RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2339
(125 letters)
>gnl|CDD|197736 smart00456, WW, Domain with 2 conserved Trp (W) residues. Also
known as the WWP or rsp5 domain. Binds proline-rich
polypeptides.
Length = 33
Score = 45.3 bits (108), Expect = 5e-08
Identities = 14/33 (42%), Positives = 18/33 (54%)
Query: 26 PLPEGWDMATTAEGETYFINHTTRTTSWFDPRI 58
PLP GW+ +G Y+ NH T+ T W PR
Sbjct: 1 PLPPGWEERKDPDGRPYYYNHETKETQWEKPRE 33
Score = 45.3 bits (108), Expect = 5e-08
Identities = 14/33 (42%), Positives = 18/33 (54%)
Query: 72 PLPEGWDMATTAEGETYFINHTTRTTSWFDPRI 104
PLP GW+ +G Y+ NH T+ T W PR
Sbjct: 1 PLPPGWEERKDPDGRPYYYNHETKETQWEKPRE 33
>gnl|CDD|238122 cd00201, WW, Two conserved tryptophans domain; also known as the
WWP or rsp5 domain; around 40 amino acids; functions as
an interaction module in a diverse set of signalling
proteins; binds specific proline-rich sequences but at
low affinities compared to other peptide recognition
proteins such as antibodies and receptors; WW domains
have a single groove formed by a conserved Trp and Tyr
which recognizes a pair of residues of the sequence
X-Pro; variable loops and neighboring domains confer
specificity in this domain; there are five distinct
groups based on binding: 1) PPXY motifs 2) the PPLP
motif; 3) PGM motifs; 4) PSP or PTP motifs; 5) PR
motifs.
Length = 31
Score = 44.4 bits (106), Expect = 9e-08
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 28 PEGWDMATTAEGETYFINHTTRTTSWFDPRI 58
P GW+ +G Y+ NH T+ T W DPR
Sbjct: 1 PPGWEERWDPDGRVYYYNHNTKETQWEDPRE 31
Score = 44.4 bits (106), Expect = 9e-08
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 74 PEGWDMATTAEGETYFINHTTRTTSWFDPRI 104
P GW+ +G Y+ NH T+ T W DPR
Sbjct: 1 PPGWEERWDPDGRVYYYNHNTKETQWEDPRE 31
>gnl|CDD|215899 pfam00397, WW, WW domain. The WW domain is a protein module with
two highly conserved tryptophans that binds
proline-rich peptide motifs in vitro.
Length = 30
Score = 43.7 bits (104), Expect = 2e-07
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 27 LPEGWDMATTAEGETYFINHTTRTTSWFDP 56
LP GW+ T +G Y+ NH T T W P
Sbjct: 1 LPPGWEERTDTDGRPYYYNHNTGETQWERP 30
Score = 43.7 bits (104), Expect = 2e-07
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 73 LPEGWDMATTAEGETYFINHTTRTTSWFDP 102
LP GW+ T +G Y+ NH T T W P
Sbjct: 1 LPPGWEERTDTDGRPYYYNHNTGETQWERP 30
>gnl|CDD|227435 COG5104, PRP40, Splicing factor [RNA processing and modification].
Length = 590
Score = 45.8 bits (108), Expect = 9e-07
Identities = 22/88 (25%), Positives = 35/88 (39%), Gaps = 8/88 (9%)
Query: 31 WDMATTAEGETYFINHTTRTTSWFDPRIPKPSGSVSPGSLGPLPEGWDMATTAEGETYFI 90
W+ +G Y+ N T +SW KP + + W TA+G+ Y+
Sbjct: 17 WEELKAPDGRIYYYNKRTGKSSW-----EKPKELLKGSEEDLDVDPWKECRTADGKVYYY 71
Query: 91 NHTTRTTSWFDPRIPRSHHGINPWKNKK 118
N TR + W +IP + P +K
Sbjct: 72 NSITRESRW---KIPPERKKVEPIAEQK 96
Score = 32.4 bits (73), Expect = 0.047
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 30 GWDMATTAEGETYFINHTTRTTSWFDP 56
W TA+G+ Y+ N TR + W P
Sbjct: 57 PWKECRTADGKVYYYNSITRESRWKIP 83
>gnl|CDD|227354 COG5021, HUL4, Ubiquitin-protein ligase [Posttranslational
modification, protein turnover, chaperones].
Length = 872
Score = 43.6 bits (103), Expect = 6e-06
Identities = 22/95 (23%), Positives = 34/95 (35%), Gaps = 15/95 (15%)
Query: 27 LPEGWDMATTAEGETYFINHTTRTTSWFDPRIPKPSGSVSPGSL--------------GP 72
P GW + G+ F + T ++++ D R + G S S GP
Sbjct: 388 KPTGWSSSIEDLGQFLFSDFLTSSSTYEDLRR-EQLGRESDESFYVASNVQQQRASREGP 446
Query: 73 LPEGWDMATTAEGETYFINHTTRTTSWFDPRIPRS 107
L GW YF+ H +T + D R+
Sbjct: 447 LLSGWKTRLNNLYRFYFVEHRKKTLTKNDSRLGSF 481
Score = 32.0 bits (73), Expect = 0.061
Identities = 11/36 (30%), Positives = 15/36 (41%)
Query: 24 LGPLPEGWDMATTAEGETYFINHTTRTTSWFDPRIP 59
GPL GW YF+ H +T + D R+
Sbjct: 444 EGPLLSGWKTRLNNLYRFYFVEHRKKTLTKNDSRLG 479
Score = 26.7 bits (59), Expect = 3.6
Identities = 9/35 (25%), Positives = 15/35 (42%)
Query: 22 GSLGPLPEGWDMATTAEGETYFINHTTRTTSWFDP 56
SL L + + G TY+++H T + P
Sbjct: 294 DSLLRLNSLFSTRADSFGRTYYLDHDRILTQYSRP 328
Score = 26.7 bits (59), Expect = 3.6
Identities = 9/35 (25%), Positives = 15/35 (42%)
Query: 68 GSLGPLPEGWDMATTAEGETYFINHTTRTTSWFDP 102
SL L + + G TY+++H T + P
Sbjct: 294 DSLLRLNSLFSTRADSFGRTYYLDHDRILTQYSRP 328
>gnl|CDD|129982 TIGR00904, mreB, cell shape determining protein, MreB/Mrl family.
MreB (mecillinam resistance) in E. coli (also called
envB) and the paralogous pair MreB and Mrl of Bacillus
subtilis have all been shown to help determine cell
shape. This protein is present in a wide variety of
bacteria, including spirochetes, but is missing from the
Mycoplasmas and from Gram-positive cocci. Most completed
bacterial genomes have a single member of this family.
In some species it is an essential gene. A close homolog
is found in the Archaeon Methanobacterium
thermoautotrophicum, and a more distant homolog in
Archaeoglobus fulgidus. The family is related to cell
division protein FtsA and heat shock protein DnaK [Cell
envelope, Biosynthesis and degradation of murein
sacculus and peptidoglycan].
Length = 333
Score = 29.3 bits (66), Expect = 0.51
Identities = 15/45 (33%), Positives = 19/45 (42%), Gaps = 4/45 (8%)
Query: 26 PLPEG--WDMATTAEGETYFINHTTRTTSWFDPR--IPKPSGSVS 66
P+ +G D T + YFI S+F PR I PSG
Sbjct: 67 PMKDGVIADFEVTEKMIKYFIKQVHSRKSFFKPRIVICVPSGITP 111
Score = 28.9 bits (65), Expect = 0.55
Identities = 12/35 (34%), Positives = 16/35 (45%), Gaps = 2/35 (5%)
Query: 72 PLPEG--WDMATTAEGETYFINHTTRTTSWFDPRI 104
P+ +G D T + YFI S+F PRI
Sbjct: 67 PMKDGVIADFEVTEKMIKYFIKQVHSRKSFFKPRI 101
>gnl|CDD|236160 PRK08136, PRK08136, glycosyl transferase family protein;
Provisional.
Length = 317
Score = 26.4 bits (59), Expect = 4.5
Identities = 16/51 (31%), Positives = 18/51 (35%), Gaps = 7/51 (13%)
Query: 38 EGETYFINHTTRTT--SWFD---PRIPKPSGSVSPGSLGPLPEGWDMATTA 83
EGE Y + R W R+ S S LP D ATTA
Sbjct: 229 EGEVY--ANPRRCPQIDWIHDGGCRVLVERQSGSADEPPELPAAKDAATTA 277
>gnl|CDD|187552 cd05241, 3b-HSD-like_SDR_e, 3beta-hydroxysteroid dehydrogenases
(3b-HSD)-like, extended (e) SDRs. Extended SDR family
domains belonging to this subgroup have the
characteristic active site tetrad and a fairly
well-conserved NAD(P)-binding motif. 3b-HSD catalyzes
the NAD-dependent conversion of various steroids, such
as pregnenolone to progesterone, or androstenediol to
testosterone. This subgroup includes an unusual
bifunctional 3b-HSD/C-4 decarboxylase from Arabidopsis
thaliana, and Saccharomyces cerevisiae ERG26, a
3b-HSD/C-4 decarboxylase, involved in the synthesis of
ergosterol, the major sterol of yeast. It also includes
human 3 beta-HSD/HSD3B1 and C(27) 3beta-HSD/
[3beta-hydroxy-delta(5)-C(27)-steroid oxidoreductase;
HSD3B7]. C(27) 3beta-HSD/HSD3B7 is a membrane-bound
enzyme of the endoplasmic reticulum, that catalyzes the
isomerization and oxidation of 7alpha-hydroxylated
sterol intermediates, an early step in bile acid
biosynthesis. Mutations in the human NSDHL (NAD(P)H
steroid dehydrogenase-like protein) cause CHILD syndrome
(congenital hemidysplasia with ichthyosiform nevus and
limb defects), an X-linked dominant, male-lethal trait.
Mutations in the human gene encoding C(27) 3beta-HSD
underlie a rare autosomal recessive form of neonatal
cholestasis. 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 sythase 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 = 331
Score = 25.5 bits (56), Expect = 8.9
Identities = 9/35 (25%), Positives = 11/35 (31%), Gaps = 2/35 (5%)
Query: 82 TAEGETYFINHTTRTTSWFDPRIPRSH--HGINPW 114
T G+TYFI + R G P
Sbjct: 227 TISGQTYFITDAEPHNMFELLRPVWKALGFGSRPK 261
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
0.315 0.133 0.446
Gapped
Lambda K H
0.267 0.0779 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,407,061
Number of extensions: 519926
Number of successful extensions: 353
Number of sequences better than 10.0: 1
Number of HSP's gapped: 351
Number of HSP's successfully gapped: 25
Length of query: 125
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 40
Effective length of database: 7,167,512
Effective search space: 286700480
Effective search space used: 286700480
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (24.1 bits)