV 229
GK I + +G G+A A V A G + + M +ER+ L + LG +
Sbjct: 62 --GKE--IVDATSGNTGIALAYVAAARGYKITLTMPETMSLERKRL----LCGLGVNL 111
>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 = 30.7 bits (68), Expect = 0.49
Identities = 9/30 (30%), Positives = 14/30 (46%), Gaps = 10/30 (33%)
Query: 26 QSPFKLKKFTAS-----P--AKSTSIRCTI 48
Q+ LKK AS A + +I+ T+
Sbjct: 20 QA---LKKLQASLKLYADDSAPALAIKATM 46
Score = 30.3 bits (67), Expect = 0.59
Identities = 7/15 (46%), Positives = 11/15 (73%)
Query: 91 ALSELESALHKLADD 105
AL +L+++L ADD
Sbjct: 21 ALKKLQASLKLYADD 35
>1gkl_A Endo-1,4-beta-xylanase Y; hydrolase, esterase family 1, inactive
mutant; HET: FER; 1.4A {Clostridium thermocellum} SCOP:
c.69.1.2 PDB: 1wb4_A* 1wb5_A* 1wb6_A* 1gkk_A*
Length = 297
Score = 30.4 bits (68), Expect = 1.0
Identities = 10/99 (10%), Positives = 21/99 (21%), Gaps = 13/99 (13%)
Query: 67 WQRPDVFGRFGRFGGKFVPETLMYALSELESALHKLADDRDFQEELSGILRDYVGRETPL 126
D F G + + + +++ + + + + G E
Sbjct: 177 VNCLDYVAYFMPLSGDYWYGN---SPQDKANSIAEAINRSGLSKREYFVFAA-TGSEDIA 232
Query: 127 Y---------FAERLTEHYRRPNGGGPHIYLKREDLNHT 156
Y Y G +L H
Sbjct: 233 YANMNPQIEAMKALPHFDYTSDFSKGNFYFLVAPGATHW 271
>1ygp_A Yeast glycogen phosphorylase; phosphorylated form,
glycosyltransferase; HET: PLP; 2.80A {Saccharomyces
cerevisiae} SCOP: c.87.1.4
Length = 879
Score = 29.9 bits (68), Expect = 2.4
Identities = 8/40 (20%), Positives = 20/40 (50%), Gaps = 8/40 (20%)
Query: 92 LSELESALHKLADDRDFQEELSGI-------LRDYVGRET 124
+++L L K +D++F ++ + + L D + +E
Sbjct: 548 MAKLT-QLEKYVEDKEFLKKWNQVKLNNKIRLVDLIKKEN 586
>3rp8_A Flavoprotein monooxygenase; FAD-binding protein, oxidoreductase;
HET: FAD; 1.97A {Klebsiella pneumoniae} PDB: 3rp7_A*
3rp6_A*
Length = 407
Score = 29.5 bits (67), Expect = 2.4
Identities = 20/126 (15%), Positives = 36/126 (28%), Gaps = 30/126 (23%)
Query: 184 GAGQHGVATATVCARFGLQCIVYMGAQDMERQAL------------NVFR-MRLLG--AE 228
GAG G++ A + G+ C VY E N + M LG
Sbjct: 30 GAGIGGLSAAVALKQSGIDCDVY------EAVKEIKPVGAAISVWPNGVKCMAHLGMGDI 83
Query: 229 VRAVHSGTATLKDATSEAIRDWVTNVETTHYILGSVAGPHPYPMMV---RDFHAVIGKET 285
+ + A RD+ + T + L + + +
Sbjct: 84 METFGGPLRRM------AYRDFRSGENMTQFSLAPLIERTGSRPCPVSRAELQREMLDYW 137
Query: 286 RRQALE 291
R +++
Sbjct: 138 GRDSVQ 143
>3n0w_A ABC branched chain amino acid family transporter, periplasmic
ligand binding protein...; receptor family ligand
binding region; HET: MSE; 1.88A {Burkholderia
xenovorans}
Length = 379
Score = 28.9 bits (65), Expect = 3.2
Identities = 12/85 (14%), Positives = 27/85 (31%), Gaps = 23/85 (27%)
Query: 262 GSVAGPHPYPMMVRDFHAVIGKETRRQALEKWGGKPDVLIACVGGGSNA----------- 310
G + G +P +DF + + + +A ++++ GG +N
Sbjct: 171 GQIVGSVRFPFETQDFSSYL---LQAKAS-----GAQLIVSTSGGAANINIMKQAREFGL 222
Query: 311 ----MGLFHEFVNDKDVRLIGVEAA 331
+ DV+ G+
Sbjct: 223 PSKTQKVGGMIDILTDVKSAGLRVM 247
>3m70_A Tellurite resistance protein TEHB homolog; structural genomics,
PSI-2, protein ST initiative; 1.95A {Haemophilus
influenzae}
Length = 286
Score = 28.8 bits (64), Expect = 3.5
Identities = 12/39 (30%), Positives = 19/39 (48%)
Query: 347 GEVGVLHGALSYLLQNEDGQIIEPHSISAGLDYPGVGPE 385
G++ VL G L + E+G +I H + P V P+
Sbjct: 35 GKLTVLKGKLKFYELTENGDVIAEHIFTPESHIPFVEPQ 73
>2h84_A Steely1; thiolase-fold, type III polyketide synthase, PKS,
chalcone-S synthase superfamily, type I PKS; HET: P6G;
2.90A {Dictyostelium discoideum}
Length = 374
Score = 28.6 bits (64), Expect = 4.8
Identities = 17/111 (15%), Positives = 34/111 (30%), Gaps = 17/111 (15%)
Query: 254 VETTHYILGSVAGPHPYPMMVRDFHAV-----IGKETRRQALEKWGGKP---DVLIACVG 305
V S+ H + + + ++ +AL+ WGG +++
Sbjct: 66 VRDYTKPENSIKFRHLETITDVNNQFKKVVPDLAQQACLRALKDWGGDKGDITHIVSVTS 125
Query: 306 GGSNAMGLFHEFVND----KDVRLI-----GVEAAGFGLDSGKHAATLSKG 347
G + + ++ KDV + G A L + A S
Sbjct: 126 TGIIIPDVNFKLIDLLGLNKDVERVSLNLMGCLAGLSSLRTAASLAKASPR 176
>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 = 28.4 bits (63), Expect = 4.9
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 117 RDYVGRETPLYFAERLTEHYRRPN 140
+ +GRE L +E L E +R N
Sbjct: 69 NEALGRELMLQLSEFLCEEFRNRN 92
>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 = 28.3 bits (63), Expect = 5.6
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 117 RDYVGRETPLYFAERLTEHYRR 138
+ VGRE L E L +++
Sbjct: 73 NEVVGRELLLNLIEYLCKNFGT 94
>2c4m_A Glycogen phosphorylase; allosteric control, phosphate dependence,
starch degrading, transferase, glycosyltransferase; HET:
PLP; 1.9A {Corynebacterium callunae}
Length = 796
Score = 28.2 bits (64), Expect = 5.9
Identities = 11/40 (27%), Positives = 16/40 (40%), Gaps = 8/40 (20%)
Query: 92 LSELESALHKLADDRDFQEELSGI-------LRDYVGRET 124
L EL+ L ADD+ EEL I +++
Sbjct: 470 LDELK-KLRSYADDKSVLEELRAIKAANKQDFAEWILERQ 508
>1l5w_A Maltodextrin phosphorylase; enzymatic catalysis, substrate complex,
trans; HET: GLC PLP; 1.80A {Escherichia coli} SCOP:
c.87.1.4 PDB: 1l5v_A* 1l6i_A* 2asv_A* 2av6_A* 2aw3_A*
2azd_A* 1qm5_A* 1e4o_A* 2ecp_A* 1ahp_A*
Length = 796
Score = 28.2 bits (64), Expect = 6.1
Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 8/40 (20%)
Query: 92 LSELESALHKLADDRDFQEELSGI-------LRDYVGRET 124
L +L L K ADD F+++ I L ++V T
Sbjct: 480 LDQLI-NLEKFADDAKFRQQYREIKQANKVRLAEFVKVRT 518
>2dpo_A L-gulonate 3-dehydrogenase; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
1.70A {Oryctolagus cuniculus} PDB: 2ep9_A* 3ado_A 3a97_A
3adp_A* 3f3s_A*
Length = 319
Score = 28.1 bits (63), Expect = 6.3
Identities = 14/85 (16%), Positives = 25/85 (29%), Gaps = 15/85 (17%)
Query: 180 IAETGAGQHGVATATVCARFGLQCIVYMGAQDMERQALNVFRMRL-------------LG 226
+ G+G G + A + A G + +Y AL R +
Sbjct: 9 VLIVGSGLVGRSWAMLFASGGFRVKLYDIEPRQITGALENIRKEMKSLQQSGSLKGSLSA 68
Query: 227 AEVRAVHSGTATLKDATSEAIRDWV 251
E ++ S L +A +
Sbjct: 69 EEQLSLISSCTNLAEAVEGV--VHI 91
>2gj4_A Glycogen phosphorylase, muscle form; transferase; HET: PLR 2TH;
1.60A {Oryctolagus cuniculus} SCOP: c.87.1.4 PDB:
2gm9_A* 1abb_A* 3nc4_A* 3l79_A* 2pyd_A* 2pyi_A* 3l7a_A*
3l7b_A* 3l7c_A* 3l7d_A* 2qnb_A* 1c8l_A* 1axr_A* 1gpy_A*
1e1y_A* 1lwo_A* 1pyg_A* 1uzu_A* 1lwn_A* 1xkx_A* ...
Length = 824
Score = 27.9 bits (63), Expect = 7.6
Identities = 9/40 (22%), Positives = 15/40 (37%), Gaps = 8/40 (20%)
Query: 92 LSELESALHKLADDRDFQEELSGI-------LRDYVGRET 124
L +L L DD F +++ + Y+ RE
Sbjct: 504 LDQLR-KLLSYVDDEAFIRDVAKVKQENKLKFAAYLEREY 542
>2bmo_B Oxygenase-beta NBDO; nitrobenzene dioxygenase, nitroarene, rieske
non-heme dioxygenase, substrate specificity iron-
sulfur, metal-binding, NAD; 1.2A {Comamonas SP} SCOP:
d.17.4.4 PDB: 2bmq_B 2bmr_B* 1o7n_B 1ndo_B 1o7g_B*
1o7h_B 1o7m_B 1eg9_B 1o7p_B* 1o7w_B 1uuv_B 1uuw_B 2hmj_B
2hmk_B* 2hml_B* 2hmm_B* 2hmn_B* 2hmo_B*
Length = 194
Score = 27.3 bits (60), Expect = 8.0
Identities = 8/42 (19%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 115 ILRDYVGRETPLYFAERLTEHYRRPNGGGPHIYLKREDLNHT 156
+ R + +++A R + ++R GGG + + D
Sbjct: 143 LHRARRENQVDVFYATR-EDKWKRIEGGGIKLVERFVDYPER 183
>4g8t_A Glucarate dehydratase; enolase, enzyme function INI EFI, structural
genomics, lyase; 1.70A {Actinobacillus succinogenes}
PDB: 1ec7_A 1ec8_A* 1ec9_A* 1ecq_A* 1jdf_A* 3pwi_A*
1jct_A* 3pwg_A* 1bqg_A
Length = 464
Score = 27.9 bits (62), Expect = 8.5
Identities = 7/34 (20%), Positives = 15/34 (44%)
Query: 67 WQRPDVFGRFGRFGGKFVPETLMYALSELESALH 100
Q + GR F T ++ ++ +E+A+
Sbjct: 106 RQTFNDHDAGGRGLQTFDLRTTIHVVTAIEAAML 139
>3i09_A Periplasmic branched-chain amino acid-binding Pro; type I
periplasmic binding protein, structural genomics, JOI
for structural genomics; HET: MSE CIT; 1.80A
{Burkholderia mallei}
Length = 375
Score = 27.7 bits (62), Expect = 8.7
Identities = 16/84 (19%), Positives = 27/84 (32%), Gaps = 22/84 (26%)
Query: 262 GSVAGPHPYPMMVRDFHAVIGKETRRQALEKWGGKPDVLIACVGGGSN--------AMGL 313
G V G +P+ DF + + + Q+ K +L GG G+
Sbjct: 169 GKVLGEVRHPLSASDFSSFL---LQAQSS-----KAQILGLANAGGDTVNAIKAAKEFGI 220
Query: 314 FHEF------VNDKDVRLIGVEAA 331
+ DV +G+E
Sbjct: 221 TKTMKLAALLMFINDVHALGLETT 244
>3mn8_A LP15968P; catalytic domain of alpha/beta-hydrolase fold,
C-terminal, A transthyretin-like domain, hydrolase; HET:
NAG GEM; 2.70A {Drosophila melanogaster}
Length = 435
Score = 27.6 bits (61), Expect = 8.8
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 120 VGRETPLYFAERLTEHYRR 138
VGR+ +Y A+ L ++ R
Sbjct: 106 VGRQLLVYMAQYLLGNHER 124
>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 = 8.9
Identities = 6/22 (27%), Positives = 10/22 (45%)
Query: 117 RDYVGRETPLYFAERLTEHYRR 138
+ VGRE L+ + L +
Sbjct: 68 DETVGRELLLHLIDYLVTSDGK 89
>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 = 27.5 bits (62), Expect = 9.7
Identities = 40/171 (23%), Positives = 66/171 (38%), Gaps = 39/171 (22%)
Query: 189 GVATATVCARFGLQCIVYMGAQ-DMERQALNVFRMRLLGAEVRAVHSGTATLKDATSEA- 246
G+A A + A+ G + I+ M +ER+ + +++LGAE+ + G +K A +A
Sbjct: 77 GIAIAMIGAKRGHRVILTMPETMSVERRKV----LKMLGAEL-VLTPGELGMKGAVEKAL 131
Query: 247 -IRDWVTNVETTHYILGSVAGP-HPYPMMVRDFHAVIGKETRRQALEKW---GGKPDVLI 301
I ET ++L P + H + T E + D +
Sbjct: 132 EISR-----ETGAHMLNQFENPYNV------YSH----QFT--TGPEILKQMDYQIDAFV 174
Query: 302 ACVGGGSNAMGLFHEF--VNDKDVRLIGVEAAGFGLDSGKHAATLSKGEVG 350
A VG G G+ V+++ VE A S LS G+ G
Sbjct: 175 AGVGTGGTISGVGRVLKGFFGNGVKIVAVEPA----KS----PVLSGGQPG 217
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 0.412
Gapped
Lambda K H
0.267 0.0639 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,915,272
Number of extensions: 442135
Number of successful extensions: 1115
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1054
Number of HSP's successfully gapped: 78
Length of query: 439
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 343
Effective length of database: 4,021,377
Effective search space: 1379332311
Effective search space used: 1379332311
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 59 (26.7 bits)