RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7793
(316 letters)
>gnl|CDD|239240 cd02930, DCR_FMN, 2,4-dienoyl-CoA reductase (DCR) FMN-binding
domain. DCR in E. coli is an iron-sulfur flavoenzyme
which contains FMN, FAD, and a 4Fe-4S cluster. It is
also a monomer, unlike that of its eukaryotic
counterparts which form homotetramers and lack the
flavin and iron-sulfur cofactors. Metabolism of
unsaturated fatty acids requires auxiliary enzymes in
addition to those used in b-oxidation. After a given
number of cycles through the b-oxidation pathway, those
unsaturated fatty acyl-CoAs with double bonds at
even-numbered carbon positions contain 2-trans, 4-cis
double bonds that can not be modified by enoyl-CoA
hydratase. DCR utilizes NADPH to remove the C4-C5 double
bond. DCR can catalyze the reduction of both natural
fatty acids with cis double bonds, as well as substrates
containing trans double bonds. The reaction is initiated
by hybrid transfer from NADPH to FAD, which in turn
transfers electrons, one at a time, to FMN via the
4Fe-4S cluster. The fully reduced FMN provides a hydrid
ion to the C5 atom of substrate, and Tyr and His are
proposed to form a catalytic dyad that protonates the C4
atom of the substrate and completes the reaction.
Length = 353
Score = 34.2 bits (79), Expect = 0.079
Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 85 RWKGKLEKRVQYMIEVLAQVRKDNFKDFPDV--IEDLDLVPE 124
W G E R+++ +E++ VR +DF + + LDLV
Sbjct: 178 EWGGSFENRMRFPVEIVRAVRAAVGEDFIIIYRLSMLDLVEG 219
>gnl|CDD|239201 cd02803, OYE_like_FMN_family, Old yellow enzyme (OYE)-like FMN
binding domain. OYE was the first flavin-dependent
enzyme identified, however its true physiological role
remains elusive to this day. Each monomer of OYE
contains FMN as a non-covalently bound cofactor, uses
NADPH as a reducing agent with oxygens, quinones, and
alpha,beta-unsaturated aldehydes and ketones, and can
act as electron acceptors in the catalytic reaction.
Members of OYE family include trimethylamine
dehydrogenase, 2,4-dienoyl-CoA reductase, enoate
reductase, pentaerythriol tetranitrate reductase,
xenobiotic reductase, and morphinone reductase.
Length = 327
Score = 30.2 bits (69), Expect = 1.3
Identities = 11/29 (37%), Positives = 19/29 (65%)
Query: 85 RWKGKLEKRVQYMIEVLAQVRKDNFKDFP 113
+ G LE R ++++E++A VR+ DFP
Sbjct: 182 EYGGSLENRARFLLEIVAAVREAVGPDFP 210
>gnl|CDD|149006 pfam07707, BACK, BTB And C-terminal Kelch. This domain is found
associated with pfam00651 and pfam01344. The BACK domain
is found juxtaposed to the BTB domain; they are
separated by as little as two residues. This family
appears to be closely related to the BTB domain (Finn
RD, personal observation).
Length = 101
Score = 27.9 bits (63), Expect = 2.8
Identities = 22/93 (23%), Positives = 43/93 (46%), Gaps = 19/93 (20%)
Query: 15 HKLRNVAKFFAHQLFTDAIGWHVLSCIHLNEEETTSSGRIFIKILFQELSEYMGLSKLN- 73
+L VA F + F + + +EE F+++ ++L E + +LN
Sbjct: 14 EELAEVALRFILKNFLE---------VSKSEE--------FLELSKEQLLELLSSDELNV 56
Query: 74 QKIKDPFRPVARW-KGKLEKRVQYMIEVLAQVR 105
++ F V +W K +E R +++ E+L+ VR
Sbjct: 57 PSEEEVFEAVIKWVKHDVENRKKHLPELLSAVR 89
>gnl|CDD|221668 pfam12619, MCM2_N, Mini-chromosome maintenance protein 2. This
domain family is found in eukaryotes, and is typically
between 138 and 153 amino acids in length. The family is
found in association with pfam00493. Mini-chromosome
maintenance (MCM) proteins are essential for DNA
replication. These proteins use ATPase activity to
perform this function.
Length = 145
Score = 28.1 bits (63), Expect = 4.1
Identities = 26/107 (24%), Positives = 40/107 (37%), Gaps = 39/107 (36%)
Query: 111 DFPDVIEDLDLVPEEDKFTHLMTLDGV--------KDTQDILNVFQYDPEYLMNEEKYTT 162
+ D I+DLD EE++ DG +D + + +YD + L +E Y
Sbjct: 9 ELEDDIDDLDEEAEEEE-------DGEDLFGDNMERDYRANPELDRYDEDGLDDESDYEE 61
Query: 163 L----RREI--------------------LGDEDEDDEETNLVALRR 185
L RR L D+D+DD + +L A R
Sbjct: 62 LSAAARRAAEARLNRRDRLLRRRRMPAAFLDDDDDDDGDFDLTAQPR 108
>gnl|CDD|143420 cd07102, ALDH_EDX86601, Uncharacterized aldehyde dehydrogenase of
Synechococcus sp. PCC 7335 (EDX86601). Uncharacterized
aldehyde dehydrogenase of Synechococcus sp. PCC 7335
(locus EDX86601) and other similar sequences, are
present in this CD.
Length = 452
Score = 28.8 bits (65), Expect = 4.3
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 22/61 (36%)
Query: 62 ELSEYMGLSKLNQKIKDPFRPVARWKGKL---EKRVQYMI----EVLAQVR---KDNFKD 111
EL+ MG RP+A+ G++ +R +YMI E LA +R KD F+
Sbjct: 63 ELTWQMG------------RPIAQAGGEIRGMLERARYMISIAEEALADIRVPEKDGFER 110
Query: 112 F 112
+
Sbjct: 111 Y 111
>gnl|CDD|240095 cd04747, OYE_like_5_FMN, Old yellow enzyme (OYE)-related FMN
binding domain, group 5. Each monomer of OYE contains
FMN as a non-covalently bound cofactor, uses NADPH as a
reducing agent with oxygens, quinones, and
alpha,beta-unsaturated aldehydes and ketones, and can
act as electron acceptors in the catalytic reaction.
Other members of OYE family include trimethylamine
dehydrogenase, 2,4-dienoyl-CoA reductase, enoate
reductase, pentaerythriol tetranitrate reductase,
xenobiotic reductase, and morphinone reductase.
Length = 361
Score = 28.4 bits (64), Expect = 4.9
Identities = 9/29 (31%), Positives = 14/29 (48%)
Query: 85 RWKGKLEKRVQYMIEVLAQVRKDNFKDFP 113
+ G L R ++ EV+ +R DFP
Sbjct: 185 GYGGSLAARSRFAAEVVKAIRAAVGPDFP 213
>gnl|CDD|214714 smart00544, MA3, Domain in DAP-5, eIF4G, MA-3 and other proteins.
Highly alpha-helical. May contain repeats and/or regions
similar to MIF4G domains Ponting (TIBS) "Novel eIF4G
domain homologues" in press.
Length = 113
Score = 27.2 bits (61), Expect = 5.7
Identities = 11/49 (22%), Positives = 20/49 (40%), Gaps = 3/49 (6%)
Query: 200 CLINKMYVAPLEQIFRESYSTVHRLDI---NKLRNVAKFFAHQLFTDAI 245
C N + E+ F + L++ N RN+A+F A + +
Sbjct: 64 CQANVISTKQFEKGFWRLLEDIEDLELDIPNAWRNLAEFVARLISDGIL 112
>gnl|CDD|181362 PRK08296, PRK08296, hypothetical protein; Provisional.
Length = 603
Score = 28.5 bits (64), Expect = 5.8
Identities = 18/76 (23%), Positives = 31/76 (40%), Gaps = 14/76 (18%)
Query: 84 ARWKGKLEKRVQYMIEVLAQVRKDNFKDFPDVIEDLDLVPE---EDKFTHLM-TLDGVKD 139
A+WK K+ ++ + F PDV E ++V E E L+ + D +
Sbjct: 130 AKWKEKVLAIIKEL-------EALEFPPLPDV-EPEEVVFEGRGEAGSYDLLESYD--RL 179
Query: 140 TQDILNVFQYDPEYLM 155
+ +QY E+L
Sbjct: 180 IDLLFRAWQYHFEFLN 195
>gnl|CDD|222547 pfam14108, DUF4281, Domain of unknown function (DUF4281). This
family of proteins is functionally uncharacterized.
This family of proteins is found in bacteria and
eukaryotes. Proteins in this family are typically
between 147 and 232 amino acids in length. There are
two completely conserved residues (W and P) that may be
functionally important.
Length = 128
Score = 27.2 bits (61), Expect = 6.6
Identities = 9/31 (29%), Positives = 11/31 (35%), Gaps = 2/31 (6%)
Query: 9 LPGLVFHKLRNVAKFFAHQLFTDAIGW-HVL 38
+ F L VA F+ GW H L
Sbjct: 57 AGAMSFPSLDGVASLFSSPNGV-LAGWVHYL 86
>gnl|CDD|235958 PRK07194, fliG, flagellar motor switch protein G; Reviewed.
Length = 334
Score = 28.0 bits (63), Expect = 6.7
Identities = 21/69 (30%), Positives = 31/69 (44%), Gaps = 20/69 (28%)
Query: 113 PDVIEDLDLVPE-------EDKFTHLMTLDGVKDTQDILNVFQYDPEYLMNEEKYTTLRR 165
DV+++LD + E E T + GVK DI+N F D + LM
Sbjct: 171 RDVVDELDELIERCLAVLSEQSHT---KVIGVKQAADIINRFPGDRQQLM---------- 217
Query: 166 EILGDEDED 174
E+L + DE+
Sbjct: 218 EMLKEHDEE 226
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
0.323 0.139 0.409
Gapped
Lambda K H
0.267 0.0763 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,743,452
Number of extensions: 1677009
Number of successful extensions: 1372
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1371
Number of HSP's successfully gapped: 35
Length of query: 316
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 219
Effective length of database: 6,635,264
Effective search space: 1453122816
Effective search space used: 1453122816
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 59 (26.4 bits)