RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3534
(282 letters)
>gnl|CDD|241302 cd01272, PTB1_Fe65, Fe65 N-terminal Phosphotyrosine-binding (PTB)
domain. The neuronal adaptor protein Fe65 is involved
in brain development, Alzheimer disease amyloid
precursor protein (APP) signaling, and proteolytic
processing of APP. It contains three protein-protein
interaction domains, one WW domain, and a unique tandem
array of phosphotyrosine-binding (PTB) domains. The
N-terminal PTB domain was shown to interact with a
variety of proteins, including the low density
lipoprotein receptor-related protein (LRP-1), the ApoEr2
receptor, and the histone acetyltransferase Tip60. PTB
domains have a common PH-like fold and are found in
various eukaryotic signaling molecules. This domain was
initially shown to binds peptides with a NPXY motif with
differing requirements for phosphorylation of the
tyrosine, although more recent studies have found that
some types of PTB domains can bind to peptides lack
tyrosine residues altogether. In contrast to SH2
domains, which recognize phosphotyrosine and adjacent
carboxy-terminal residues, PTB-domain binding
specificity is conferred by residues amino-terminal to
the phosphotyrosine. PTB domains are classified into
three groups: phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd is part of the Dab-like subgroup.
Length = 138
Score = 86.6 bits (215), Expect = 3e-21
Identities = 27/39 (69%), Positives = 30/39 (76%)
Query: 230 IRFAVRSLGWVEISEHDLTPERSSKAVNKCIVDLSLGRN 268
RFAVRSLGWVE++E DL P +SS AVN CI LS GRN
Sbjct: 2 KRFAVRSLGWVEMAEEDLAPGKSSVAVNNCIRQLSYGRN 40
>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 = 37.5 bits (88), Expect = 2e-04
Identities = 15/30 (50%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 91 LPPGWERHEDNDG-PYYWHIKSGTIQRDPP 119
LPPGWE D DG PYY++ +G Q + P
Sbjct: 1 LPPGWEERTDTDGRPYYYNHNTGETQWERP 30
>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 = 37.1 bits (87), Expect = 2e-04
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 92 PPGWERHEDNDG-PYYWHIKSGTIQRDPPE 120
PPGWE D DG YY++ + Q + P
Sbjct: 1 PPGWEERWDPDGRVYYYNHNTKETQWEDPR 30
>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 = 36.0 bits (84), Expect = 7e-04
Identities = 14/31 (45%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 91 LPPGWERHEDNDG-PYYWHIKSGTIQRDPPE 120
LPPGWE +D DG PYY++ ++ Q + P
Sbjct: 2 LPPGWEERKDPDGRPYYYNHETKETQWEKPR 32
>gnl|CDD|214675 smart00462, PTB, Phosphotyrosine-binding domain,
phosphotyrosine-interaction (PI) domain. PTB/PI domain
structure similar to those of pleckstrin homology (PH)
and IRS-1-like PTB domains.
Length = 134
Score = 31.1 bits (71), Expect = 0.23
Identities = 10/31 (32%), Positives = 15/31 (48%), Gaps = 5/31 (16%)
Query: 230 IRFAVRSLGWVEISEHDLTPERSSKAVNKCI 260
+ F V+ LG VE+ E R + V + I
Sbjct: 4 VSFRVKYLGSVEVPEA-----RGLQVVQEAI 29
>gnl|CDD|144292 pfam00640, PID, Phosphotyrosine interaction domain (PTB/PID).
Length = 133
Score = 30.4 bits (69), Expect = 0.53
Identities = 11/33 (33%), Positives = 14/33 (42%), Gaps = 6/33 (18%)
Query: 232 FAVRSLGWVEISEHDLTPERSSKAVNKCIVDLS 264
FAV+ LG VE+ E N+ I L
Sbjct: 1 FAVKYLGSVEVPEER------MDVANEAISRLK 27
>gnl|CDD|226039 COG3508, HmgA, Homogentisate 1,2-dioxygenase [Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 427
Score = 29.4 bits (66), Expect = 2.5
Identities = 22/107 (20%), Positives = 38/107 (35%), Gaps = 16/107 (14%)
Query: 14 SATYYEKPTPPRTLSLSEKASCTPAQGASIPHVPGDL---NNDLYAVPVKLRGASPLPPL 70
A Y + P + L K + + H P D+ + +L LR +P+ +
Sbjct: 226 VARYEDSEGPTQ---LVVK-THGGLWAVELDHSPLDVVAWHGNLAPYKYDLRDFNPIGTI 281
Query: 71 LADL-SPSLSSTLSSVEAEEQL--------PPGWERHEDNDGPYYWH 108
D PS+ + L++ PP W E P ++H
Sbjct: 282 SYDHPDPSIFTVLTAPSDTPGFANCDFVIFPPRWLVAEQTFRPPWYH 328
>gnl|CDD|237547 PRK13890, PRK13890, conjugal transfer protein TrbA; Provisional.
Length = 120
Score = 27.8 bits (62), Expect = 2.9
Identities = 15/34 (44%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 66 PLPPLL--ADLSPSLSSTLSSVEAEEQLPPGWER 97
PLP LL DL L+ +A LPPG+ER
Sbjct: 60 PLPLLLESTDLDKEALDALAGGKAPRSLPPGFER 93
>gnl|CDD|181035 PRK07567, PRK07567, glutamine amidotransferase; Provisional.
Length = 242
Score = 28.4 bits (64), Expect = 4.2
Identities = 16/39 (41%), Positives = 20/39 (51%)
Query: 56 AVPVKLRGASPLPPLLADLSPSLSSTLSSVEAEEQLPPG 94
AV V L A PLLA L + ++ + EA LPPG
Sbjct: 124 AVTVSLTDAGRADPLLAGLPDTFTAFVGHKEAVSALPPG 162
>gnl|CDD|233857 TIGR02412, pepN_strep_liv, aminopeptidase N, Streptomyces lividans
type. This family is a subset of the members of the
zinc metallopeptidase family M1 (pfam01433), with a
single member characterized in Streptomyces lividans 66
and designated aminopeptidase N. The spectrum of
activity may differ somewhat from the aminopeptidase N
clade of E. coli and most other Proteobacteria, well
separated phylogenetically within the M1 family. The M1
family also includes leukotriene A-4
hydrolase/aminopeptidase (with a bifunctional active
site).
Length = 831
Score = 28.2 bits (63), Expect = 5.7
Identities = 12/54 (22%), Positives = 21/54 (38%), Gaps = 3/54 (5%)
Query: 104 PYYWHIKSGTIQRDPPEFTYGK--NEPKTPLVKDAETVNNDGPYY-WHIKSGTI 154
P W + S + + D + P+TP + T GPY+ +S +
Sbjct: 152 PEDWTVISNSRETDVTPEPADRRWEFPETPKLSTYLTAVAAGPYHSVQDESRSY 205
>gnl|CDD|163521 TIGR03809, TIGR03809, TIGR03809 family protein. This protein
family contains proteins with a median length of about
175, including a strongly conserved N-terminal region of
about 55 amino acids, a conserved extreme C-terminal
region of about 15 amino acids, and highly variable
sequence in between the two. Members are found
invariably with a member of family TIGR03808.
Length = 168
Score = 27.1 bits (60), Expect = 8.4
Identities = 16/84 (19%), Positives = 30/84 (35%), Gaps = 1/84 (1%)
Query: 20 KPTPPRTLSLSEKASCTPAQGASIPHVPGDLNNDLYAVPVKLRGASPLPPLLADLSPSLS 79
K PPR + + P + A +P + P + A+ + +
Sbjct: 75 KKLPPRAPFYAADETVEPRRFAPPAALPASAPAIVALPEEAAAEPRAAPDVPAEPNDASD 134
Query: 80 STLSSVEAEEQLPPGWERHEDNDG 103
+ ++ V AE + P W+ D D
Sbjct: 135 ADVAEV-AEPDVVPEWQHALDLDQ 157
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
0.311 0.129 0.384
Gapped
Lambda K H
0.267 0.0727 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,168,287
Number of extensions: 1296039
Number of successful extensions: 696
Number of sequences better than 10.0: 1
Number of HSP's gapped: 693
Number of HSP's successfully gapped: 13
Length of query: 282
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 186
Effective length of database: 6,679,618
Effective search space: 1242408948
Effective search space used: 1242408948
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 58 (26.1 bits)