RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 010008
(520 letters)
>gnl|CDD|215639 PLN03226, PLN03226, serine hydroxymethyltransferase; Provisional.
Length = 475
Score = 899 bits (2326), Expect = 0.0
Identities = 320/469 (68%), Positives = 370/469 (78%), Gaps = 11/469 (2%)
Query: 60 PEIGGDGSSFVDYSLGEADPEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTN 119
+ + + L E DPE+ +II KEK RQ+K LELIASENFTSRAVMEA+GSCLTN
Sbjct: 1 EKSMVSVPKWGNAPLEEVDPEIADIIEKEKRRQWKGLELIASENFTSRAVMEALGSCLTN 60
Query: 120 KYSEGLPGKRYYGGNEYIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAI 179
KYSEGLPG RYYGGNEYID++ETLCQKRAL AF LD KWGVNVQPLSGSPANF VYTA+
Sbjct: 61 KYSEGLPGARYYGGNEYIDQIETLCQKRALEAFRLDPEKWGVNVQPLSGSPANFAVYTAL 120
Query: 180 LKPHDRIMGLDLPHGGHLSHGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAI 239
L+PHDRIMGLDLPHGGHLSHG+ T +++S TSIYFESMPYRLDESTGL+DYD LEK A+
Sbjct: 121 LQPHDRIMGLDLPHGGHLSHGYQTDGKKISATSIYFESMPYRLDESTGLIDYDKLEKKAM 180
Query: 240 LFRPKLIIAGASAYPRDFDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVV 299
LFRPKLIIAGASAYPRD+DY RMR+IAD VGALLM DMAHISGLVAA A PF+YCDVV
Sbjct: 181 LFRPKLIIAGASAYPRDWDYARMRKIADKVGALLMCDMAHISGLVAAQEAASPFEYCDVV 240
Query: 300 TTTTHKSLRGPRGGMIFFKKDPVLG--------VELESAINNAVFPGLQGGPHNHTIGGL 351
TTTTHKSLRGPRGGMIFF+K P + E IN AVFPGLQGGPHNHTI L
Sbjct: 241 TTTTHKSLRGPRGGMIFFRKGPKPPKGQGEGAVYDYEDKINFAVFPGLQGGPHNHTIAAL 300
Query: 352 AVCLKHAQSPEFKVYQNKVVSNCRALASRLVELGYKLVSGGSDNHLVLVDLRPMGIDGAR 411
AV LK A +PEFK YQ +V +N ALA+RL+ GYKLV+GG+DNHLVL DLRP+G+ G+R
Sbjct: 301 AVALKQAMTPEFKAYQKQVKANAAALANRLMSKGYKLVTGGTDNHLVLWDLRPLGLTGSR 360
Query: 412 VEKILDMASITLNKNSVPGDKSALVPGGIRIGSPAMTTRGFSEKEFVAIADFIHEGVEIT 471
VEK+LD+A ITLNKN+VPGD SALVPGG+RIG+PAMT+RG EK+F +A+F+H V I
Sbjct: 361 VEKVLDLAHITLNKNAVPGDSSALVPGGVRIGTPAMTSRGLVEKDFEKVAEFLHRAVTIA 420
Query: 472 LEAKKLVQGSKLQDFMNFVTSPNFSLMNNVADLRGRVEALTTQFPIPGV 520
L+ +K G KL+DF + S +FS ++ LR VE T FP+PG
Sbjct: 421 LKIQK-EHGKKLKDFKKGLESNDFS--KDIEALRAEVEEFATSFPMPGF 466
>gnl|CDD|240264 PTZ00094, PTZ00094, serine hydroxymethyltransferase; Provisional.
Length = 452
Score = 763 bits (1972), Expect = 0.0
Identities = 282/448 (62%), Positives = 345/448 (77%), Gaps = 11/448 (2%)
Query: 73 SLGEADPEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYG 132
SL EADPE+ E+I KEKERQ + LELIASENFTSRAV+E +GSC TNKY+EGLPG RYYG
Sbjct: 14 SLKEADPELYELIEKEKERQIEGLELIASENFTSRAVLECLGSCFTNKYAEGLPGNRYYG 73
Query: 133 GNEYIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLP 192
GNE +D++E LCQKRAL AF LD +WGVNVQP SGSPANF VYTA+L+PHDRIMGLDLP
Sbjct: 74 GNEVVDKIENLCQKRALEAFGLDPEEWGVNVQPYSGSPANFAVYTALLQPHDRIMGLDLP 133
Query: 193 HGGHLSHGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASA 252
GGHL+HGF T K++VS TSIYFES+PY+++E GL+DYD LE+ A FRPKLIIAGASA
Sbjct: 134 SGGHLTHGFYTAKKKVSATSIYFESLPYQVNE-KGLIDYDKLEELAKAFRPKLIIAGASA 192
Query: 253 YPRDFDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRG 312
YPRD DY R R+I D+VGA LM D+AH SGLVAA V+ PF Y DVVTTTTHKSLRGPR
Sbjct: 193 YPRDIDYKRFREICDSVGAYLMADIAHTSGLVAAGVLPSPFPYADVVTTTTHKSLRGPRS 252
Query: 313 GMIFFKKDPVLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVYQNKVVS 372
G+IF++K + ++E+ IN AVFPGLQGGPHNH I +AV LK QSPE+K Y +V+
Sbjct: 253 GLIFYRKK--VKPDIENKINEAVFPGLQGGPHNHQIAAIAVQLKEVQSPEWKEYAKQVLK 310
Query: 373 NCRALASRLVELGYKLVSGGSDNHLVLVDLRPMGIDGARVEKILDMASITLNKNSVPGDK 432
N +ALA+ L + GY LV+GG+DNHLVLVDLRP GI G+++EK+LD +I++NKN++PGDK
Sbjct: 311 NAKALAAALEKRGYDLVTGGTDNHLVLVDLRPFGITGSKMEKLLDAVNISVNKNTIPGDK 370
Query: 433 SALVPGGIRIGSPAMTTRGFSEKEFVAIADFIHEGVEITLEAKKLVQGSKLQDFM-NFVT 491
SAL P G+R+G+PA+TTRG EK+F +ADF+ V++ E +K V G KL DF
Sbjct: 371 SALNPSGVRLGTPALTTRGAKEKDFKFVADFLDRAVKLAQEIQKQV-GKKLVDFKKALEK 429
Query: 492 SPNFSLMNNVADLRGRVEALTTQFPIPG 519
+P + LR V +QFP PG
Sbjct: 430 NP------ELQKLRQEVVEFASQFPFPG 451
>gnl|CDD|189558 pfam00464, SHMT, Serine hydroxymethyltransferase.
Length = 380
Score = 663 bits (1713), Expect = 0.0
Identities = 254/392 (64%), Positives = 299/392 (76%), Gaps = 13/392 (3%)
Query: 74 LGEADPEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYGG 133
L ++DPE+ +II KEKERQ + +ELIASENFTSRAVMEA+GS LTNKY+EG PGKRYYGG
Sbjct: 1 LSDSDPEIFDIIKKEKERQREGIELIASENFTSRAVMEALGSVLTNKYAEGYPGKRYYGG 60
Query: 134 NEYIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPH 193
EY+DE+ETL Q RA F LD GVNVQPLSGS AN VYTA+L P DRIMGLDLPH
Sbjct: 61 CEYVDEVETLAQDRAKELFGLD----GVNVQPLSGSQANLAVYTALLNPGDRIMGLDLPH 116
Query: 194 GGHLSHGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASAY 253
GGHL+HG+ + +FESMPY +D TGL+DYD LEK A LF+PKLI+AG SAY
Sbjct: 117 GGHLTHGYPVNF-----SGKFFESMPYGVDPDTGLIDYDQLEKNAKLFKPKLIVAGTSAY 171
Query: 254 PRDFDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGG 313
R DY R R+IAD VGA LM+DMAHI+GLVAA V+ PF Y VVTTTTHK+LRGPRGG
Sbjct: 172 SRLIDYARFREIADEVGAYLMVDMAHIAGLVAAGVIPSPFPYAHVVTTTTHKTLRGPRGG 231
Query: 314 MIFFKKDPVLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVYQNKVVSN 373
MIFF++ ELE IN+AVFPGLQGGP NH I AV LK A +PEFKVYQ +V+ N
Sbjct: 232 MIFFREIL---YELEKKINSAVFPGLQGGPLNHVIAAKAVALKQALTPEFKVYQQQVLKN 288
Query: 374 CRALASRLVELGYKLVSGGSDNHLVLVDLRPMGIDGARVEKILDMASITLNKNSVPGD-K 432
+ALA L E GYKLVSGG+DNHLVLVDLRP G+DG R EK L+ A+IT NKN++PGD K
Sbjct: 289 AKALAEALKERGYKLVSGGTDNHLVLVDLRPKGLDGKRAEKALERANITANKNTIPGDPK 348
Query: 433 SALVPGGIRIGSPAMTTRGFSEKEFVAIADFI 464
S V G+R+G+PA+T+RGF E +F +A +I
Sbjct: 349 SPFVTSGLRLGTPALTSRGFGEADFEEVAGYI 380
>gnl|CDD|99733 cd00378, SHMT, Serine-glycine hydroxymethyltransferase (SHMT). This
family belongs to pyridoxal phosphate (PLP)-dependent
aspartate aminotransferase superfamily (fold I). SHMT
carries out interconversion of serine and glycine; it
catalyzes the transfer of hydroxymethyl group of N5,
N10-methylene tetrahydrofolate to glycine resulting in
the formation of serine and tetrahydrofolate. Both
eukaryotic and prokaryotic SHMT enzymes form tight
obligate homodimers; the mammalian enzyme forms a
homotetramer comprising four pyridoxal phosphate-bound
active sites.
Length = 402
Score = 650 bits (1680), Expect = 0.0
Identities = 238/403 (59%), Positives = 284/403 (70%), Gaps = 13/403 (3%)
Query: 76 EADPEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYGGNE 135
+ DPE+ EII KE ERQ ++LELIASENFTS AVMEA+GS LTNKY+EG PGKRYYGG E
Sbjct: 2 DVDPEIAEIIKKENERQRETLELIASENFTSPAVMEAMGSDLTNKYAEGYPGKRYYGGCE 61
Query: 136 YIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPHGG 195
Y+DE+E L +RA F + NVQP SGS AN VY A+L+P D IMGLDL HGG
Sbjct: 62 YVDEIEDLAIERAKKLFGAE----YANVQPHSGSQANLAVYFALLEPGDTIMGLDLSHGG 117
Query: 196 HLSHGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASAYPR 255
HL+HG T +VS + FES+PY +D TGL+DYD LEK A+ F+PKLI+AGASAYPR
Sbjct: 118 HLTHGSFT---KVSASGKLFESVPYGVDPETGLIDYDALEKMALEFKPKLIVAGASAYPR 174
Query: 256 DFDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMI 315
D+ R R+IAD VGA L++DMAH++GLVA V +P DVVTTTTHK+LRGPRGG+I
Sbjct: 175 PIDFKRFREIADEVGAYLLVDMAHVAGLVAGGVFPNPLPGADVVTTTTHKTLRGPRGGLI 234
Query: 316 FFKKDPVLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVYQNKVVSNCR 375
+K EL IN+AVFPGLQGGPH H I AV LK A PEFK Y +VV N +
Sbjct: 235 LTRKG-----ELAKKINSAVFPGLQGGPHLHVIAAKAVALKEALEPEFKAYAKQVVENAK 289
Query: 376 ALASRLVELGYKLVSGGSDNHLVLVDLRPMGIDGARVEKILDMASITLNKNSVPGDKS-A 434
ALA L E G+K+VSGG+DNHLVLVDLRP GI G E L+ A IT+NKN++P D S
Sbjct: 290 ALAEALKERGFKVVSGGTDNHLVLVDLRPKGITGKAAEDALEEAGITVNKNTLPWDPSSP 349
Query: 435 LVPGGIRIGSPAMTTRGFSEKEFVAIADFIHEGVEITLEAKKL 477
VP GIRIG+PAMTTRG E+E IADFI ++ +
Sbjct: 350 FVPSGIRIGTPAMTTRGMGEEEMEEIADFIARALKDAEDVAVA 392
>gnl|CDD|223190 COG0112, GlyA, Glycine/serine hydroxymethyltransferase [Amino acid
transport and metabolism].
Length = 413
Score = 619 bits (1598), Expect = 0.0
Identities = 231/453 (50%), Positives = 284/453 (62%), Gaps = 41/453 (9%)
Query: 68 SFVDYSLGEADPEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPG 127
S SL + DPE+ E I +E ERQ + +ELIASENFTS AVMEA GS LTNKY+EG PG
Sbjct: 1 SRSYASLADYDPEIFEAIQQELERQREHIELIASENFTSPAVMEAQGSDLTNKYAEGYPG 60
Query: 128 KRYYGGNEYIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIM 187
KRYYGG EY+DE+E L +RA F + NVQP SGS AN VY A+L+P D IM
Sbjct: 61 KRYYGGCEYVDEVEELAIERAKKLFGAE----YANVQPHSGSQANQAVYLALLQPGDTIM 116
Query: 188 GLDLPHGGHLSHGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLII 247
GLDL HGGHL+HG V+ + F + Y +D TGL+DYD +EK A +PKLII
Sbjct: 117 GLDLSHGGHLTHG-----SPVNFSGKLFNVVSYGVDPETGLIDYDEVEKLAKEVKPKLII 171
Query: 248 AGASAYPRDFDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSL 307
AG SAY R D+ R R+IAD VGA LM+DMAH++GL+A V +P + DVVTTTTHK+L
Sbjct: 172 AGGSAYSRPIDFKRFREIADEVGAYLMVDMAHVAGLIAGGVHPNPLPHADVVTTTTHKTL 231
Query: 308 RGPRGGMIFFKKDPVLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVYQ 367
RGPRGG+I + EL IN+AVFPGLQGGP H I AV K A PEFK Y
Sbjct: 232 RGPRGGIILTNDE-----ELAKKINSAVFPGLQGGPLMHVIAAKAVAFKEALEPEFKEYA 286
Query: 368 NKVVSNCRALASRLVELGYKLVSGGSDNHLVLVDLRPMGIDGARVEKILDMASITLNKNS 427
+VV N +ALA L E G+K+VSGG+DNHLVLVDLR G+ G + E L+ A IT+NKN+
Sbjct: 287 KQVVKNAKALAEALKERGFKVVSGGTDNHLVLVDLRSKGLTGKKAEAALERAGITVNKNA 346
Query: 428 VPGD-KSALVPGGIRIGSPAMTTRGFSEKEFVAIADFIHEGVEITLEAKKLVQGSKLQDF 486
+P D +S V GIRIG+PA+TTRGF E E IAD I + L+ K V
Sbjct: 347 IPFDPESPFVTSGIRIGTPAVTTRGFGEAEMEEIADLIAD----VLDGLKDV-------- 394
Query: 487 MNFVTSPNFSLMNNVADLRGRVEALTTQFPIPG 519
A+++ V L +FP+
Sbjct: 395 --------------PAEVKEEVAELCRRFPLYK 413
>gnl|CDD|234571 PRK00011, glyA, serine hydroxymethyltransferase; Reviewed.
Length = 416
Score = 608 bits (1572), Expect = 0.0
Identities = 224/448 (50%), Positives = 283/448 (63%), Gaps = 39/448 (8%)
Query: 73 SLGEADPEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYG 132
+L E DPE+ + I +E +RQ + +ELIASENF S AVMEA GS LTNKY+EG PGKRYYG
Sbjct: 5 NLAEYDPEIADAIEQELKRQEEHIELIASENFVSPAVMEAQGSVLTNKYAEGYPGKRYYG 64
Query: 133 GNEYIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLP 192
G EY+D +E L RA F + NVQP SGS AN VY A+LKP D I+G+DL
Sbjct: 65 GCEYVDVVEQLAIDRAKELFGAEY----ANVQPHSGSQANAAVYFALLKPGDTILGMDLA 120
Query: 193 HGGHLSHGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASA 252
HGGHL+HG V+ + + + Y +DE TGL+DYD +EK A+ +PKLIIAGASA
Sbjct: 121 HGGHLTHG-----SPVNFSGKLYNVVSYGVDEETGLIDYDEVEKLALEHKPKLIIAGASA 175
Query: 253 YPRDFDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRG 312
Y R D+ R R+IAD VGA LM+DMAHI+GLVAA V P + DVVTTTTHK+LRGPRG
Sbjct: 176 YSRPIDFKRFREIADEVGAYLMVDMAHIAGLVAAGVHPSPVPHADVVTTTTHKTLRGPRG 235
Query: 313 GMIFFKKDPVLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVYQNKVVS 372
G+I + EL IN+AVFPG+QGGP H I AV K A PEFK Y +VV
Sbjct: 236 GLILTNDE-----ELAKKINSAVFPGIQGGPLMHVIAAKAVAFKEALEPEFKEYAQQVVK 290
Query: 373 NCRALASRLVELGYKLVSGGSDNHLVLVDLRPMGIDGARVEKILDMASITLNKNSVPGD- 431
N +ALA L E G+++VSGG+DNHLVLVDLR G+ G E L+ A+IT+NKN+VP D
Sbjct: 291 NAKALAEALAERGFRVVSGGTDNHLVLVDLRSKGLTGKEAEAALEEANITVNKNAVPFDP 350
Query: 432 KSALVPGGIRIGSPAMTTRGFSEKEFVAIADFIHEGVEITLEAKKLVQGSKLQDFMNFVT 491
+S V GIRIG+PA+TTRGF E E IA+ I + ++
Sbjct: 351 RSPFVTSGIRIGTPAITTRGFKEAEMKEIAELIADVLD---------------------- 388
Query: 492 SPNFSLMNNVADLRGRVEALTTQFPIPG 519
N + +++ V+ L +FP+
Sbjct: 389 --NPDDEAVIEEVKEEVKELCKRFPLYK 414
>gnl|CDD|215153 PLN02271, PLN02271, serine hydroxymethyltransferase.
Length = 586
Score = 597 bits (1541), Expect = 0.0
Identities = 254/466 (54%), Positives = 327/466 (70%), Gaps = 25/466 (5%)
Query: 71 DYSLGEADPEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRY 130
+ L EADP++ E++ KEK+RQFK +ELIASENF RAVMEA+GS LTNKYSEG+PG RY
Sbjct: 126 NQPLPEADPDIHELMEKEKQRQFKGIELIASENFVCRAVMEALGSHLTNKYSEGMPGARY 185
Query: 131 YGGNEYIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLD 190
Y GN+YID++E LC +RALAAF LD KWGVNVQP S + ANF VYT +L P DRIMGLD
Sbjct: 186 YTGNQYIDQIERLCCERALAAFGLDSEKWGVNVQPYSCTSANFAVYTGLLLPGDRIMGLD 245
Query: 191 LPHGGHLSHGFMTPK-RRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAG 249
P GGH+SHG+ TP ++VSG SI+FES+PY+++ TG +DYD LE+ A+ FRPK++I G
Sbjct: 246 SPSGGHMSHGYYTPGGKKVSGASIFFESLPYKVNPQTGYIDYDKLEEKALDFRPKILICG 305
Query: 250 ASAYPRDFDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRG 309
S+YPR++DY R RQIAD GA+LM DMAHISGLVAA +PF YCD+VT+TTHKSLRG
Sbjct: 306 GSSYPREWDYARFRQIADKCGAVLMCDMAHISGLVAAKECVNPFDYCDIVTSTTHKSLRG 365
Query: 310 PRGGMIFFKKDPVL---------GVE-----LESAINNAVFPGLQGGPHNHTIGGLAVCL 355
PRGG+IF++K P L G + E IN AVFP LQGGPHN+ I LA+ L
Sbjct: 366 PRGGIIFYRKGPKLRKQGMLLSHGDDNSHYDFEEKINFAVFPSLQGGPHNNHIAALAIAL 425
Query: 356 KHAQSPEFKVYQNKVVSNCRALASRLVELGYKLVSGGSDNHLVLVDLRPMGIDGARVEKI 415
K +PE+K Y +V N +ALAS L+ +LV+GG+DNHL+L DL +G+ G EK+
Sbjct: 426 KQVATPEYKAYMQQVKKNAQALASALLRRKCRLVTGGTDNHLLLWDLTTLGLTGKNYEKV 485
Query: 416 LDMASITLNKNSVPGDKSALVPGGIRIGSPAMTTRGFSEKEFVAIADFIHEGVEITLEAK 475
+M ITLNK ++ GD + PGG+RIG+PAMT+RG E +F IADF+ +I +
Sbjct: 486 CEMCHITLNKTAIFGDNGTISPGGVRIGTPAMTSRGCLESDFETIADFLLRAAQIASAVQ 545
Query: 476 KLVQGSKLQDFMNFVTSPNFSLMNN--VADLRGRVEALTTQFPIPG 519
+ G ++F+ L NN + +LR RVEA +QF +PG
Sbjct: 546 R-EHGKLQKEFLK-------GLQNNKDIVELRNRVEAFASQFAMPG 583
>gnl|CDD|237280 PRK13034, PRK13034, serine hydroxymethyltransferase; Reviewed.
Length = 416
Score = 535 bits (1380), Expect = 0.0
Identities = 236/453 (52%), Positives = 291/453 (64%), Gaps = 39/453 (8%)
Query: 67 SSFVDYSLGEADPEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLP 126
F SL E D EV I KE ERQ LELIASENFTS AVMEA GS LTNKY+EG P
Sbjct: 2 MFFFSDSLEEYDDEVFAAINKELERQQDHLELIASENFTSPAVMEAQGSVLTNKYAEGYP 61
Query: 127 GKRYYGGNEYIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRI 186
GKRYYGG E++DE+E L +RA F D NVQP SGS AN VY A+LKP D I
Sbjct: 62 GKRYYGGCEFVDEVEALAIERAKQLFGCDY----ANVQPHSGSQANGAVYLALLKPGDTI 117
Query: 187 MGLDLPHGGHLSHGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLI 246
+G+ L HGGHL+HG +VS + ++ ++ Y +D TGL+DYD +E+ A +PKLI
Sbjct: 118 LGMSLSHGGHLTHG-----AKVSLSGKWYNAVQYGVDRLTGLIDYDEVEELAKEHKPKLI 172
Query: 247 IAGASAYPRDFDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKS 306
IAG SAYPR+ D+ R R+IAD VGALLM+DMAHI+GLVAA +PF + VVTTTTHK+
Sbjct: 173 IAGFSAYPRELDFARFREIADEVGALLMVDMAHIAGLVAAGEHPNPFPHAHVVTTTTHKT 232
Query: 307 LRGPRGGMIFFKKDPVLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVY 366
LRGPRGGMI + E+ IN+AVFPGLQGGP H I AV A PEFK Y
Sbjct: 233 LRGPRGGMILTNDE-----EIAKKINSAVFPGLQGGPLMHVIAAKAVAFGEALQPEFKTY 287
Query: 367 QNKVVSNCRALASRLVELGYKLVSGGSDNHLVLVDLRPMGIDGARVEKILDMASITLNKN 426
+V++N +ALA L E GY LVSGG+DNHL+LVDLRP G+ G E+ L+ A IT+NKN
Sbjct: 288 AKQVIANAQALAEVLKERGYDLVSGGTDNHLLLVDLRPKGLSGKDAEQALERAGITVNKN 347
Query: 427 SVPGD-KSALVPGGIRIGSPAMTTRGFSEKEFVAIADFIHEGVEITLEAKKLVQGSKLQD 485
+VPGD +S V GIRIG+PA TTRGF E EF IA++I + L+ + + L+
Sbjct: 348 TVPGDTESPFVTSGIRIGTPAGTTRGFGEAEFREIANWILD----VLDD---LGNAALE- 399
Query: 486 FMNFVTSPNFSLMNNVADLRGRVEALTTQFPIP 518
+R V+AL ++FPI
Sbjct: 400 ----------------QRVRKEVKALCSRFPIY 416
>gnl|CDD|184161 PRK13580, PRK13580, serine hydroxymethyltransferase; Provisional.
Length = 493
Score = 368 bits (946), Expect = e-122
Identities = 180/485 (37%), Positives = 257/485 (52%), Gaps = 64/485 (13%)
Query: 74 LGEADPEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYGG 133
+ +P + E I +E Q SL+LIASEN++S AV A+G+ LT+KY+EG PG R+Y G
Sbjct: 30 ILHVEPRIAEAIRQELADQRSSLKLIASENYSSLAVQLAMGNLLTDKYAEGTPGHRFYAG 89
Query: 134 NEYIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPH---------- 183
+ +D +E + A F + VQP SG+ AN + AIL
Sbjct: 90 CQNVDTVEWEAAEHAKELFGAEH----AYVQPHSGADANLVAFWAILAHKVESPALEKLG 145
Query: 184 ---------------------DRIMGLDLPHGGHLSHGFMTPKRRVSGTSIYFESMPYRL 222
R++G+ L GGHL+HGF R + + F Y +
Sbjct: 146 AKTVNDLTEEDWEALRAELGNQRLLGMSLDSGGHLTHGF-----RPNISGKMFHQRSYGV 200
Query: 223 DESTGLVDYDMLEKTAILFRPKLIIAGASAYPRDFDYPRMRQIADAVGALLMMDMAHISG 282
D TGL+DYD + A F+P +++AG SAYPR ++ ++R+IAD VGA+LM+DMAH +G
Sbjct: 201 DPDTGLLDYDEIAALAREFKPLILVAGYSAYPRRVNFAKLREIADEVGAVLMVDMAHFAG 260
Query: 283 LVAASVVA---DPFKYCDVVTTTTHKSLRGPRGGMIFFKKDPVLGVELESAINNAVFPGL 339
LVA V DP + D+VTTTTHK+LRGPRGG++ KK E A++ P +
Sbjct: 261 LVAGKVFTGDEDPVPHADIVTTTTHKTLRGPRGGLVLAKK------EYADAVDKGC-PLV 313
Query: 340 QGGPHNHTIGGLAVCLKHAQSPEFKVYQNKVVSNCRALASRLVELGYKLVSGGSDNHLVL 399
GGP H + AV L A++PEF+ Y +VV N RALA ++ G +LV+GG+DNHLVL
Sbjct: 314 LGGPLPHVMAAKAVALAEARTPEFQKYAQQVVDNARALAEGFLKRGARLVTGGTDNHLVL 373
Query: 400 VDLRPMGIDGARVEKILDMASITLNKNSVPGDKS-ALVPGGIRIGSPAMTTRGFSEKEFV 458
+D+ G+ G + E L A I N+NS+P D + A GIR+G+PA+TT G E
Sbjct: 374 IDVTSFGLTGRQAESALLDAGIVTNRNSIPSDPNGAWYTSGIRLGTPALTTLGMGSDEMD 433
Query: 459 AIADFIHEGVE-ITLEAKKLVQGSKLQDFMNFVTSPNFSLMNNVAD-LRGRVEALTTQFP 516
+A+ I + + T SK + VA +R RV L +FP
Sbjct: 434 EVAELIVKVLSNTTPGTTAEGAPSK----AKYELDE------GVAQEVRARVAELLARFP 483
Query: 517 I-PGV 520
+ P +
Sbjct: 484 LYPEI 488
>gnl|CDD|99742 cd01494, AAT_I, Aspartate aminotransferase (AAT) superfamily (fold
type I) of pyridoxal phosphate (PLP)-dependent enzymes.
PLP combines with an alpha-amino acid to form a compound
called a Schiff base or aldimine intermediate, which
depending on the reaction, is the substrate in four
kinds of reactions (1) transamination (movement of amino
groups), (2) racemization (redistribution of
enantiomers), (3) decarboxylation (removing COOH
groups), and (4) various side-chain reactions depending
on the enzyme involved. Pyridoxal phosphate (PLP)
dependent enzymes were previously classified into alpha,
beta and gamma classes, based on the chemical
characteristics (carbon atom involved) of the reaction
they catalyzed. The availability of several structures
allowed a comprehensive analysis of the evolutionary
classification of PLP dependent enzymes, and it was
found that the functional classification did not always
agree with the evolutionary history of these enzymes.
Structure and sequence analysis has revealed that the
PLP dependent enzymes can be classified into four major
groups of different evolutionary origin: aspartate
aminotransferase superfamily (fold type I), tryptophan
synthase beta superfamily (fold type II), alanine
racemase superfamily (fold type III), and D-amino acid
superfamily (fold type IV) and Glycogen phophorylase
family (fold type V).
Length = 170
Score = 105 bits (264), Expect = 1e-26
Identities = 44/182 (24%), Positives = 70/182 (38%), Gaps = 15/182 (8%)
Query: 140 LETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPHGGHLSH 199
+++ P SG+ AN A+L P D ++ HG
Sbjct: 1 KLEELEEKLARLLQ--PGNDKAVFVP-SGTGANEAALLALLGPGDEVIVDANGHGSRY-- 55
Query: 200 GFMTPKRRVSGTSIYFESMPYRLDEST-GLVDYDMLEKTAILFRPKLIIAGASAYPRDFD 258
V+ + +P +D++ G +D +LE+ LI+ +
Sbjct: 56 -------WVAAELAGAKPVPVPVDDAGYGGLDVAILEELKAKPNVALIVITPNTTSGGVL 108
Query: 259 YP--RMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMIF 316
P +R+IA G LL++D A G A V P DVVT + HK+L G GG++
Sbjct: 109 VPLKEIRKIAKEYGILLLVDAASAGGASPAPGVLIPEGGADVVTFSLHKNLGGEGGGVVI 168
Query: 317 FK 318
K
Sbjct: 169 VK 170
>gnl|CDD|99734 cd00609, AAT_like, Aspartate aminotransferase family. This family
belongs to pyridoxal phosphate (PLP)-dependent aspartate
aminotransferase superfamily (fold I). Pyridoxal
phosphate combines with an alpha-amino acid to form a
compound called a Schiff base or aldimine intermediate,
which depending on the reaction, is the substrate in
four kinds of reactions (1) transamination (movement of
amino groups), (2) racemization (redistribution of
enantiomers), (3) decarboxylation (removing COOH
groups), and (4) various side-chain reactions depending
on the enzyme involved. Pyridoxal phosphate (PLP)
dependent enzymes were previously classified into alpha,
beta and gamma classes, based on the chemical
characteristics (carbon atom involved) of the reaction
they catalyzed. The availability of several structures
allowed a comprehensive analysis of the evolutionary
classification of PLP dependent enzymes, and it was
found that the functional classification did not always
agree with the evolutionary history of these enzymes.
The major groups in this CD corresponds to Aspartate
aminotransferase a, b and c, Tyrosine, Alanine,
Aromatic-amino-acid, Glutamine phenylpyruvate,
1-Aminocyclopropane-1-carboxylate synthase,
Histidinol-phosphate, gene products of malY and cobC,
Valine-pyruvate aminotransferase and Rhizopine
catabolism regulatory protein.
Length = 350
Score = 47.0 bits (112), Expect = 1e-05
Identities = 64/334 (19%), Positives = 117/334 (35%), Gaps = 43/334 (12%)
Query: 126 PGKRYYGGNEYIDELETLCQKRALAAFNLDENKWGV---NVQPLSGS-PANFEVYTAILK 181
G Y + + EL + A+A + V + +G+ A + A+L
Sbjct: 27 AGLLGYYPDPGLPEL-----REAIAEWLGRRGGVDVPPEEIVVTNGAQEALSLLLRALLN 81
Query: 182 PHDRIMGLDLPHGGHLSHGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILF 241
P D ++ +P + + R++G + P LDE G + L + A
Sbjct: 82 PGDEVL---VPDPTYPGYEAAA---RLAGAEVV----PVPLDEEGGFLLDLELLEAAKTP 131
Query: 242 RPKLIIAGASAYP--RDFDYPRMRQIADAV---GALLMMDMAHISGLVAASVVADPFKYC 296
+ KL+ P + ++A+ G L++ D A+ + LV
Sbjct: 132 KTKLLYLNNPNNPTGAVLSEEELEELAELAKKHGILIISDEAY-AELVYDGEPPPALALL 190
Query: 297 D-----VVTTTTHKSLRGP--RGGMIFFKKDPVLGVELESAINNAVFPGLQGGPHNHTIG 349
D +V + K+ P R G + + +L + P GP +
Sbjct: 191 DAYERVIVLRSFSKTFGLPGLRIGYLIAPPEELL------ERLKKLLPYTTSGPSTLSQA 244
Query: 350 GLAVCLKHAQSPEFKVYQNKVVSNCRALASRLVELGYKLVSGGSDNHLVLVDLRPMGIDG 409
A L + + + + AL L ELG +V S + +DL G D
Sbjct: 245 AAAAALDDGEE-HLEELRERYRRRRDALLEALKELGPLVVVKPSGGFFLWLDLPE-GDDE 302
Query: 410 ARVEKILDMASITLNKNSVPGDKSALVPGGIRIG 443
+E++L A + + S G+ G +R+
Sbjct: 303 EFLERLLLEAGVVVRPGSAFGEGG---EGFVRLS 333
>gnl|CDD|223594 COG0520, csdA, Selenocysteine lyase/Cysteine desulfurase
[Posttranslational modification, protein turnover,
chaperones].
Length = 405
Score = 45.8 bits (109), Expect = 3e-05
Identities = 44/233 (18%), Positives = 84/233 (36%), Gaps = 27/233 (11%)
Query: 257 FDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRG-GMI 315
+ ++A GAL+++D A +G + V CD + + HK L GP G G++
Sbjct: 179 NPVKEIAELAHEHGALVLVDAAQAAGHLPIDVQEL---GCDFLAFSGHKWLLGPTGIGVL 235
Query: 316 FFKKD-------PVLGVELESAINNAVFPGLQGGPHN------HTIG--GLAVCLKHAQS 360
+ +K+ + G + ++ L P + G GLA L +
Sbjct: 236 YVRKELLEELEPFLGGGGMIEYVSRDEGVTLAELPLRFEAGTPNIAGAIGLAAALDYLLE 295
Query: 361 PEFKVYQNKVVSNCRALASRLVELGYKLVSG-GSDNHLVLVDLRPMGIDGARVEKILDMA 419
+ + L L EL + G + +V GI V +LD
Sbjct: 296 IGMEAIEAHERELTEYLLEGLSELPGVEIYGPPDADRGGIVSFNVKGIHPHDVATLLDEK 355
Query: 420 SITL---NKNSVPGDKSALVPGGIRIGSPAMTTRGFSEKEFVAIADFIHEGVE 469
I + + + P + V IR S + +E++ + + + + +
Sbjct: 356 GIAVRAGHHCAQPLHRLLGVDATIRA-SLHLYN---TEEDVDRLLEALKKALA 404
>gnl|CDD|215756 pfam00155, Aminotran_1_2, Aminotransferase class I and II.
Length = 357
Score = 40.4 bits (95), Expect = 0.001
Identities = 65/352 (18%), Positives = 113/352 (32%), Gaps = 74/352 (21%)
Query: 131 YGGNEYIDELETLCQKRALAAFNLDENKWG----VNVQPLSGSPANFEVYTAILK--PHD 184
YG + + EL ALA F V SG+ AN E +L+ P D
Sbjct: 37 YGPTDGLPELRE-----ALAKFLGRSPVLKLDREAAVVFGSGAGANIEALIFLLRLNPGD 91
Query: 185 RIMGLDLPHGGHLSHGFMTPKRRVSGTSIYFESMPYRL-DESTGLVDYDMLEK--TAILF 241
I+ + + F R++G E + Y L + +D+D LE
Sbjct: 92 AILVPAPTYPSY-IRIF-----RLAG----GEVVRYPLYSSNDFHLDFDALEAALKEATE 141
Query: 242 RPKLIIAG------ASAYPRDFDYPRMRQIADAVGALLMMDMAHISGLV-----AASVVA 290
K+++ + + + ++ +A LL++D A+ G V A + A
Sbjct: 142 GNKVVLHTSPHNPTGTVATLE-ELEKLLDLAKEHNILLLVDEAYA-GFVFGSLDAVATRA 199
Query: 291 DPFKYCDVVTTTT-HKS--LRGPRGGMIFFKKDPVLGV-ELESAINNAVFPGLQGGPHNH 346
+ +++ + K+ L G R G I LG + S + P
Sbjct: 200 LLAEGPNLLVVGSFSKAFGLAGWRVGYI-------LGNAAVISQLRKLA------RPFYS 246
Query: 347 TIGGLAVCLKHAQSPEFKVYQNK-----VVSNCRALASRLVELGYKLVSGGSDNHLVLVD 401
+ A P + + + L L G ++ S L+
Sbjct: 247 STHLQAAAAAALSDPLLVASELEEMRQRIKERRDYLRDGLEAAGLSVL--PSQAGFFLL- 303
Query: 402 LRPMGIDGARVE----KILDMASITLNKNSVPGDKSALVPGGIRIGSPAMTT 449
G+D +L+ + + S G PG +RI T
Sbjct: 304 ---TGLDPEAALALAQVLLEEVGVYVTPGSSFG-----GPGWLRITVAGGTE 347
>gnl|CDD|216367 pfam01212, Beta_elim_lyase, Beta-eliminating lyase.
Length = 288
Score = 37.2 bits (87), Expect = 0.013
Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 2/62 (3%)
Query: 261 RMRQIADAVGALLMMDMAHISGLVAAS--VVADPFKYCDVVTTTTHKSLRGPRGGMIFFK 318
+R IA G L +D A ++ A +V + Y D V+ + K L P G ++
Sbjct: 153 EIRAIAREHGIPLHLDGARLANAAVALGVIVKEITSYADSVSMSLSKGLGAPVGSVLAGS 212
Query: 319 KD 320
D
Sbjct: 213 DD 214
>gnl|CDD|225576 COG3033, TnaA, Tryptophanase [Amino acid transport and metabolism].
Length = 471
Score = 37.4 bits (87), Expect = 0.015
Identities = 37/160 (23%), Positives = 58/160 (36%), Gaps = 24/160 (15%)
Query: 262 MRQIADAVGALLMMDMAHIS--------------GLVAASVVADPFKYCDVVTTTTHKSL 307
+ +IA ++MD A + + + + Y D T + K
Sbjct: 211 VYEIAKKYDIPVVMDAARFAENAYFIKQREPGYRDWSIEEIAREMYSYADGCTMSAKKDG 270
Query: 308 RGPRGGMIFFKKDPVLGVELESAINNAVFPGLQ--GGPHNHTIGGLAVCLKHAQSPEFKV 365
GG + FK D V E V G GG + LAV L+ + ++
Sbjct: 271 LVNMGGFLCFKDDSFFDVYEECRTLVVVQEGFPTYGGLAGRDMEALAVGLREGVNFDYLA 330
Query: 366 YQNKVVSNCRALASRLVELGYKLV--SGGSDNHLVLVDLR 403
++ V+ + LA L E G +V +GG H V VD
Sbjct: 331 HR---VAQVQYLADGLEEAGVPIVQPAGG---HAVFVDAG 364
>gnl|CDD|130881 TIGR01822, 2am3keto_CoA, 2-amino-3-ketobutyrate coenzyme A ligase.
This model represents a narrowly defined clade of animal
and bacterial (almost exclusively Proteobacterial)
2-amino-3-ketobutyrate--CoA ligase. This enzyme can act
in threonine catabolism. The closest homolog from
Bacillus subtilis, and sequences like it, may be
functionally equivalent but were not included in the
model because of difficulty in finding reports of
function [Energy metabolism, Amino acids and amines].
Length = 393
Score = 35.6 bits (82), Expect = 0.063
Identities = 22/86 (25%), Positives = 37/86 (43%), Gaps = 8/86 (9%)
Query: 245 LIIAGASAYPRDFDYPRMRQI---ADAVGALLMMDMAHISGLVAAS-----VVADPFKYC 296
+IA + D + +I AD AL+M+D H +G + + +
Sbjct: 172 RLIATDGVFSMDGVIAPLDEICDLADKYDALVMVDECHATGFLGPTGRGSHELCGVMGRV 231
Query: 297 DVVTTTTHKSLRGPRGGMIFFKKDPV 322
D++T T K+L G GG +K+ V
Sbjct: 232 DIITGTLGKALGGASGGFTTARKEVV 257
>gnl|CDD|227010 COG4664, FcbT3, TRAP-type mannitol/chloroaromatic compound
transport system, large permease component [Secondary
metabolites biosynthesis, transport, and catabolism].
Length = 447
Score = 35.0 bits (81), Expect = 0.094
Identities = 29/77 (37%), Positives = 36/77 (46%), Gaps = 20/77 (25%)
Query: 214 YFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASAYPRDFDYPRMRQIADAVGALL 273
+F M L E +GL + D+LE LF P + G AY VGALL
Sbjct: 72 FFTFMGLVL-ERSGLAE-DLLETIGQLFGP---VRGGLAYAVII-----------VGALL 115
Query: 274 MMDMAHISGLVAASVVA 290
A +G+VAASVVA
Sbjct: 116 ----AATTGVVAASVVA 128
>gnl|CDD|224832 COG1921, SelA, Selenocysteine synthase [seryl-tRNASer selenium
transferase] [Amino acid transport and metabolism].
Length = 395
Score = 32.3 bits (74), Expect = 0.52
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 296 CDVVTTTTHKSLRGPRGGMIFFKKD 320
D+V+ + K L GP+ G+I KK+
Sbjct: 214 ADLVSFSGDKLLGGPQAGIIVGKKE 238
>gnl|CDD|235893 PRK06939, PRK06939, 2-amino-3-ketobutyrate coenzyme A ligase;
Provisional.
Length = 397
Score = 32.1 bits (74), Expect = 0.66
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 7/60 (11%)
Query: 260 PRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYC------DVVTTTTHKSLRGPRGG 313
P + +AD AL+M+D +H G V + ++ D++T T K+L G GG
Sbjct: 194 PEICDLADKYDALVMVDDSHAVGFVGENGRGTV-EHFGVMDRVDIITGTLGKALGGASGG 252
>gnl|CDD|99747 cd06454, KBL_like, KBL_like; this family belongs to the pyridoxal
phosphate (PLP)-dependent aspartate aminotransferase
superfamily (fold I). The major groups in this CD
corresponds to serine palmitoyltransferase (SPT),
5-aminolevulinate synthase (ALAS),
8-amino-7-oxononanoate synthase (AONS), and
2-amino-3-ketobutyrate CoA ligase (KBL). SPT is
responsible for the condensation of L-serine with
palmitoyl-CoA to produce 3-ketodihydrospingosine, the
reaction of the first step in sphingolipid biosynthesis.
ALAS is involved in heme biosynthesis; it catalyzes the
synthesis of 5-aminolevulinic acid from glycine and
succinyl-coenzyme A. AONS catalyses the decarboxylative
condensation of l-alanine and pimeloyl-CoA in the first
committed step of biotin biosynthesis. KBL catalyzes the
second reaction step of the metabolic degradation
pathway for threonine converting 2-amino-3-ketobutyrate,
to glycine and acetyl-CoA. The members of this CD are
widely found in all three forms of life.
Length = 349
Score = 31.8 bits (73), Expect = 0.78
Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 18/100 (18%)
Query: 233 MLEKTAILFRPKLIIA-------GASAYPRDFDYPRMRQIADAVGALLMMDMAHISGLV- 284
+L + + KLI+ G A P + +A GA+L +D AH G+
Sbjct: 123 LLREARRPYGKKLIVTEGVYSMDGDIA-----PLPELVDLAKKYGAILFVDEAHSVGVYG 177
Query: 285 -AASVVADPFKYC---DVVTTTTHKSLRGPRGGMIFFKKD 320
V + D++ T K+ G GG I K+
Sbjct: 178 PHGRGVEEFGGLTDDVDIIMGTLGKAF-GAVGGYIAGSKE 216
>gnl|CDD|213830 TIGR03576, pyridox_MJ0158, pyridoxal phosphate enzyme, MJ0158
family. Members of this archaeal protein family are
pyridoxal phosphate enzymes of unknown function.
Sequence similarity to SelA, a bacterial enzyme of
selenocysteine biosynthesis, has led to some members
being misannotated as functionally equivalent, but
selenocysteine is made on tRNA in Archaea by a two-step
process that does not involve a SelA homolog [Unknown
function, Enzymes of unknown specificity].
Length = 346
Score = 30.5 bits (69), Expect = 2.0
Identities = 12/32 (37%), Positives = 21/32 (65%)
Query: 297 DVVTTTTHKSLRGPRGGMIFFKKDPVLGVELE 328
D+V T+T K + GPRGG++ +K+ V ++
Sbjct: 196 DLVVTSTDKLMDGPRGGLLAGRKELVDKIKSV 227
>gnl|CDD|99741 cd00617, Tnase_like, Tryptophanase family (Tnase). This family
belongs to pyridoxal phosphate (PLP)-dependent aspartate
aminotransferase superfamily (fold I). The major groups
in this CD correspond to tryptophanase (Tnase) and
tyrosine phenol-lyase (TPL). Tnase and TPL are active as
tetramers and catalyze beta-elimination reactions. Tnase
catalyzes degradation of L-tryptophan to yield indole,
pyruvate and ammonia and TPL catalyzes degradation of
L-tyrosine to yield phenol, pyruvate and ammonia.
Length = 431
Score = 30.4 bits (69), Expect = 2.7
Identities = 35/157 (22%), Positives = 57/157 (36%), Gaps = 23/157 (14%)
Query: 263 RQIADAVGALLMMDMAHI--------------SGLVAASVVADPFKYCDVVTTTTHKSLR 308
R++A G +++D A A + + F Y D T + K
Sbjct: 179 RELAHKYGIPVVLDAARFAENAYFIKEREEGYRDKSIAEIAREMFSYADGCTMSAKKDGL 238
Query: 309 GPRGGMIFFKKDPVLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVYQN 368
GG + + D + + + F GG + LA L+ A ++ ++
Sbjct: 239 VNIGGFLALRDDELYEEARQRVVLYEGFVTY-GGMAGRDMEALAQGLREAVEEDYLRHR- 296
Query: 369 KVVSNCRALASRLVELGYKLV--SGGSDNHLVLVDLR 403
V R L RL E G +V +GG H V +D R
Sbjct: 297 --VEQVRYLGDRLDEAGVPIVEPAGG---HAVFIDAR 328
>gnl|CDD|237314 PRK13238, tnaA, tryptophanase/L-cysteine desulfhydrase,
PLP-dependent; Provisional.
Length = 460
Score = 29.8 bits (68), Expect = 3.7
Identities = 34/164 (20%), Positives = 57/164 (34%), Gaps = 39/164 (23%)
Query: 262 MRQIADAVGALLMMDMAHIS--------------GLVAASVVADPFKYCDVVTTTTHKSL 307
+ +IA G +++D A + + + F Y D +T + K
Sbjct: 203 VYEIAKKYGIPVVIDAARFAENAYFIKQREPGYKDKSIKEIAREMFSYADGLTMSAKKDA 262
Query: 308 RGPRGGMIFFKKDPVLGVELESAINNAV-----FP---GLQGGPHNHTIGGLAVCLKHAQ 359
GG++ F+ + +L + FP GL G + LAV L
Sbjct: 263 MVNIGGLLCFRDE-----DLFTECRTLCILYEGFPTYGGLAG----RDMEALAVGLYEGM 313
Query: 360 SPEFKVYQNKVVSNCRALASRLVELGYKLV--SGGSDNHLVLVD 401
++ Y+ + L L E G + +GG H V VD
Sbjct: 314 DEDYLAYR---IGQVEYLGEGLEEAGVPIQTPAGG---HAVFVD 351
>gnl|CDD|215829 pfam00266, Aminotran_5, Aminotransferase class-V. This domain is
found in amino transferases, and other enzymes including
cysteine desulphurase EC:4.4.1.-.
Length = 370
Score = 29.1 bits (66), Expect = 5.1
Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 15/77 (19%)
Query: 257 FDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKY----CDVVTTTTHKSLRGPRG 312
+ ++A GAL+++D A +V P D + + HK L GP G
Sbjct: 156 NPVEEIGKLAHEYGALVVVDA-------AQAVGHRPIDVQALGVDFLAFSGHK-LYGPTG 207
Query: 313 -GMIFFKKDPVLGVELE 328
G+++ ++D L +L
Sbjct: 208 IGVLYGRRD--LLEKLP 222
>gnl|CDD|99748 cd06502, TA_like, Low-specificity threonine aldolase (TA). This
family belongs to pyridoxal phosphate (PLP)-dependent
aspartate aminotransferase superfamily (fold I). TA
catalyzes the conversion of L-threonine or
L-allo-threonine to glycine and acetaldehyde in a
secondary glycine biosynthetic pathway.
Length = 338
Score = 28.8 bits (65), Expect = 6.2
Identities = 43/236 (18%), Positives = 72/236 (30%), Gaps = 42/236 (17%)
Query: 100 ASENFT--SRAVMEAVGSCLTNKYSEGLPGKRYYGGNEYIDELETLCQKRALAAFNLDEN 157
S+ T + ++EA+ + G YG + +LE RA F +
Sbjct: 3 RSDTVTGPTPEMLEAM--------AAANVGDDVYGEDPTTAKLE----ARAAELFGKEAA 50
Query: 158 KWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPHGGHLSHGFMTPKRRVSGTSIYFES 217
+ SG+ AN A +P ++ H+
Sbjct: 51 LFVP-----SGTAANQLALAAHTQPGGSVI---CHETAHIYT------DEAGAPEFLSGV 96
Query: 218 MPYRLDESTGLVDYDMLEKTAILF------RPKLI-----IAGASAYPRDFDYPRMRQIA 266
+ G + + LE P L+ G + YP D + +A
Sbjct: 97 KLLPVPGENGKLTPEDLEAAIRPRDDIHFPPPSLVSLENTTEGGTVYPLDE-LKAISALA 155
Query: 267 DAVGALLMMDMAHISGLVAASVVADP--FKYCDVVTTTTHKSLRGPRGGMIFFKKD 320
G L +D A ++ AA VA D V+ K P G ++ +D
Sbjct: 156 KENGLPLHLDGARLANAAAALGVALKTYKSGVDSVSFCLSKGGGAPVGAVVVGNRD 211
>gnl|CDD|232883 TIGR00225, prc, C-terminal peptidase (prc). A C-terminal peptidase
with different substrates in different species including
processing of D1 protein of the photosystem II reaction
center in higher plants and cleavage of a peptide of 11
residues from the precursor form of penicillin-binding
protein in E.coli E.coli and H influenza have the most
distal branch of the tree and their proteins have an
N-terminal 200 amino acids that show no homology to
other proteins in the database [Protein fate,
Degradation of proteins, peptides, and glycopeptides,
Protein fate, Protein modification and repair].
Length = 334
Score = 28.9 bits (65), Expect = 6.2
Identities = 11/28 (39%), Positives = 16/28 (57%), Gaps = 4/28 (14%)
Query: 163 VQPLSGSPANFEVYTAILKPHDRIMGLD 190
V P GSPA A +KP D+I+ ++
Sbjct: 67 VSPFEGSPA----EKAGIKPGDKIIKIN 90
>gnl|CDD|235599 PRK05769, PRK05769, 4-aminobutyrate aminotransferase; Provisional.
Length = 441
Score = 29.1 bits (66), Expect = 6.3
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 7/45 (15%)
Query: 235 EKTAILFRPKLIIAGASAY---PRDFDYPRMRQIADAVGALLMMD 276
E AI+ P I G Y P++F + +R++AD G LL+ D
Sbjct: 221 EVAAIIVEP---IQGEGGYVVPPKNF-FKELRKLADKYGILLIDD 261
>gnl|CDD|131032 TIGR01977, am_tr_V_EF2568, cysteine desulfurase family protein.
This model describes a subfamily of probable pyridoxal
phosphate-dependent enzymes in the aminotransferase
class V family. Related families contain members active
as cysteine desulfurases, selenocysteine lyases, or
both. The members of this family form a distinct clade
and all are shorter at the N-terminus. The function of
this subfamily is unknown [Unknown function, Enzymes of
unknown specificity].
Length = 376
Score = 28.9 bits (65), Expect = 7.1
Identities = 13/58 (22%), Positives = 27/58 (46%), Gaps = 3/58 (5%)
Query: 264 QIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMIFFKKDP 321
++A G ++D A +G++ + D++ T HK L GP+G + ++
Sbjct: 161 ELAQENGIFFILDAAQTAGVIPIDMTELAI---DMLAFTGHKGLLGPQGTGGLYIREG 215
>gnl|CDD|223154 COG0076, GadB, Glutamate decarboxylase and related PLP-dependent
proteins [Amino acid transport and metabolism].
Length = 460
Score = 28.9 bits (65), Expect = 8.0
Identities = 32/159 (20%), Positives = 57/159 (35%), Gaps = 20/159 (12%)
Query: 297 DVVTTTTHKSLRGPRG-GMIFFKKDPVLGVELESAINNAVFPGLQGGPH-NHTI-----G 349
D +T HK P G G++ F+ + L I + L GG N TI G
Sbjct: 268 DSITVDGHKYGLAPIGCGVVLFRDEEAL---RRILIFADYY--LPGGGIPNFTILGSRPG 322
Query: 350 GLAVC----LKHAQSPEFKVYQNKVVSNCRALASRLVELG-YKLVSGGSDNHLVLVDLRP 404
A+ L+ ++ ++ + R LA L +LG ++LV ++ L +V R
Sbjct: 323 RQALALYANLRRLGREGYRKLLDRTLELARYLAEELEKLGDFELV---NEPELPIVAFRL 379
Query: 405 MGIDGARVEKILDMASITLNKNSVPGDKSALVPGGIRIG 443
+ + + + K + G +
Sbjct: 380 KDDEDTLADLSERLDRRGWQVPAQLLPKGLAIVFGTHVT 418
>gnl|CDD|222946 PHA02935, PHA02935, Hypothetical protein; Provisional.
Length = 349
Score = 28.5 bits (63), Expect = 9.3
Identities = 14/35 (40%), Positives = 20/35 (57%)
Query: 481 SKLQDFMNFVTSPNFSLMNNVADLRGRVEALTTQF 515
S L+D + T+ N S+ N+ DL GRV LT +
Sbjct: 121 SHLKDGVIVTTTMNISVKANIIDLTGRVRYLTRNY 155
>gnl|CDD|226039 COG3508, HmgA, Homogentisate 1,2-dioxygenase [Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 427
Score = 28.6 bits (64), Expect = 9.9
Identities = 15/50 (30%), Positives = 19/50 (38%), Gaps = 3/50 (6%)
Query: 217 SMPYRLDESTGLVDYDMLEKT-AILFRPKL--IIAGASAYPRDFDYPRMR 263
+R++ G E A P+L I A A PRDF P R
Sbjct: 179 GTTFRVELKDGEARGYGCENYGAKFRLPELGPIGANGLANPRDFKTPVAR 228
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.318 0.137 0.402
Gapped
Lambda K H
0.267 0.0601 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 26,841,795
Number of extensions: 2661247
Number of successful extensions: 2124
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2087
Number of HSP's successfully gapped: 37
Length of query: 520
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 419
Effective length of database: 6,457,848
Effective search space: 2705838312
Effective search space used: 2705838312
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 61 (27.6 bits)