RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4129
(355 letters)
>gnl|CDD|217283 pfam02913, FAD-oxidase_C, FAD linked oxidases, C-terminal domain.
This domain has a ferredoxin-like fold.
Length = 247
Score = 91.7 bits (228), Expect = 2e-21
Identities = 24/97 (24%), Positives = 41/97 (42%), Gaps = 3/97 (3%)
Query: 207 EHYLISCRVTQTYDAGCCIYFYFGYNFMGQKDPIGSYDYIEHCARDEIIACGGSISHHHG 266
++ L+ C D +Y F +++ + + E D A GGSIS HG
Sbjct: 152 KYGLVICHFGHVGDGNLHLYILFDAKDPEEEERAEAL-FDE--LADLAAALGGSISGEHG 208
Query: 267 VGKLRSHWYPKQVSSVGVELYQSTKRQLDPKNVFANG 303
VG+ + + ++ G+ L + K DP N+ G
Sbjct: 209 VGRDKKPYLEEEFGPEGLALMRRIKAAFDPNNILNPG 245
Score = 72.8 bits (179), Expect = 8e-15
Identities = 18/52 (34%), Positives = 26/52 (50%)
Query: 299 VFANGGSISHHHGVGKLRSHWYPKQVSSVGVELYQSTKRQLDPKNIFANGNL 350
A GGSIS HGVG+ + + ++ G+ L + K DP NI G +
Sbjct: 196 AAALGGSISGEHGVGRDKKPYLEEEFGPEGLALMRRIKAAFDPNNILNPGKV 247
Score = 67.4 bits (165), Expect = 6e-13
Identities = 31/188 (16%), Positives = 59/188 (31%), Gaps = 36/188 (19%)
Query: 4 MVQRCQPSSIRLMDNAQFKFGQSLRPVPGYFGLLLDGLKRIYITKIKGFSVDEMCVTTLL 63
P+++ LMD A T G D +
Sbjct: 26 RQSGIGPAALELMDKAALDLVLG--------------------TLGLGLPRDAPAALLVE 65
Query: 64 FEGDPEDV--KKNQAKIYSIALKFGGIPAGETNGMRG-----YMLTFVIAYIRDLALDYH 116
FEG+ E+V ++ +A + +I G + + +RD
Sbjct: 66 FEGNDEEVVEERLEAAVEAILEGAGAGDVVVAEDEAERERLWRARKYAMP-LRDALGGAG 124
Query: 117 ILAESFETSVPWDKAILLCTNVKQRVARECKVMNVEHYLISCRVTQTYDAGCCIYFYFGY 176
L + + SVPW + L ++K+ +A ++ L+ C D +Y F
Sbjct: 125 PLVFTEDVSVPWSRLPDLVADIKELLA--------KYGLVICHFGHVGDGNLHLYILFDA 176
Query: 177 NFMGQKDP 184
+++
Sbjct: 177 KDPEEEER 184
>gnl|CDD|223354 COG0277, GlcD, FAD/FMN-containing dehydrogenases [Energy production
and conversion].
Length = 459
Score = 51.8 bits (124), Expect = 2e-07
Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 299 VFANGGSISHHHGVGKLRSHWYPKQVSSVGVELYQSTKRQLDPKNIFANGNLLRS 353
GGSIS HG+G+ ++ + + L ++ KR DP IF G L R
Sbjct: 405 AVELGGSISGEHGIGRTKAEFLELEP-GEAWALLRAIKRAFDPNGIFNPGKLFRL 458
Score = 49.1 bits (117), Expect = 2e-06
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 254 IIACGGSISHHHGVGKLRSHWYPKQVSSVGVELYQSTKRQLDPKNVFANG 303
+ GGSIS HG+G+ ++ + + L ++ KR DP +F G
Sbjct: 405 AVELGGSISGEHGIGRTKAEFLELEP-GEAWALLRAIKRAFDPNGIFNPG 453
>gnl|CDD|129482 TIGR00387, glcD, glycolate oxidase, subunit GlcD. This protein,
the glycolate oxidase GlcD subunit, is similar in
sequence to that of several D-lactate dehydrogenases,
including that of E. coli. The glycolate oxidase has
been found to have some D-lactate dehydrogenase activity
[Energy metabolism, Other].
Length = 413
Score = 44.0 bits (104), Expect = 6e-05
Identities = 23/96 (23%), Positives = 43/96 (44%), Gaps = 12/96 (12%)
Query: 214 RVTQTYDAGCCIYFYFG------YNFMGQKDPIGSYDYIEHCARDEI----IACGGSISH 263
+ + YD + + G +D G + +E A EI I GG+IS
Sbjct: 315 DIARKYDFTIANFGHAGDGNLHPTILTDPEDK-GEMERVEE-AGGEIFELAIELGGTISG 372
Query: 264 HHGVGKLRSHWYPKQVSSVGVELYQSTKRQLDPKNV 299
HG+G +++ + P + + +E ++ K+ DP N+
Sbjct: 373 EHGIGVVKAEFMPYKFNEKELETMRAIKKAFDPDNI 408
Score = 43.6 bits (103), Expect = 9e-05
Identities = 14/42 (33%), Positives = 26/42 (61%)
Query: 303 GGSISHHHGVGKLRSHWYPKQVSSVGVELYQSTKRQLDPKNI 344
GG+IS HG+G +++ + P + + +E ++ K+ DP NI
Sbjct: 367 GGTISGEHGIGVVKAEFMPYKFNEKELETMRAIKKAFDPDNI 408
>gnl|CDD|183043 PRK11230, PRK11230, glycolate oxidase subunit GlcD; Provisional.
Length = 499
Score = 34.8 bits (80), Expect = 0.070
Identities = 21/69 (30%), Positives = 33/69 (47%), Gaps = 12/69 (17%)
Query: 255 IACGGSISHHHGVGKLRSHWYPKQVSSVGVELYQSTKRQLDP-------KNV-----FAN 302
+ GGSI+ HGVG+ + + Q +S + L+ + K DP KN+ A
Sbjct: 421 VEVGGSITGEHGVGREKINQMCAQFNSDEITLFHAVKAAFDPDGLLNPGKNIPTLHRCAE 480
Query: 303 GGSISHHHG 311
G++ HHG
Sbjct: 481 FGAMHVHHG 489
Score = 30.5 bits (69), Expect = 1.3
Identities = 15/46 (32%), Positives = 24/46 (52%)
Query: 303 GGSISHHHGVGKLRSHWYPKQVSSVGVELYQSTKRQLDPKNIFANG 348
GGSI+ HGVG+ + + Q +S + L+ + K DP + G
Sbjct: 424 GGSITGEHGVGREKINQMCAQFNSDEITLFHAVKAAFDPDGLLNPG 469
>gnl|CDD|178402 PLN02805, PLN02805, D-lactate dehydrogenase [cytochrome].
Length = 555
Score = 33.1 bits (75), Expect = 0.26
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 6/55 (10%)
Query: 304 GSISHHHGVGKLRSHWYPKQVSSVGVELYQSTKR---QLDPKNIFANGNLLRSHL 355
G+ + HGVG + + K++ G+E Q+ KR LDP NI G L+ H+
Sbjct: 502 GTCTGEHGVGTGKMKYLEKEL---GIEALQTMKRIKKALDPNNIMNPGKLIPPHV 553
Score = 29.6 bits (66), Expect = 2.6
Identities = 19/67 (28%), Positives = 31/67 (46%), Gaps = 6/67 (8%)
Query: 246 IEHCARDEIIACGGSISHHHGVGKLRSHWYPKQVSSVGVELYQSTKR---QLDPKNVFAN 302
+ H ++ G+ + HGVG + + K++ G+E Q+ KR LDP N+
Sbjct: 489 LNHFMVHTALSMEGTCTGEHGVGTGKMKYLEKEL---GIEALQTMKRIKKALDPNNIMNP 545
Query: 303 GGSISHH 309
G I H
Sbjct: 546 GKLIPPH 552
>gnl|CDD|162787 TIGR02253, CTE7, HAD superfamily (subfamily IA) hydrolase,
TIGR02253. This family of sequences from archaea and
metazoans includes the human uncharacterized protein
CTE7. Pyrococcus species appear to have three different
forms of this enzyme, so it is unclear whether all
members of this family have the same function. This
family is a member of the haloacid dehalogenase (HAD)
superfamily of hydrolases which are characterized by
three conserved sequence motifs. By virtue of an alpha
helical domain in-between the first and second conserved
motif, this family is a member of subfamily IA
(TIGR01549).
Length = 221
Score = 29.7 bits (67), Expect = 2.0
Identities = 23/98 (23%), Positives = 36/98 (36%), Gaps = 22/98 (22%)
Query: 11 SSIRLMDNAQFKFGQSLRPVPGY-------------FGLLLDGLKRIYITKIKGFSVDEM 57
+ + +F + LR PG G++ DGL K++ V +
Sbjct: 80 AFVYAYHKLKFAY---LRVYPGVRDTLMELRESGYRLGIITDGLPVKQWEKLERLGVRDF 136
Query: 58 --CVTTLLFEGDPEDVKKNQAKIYSIALKFGGIPAGET 93
V T + E V+K KI+ ALK G+ E
Sbjct: 137 FDAVIT----SEEEGVEKPHPKIFYAALKRLGVKPEEA 170
>gnl|CDD|193530 cd05653, M20_ArgE_LysK, M20 Peptidase acetylornithine
deacetylase/acetyl-lysine deacetylase. Peptidase M20
family, acetylornithine deacetylase (ArgE)/acetyl-lysine
deacetylase (LysK) subfamily. Proteins in this
subfamily are mainly archaeal with related bacterial
species and are deacetylases with specificity for both
N-acetyl-ornithine and N-acetyl-lysine found within a
lysine biosynthesis operon. ArgE catalyzes the
conversion of N-acetylornithine to ornithine, while
LysK, a homolog of ArgE, has deacetylating activities
for both N-acetyllysine and N-acetylornithine at almost
equal efficiency. These results suggest that LysK which
may share an ancestor with ArgE functions not only for
lysine biosynthesis, but also for arginine biosynthesis
in species such as Thermus thermophilus. The substrate
specificity of ArgE is quite broad in that several
alpha-N-acyl-L-amino acids can be hydrolyzed, including
alpha-N-acetylmethionine and alpha-N-formylmethionine.
ArgE shares significant sequence homology and
biochemical features, and possibly a common origin, with
glutamate carboxypeptidase (CPG2) and
succinyl-diaminopimelate desuccinylase (DapE), and
aminoacylase I (ACY1), having all metal ligand binding
residues conserved.
Length = 341
Score = 29.1 bits (66), Expect = 3.7
Identities = 12/56 (21%), Positives = 18/56 (32%), Gaps = 4/56 (7%)
Query: 91 GETNGMRGYMLTFVIAYIRDLALDYHILAESFETSVPWDKAILLCTNVKQRVAREC 146
GE +G G + Y L L S +S P + AI + +
Sbjct: 140 GEPSGWDG----ITLGYRGRLLLKIRCEGPSGHSSGPEENAIEDLIDAWNAIKEWL 191
>gnl|CDD|219706 pfam08031, BBE, Berberine and berberine like. This domain is found
in the berberine bridge and berberine bridge- like
enzymes which are involved in the biosynthesis of
numerous isoquinoline alkaloids. They catalyze the
transformation of the N-methyl group of (S)-reticuline
into the C-8 berberine bridge carbon of (S)-scoulerine.
Length = 45
Score = 26.3 bits (59), Expect = 3.7
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 288 QSTKRQLDPKNVFANGGSI 306
+ K + DP NVF N SI
Sbjct: 26 RKVKAKYDPDNVFRNEQSI 44
>gnl|CDD|233700 TIGR02053, MerA, mercuric reductase. This model represents the
mercuric reductase found in the mer operon for the
detoxification of mercury compounds. MerA is a
FAD-containing flavoprotein which reduces Hg(II) to
Hg(0) utilizing NADPH [Cellular processes,
Detoxification].
Length = 463
Score = 28.9 bits (65), Expect = 4.5
Identities = 14/40 (35%), Positives = 19/40 (47%)
Query: 267 VGKLRSHWYPKQVSSVGVELYQSTKRQLDPKNVFANGGSI 306
V +LR Y +SS GV+ + R DPK V + G
Sbjct: 86 VEELRHEKYEDVLSSYGVDYLRGRARFKDPKTVKVDLGRE 125
>gnl|CDD|212077 cd11508, SLC6sbd_GAT3, Na(+)- and Cl(-)-dependent GABA transporter
3; solute-binding domain. This family includes human
GAT3 (hGAT3) a high-affinity transporter of
gamma-aminobutyric acid (GABA). GABA is the main
inhibitory neurotransmitter within the mammalian CNS.
hGAT3 is encoded by the SLC6A11 gene, and is similar to
mouse GAT4, and rat GAT3/GATB. GAT3 is expressed
primarily in the glia of the brain, and is a potential
drug target for antiepileptic drugs. This subgroup
belongs to the solute carrier 6 (SLC6) transporter
family.
Length = 542
Score = 28.4 bits (63), Expect = 7.6
Identities = 23/78 (29%), Positives = 35/78 (44%), Gaps = 11/78 (14%)
Query: 165 DAGCCIYFYFGYNFMGQKDPIGSYD-YIEHCARDEIIACVMNVEHYLISCRVTQTYDAGC 223
DAG I+F + +G +GSY+ Y +C RD I+ C +N ++ AG
Sbjct: 253 DAGTQIFFSYAI-CLGCLTALGSYNNYNNNCYRDCIMLCCLN---------SGTSFVAGF 302
Query: 224 CIYFYFGYNFMGQKDPIG 241
I+ G+ Q PI
Sbjct: 303 AIFSVLGFMAYEQGVPIA 320
>gnl|CDD|236550 PRK09529, PRK09529, bifunctional acetyl-CoA decarbonylase/synthase
complex subunit alpha/beta; Reviewed.
Length = 711
Score = 28.4 bits (64), Expect = 8.2
Identities = 10/29 (34%), Positives = 14/29 (48%), Gaps = 4/29 (13%)
Query: 82 ALKFGGIPAGETNGMRGY----MLTFVIA 106
AL FGG+ G+ + Y + FV A
Sbjct: 209 ALIFGGVEPGDYEELLDYTKERVPAFVNA 237
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
0.325 0.140 0.447
Gapped
Lambda K H
0.267 0.0814 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,191,771
Number of extensions: 1747379
Number of successful extensions: 1573
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1567
Number of HSP's successfully gapped: 23
Length of query: 355
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 257
Effective length of database: 6,590,910
Effective search space: 1693863870
Effective search space used: 1693863870
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 60 (26.7 bits)