RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1596
(375 letters)
>gnl|CDD|215836 pfam00282, Pyridoxal_deC, Pyridoxal-dependent decarboxylase
conserved domain.
Length = 373
Score = 261 bits (669), Expect = 1e-84
Identities = 98/173 (56%), Positives = 123/173 (71%), Gaps = 5/173 (2%)
Query: 203 TFQTTASESTLICLLAGRTEAIRKYQQSHPELEHAEINSRLVAYCSDQAHSSVEKAGLIG 262
Q +SES L+ LLA RT+ IR+ + + +LVAY SDQAHSS+EKA LI
Sbjct: 107 VLQGGSSESNLLALLAARTKWIRRMKAAGKPS-----LGKLVAYTSDQAHSSIEKAALIA 161
Query: 263 LVKMRYIESDDKLSLRGDKLIEAIERDKKKHLIPFFVCGTLGTTGACAFDNLEELGPICE 322
V++R I +D+ +RG L +AIE DK+ LIPFFVC TLGTTG+ AFD L+ELG IC
Sbjct: 162 GVELREIPTDENGKMRGMDLEKAIEEDKENGLIPFFVCATLGTTGSGAFDPLQELGDICN 221
Query: 323 KEGLWLHVDAAYAGSSFICPEFRKWLAGVEYANSIAFNPSKWLMVHFDCTAMW 375
K LWLHVDAAYAGS+FICPEFR WL G+E A+S +FNP KW++V DC+A+W
Sbjct: 222 KYDLWLHVDAAYAGSAFICPEFRHWLFGIERADSFSFNPHKWMLVLLDCSALW 274
Score = 77.0 bits (190), Expect = 1e-15
Identities = 31/39 (79%), Positives = 32/39 (82%)
Query: 38 ITHWQSPYMHAYFPALNSYPSLLGDMLSDAINCLGFTWV 76
+T W SP HAYFPA NSYPSLLGDMLSDAINC GFTW
Sbjct: 34 VTTWHSPNFHAYFPAGNSYPSLLGDMLSDAINCNGFTWE 72
>gnl|CDD|99743 cd06450, DOPA_deC_like, DOPA decarboxylase family. This family
belongs to pyridoxal phosphate (PLP)-dependent aspartate
aminotransferase superfamily (fold I). The major groups
in this CD correspond to DOPA/tyrosine decarboxylase
(DDC), histidine decarboxylase (HDC), and glutamate
decarboxylase (GDC). DDC is active as a dimer and
catalyzes the decarboxylation of tyrosine. GDC catalyzes
the decarboxylation of glutamate and HDC catalyzes the
decarboxylation of histidine.
Length = 345
Score = 216 bits (553), Expect = 1e-67
Identities = 68/173 (39%), Positives = 91/173 (52%), Gaps = 5/173 (2%)
Query: 203 TFQTTASESTLICLLAGRTEAIRKYQQSHPELEHAEINSRLVAYCSDQAHSSVEKAGLIG 262
F + SES L+ LLA R A ++ + +LV CSDQAH SVEKA
Sbjct: 61 VFTSGGSESNLLALLAARDRARKRLKAGGGR-----GIDKLVIVCSDQAHVSVEKAAAYL 115
Query: 263 LVKMRYIESDDKLSLRGDKLIEAIERDKKKHLIPFFVCGTLGTTGACAFDNLEELGPICE 322
VK+R + D+ + + L AI+ DK + L P V T GTT A D LEE+ + E
Sbjct: 116 DVKVRLVPVDEDGRMDPEALEAAIDEDKAEGLNPIMVVATAGTTDTGAIDPLEEIADLAE 175
Query: 323 KEGLWLHVDAAYAGSSFICPEFRKWLAGVEYANSIAFNPSKWLMVHFDCTAMW 375
K LWLHVDAAY G PE R G+E +SI+ +P K+ +V C+A+
Sbjct: 176 KYDLWLHVDAAYGGFLLPFPEPRHLDFGIERVDSISVDPHKYGLVPLGCSAVL 228
Score = 43.7 bits (104), Expect = 9e-05
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 46 MHAYFPALNSYPSLLGDMLSDAINCLGFTW 75
A F P+LL +ML+ A N + FTW
Sbjct: 1 FLAGFVTTMDPPALLLEMLTSAKNAIDFTW 30
>gnl|CDD|215475 PLN02880, PLN02880, tyrosine decarboxylase.
Length = 490
Score = 159 bits (403), Expect = 3e-44
Identities = 76/176 (43%), Positives = 104/176 (59%), Gaps = 13/176 (7%)
Query: 205 QTTASESTLICLLAGRTEAIRKYQQSHPELEHAEINSRLVAYCSDQAHSSVEKAGLIG-- 262
Q TASE+ L+ LLA R +RK ++ E +LV Y SDQ HS+++KA I
Sbjct: 152 QGTASEAVLVVLLAARDRVLRKVGKNALE--------KLVVYASDQTHSALQKACQIAGI 203
Query: 263 ---LVKMRYIESDDKLSLRGDKLIEAIERDKKKHLIPFFVCGTLGTTGACAFDNLEELGP 319
++ +S +L + L EAI D LIPFF+C T+GTT + A D L ELG
Sbjct: 204 HPENCRLLKTDSSTNYALAPELLSEAISTDLSSGLIPFFLCATVGTTSSTAVDPLLELGK 263
Query: 320 ICEKEGLWLHVDAAYAGSSFICPEFRKWLAGVEYANSIAFNPSKWLMVHFDCTAMW 375
I + G+W HVDAAYAGS+ ICPE+R ++ GVE A+S N KW + +FDC+ +W
Sbjct: 264 IAKSNGMWFHVDAAYAGSACICPEYRHYIDGVEEADSFNMNAHKWFLTNFDCSLLW 319
Score = 55.7 bits (134), Expect = 2e-08
Identities = 30/74 (40%), Positives = 41/74 (55%), Gaps = 8/74 (10%)
Query: 3 VVPKLIPNQGETSKQENDLRNSDVGFYYLRHFAELITHWQSPYMHAYFPALNSYPSLLGD 62
++P PNQ ET Q D DV L +THWQSP AY+P+ +S LG+
Sbjct: 50 LLPDSAPNQPETLDQVLD----DVQAKILPG----VTHWQSPNYFAYYPSNSSVAGFLGE 101
Query: 63 MLSDAINCLGFTWV 76
MLS +N +GF+W+
Sbjct: 102 MLSAGLNIVGFSWI 115
>gnl|CDD|178200 PLN02590, PLN02590, probable tyrosine decarboxylase.
Length = 539
Score = 137 bits (347), Expect = 3e-36
Identities = 73/176 (41%), Positives = 105/176 (59%), Gaps = 13/176 (7%)
Query: 205 QTTASESTLICLLAGRTEAIRKYQQSHPELEHAEINSRLVAYCSDQAHSSVEKAGLIGLV 264
Q T E+ L+ +LA R ++K ++ + +LV Y SDQ HSS KA LIG +
Sbjct: 200 QGTGCEAVLVVVLAARDRILKKVGKT--------LLPQLVVYGSDQTHSSFRKACLIGGI 251
Query: 265 ---KMRYIESDDKLS--LRGDKLIEAIERDKKKHLIPFFVCGTLGTTGACAFDNLEELGP 319
+R +++D + + + L EAI D K IPFF+C T+GTT + A D L LG
Sbjct: 252 HEENIRLLKTDSSTNYGMPPESLEEAISHDLAKGFIPFFICATVGTTSSAAVDPLVPLGN 311
Query: 320 ICEKEGLWLHVDAAYAGSSFICPEFRKWLAGVEYANSIAFNPSKWLMVHFDCTAMW 375
I +K G+WLHVDAAYAG++ ICPE+RK++ G+E A+S N KWL + C+ +W
Sbjct: 312 IAKKYGIWLHVDAAYAGNACICPEYRKFIDGIENADSFNMNAHKWLFANQTCSPLW 367
Score = 47.8 bits (113), Expect = 7e-06
Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 8/76 (10%)
Query: 3 VVPKLIPNQGETSKQENDLRNSDVGFYYLRHFAELITHWQSPYMHAYFPALNSYPSLLGD 62
++P P + E+ K+ D DV + ITHWQSP AY+ + S LG+
Sbjct: 98 MLPDSAPERPESLKELLD----DVS----KKIMPGITHWQSPSYFAYYASSTSVAGFLGE 149
Query: 63 MLSDAINCLGFTWVRT 78
ML+ ++ +GFTW+ +
Sbjct: 150 MLNAGLSVVGFTWLTS 165
>gnl|CDD|223154 COG0076, GadB, Glutamate decarboxylase and related PLP-dependent
proteins [Amino acid transport and metabolism].
Length = 460
Score = 117 bits (295), Expect = 3e-29
Identities = 56/171 (32%), Positives = 82/171 (47%), Gaps = 11/171 (6%)
Query: 203 TFQTTASESTLICLLAGRTEAIRKYQQSHPELEHAEINSRLVAYCSDQAHSSVEKAGLIG 262
TF + +E+ L+ LLA R E RK + + N CS+ AH S EKA
Sbjct: 123 TFTSGGTEANLLALLAAR-ERWRKRALAESGKPGGKPN----IVCSETAHFSFEKAARYL 177
Query: 263 LVKMRYIESD-DKLSLRGDKLIEAIERDKKKHLIPFFVCGTLGTTGACAFDNLEELGPIC 321
+ +R + + + D L EAI+ + I V GT GTT + D++EEL I
Sbjct: 178 GLGLRRVPTVPTDYRIDVDALEEAIDENT----IGGVVVGTAGTTDTGSIDDIEELADIA 233
Query: 322 EKEGLWLHVDAAYAGSSFICPEFR-KWLAGVEYANSIAFNPSKWLMVHFDC 371
E+ G+WLHVDAA+ G E +W G+E +SI + K+ + C
Sbjct: 234 EEYGIWLHVDAAFGGFLLPFLEPDGRWDFGLEGVDSITVDGHKYGLAPIGC 284
>gnl|CDD|163511 TIGR03799, NOD_PanD_pyr, putative pyridoxal-dependent aspartate
1-decarboxylase. This enzyme is proposed here to be a
form of aspartate 1-decarboxylase, pyridoxal-dependent,
that represents a non-orthologous displacement to the
more widely distributed pyruvoyl-dependent form
(TIGR00223). Aspartate 1-decarboxylase makes
beta-alanine, used usually in pathothenate biosynthesis,
by decarboxylation from asparatate. A number of species
with the PanB and PanC enzymes, however, lack PanD. This
protein family occurs in a number of Proteobacteria that
lack PanD. This enzyme family appears to be a
pyridoxal-dependent enzyme (see pfam00282). The family
was identified by Partial Phylogenetic Profiling;
members in Geobacter sulfurreducens, G. metallireducens,
and Pseudoalteromonas atlantica are clustered with the
genes for PanB and PanC. We suggest the gene symbol panP
(panthothenate biosynthesis enzyme, Pyridoxal-dependent)
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Pantothenate and coenzyme A].
Length = 522
Score = 67.4 bits (165), Expect = 3e-12
Identities = 36/126 (28%), Positives = 62/126 (49%), Gaps = 9/126 (7%)
Query: 248 SDQAHSSVEKA------GLIGLVKMRYIESDDKLSLRGDKLIEAIERDKKKHLIPFFVCG 301
S++ H S+ KA G L+ I++D + D L + ++++ P + G
Sbjct: 215 SERGHYSLGKAADVLGIGRDNLIA---IKTDANNRIDVDALRDKCAELAEQNIKPLAIVG 271
Query: 302 TLGTTGACAFDNLEELGPICEKEGLWLHVDAAYAGSSFICPEFRKWLAGVEYANSIAFNP 361
GTT D L+E+ I ++ G HVDAA+ G++ + +R L G+E A+S+ +
Sbjct: 272 VAGTTETGNIDPLDEMADIAQELGCHFHVDAAWGGATLLSNTYRHLLKGIERADSVTIDA 331
Query: 362 SKWLMV 367
K L V
Sbjct: 332 HKQLYV 337
>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 = 60.9 bits (148), Expect = 4e-11
Identities = 31/136 (22%), Positives = 45/136 (33%), Gaps = 10/136 (7%)
Query: 242 RLVAYCSDQAHSSVE--KAGLIGLVKMRYIESDDKLSLRGDKLIEAIERDKKKHLIPFFV 299
H S A L G K + DD G + E K + +
Sbjct: 41 GDEVIVDANGHGSRYWVAAELAG-AKPVPVPVDDA-GYGGLDVAILEELKAKPN--VALI 96
Query: 300 CGTLGTTGACAFDNLEELGPICEKEGLWLHVDAAYAGSSFICPEFRKWLAGVEYANSIAF 359
T TT L+E+ I ++ G+ L VDAA AG + P L A+ + F
Sbjct: 97 VITPNTTSGGVLVPLKEIRKIAKEYGILLLVDAASAGGASPAPGV---LIPEGGADVVTF 153
Query: 360 NPSKWLMVHFDCTAMW 375
+ K L +
Sbjct: 154 SLHKNLGG-EGGGVVI 168
>gnl|CDD|237409 PRK13520, PRK13520, L-tyrosine decarboxylase; Provisional.
Length = 371
Score = 56.4 bits (137), Expect = 7e-09
Identities = 37/121 (30%), Positives = 56/121 (46%), Gaps = 21/121 (17%)
Query: 251 AHSSVEKAGLIGLVKMRYIESDDKLSLRGDKLIEAIERDKKKHLIPFFVCGTLGTTGACA 310
AH S +KA + V++R DD + + + I+ + I + G GTT
Sbjct: 113 AHFSFDKAADMLGVELRRAPLDDDYRVDVKAVEDLID----DNTIG--IVGIAGTTELGQ 166
Query: 311 FDNLEELGPICEKEGLWLHVDAAYAGSSFICP--------EFRKWLAGVEYANSIAFNPS 362
D + EL I + G++LHVDAA+ G F+ P +F L GV +SI +P
Sbjct: 167 VDPIPELSKIALENGIFLHVDAAFGG--FVIPFLDDPPNFDFS--LPGV---DSITIDPH 219
Query: 363 K 363
K
Sbjct: 220 K 220
>gnl|CDD|234361 TIGR03812, tyr_de_CO2_Arch, tyrosine decarboxylase MnfA. Members
of this protein family are the archaeal form, MnfA, of
tyrosine decarboxylase, and are involved in methanofuran
biosynthesis. Members show clear homology to the
Enterococcus form, Tdc, that is involved in tyrosine
decarboxylation for resistance to acidic conditions
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 373
Score = 55.8 bits (135), Expect = 1e-08
Identities = 37/124 (29%), Positives = 60/124 (48%), Gaps = 20/124 (16%)
Query: 249 DQAHSSVEKAGLIGLVKMRYIESDDKLSLRGDKLIEAIERDKKKHLIPFFVCGTLGTTGA 308
+ AH S EKA + +++RY D+ ++ + + I+ D ++ G GTT
Sbjct: 113 ESAHFSFEKAAEMLGLELRYAPLDEDYTVDVKDVEDLID-DNTIGIV-----GIAGTTEL 166
Query: 309 CAFDNLEELGPICEKEGLWLHVDAAYAGSSFICP------EFRKW---LAGVEYANSIAF 359
D++EEL I + G++LHVDAA+ G F+ P + L GV+ SI
Sbjct: 167 GQIDDIEELSKIALENGIYLHVDAAFGG--FVIPFLKKGYNPPPFDFSLPGVQ---SITI 221
Query: 360 NPSK 363
+P K
Sbjct: 222 DPHK 225
>gnl|CDD|235068 PRK02769, PRK02769, histidine decarboxylase; Provisional.
Length = 380
Score = 52.7 bits (127), Expect = 1e-07
Identities = 32/96 (33%), Positives = 47/96 (48%), Gaps = 6/96 (6%)
Query: 244 VAYCSDQAHSSVEKAGLIGLVKMRYIESDDKLSLRGDKLIEAIERDKKKHLIPFFVCGTL 303
Y S H SV K + +K R I S + D LI I+ +K + I F +
Sbjct: 112 TLYYSKDTHYSVSKIARLLRIKSRVITSLPNGEIDYDDLISKIKENKNQPPIIF---ANI 168
Query: 304 GTTGACAFDNLEELGPICEKEGL---WLHVDAAYAG 336
GTT A DN++E+ I +K G+ ++H DAA +G
Sbjct: 169 GTTMTGAIDNIKEIQEILKKIGIDDYYIHADAALSG 204
>gnl|CDD|216367 pfam01212, Beta_elim_lyase, Beta-eliminating lyase.
Length = 288
Score = 38.0 bits (89), Expect = 0.005
Identities = 25/141 (17%), Positives = 43/141 (30%), Gaps = 33/141 (23%)
Query: 203 TFQTTASESTLICLLAGRTEAIRKYQQSHPELE----HAEINSRLVAYCSDQAHSSVEKA 258
T + + R + + + +H + HAE+ A
Sbjct: 53 VPSGTMANQLALMAHCRRGDEVICGEPAHIYFDETGGHAELGG----------------A 96
Query: 259 GLIGLVKMRYIESDDKLSLRGDKLIEAIERDKKKHLIPF-FVCGTLGTTGAC-----AFD 312
+ L KL L + L AI H P + T + + +
Sbjct: 97 QPVPLP----GAEAGKLDL--EDLEAAIRPVGDIHFPPTGLISLEN-THNSAGGQVVSLE 149
Query: 313 NLEELGPICEKEGLWLHVDAA 333
L E+ I + G+ LH+D A
Sbjct: 150 ELREIRAIAREHGIPLHLDGA 170
>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 = 36.2 bits (84), Expect = 0.020
Identities = 32/131 (24%), Positives = 54/131 (41%), Gaps = 16/131 (12%)
Query: 246 YCSDQAHSSVEKAGLIGL---VKMRYIE-SDDKLSLRGDKLIEAIERDKKKHL-IPFFVC 300
C + AH ++AG VK+ + + KL+ + L AI H P V
Sbjct: 75 ICHETAHIYTDEAGAPEFLSGVKLLPVPGENGKLTP--EDLEAAIRPRDDIHFPPPSLVS 132
Query: 301 GTLGTTGACAF--DNLEELGPICEKEGLWLHVDAAY---AGSSFICPEFRKWLAGVEYAN 355
T G + D L+ + + ++ GL LH+D A A ++ + +GV+
Sbjct: 133 LENTTEGGTVYPLDELKAISALAKENGLPLHLDGARLANAAAALGVALKT-YKSGVD--- 188
Query: 356 SIAFNPSKWLM 366
S++F SK
Sbjct: 189 SVSFCLSKGGG 199
>gnl|CDD|163523 TIGR03811, tyr_de_CO2_Ent, tyrosine decarboxylase, Enterococcus
type. This model represents tyrosine decarboxylases in
the family of the Enterococcus faecalis enzyme Tdc.
These enzymes often are encoded next to
tyrosine/tyramine antiporter, together comprising a
system in which tyrosine decarboxylation can protect
against exposure to acid conditions. This clade differs
from the archaeal tyrosine decarboxylases associated
with methanofuran biosynthesis [Cellular processes,
Adaptations to atypical conditions].
Length = 608
Score = 35.6 bits (82), Expect = 0.045
Identities = 26/82 (31%), Positives = 41/82 (50%), Gaps = 7/82 (8%)
Query: 261 IGLVKMRYIESDDKLSLRGDKLIEAIERDKKKHLIPFF-VCGTLGTTGACAFDNLEELGP 319
IGL ++ + D + ++L E I R P V G +G+T A D ++++
Sbjct: 244 IGLDQVIPVPVDSNYRMDINEL-EKIIRKLAAEKTPILGVVGVVGSTEEGAVDGIDKIVA 302
Query: 320 ICE---KEGLW--LHVDAAYAG 336
+ KEG++ LHVDAAY G
Sbjct: 303 LRNKLMKEGIYFYLHVDAAYGG 324
>gnl|CDD|223594 COG0520, csdA, Selenocysteine lyase/Cysteine desulfurase
[Posttranslational modification, protein turnover,
chaperones].
Length = 405
Score = 33.1 bits (76), Expect = 0.25
Identities = 40/168 (23%), Positives = 61/168 (36%), Gaps = 30/168 (17%)
Query: 208 ASESTLICLLAGRTEAIRKYQQSHPELEHAEINSRLVAYCSDQAHSSV--------EKAG 259
A S I G TEA+ + SD H S ++ G
Sbjct: 81 ADSSDEIVFTRGTTEALNLVARGLGRSLKPGDE----IVVSDLEHHSNIVPWQELAKRTG 136
Query: 260 LIGLVKMRYIESDDKLSLRGDKLIEAIERDKKKHLIPFFVCGTLGTTGACAFDNLEELGP 319
K+R I DD L D L + I K L+ + TG ++E+
Sbjct: 137 ----AKVRVIPLDDDGLLDLDALEKLI--TPKTKLV--ALSHVSNVTG-TVNP-VKEIAE 186
Query: 320 ICEKEGLWLHVDAA-YAGSSFICPEFRKWLAGVEYANSIAFNPSKWLM 366
+ + G + VDAA AG I + ++ G ++ AF+ KWL+
Sbjct: 187 LAHEHGALVLVDAAQAAGHLPI--DVQEL--GCDFL---AFSGHKWLL 227
>gnl|CDD|218796 pfam05889, SLA_LP_auto_ag, Soluble liver antigen/liver pancreas
antigen (SLA/LP autoantigen). This family consists of
several eukaryotic and archaeal proteins which are
related to the human soluble liver antigen/liver
pancreas antigen (SLA/LP autoantigen). Autoantibodies
are a hallmark of autoimmune hepatitis, but most are not
disease specific. Autoantibodies to soluble liver
antigen (SLA) and to liver and pancreas antigen (LP)
have been described as disease specific, occurring in
about 30% of all patients with autoimmune hepatitis. The
function of SLA/LP is unknown, however, it has been
suggested that the protein may function as a serine
hydroxymethyltransferase and may be an important enzyme
in the thus far poorly understood selenocysteine
pathway. The archaeal sequences Methanopyrus kandleri
spcS and MK0229 are annotated as being pyridoxal
phosphate-dependent enzymes.
Length = 386
Score = 31.8 bits (72), Expect = 0.55
Identities = 22/112 (19%), Positives = 42/112 (37%), Gaps = 4/112 (3%)
Query: 234 LEHAEINSRLVAYCSDQAHSSVEKAGLIGLVKMRYIES-DDKLSLRGD-KLIEAIERDKK 291
++ V + SS++ A G + R +E+ + L D +E I +K
Sbjct: 94 ALRKRPKAKYVIWPRIDQKSSIKAAERAGF-EPRLVETVLEGDYLITDVNDVETIIEEKG 152
Query: 292 KHLIPFFVCGTLGTTGACAFDNLEELGPICEKEGLWLHVDAAYAGSSFICPE 343
+ +I + T D ++E+ IC + + V+ AY S
Sbjct: 153 EEVILAVLSTTSCFAPRSP-DRVKEIAKICAEYDVPHLVNGAYGIQSEKYIH 203
>gnl|CDD|130848 TIGR01788, Glu-decarb-GAD, glutamate decarboxylase. This model
represents the pyridoxal phosphate-dependent glutamate
(alpha) decarboxylase found in bacteria (low and hi-GC
gram positive, proteobacteria and cyanobacteria),
plants, fungi and at least one archaon (Methanosarcina).
The product of the enzyme is gamma-aminobutyrate (GABA).
Length = 431
Score = 31.2 bits (71), Expect = 0.81
Identities = 21/93 (22%), Positives = 45/93 (48%), Gaps = 16/93 (17%)
Query: 264 VKMRYIESD-DKLSLRGDKLIEAIERDKKKHLIPFFVCGTLGTTGACAFDNLEELGPICE 322
V++R + D + + ++++EA++ + V LGTT +++++ L +
Sbjct: 160 VELREVPMDPGRYVIDPEQVVEAVDENT------IGVVCILGTTYTGEYEDVKALNDALD 213
Query: 323 K---EGLW---LHVDAAYAG--SSFICPEFRKW 347
+ + W +HVDAA G + F+ P+ W
Sbjct: 214 EYNAKTGWDIPIHVDAASGGFIAPFVYPDLE-W 245
>gnl|CDD|211833 TIGR03531, selenium_SpcS, O-phosphoseryl-tRNA(Sec) selenium
transferase. In the archaea and eukaryotes, the
conversion of the mischarged serine to selenocysteine
(Sec) on its tRNA is accomplished in two steps. This
enzyme, O-phosphoseryl-tRNA(Sec) selenium transferase,
acts second, after a phosphophorylation step catalyzed
by a homolog of the bacterial SelA protein [Protein
synthesis, tRNA aminoacylation].
Length = 444
Score = 31.2 bits (71), Expect = 0.91
Identities = 31/117 (26%), Positives = 50/117 (42%), Gaps = 14/117 (11%)
Query: 234 LEHAEINSRLVAYCSDQAHSSVEKAGLIGLVKMRYIESDDKLSLRGDKL---IEAIERDK 290
L H ++ V + S ++ G + R IE+ L GD+L +E IER
Sbjct: 144 LRHKRPKAKYVIWPRIDQKSCIKAISTAGF-EPRVIET----VLDGDELTTDVEDIERAI 198
Query: 291 KKHLIPFFVCGTLGTTGAC----AFDNLEELGPICEKEGLWLHVDAAYAGSSFICPE 343
++ +C L TT +C + D++EE+ IC + V+ AY S E
Sbjct: 199 EEIGPDNILC-VLSTT-SCFAPRSPDDIEEIAKICANYDIPHIVNNAYGLQSNKYME 253
>gnl|CDD|181006 PRK07505, PRK07505, hypothetical protein; Provisional.
Length = 402
Score = 30.3 bits (69), Expect = 1.6
Identities = 16/57 (28%), Positives = 31/57 (54%), Gaps = 2/57 (3%)
Query: 283 IEAIERDKKKHLIPFFVCGTLGTTGACAFDNLEELGPICEKEGLWLHVDAAYAGSSF 339
++A+E K + +V + + G A ++EL + EK GL+L++D A+ S +
Sbjct: 169 LDALEDICKTNKTVAYVADGVYSMGGIA--PVKELLRLQEKYGLFLYIDDAHGLSIY 223
>gnl|CDD|224919 COG2008, GLY1, Threonine aldolase [Amino acid transport and
metabolism].
Length = 342
Score = 29.6 bits (67), Expect = 2.5
Identities = 25/102 (24%), Positives = 39/102 (38%), Gaps = 20/102 (19%)
Query: 245 AYCSDQAHSSVEKAGLI----GLVKMRYIES-DDKLSLRGDKLIEAIERDKKKHLIPFFV 299
C + AH ++ G G K+ + D KL+ + + AI D H
Sbjct: 77 VICHETAHIYTDECGAPEFFGGGQKLPIVPGADGKLTP--EDVEAAIRPDDIHHAPTPLA 134
Query: 300 C--------GTLGTTGACAFDNLEELGPICEKEGLWLHVDAA 333
GT+ D LE + +C++ GL LH+D A
Sbjct: 135 VLENTATEGGTVYP-----LDELEAISAVCKEHGLPLHMDGA 171
>gnl|CDD|234452 TIGR04063, stp3, PEP-CTERM/exosortase A-associated
glycosyltransferase, Daro_2409 family.
PEP-CTERM/exosortase is a protein-sorting system
associated with exopolysaccharide production. Members of
this protein family are group 1 glycosyltransferases
(see pfam00534) in which the overwhelming majority occur
in species with the EpsH1 form of exosortase (see
TIGR03109), and usually co-clustered with the
exosortase. A typical member is Daro_2409 from
Dechloromonas aromatica RCB.
Length = 397
Score = 29.2 bits (66), Expect = 3.9
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 32 RHFAELITHWQSPYMHAYFPALNSYPSL 59
R E+ W+ +HA+ PALN +L
Sbjct: 82 RRLEEVAREWRPDILHAHSPALNGLAAL 109
>gnl|CDD|224029 COG1104, NifS, Cysteine sulfinate desulfinase/cysteine desulfurase
and related enzymes [Amino acid transport and
metabolism].
Length = 386
Score = 28.7 bits (65), Expect = 5.1
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 314 LEELGPICEKEGLWLHVDAA 333
+ E+G IC++ G+ HVDA
Sbjct: 160 IAEIGEICKERGILFHVDAV 179
>gnl|CDD|215756 pfam00155, Aminotran_1_2, Aminotransferase class I and II.
Length = 357
Score = 28.4 bits (64), Expect = 5.8
Identities = 23/95 (24%), Positives = 39/95 (41%), Gaps = 3/95 (3%)
Query: 260 LIGLVKMRY-IESDDKLSLRGDKLIEAIERDKKKHLIPFFVCGTLGTTG-ACAFDNLEEL 317
L G +RY + S + L D L A++ + + + TG + LE+L
Sbjct: 109 LAGGEVVRYPLYSSNDFHLDFDALEAALKEATEGNKV-VLHTSPHNPTGTVATLEELEKL 167
Query: 318 GPICEKEGLWLHVDAAYAGSSFICPEFRKWLAGVE 352
+ ++ + L VD AYAG F + A +
Sbjct: 168 LDLAKEHNILLLVDEAYAGFVFGSLDAVATRALLA 202
>gnl|CDD|222863 PHA02540, 61, DNA primase; Provisional.
Length = 337
Score = 28.4 bits (64), Expect = 5.9
Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 149 DKGNSIVILDRDKYSSK-VLDFVSKENATP 177
D G +VI D+ + SK + D + K ATP
Sbjct: 281 DAGEKVVIWDKCPWPSKDINDMIMKGGATP 310
>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 = 28.4 bits (64), Expect = 7.6
Identities = 17/70 (24%), Positives = 28/70 (40%), Gaps = 6/70 (8%)
Query: 264 VKMRYIESDDKLSLRGDKLIEAIERDKKKHLIPFFVCGTLGTTGACAFDNLEELGPICEK 323
+R I D L D L + + + K + + TG +EE+G + +
Sbjct: 114 ATVRVIPVDPNGLLDLDALEKLL-TPRTKLV---AITHVSNVTGTVNP--VEEIGKLAHE 167
Query: 324 EGLWLHVDAA 333
G + VDAA
Sbjct: 168 YGALVVVDAA 177
>gnl|CDD|224335 COG1417, COG1417, Uncharacterized conserved protein [Function
unknown].
Length = 288
Score = 28.1 bits (63), Expect = 7.8
Identities = 10/51 (19%), Positives = 19/51 (37%), Gaps = 4/51 (7%)
Query: 251 AHSSVEKAGLIGLVKMRYIESDDKLSLRGDKLIEAI----ERDKKKHLIPF 297
+EK L+G++ + Y+E + K K+ + PF
Sbjct: 138 RDGRIEKGDLLGVLNVYYVELGEFNPRILQKSTVEAKGVYRTGKEVRVKPF 188
>gnl|CDD|184450 PRK14012, PRK14012, cysteine desulfurase; Provisional.
Length = 404
Score = 28.4 bits (64), Expect = 7.9
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 314 LEELGPICEKEGLWLHVDAA 333
+ +G IC + G+ HVDAA
Sbjct: 163 IAAIGEICRERGIIFHVDAA 182
>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 = 28.1 bits (63), Expect = 7.9
Identities = 17/81 (20%), Positives = 33/81 (40%), Gaps = 11/81 (13%)
Query: 264 VKMRYIESDDKLSLRGDKLIEAIERDKKKHLIPFFVCGTLGT----TGACA-FDNLEELG 318
++ + D++ D + + K L+ ++ TGA + LEEL
Sbjct: 105 AEVVPVPLDEEGGFLLDLELLEAAKTPKTKLL--YLN----NPNNPTGAVLSEEELEELA 158
Query: 319 PICEKEGLWLHVDAAYAGSSF 339
+ +K G+ + D AYA +
Sbjct: 159 ELAKKHGILIISDEAYAELVY 179
>gnl|CDD|185554 PTZ00323, PTZ00323, NAD+ synthase; Provisional.
Length = 294
Score = 27.8 bits (62), Expect = 8.2
Identities = 9/24 (37%), Positives = 13/24 (54%), Gaps = 2/24 (8%)
Query: 342 PEFRKWLAGVEYANSIAFNPSKWL 365
PE ++ L E AFNP+ W+
Sbjct: 9 PELQRVLK--EVRRKRAFNPAAWI 30
>gnl|CDD|215924 pfam00447, HSF_DNA-bind, HSF-type DNA-binding.
Length = 96
Score = 26.3 bits (59), Expect = 8.7
Identities = 7/19 (36%), Positives = 14/19 (73%)
Query: 149 DKGNSIVILDRDKYSSKVL 167
+ GNS +I D ++++ +VL
Sbjct: 23 EDGNSFIIWDPEEFAKQVL 41
>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 = 27.9 bits (63), Expect = 9.5
Identities = 15/61 (24%), Positives = 24/61 (39%), Gaps = 14/61 (22%)
Query: 280 DKLIEAIERDKKKHLIPFFVCGTLGTTGACAFD---NLEELGPICEKEGLWLHVDAA-YA 335
D L + K K ++ GA A+ + + I ++ G +L VD A A
Sbjct: 151 DALEKMALEFKPKLIV----------AGASAYPRPIDFKRFREIADEVGAYLLVDMAHVA 200
Query: 336 G 336
G
Sbjct: 201 G 201
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 0.134 0.413
Gapped
Lambda K H
0.267 0.0672 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,897,927
Number of extensions: 1778645
Number of successful extensions: 1555
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1543
Number of HSP's successfully gapped: 42
Length of query: 375
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 277
Effective length of database: 6,590,910
Effective search space: 1825682070
Effective search space used: 1825682070
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 (27.0 bits)