RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9688
(181 letters)
>gnl|CDD|238011 cd00054, EGF_CA, Calcium-binding EGF-like domain, present in a
large number of membrane-bound and extracellular
(mostly animal) proteins. Many of these proteins
require calcium for their biological function and
calcium-binding sites have been found to be located at
the N-terminus of particular EGF-like domains;
calcium-binding may be crucial for numerous
protein-protein interactions. Six conserved core
cysteines form three disulfide bridges as in non
calcium-binding EGF domains, whose structures are very
similar. EGF_CA can be found in tandem repeat
arrangements.
Length = 38
Score = 35.3 bits (82), Expect = 8e-04
Identities = 17/37 (45%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 42 VDHCLT-DPCLGHGTCINRSDRYQCLCTPRYSGNNCE 77
+D C + +PC GTC+N Y+C C P Y+G NCE
Sbjct: 2 IDECASGNPCQNGGTCVNTVGSYRCSCPPGYTGRNCE 38
Score = 27.6 bits (62), Expect = 0.55
Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 113 TSNPCLNDCVCVDDGNLSFYCNCTEDFTGEYCQ 145
+ NPC N CV+ S+ C+C +TG C+
Sbjct: 7 SGNPCQNGGTCVNTVG-SYRCSCPPGYTGRNCE 38
>gnl|CDD|214542 smart00179, EGF_CA, Calcium-binding EGF-like domain.
Length = 39
Score = 29.9 bits (68), Expect = 0.067
Identities = 17/38 (44%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 42 VDHCLT-DPCLGHGTCINRSDRYQCLCTPRYS-GNNCE 77
+D C + +PC GTC+N Y+C C P Y+ G NCE
Sbjct: 2 IDECASGNPCQNGGTCVNTVGSYRCECPPGYTDGRNCE 39
>gnl|CDD|215652 pfam00008, EGF, EGF-like domain. There is no clear separation
between noise and signal. pfam00053 is very similar,
but has 8 instead of 6 conserved cysteines. Includes
some cytokine receptors. The EGF domain misses the
N-terminus regions of the Ca2+ binding EGF domains
(this is the main reason of discrepancy between
swiss-prot domain start/end and Pfam). The family is
hard to model due to many similar but different
sub-types of EGF domains. Pfam certainly misses a
number of EGF domains.
Length = 32
Score = 28.9 bits (65), Expect = 0.16
Identities = 10/27 (37%), Positives = 13/27 (48%)
Query: 49 PCLGHGTCINRSDRYQCLCTPRYSGNN 75
PC GTC++ Y C C Y+G
Sbjct: 6 PCSNGGTCVDTPGGYTCECPEGYTGKR 32
>gnl|CDD|238010 cd00053, EGF, Epidermal growth factor domain, found in epidermal
growth factor (EGF) presents in a large number of
proteins, mostly animal; the list of proteins currently
known to contain one or more copies of an EGF-like
pattern is large and varied; the functional
significance of EGF-like domains in what appear to be
unrelated proteins is not yet clear; a common feature
is that these repeats are found in the extracellular
domain of membrane-bound proteins or in proteins known
to be secreted (exception: prostaglandin G/H synthase);
the domain includes six cysteine residues which have
been shown to be involved in disulfide bonds; the main
structure is a two-stranded beta-sheet followed by a
loop to a C-terminal short two-stranded sheet;
Subdomains between the conserved cysteines vary in
length; the region between the 5th and 6th cysteine
contains two conserved glycines of which at least one
is present in most EGF-like domains; a subset of
these bind calcium.
Length = 36
Score = 27.8 bits (62), Expect = 0.47
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 48 DPCLGHGTCINRSDRYQCLCTPRYSGNN 75
+PC GTC+N Y+C+C P Y+G+
Sbjct: 6 NPCSNGGTCVNTPGSYRCVCPPGYTGDR 33
Score = 24.4 bits (53), Expect = 8.4
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 113 TSNPCLNDCVCVDDGNLSFYCNCTEDFTGE 142
SNPC N CV+ S+ C C +TG+
Sbjct: 4 ASNPCSNGGTCVNTPG-SYRCVCPPGYTGD 32
>gnl|CDD|221873 pfam12955, DUF3844, Domain of unknown function (DUF3844). This
presumed domain is found in fungal species. It contains
8 largely conserved cysteine residues. This domain is
found in proteins that are thought to be found in the
endoplasmic reticulum.
Length = 103
Score = 28.4 bits (64), Expect = 0.83
Identities = 15/50 (30%), Positives = 20/50 (40%), Gaps = 18/50 (36%)
Query: 47 TDPCLGHGTCIN-----RSDRYQCLCTP-------------RYSGNNCEK 78
T+ C GHG+C+ D Y C C P R+ G C+K
Sbjct: 12 TNSCSGHGSCVKKSKSKGGDCYACKCKPTVVRTGSDKGKTTRWGGPACQK 61
>gnl|CDD|217384 pfam03137, OATP, Organic Anion Transporter Polypeptide (OATP)
family. This family consists of several eukaryotic
Organic-Anion-Transporting Polypeptides (OATPs). Several
have been identified mostly in human and rat. Different
OATPs vary in tissue distribution and substrate
specificity. Since the numbering of different OATPs in
particular species was based originally on the order of
discovery, similarly numbered OATPs in humans and rats
did not necessarily correspond in function, tissue
distribution and substrate specificity (in spite of the
name, some OATPs also transport organic cations and
neutral molecules). Thus, Tamai et al. initiated the
current scheme of using digits for rat OATPs and letters
for human ones. Prostaglandin transporter (PGT) proteins
are also considered to be OATP family members. In
addition, the methotrexate transporter OATK is closely
related to OATPs. This family also includes several
predicted proteins from Caenorhabditis elegans and
Drosophila melanogaster. This similarity was not
previously noted. Note: Members of this family are
described (in the Swiss-Prot database) as belonging to
the SLC21 family of transporters.
Length = 582
Score = 28.8 bits (65), Expect = 1.5
Identities = 14/70 (20%), Positives = 23/70 (32%), Gaps = 9/70 (12%)
Query: 114 SNPCLNDCVC--------VDDGNLSFYCNCTEDFTGEYCQFENSAACVTLNPCQNNATCV 165
+ C DC C D L++ C + + S + + N C + +
Sbjct: 422 LSSCNEDCSCDTSFFPPVCGDNGLTYLSPCHAGSSSSGTGCDTSCSTWSNN-CSSGNSHS 480
Query: 166 ASPGEKQITC 175
AS G C
Sbjct: 481 ASKGYCPSDC 490
>gnl|CDD|149504 pfam08475, Baculo_VP91_N, Viral capsid protein 91 N-terminal. This
domain is found in Baculoviridae including the
nucleopolyhedrovirus at the N-terminus of the viral
capsid protein 91 (VP91).
Length = 185
Score = 27.2 bits (61), Expect = 4.2
Identities = 12/37 (32%), Positives = 14/37 (37%), Gaps = 6/37 (16%)
Query: 124 VDDGNLSFYCNCTEDFTGEYCQFENSAACVTLNPCQN 160
DDG + C E F G Q CV + PC
Sbjct: 119 GDDGWVEMECPANERFDGNQLQ------CVPIPPCDG 149
>gnl|CDD|239875 cd04412, NDPk7B, Nucleoside diphosphate kinase 7 domain B (NDPk7B):
The nm23-H7 class of nucleoside diphosphate kinase
(NDPk7) consists of an N-terminal DM10 domain and two
functional catalytic NDPk modules, NDPk7A and NDPk7B.
The function of the DM10 domain, which also occurs in
multiple copies in other proteins, is unknown. NDPk7 is
predominantly expressed in testes, although appreciable
amount are also found in liver, heart, brain, ovary,
small intestine and spleen. The nm23-H7 gene is located
in or near the hereditary prostrate cancer
susceptibility locus. Nm23-H7 may be involved in the
development of colon and gastric carcinoma, the latter
possibly in a type-specific manner.
Length = 134
Score = 25.7 bits (57), Expect = 9.2
Identities = 13/23 (56%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 97 EVYKGRYWELPEIRDC-TSNPCL 118
EVYKG ELP + D TS PC+
Sbjct: 49 EVYKGVVPELPAMVDELTSGPCI 71
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
0.320 0.137 0.475
Gapped
Lambda K H
0.267 0.0612 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,172,879
Number of extensions: 663451
Number of successful extensions: 450
Number of sequences better than 10.0: 1
Number of HSP's gapped: 442
Number of HSP's successfully gapped: 47
Length of query: 181
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 90
Effective length of database: 6,901,388
Effective search space: 621124920
Effective search space used: 621124920
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 (21.8 bits)
S2: 56 (25.6 bits)