RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4903
(73 letters)
>gnl|CDD|214531 smart00135, LY, Low-density lipoprotein-receptor YWTD domain.
Type "B" repeats in low-density lipoprotein (LDL)
receptor that plays a central role in mammalian
cholesterol metabolism. Also present in a variety of
molecules similar to gp300/megalin.
Length = 43
Score = 31.0 bits (71), Expect = 0.006
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 41 IVSEAAYKASGVALDINAKRLFWCDNLLDYIET 73
++S +G+A+D RL+W D LD IE
Sbjct: 3 LLSSGLGHPNGLAVDWIEGRLYWTDWGLDVIEV 35
>gnl|CDD|236790 PRK10901, PRK10901, 16S rRNA methyltransferase B; Provisional.
Length = 427
Score = 25.9 bits (58), Expect = 1.7
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 44 EAAYKASGVALDINAKRL 61
E A +A VALDI+A+RL
Sbjct: 264 ELAPQAQVVALDIDAQRL 281
>gnl|CDD|224090 COG1168, MalY, Bifunctional PLP-dependent enzyme with
beta-cystathionase and maltose regulon repressor
activities [Amino acid transport and metabolism].
Length = 388
Score = 25.3 bits (56), Expect = 3.2
Identities = 13/51 (25%), Positives = 22/51 (43%), Gaps = 11/51 (21%)
Query: 23 ADSNQILRTNMDGTMAMSIV-SEAAYKASGVALDINAKRLFWCDNLLDYIE 72
++ R + G A+ I+ +EAAY W D LL+Y++
Sbjct: 254 KFLKRLKRNGLHGPSALGIIATEAAYNQGEP----------WLDELLEYLK 294
>gnl|CDD|180595 PRK06504, PRK06504, acetyl-CoA acetyltransferase; Provisional.
Length = 390
Score = 25.1 bits (55), Expect = 3.8
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 4/30 (13%)
Query: 23 ADSNQILRTNMDGTMAMSIVSEAAYKASGV 52
A ++QI DG + +V+E KA GV
Sbjct: 242 ATASQIC----DGASGVMVVNERGLKALGV 267
>gnl|CDD|240466 cd12886, SPRY_like, SPRY domain-like in bacteria. This family
contains SPRY-like domains that are found only in
bacterial and are mostly uncharacterized. SPRY domains,
first identified in the SP1A kinase of Dictyostelium
and rabbit Ryanodine receptor (hence the name), are
homologous to B30.2. SPRY domains have been identified
in at least 11 eukaryotic protein families, covering a
wide range of functions, including regulation of
cytokine signaling (SOCS), RNA metabolism (DDX1 and
hnRNP), immunity to retroviruses (TRIM5alpha),
intracellular calcium release (ryanodine receptors or
RyR) and regulatory and developmental processes (HERC1
and Ash2L).
Length = 128
Score = 24.7 bits (54), Expect = 4.5
Identities = 10/39 (25%), Positives = 19/39 (48%), Gaps = 7/39 (17%)
Query: 35 GTMAMSIVSEAAYKAS-------GVALDINAKRLFWCDN 66
G + A++ A GVALD++A ++++ N
Sbjct: 49 GNTYSGGSTVASFGAGFTAGDVIGVALDLDAGKIWFYKN 87
>gnl|CDD|117519 pfam08952, DUF1866, Domain of unknown function (DUF1866). This
domain, found in Synaptojanin, has no known function.
Length = 145
Score = 24.7 bits (54), Expect = 5.0
Identities = 13/49 (26%), Positives = 21/49 (42%)
Query: 24 DSNQILRTNMDGTMAMSIVSEAAYKASGVALDINAKRLFWCDNLLDYIE 72
+ + T DG A++ +S+ K G L+I K W L + I
Sbjct: 68 VEDDMWVTFRDGESALAALSKDGIKVLGRQLNIRLKSPDWIKALEEEIS 116
>gnl|CDD|187539 cd05228, AR_FR_like_1_SDR_e, uncharacterized subgroup of aldehyde
reductase and flavonoid reductase related proteins,
extended (e) SDRs. This subgroup contains proteins of
unknown function related to aldehyde reductase and
flavonoid reductase of the extended SDR-type. Aldehyde
reductase I (aka carbonyl reductase) is an NADP-binding
SDR; it has an NADP-binding motif consensus that is
slightly different from the canonical SDR form and lacks
the Asn of the extended SDR active site tetrad. Aldehyde
reductase I catalyzes the NADP-dependent reduction of
ethyl 4-chloro-3-oxobutanoate to ethyl
(R)-4-chloro-3-hydroxybutanoate. The related flavonoid
reductases act in the NADP-dependent reduction of
flavonoids, ketone-containing plant secondary
metabolites. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 318
Score = 24.6 bits (54), Expect = 5.1
Identities = 12/30 (40%), Positives = 18/30 (60%), Gaps = 4/30 (13%)
Query: 24 DSNQILRTNMDGTMAMSIVSEAAYKASGVA 53
D ++ RTN++GT V +AA +A GV
Sbjct: 79 DRKELYRTNVEGTRN---VLDAALEA-GVR 104
>gnl|CDD|220229 pfam09418, DUF2009, Protein of unknown function (DUF2009). This is
a eukaryotic family of proteins with unknown function.
Length = 458
Score = 23.9 bits (52), Expect = 9.7
Identities = 9/24 (37%), Positives = 10/24 (41%)
Query: 16 EQALMFVADSNQILRTNMDGTMAM 39
Q L +AD N L N D M
Sbjct: 201 RQCLYSLADYNAYLNANRDPVERM 224
>gnl|CDD|114071 pfam05325, DUF730, Protein of unknown function (DUF730). This
family consists of several uncharacterized Arabidopsis
thaliana proteins of unknown function.
Length = 122
Score = 23.6 bits (50), Expect = 9.8
Identities = 17/67 (25%), Positives = 29/67 (43%), Gaps = 5/67 (7%)
Query: 1 MKFKMKFSSGENRTREQALMFVADSNQ--ILRTNMDGTMAMSIVSEAAYKAS-GVALDIN 57
M+ +M+ GENR R++ + D N ++ T+ D + + Y+ S G
Sbjct: 1 MEIRMRMRYGENRRRDKGVPIECDCNAKVVVATSRDPVTSGKLYFSCPYEISDGPGRGCG 60
Query: 58 AKRLFWC 64
KR W
Sbjct: 61 FKR--WW 65
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
0.321 0.130 0.364
Gapped
Lambda K H
0.267 0.0778 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,438,370
Number of extensions: 244199
Number of successful extensions: 219
Number of sequences better than 10.0: 1
Number of HSP's gapped: 219
Number of HSP's successfully gapped: 11
Length of query: 73
Length of database: 10,937,602
Length adjustment: 43
Effective length of query: 30
Effective length of database: 9,030,380
Effective search space: 270911400
Effective search space used: 270911400
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 (21.9 bits)
S2: 53 (24.1 bits)