RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 018300
(358 letters)
>gnl|CDD|215639 PLN03226, PLN03226, serine hydroxymethyltransferase; Provisional.
Length = 475
Score = 588 bits (1519), Expect = 0.0
Identities = 215/291 (73%), Positives = 237/291 (81%), Gaps = 8/291 (2%)
Query: 69 PEIGGDGSSFVDYSLGEADPEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTN 128
+ + + L E DPE+ +II KEK RQ+K LELIASENFTSRAVMEA+GSCLTN
Sbjct: 1 EKSMVSVPKWGNAPLEEVDPEIADIIEKEKRRQWKGLELIASENFTSRAVMEALGSCLTN 60
Query: 129 KYSEGLPGKRYYGGNEYIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAI 188
KYSEGLPG RYYGGNEYID++ETLCQKRAL AF LD KWGVNVQPLSGSPANF VYTA+
Sbjct: 61 KYSEGLPGARYYGGNEYIDQIETLCQKRALEAFRLDPEKWGVNVQPLSGSPANFAVYTAL 120
Query: 189 LKPHDRIMGLDLPHGGHLSHGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAI 248
L+PHDRIMGLDLPHGGHLSHG+ T +++S TSIYFESMPYRLDESTGL+DYD LEK A+
Sbjct: 121 LQPHDRIMGLDLPHGGHLSHGYQTDGKKISATSIYFESMPYRLDESTGLIDYDKLEKKAM 180
Query: 249 LFRPKLIIAGASAYPRDFDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVV 308
LFRPKLIIAGASAYPRD+DY RMR+IAD VGALLM DMAHISGLVAA A PF+YCDVV
Sbjct: 181 LFRPKLIIAGASAYPRDWDYARMRKIADKVGALLMCDMAHISGLVAAQEAASPFEYCDVV 240
Query: 309 TTTTHKSLRGPRGGMIFFKKDPVLG--------VELESAINNAVFPGLQVG 351
TTTTHKSLRGPRGGMIFF+K P + E IN AVFPGLQ G
Sbjct: 241 TTTTHKSLRGPRGGMIFFRKGPKPPKGQGEGAVYDYEDKINFAVFPGLQGG 291
>gnl|CDD|240264 PTZ00094, PTZ00094, serine hydroxymethyltransferase; Provisional.
Length = 452
Score = 525 bits (1355), Expect = 0.0
Identities = 191/270 (70%), Positives = 223/270 (82%), Gaps = 3/270 (1%)
Query: 82 SLGEADPEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYG 141
SL EADPE+ E+I KEKERQ + LELIASENFTSRAV+E +GSC TNKY+EGLPG RYYG
Sbjct: 14 SLKEADPELYELIEKEKERQIEGLELIASENFTSRAVLECLGSCFTNKYAEGLPGNRYYG 73
Query: 142 GNEYIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLP 201
GNE +D++E LCQKRAL AF LD +WGVNVQP SGSPANF VYTA+L+PHDRIMGLDLP
Sbjct: 74 GNEVVDKIENLCQKRALEAFGLDPEEWGVNVQPYSGSPANFAVYTALLQPHDRIMGLDLP 133
Query: 202 HGGHLSHGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASA 261
GGHL+HGF T K++VS TSIYFES+PY+++E GL+DYD LE+ A FRPKLIIAGASA
Sbjct: 134 SGGHLTHGFYTAKKKVSATSIYFESLPYQVNE-KGLIDYDKLEELAKAFRPKLIIAGASA 192
Query: 262 YPRDFDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRG 321
YPRD DY R R+I D+VGA LM D+AH SGLVAA V+ PF Y DVVTTTTHKSLRGPR
Sbjct: 193 YPRDIDYKRFREICDSVGAYLMADIAHTSGLVAAGVLPSPFPYADVVTTTTHKSLRGPRS 252
Query: 322 GMIFFKKDPVLGVELESAINNAVFPGLQVG 351
G+IF++K + ++E+ IN AVFPGLQ G
Sbjct: 253 GLIFYRKK--VKPDIENKINEAVFPGLQGG 280
>gnl|CDD|189558 pfam00464, SHMT, Serine hydroxymethyltransferase.
Length = 380
Score = 456 bits (1174), Expect = e-161
Identities = 179/269 (66%), Positives = 206/269 (76%), Gaps = 12/269 (4%)
Query: 83 LGEADPEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYGG 142
L ++DPE+ +II KEKERQ + +ELIASENFTSRAVMEA+GS LTNKY+EG PGKRYYGG
Sbjct: 1 LSDSDPEIFDIIKKEKERQREGIELIASENFTSRAVMEALGSVLTNKYAEGYPGKRYYGG 60
Query: 143 NEYIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPH 202
EY+DE+ETL Q RA F LD GVNVQPLSGS AN VYTA+L P DRIMGLDLPH
Sbjct: 61 CEYVDEVETLAQDRAKELFGLD----GVNVQPLSGSQANLAVYTALLNPGDRIMGLDLPH 116
Query: 203 GGHLSHGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASAY 262
GGHL+HG+ + +FESMPY +D TGL+DYD LEK A LF+PKLI+AG SAY
Sbjct: 117 GGHLTHGYPVNF-----SGKFFESMPYGVDPDTGLIDYDQLEKNAKLFKPKLIVAGTSAY 171
Query: 263 PRDFDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGG 322
R DY R R+IAD VGA LM+DMAHI+GLVAA V+ PF Y VVTTTTHK+LRGPRGG
Sbjct: 172 SRLIDYARFREIADEVGAYLMVDMAHIAGLVAAGVIPSPFPYAHVVTTTTHKTLRGPRGG 231
Query: 323 MIFFKKDPVLGVELESAINNAVFPGLQVG 351
MIFF++ ELE IN+AVFPGLQ G
Sbjct: 232 MIFFREIL---YELEKKINSAVFPGLQGG 257
>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 = 450 bits (1160), Expect = e-159
Identities = 163/267 (61%), Positives = 195/267 (73%), Gaps = 12/267 (4%)
Query: 85 EADPEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYGGNE 144
+ DPE+ EII KE ERQ ++LELIASENFTS AVMEA+GS LTNKY+EG PGKRYYGG E
Sbjct: 2 DVDPEIAEIIKKENERQRETLELIASENFTSPAVMEAMGSDLTNKYAEGYPGKRYYGGCE 61
Query: 145 YIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPHGG 204
Y+DE+E L +RA F + NVQP SGS AN VY A+L+P D IMGLDL HGG
Sbjct: 62 YVDEIEDLAIERAKKLFGAE----YANVQPHSGSQANLAVYFALLEPGDTIMGLDLSHGG 117
Query: 205 HLSHGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASAYPR 264
HL+HG T +VS + FES+PY +D TGL+DYD LEK A+ F+PKLI+AGASAYPR
Sbjct: 118 HLTHGSFT---KVSASGKLFESVPYGVDPETGLIDYDALEKMALEFKPKLIVAGASAYPR 174
Query: 265 DFDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMI 324
D+ R R+IAD VGA L++DMAH++GLVA V +P DVVTTTTHK+LRGPRGG+I
Sbjct: 175 PIDFKRFREIADEVGAYLLVDMAHVAGLVAGGVFPNPLPGADVVTTTTHKTLRGPRGGLI 234
Query: 325 FFKKDPVLGVELESAINNAVFPGLQVG 351
+K EL IN+AVFPGLQ G
Sbjct: 235 LTRKG-----ELAKKINSAVFPGLQGG 256
>gnl|CDD|215153 PLN02271, PLN02271, serine hydroxymethyltransferase.
Length = 586
Score = 427 bits (1100), Expect = e-147
Identities = 177/287 (61%), Positives = 217/287 (75%), Gaps = 15/287 (5%)
Query: 80 DYSLGEADPEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRY 139
+ L EADP++ E++ KEK+RQFK +ELIASENF RAVMEA+GS LTNKYSEG+PG RY
Sbjct: 126 NQPLPEADPDIHELMEKEKQRQFKGIELIASENFVCRAVMEALGSHLTNKYSEGMPGARY 185
Query: 140 YGGNEYIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLD 199
Y GN+YID++E LC +RALAAF LD KWGVNVQP S + ANF VYT +L P DRIMGLD
Sbjct: 186 YTGNQYIDQIERLCCERALAAFGLDSEKWGVNVQPYSCTSANFAVYTGLLLPGDRIMGLD 245
Query: 200 LPHGGHLSHGFMTPK-RRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAG 258
P GGH+SHG+ TP ++VSG SI+FES+PY+++ TG +DYD LE+ A+ FRPK++I G
Sbjct: 246 SPSGGHMSHGYYTPGGKKVSGASIFFESLPYKVNPQTGYIDYDKLEEKALDFRPKILICG 305
Query: 259 ASAYPRDFDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRG 318
S+YPR++DY R RQIAD GA+LM DMAHISGLVAA +PF YCD+VT+TTHKSLRG
Sbjct: 306 GSSYPREWDYARFRQIADKCGAVLMCDMAHISGLVAAKECVNPFDYCDIVTSTTHKSLRG 365
Query: 319 PRGGMIFFKKDPVL---------GVE-----LESAINNAVFPGLQVG 351
PRGG+IF++K P L G + E IN AVFP LQ G
Sbjct: 366 PRGGIIFYRKGPKLRKQGMLLSHGDDNSHYDFEEKINFAVFPSLQGG 412
>gnl|CDD|223190 COG0112, GlyA, Glycine/serine hydroxymethyltransferase [Amino acid
transport and metabolism].
Length = 413
Score = 417 bits (1074), Expect = e-145
Identities = 154/275 (56%), Positives = 186/275 (67%), Gaps = 14/275 (5%)
Query: 77 SFVDYSLGEADPEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPG 136
S SL + DPE+ E I +E ERQ + +ELIASENFTS AVMEA GS LTNKY+EG PG
Sbjct: 1 SRSYASLADYDPEIFEAIQQELERQREHIELIASENFTSPAVMEAQGSDLTNKYAEGYPG 60
Query: 137 KRYYGGNEYIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIM 196
KRYYGG EY+DE+E L +RA F + NVQP SGS AN VY A+L+P D IM
Sbjct: 61 KRYYGGCEYVDEVEELAIERAKKLFGAE----YANVQPHSGSQANQAVYLALLQPGDTIM 116
Query: 197 GLDLPHGGHLSHGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLII 256
GLDL HGGHL+HG V+ + F + Y +D TGL+DYD +EK A +PKLII
Sbjct: 117 GLDLSHGGHLTHG-----SPVNFSGKLFNVVSYGVDPETGLIDYDEVEKLAKEVKPKLII 171
Query: 257 AGASAYPRDFDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSL 316
AG SAY R D+ R R+IAD VGA LM+DMAH++GL+A V +P + DVVTTTTHK+L
Sbjct: 172 AGGSAYSRPIDFKRFREIADEVGAYLMVDMAHVAGLIAGGVHPNPLPHADVVTTTTHKTL 231
Query: 317 RGPRGGMIFFKKDPVLGVELESAINNAVFPGLQVG 351
RGPRGG+I + EL IN+AVFPGLQ G
Sbjct: 232 RGPRGGIILTNDE-----ELAKKINSAVFPGLQGG 261
>gnl|CDD|234571 PRK00011, glyA, serine hydroxymethyltransferase; Reviewed.
Length = 416
Score = 404 bits (1042), Expect = e-140
Identities = 151/270 (55%), Positives = 185/270 (68%), Gaps = 14/270 (5%)
Query: 82 SLGEADPEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYG 141
+L E DPE+ + I +E +RQ + +ELIASENF S AVMEA GS LTNKY+EG PGKRYYG
Sbjct: 5 NLAEYDPEIADAIEQELKRQEEHIELIASENFVSPAVMEAQGSVLTNKYAEGYPGKRYYG 64
Query: 142 GNEYIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLP 201
G EY+D +E L RA F + NVQP SGS AN VY A+LKP D I+G+DL
Sbjct: 65 GCEYVDVVEQLAIDRAKELFGAEY----ANVQPHSGSQANAAVYFALLKPGDTILGMDLA 120
Query: 202 HGGHLSHGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASA 261
HGGHL+HG V+ + + + Y +DE TGL+DYD +EK A+ +PKLIIAGASA
Sbjct: 121 HGGHLTHG-----SPVNFSGKLYNVVSYGVDEETGLIDYDEVEKLALEHKPKLIIAGASA 175
Query: 262 YPRDFDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRG 321
Y R D+ R R+IAD VGA LM+DMAHI+GLVAA V P + DVVTTTTHK+LRGPRG
Sbjct: 176 YSRPIDFKRFREIADEVGAYLMVDMAHIAGLVAAGVHPSPVPHADVVTTTTHKTLRGPRG 235
Query: 322 GMIFFKKDPVLGVELESAINNAVFPGLQVG 351
G+I + EL IN+AVFPG+Q G
Sbjct: 236 GLILTNDE-----ELAKKINSAVFPGIQGG 260
>gnl|CDD|237280 PRK13034, PRK13034, serine hydroxymethyltransferase; Reviewed.
Length = 416
Score = 367 bits (945), Expect = e-126
Identities = 157/276 (56%), Positives = 188/276 (68%), Gaps = 14/276 (5%)
Query: 76 SSFVDYSLGEADPEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLP 135
F SL E D EV I KE ERQ LELIASENFTS AVMEA GS LTNKY+EG P
Sbjct: 2 MFFFSDSLEEYDDEVFAAINKELERQQDHLELIASENFTSPAVMEAQGSVLTNKYAEGYP 61
Query: 136 GKRYYGGNEYIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRI 195
GKRYYGG E++DE+E L +RA F D NVQP SGS AN VY A+LKP D I
Sbjct: 62 GKRYYGGCEFVDEVEALAIERAKQLFGCDY----ANVQPHSGSQANGAVYLALLKPGDTI 117
Query: 196 MGLDLPHGGHLSHGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLI 255
+G+ L HGGHL+HG +VS + ++ ++ Y +D TGL+DYD +E+ A +PKLI
Sbjct: 118 LGMSLSHGGHLTHG-----AKVSLSGKWYNAVQYGVDRLTGLIDYDEVEELAKEHKPKLI 172
Query: 256 IAGASAYPRDFDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKS 315
IAG SAYPR+ D+ R R+IAD VGALLM+DMAHI+GLVAA +PF + VVTTTTHK+
Sbjct: 173 IAGFSAYPRELDFARFREIADEVGALLMVDMAHIAGLVAAGEHPNPFPHAHVVTTTTHKT 232
Query: 316 LRGPRGGMIFFKKDPVLGVELESAINNAVFPGLQVG 351
LRGPRGGMI + E+ IN+AVFPGLQ G
Sbjct: 233 LRGPRGGMILTNDE-----EIAKKINSAVFPGLQGG 263
>gnl|CDD|184161 PRK13580, PRK13580, serine hydroxymethyltransferase; Provisional.
Length = 493
Score = 241 bits (618), Expect = 6e-76
Identities = 112/295 (37%), Positives = 159/295 (53%), Gaps = 49/295 (16%)
Query: 83 LGEADPEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYGG 142
+ +P + E I +E Q SL+LIASEN++S AV A+G+ LT+KY+EG PG R+Y G
Sbjct: 30 ILHVEPRIAEAIRQELADQRSSLKLIASENYSSLAVQLAMGNLLTDKYAEGTPGHRFYAG 89
Query: 143 NEYIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPH---------- 192
+ +D +E + A F + VQP SG+ AN + AIL
Sbjct: 90 CQNVDTVEWEAAEHAKELFGAEH----AYVQPHSGADANLVAFWAILAHKVESPALEKLG 145
Query: 193 ---------------------DRIMGLDLPHGGHLSHGFMTPKRRVSGTSIYFESMPYRL 231
R++G+ L GGHL+HGF R + + F Y +
Sbjct: 146 AKTVNDLTEEDWEALRAELGNQRLLGMSLDSGGHLTHGF-----RPNISGKMFHQRSYGV 200
Query: 232 DESTGLVDYDMLEKTAILFRPKLIIAGASAYPRDFDYPRMRQIADAVGALLMMDMAHISG 291
D TGL+DYD + A F+P +++AG SAYPR ++ ++R+IAD VGA+LM+DMAH +G
Sbjct: 201 DPDTGLLDYDEIAALAREFKPLILVAGYSAYPRRVNFAKLREIADEVGAVLMVDMAHFAG 260
Query: 292 LVAASVVA---DPFKYCDVVTTTTHKSLRGPRGGMIFFKKDPVLGVELESAINNA 343
LVA V DP + D+VTTTTHK+LRGPRGG++ KK E A++
Sbjct: 261 LVAGKVFTGDEDPVPHADIVTTTTHKTLRGPRGGLVLAKK------EYADAVDKG 309
>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 (265), Expect = 2e-27
Identities = 44/182 (24%), Positives = 70/182 (38%), Gaps = 15/182 (8%)
Query: 149 LETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPHGGHLSH 208
+++ P SG+ AN A+L P D ++ HG
Sbjct: 1 KLEELEEKLARLLQ--PGNDKAVFVP-SGTGANEAALLALLGPGDEVIVDANGHGSRY-- 55
Query: 209 GFMTPKRRVSGTSIYFESMPYRLDEST-GLVDYDMLEKTAILFRPKLIIAGASAYPRDFD 267
V+ + +P +D++ G +D +LE+ LI+ +
Sbjct: 56 -------WVAAELAGAKPVPVPVDDAGYGGLDVAILEELKAKPNVALIVITPNTTSGGVL 108
Query: 268 YP--RMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMIF 325
P +R+IA G LL++D A G A V P DVVT + HK+L G GG++
Sbjct: 109 VPLKEIRKIAKEYGILLLVDAASAGGASPAPGVLIPEGGADVVTFSLHKNLGGEGGGVVI 168
Query: 326 FK 327
K
Sbjct: 169 VK 170
>gnl|CDD|223594 COG0520, csdA, Selenocysteine lyase/Cysteine desulfurase
[Posttranslational modification, protein turnover,
chaperones].
Length = 405
Score = 43.5 bits (103), Expect = 1e-04
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 4/65 (6%)
Query: 266 FDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRG-GMI 324
+ ++A GAL+++D A +G + V CD + + HK L GP G G++
Sbjct: 179 NPVKEIAELAHEHGALVLVDAAQAAGHLPIDVQEL---GCDFLAFSGHKWLLGPTGIGVL 235
Query: 325 FFKKD 329
+ +K+
Sbjct: 236 YVRKE 240
>gnl|CDD|216367 pfam01212, Beta_elim_lyase, Beta-eliminating lyase.
Length = 288
Score = 37.6 bits (88), Expect = 0.007
Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 2/62 (3%)
Query: 270 RMRQIADAVGALLMMDMAHISGLVAAS--VVADPFKYCDVVTTTTHKSLRGPRGGMIFFK 327
+R IA G L +D A ++ A +V + Y D V+ + K L P G ++
Sbjct: 153 EIRAIAREHGIPLHLDGARLANAAVALGVIVKEITSYADSVSMSLSKGLGAPVGSVLAGS 212
Query: 328 KD 329
D
Sbjct: 213 DD 214
>gnl|CDD|215756 pfam00155, Aminotran_1_2, Aminotransferase class I and II.
Length = 357
Score = 37.7 bits (88), Expect = 0.008
Identities = 44/209 (21%), Positives = 77/209 (36%), Gaps = 40/209 (19%)
Query: 140 YGGNEYIDELETLCQKRALAAFNLDENKWG----VNVQPLSGSPANFEVYTAILK--PHD 193
YG + + EL ALA F V SG+ AN E +L+ P D
Sbjct: 37 YGPTDGLPELRE-----ALAKFLGRSPVLKLDREAAVVFGSGAGANIEALIFLLRLNPGD 91
Query: 194 RIMGLDLPHGGHLSHGFMTPKRRVSGTSIYFESMPYRL-DESTGLVDYDMLEK--TAILF 250
I+ + + F R++G E + Y L + +D+D LE
Sbjct: 92 AILVPAPTYPSY-IRIF-----RLAG----GEVVRYPLYSSNDFHLDFDALEAALKEATE 141
Query: 251 RPKLIIAG------ASAYPRDFDYPRMRQIADAVGALLMMDMAHISGLV-----AASVVA 299
K+++ + + + ++ +A LL++D A+ G V A + A
Sbjct: 142 GNKVVLHTSPHNPTGTVATLE-ELEKLLDLAKEHNILLLVDEAYA-GFVFGSLDAVATRA 199
Query: 300 DPFKYCDVVTTTT-HKS--LRGPRGGMIF 325
+ +++ + K+ L G R G I
Sbjct: 200 LLAEGPNLLVVGSFSKAFGLAGWRVGYIL 228
>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 = 0.036
Identities = 22/86 (25%), Positives = 37/86 (43%), Gaps = 8/86 (9%)
Query: 254 LIIAGASAYPRDFDYPRMRQI---ADAVGALLMMDMAHISGLVAAS-----VVADPFKYC 305
+IA + D + +I AD AL+M+D H +G + + +
Sbjct: 172 RLIATDGVFSMDGVIAPLDEICDLADKYDALVMVDECHATGFLGPTGRGSHELCGVMGRV 231
Query: 306 DVVTTTTHKSLRGPRGGMIFFKKDPV 331
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 = 34.7 bits (80), Expect = 0.076
Identities = 29/77 (37%), Positives = 36/77 (46%), Gaps = 20/77 (25%)
Query: 223 YFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASAYPRDFDYPRMRQIADAVGALL 282
+F M L E +GL + D+LE LF P + G AY VGALL
Sbjct: 72 FFTFMGLVL-ERSGLAE-DLLETIGQLFGP---VRGGLAYAVII-----------VGALL 115
Query: 283 MMDMAHISGLVAASVVA 299
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 = 32.7 bits (75), Expect = 0.27
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 305 CDVVTTTTHKSLRGPRGGMIFFKKD 329
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 = 32.5 bits (75), Expect = 0.37
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 7/60 (11%)
Query: 269 PRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYC------DVVTTTTHKSLRGPRGG 322
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 = 32.1 bits (74), Expect = 0.40
Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 18/100 (18%)
Query: 242 MLEKTAILFRPKLIIA-------GASAYPRDFDYPRMRQIADAVGALLMMDMAHISGLV- 293
+L + + KLI+ G A P + +A GA+L +D AH G+
Sbjct: 123 LLREARRPYGKKLIVTEGVYSMDGDIA-----PLPELVDLAKKYGAILFVDEAHSVGVYG 177
Query: 294 -AASVVADPFKYC---DVVTTTTHKSLRGPRGGMIFFKKD 329
V + D++ T K+ G GG I K+
Sbjct: 178 PHGRGVEEFGGLTDDVDIIMGTLGKAF-GAVGGYIAGSKE 216
>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 = 30.8 bits (70), Expect = 0.99
Identities = 31/164 (18%), Positives = 60/164 (36%), Gaps = 24/164 (14%)
Query: 135 PGKRYYGGNEYIDELETLCQKRALAAFNLDENKWGV---NVQPLSGS-PANFEVYTAILK 190
G Y + + EL + A+A + V + +G+ A + A+L
Sbjct: 27 AGLLGYYPDPGLPEL-----REAIAEWLGRRGGVDVPPEEIVVTNGAQEALSLLLRALLN 81
Query: 191 PHDRIMGLDLPHGGHLSHGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILF 250
P D ++ +P + + R++G + P LDE G + L + A
Sbjct: 82 PGDEVL---VPDPTYPGYEAAA---RLAGAEVV----PVPLDEEGGFLLDLELLEAAKTP 131
Query: 251 RPKLIIAGASAYP--RDFDYPRMRQIADAV---GALLMMDMAHI 289
+ KL+ P + ++A+ G L++ D A+
Sbjct: 132 KTKLLYLNNPNNPTGAVLSEEELEELAELAKKHGILIISDEAYA 175
>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 = 30.9 bits (70), Expect = 1.1
Identities = 12/32 (37%), Positives = 21/32 (65%)
Query: 306 DVVTTTTHKSLRGPRGGMIFFKKDPVLGVELE 337
D+V T+T K + GPRGG++ +K+ V ++
Sbjct: 196 DLVVTSTDKLMDGPRGGLLAGRKELVDKIKSV 227
>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 = 29.5 bits (67), Expect = 2.5
Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 15/77 (19%)
Query: 266 FDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKY----CDVVTTTTHKSLRGPRG 321
+ ++A GAL+++D A +V P D + + HK L GP G
Sbjct: 156 NPVEEIGKLAHEYGALVVVDA-------AQAVGHRPIDVQALGVDFLAFSGHK-LYGPTG 207
Query: 322 -GMIFFKKDPVLGVELE 337
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 = 29.2 bits (66), Expect = 2.9
Identities = 43/236 (18%), Positives = 72/236 (30%), Gaps = 42/236 (17%)
Query: 109 ASENFT--SRAVMEAVGSCLTNKYSEGLPGKRYYGGNEYIDELETLCQKRALAAFNLDEN 166
S+ T + ++EA+ + G YG + +LE RA F +
Sbjct: 3 RSDTVTGPTPEMLEAM--------AAANVGDDVYGEDPTTAKLE----ARAAELFGKEAA 50
Query: 167 KWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPHGGHLSHGFMTPKRRVSGTSIYFES 226
+ SG+ AN A +P ++ H+
Sbjct: 51 LFVP-----SGTAANQLALAAHTQPGGSVI---CHETAHIYT------DEAGAPEFLSGV 96
Query: 227 MPYRLDESTGLVDYDMLEKTAILF------RPKLI-----IAGASAYPRDFDYPRMRQIA 275
+ G + + LE P L+ G + YP D + +A
Sbjct: 97 KLLPVPGENGKLTPEDLEAAIRPRDDIHFPPPSLVSLENTTEGGTVYPLDE-LKAISALA 155
Query: 276 DAVGALLMMDMAHISGLVAASVVADP--FKYCDVVTTTTHKSLRGPRGGMIFFKKD 329
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 = 29.3 bits (66), Expect = 3.1
Identities = 11/28 (39%), Positives = 16/28 (57%), Gaps = 4/28 (14%)
Query: 172 VQPLSGSPANFEVYTAILKPHDRIMGLD 199
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 = 3.7
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 7/45 (15%)
Query: 244 EKTAILFRPKLIIAGASAY---PRDFDYPRMRQIADAVGALLMMD 285
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 = 29.3 bits (66), Expect = 3.7
Identities = 13/58 (22%), Positives = 27/58 (46%), Gaps = 3/58 (5%)
Query: 273 QIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMIFFKKDP 330
++A G ++D A +G++ + D++ T HK L GP+G + ++
Sbjct: 161 ELAQENGIFFILDAAQTAGVIPIDMTELAI---DMLAFTGHKGLLGPQGTGGLYIREG 215
>gnl|CDD|225576 COG3033, TnaA, Tryptophanase [Amino acid transport and metabolism].
Length = 471
Score = 28.2 bits (63), Expect = 6.8
Identities = 21/99 (21%), Positives = 32/99 (32%), Gaps = 18/99 (18%)
Query: 271 MRQIADAVGALLMMDMAHIS--------------GLVAASVVADPFKYCDVVTTTTHKSL 316
+ +IA ++MD A + + + + Y D T + K
Sbjct: 211 VYEIAKKYDIPVVMDAARFAENAYFIKQREPGYRDWSIEEIAREMYSYADGCTMSAKKDG 270
Query: 317 RGPRGGMIFFKKDPVLGVELESAINNAVFPGLQVGFVSY 355
GG + FK D V E V Q GF +Y
Sbjct: 271 LVNMGGFLCFKDDSFFDVYEECRTLVVV----QEGFPTY 305
>gnl|CDD|226039 COG3508, HmgA, Homogentisate 1,2-dioxygenase [Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 427
Score = 28.3 bits (63), Expect = 7.2
Identities = 15/50 (30%), Positives = 19/50 (38%), Gaps = 3/50 (6%)
Query: 226 SMPYRLDESTGLVDYDMLEKT-AILFRPKL--IIAGASAYPRDFDYPRMR 272
+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
0.319 0.137 0.409
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,593,663
Number of extensions: 1814364
Number of successful extensions: 1402
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1375
Number of HSP's successfully gapped: 36
Length of query: 358
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 260
Effective length of database: 6,590,910
Effective search space: 1713636600
Effective search space used: 1713636600
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: 60 (26.8 bits)