RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11059
(429 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 = 44.9 bits (107), Expect = 8e-07
Identities = 21/37 (56%), Positives = 24/37 (64%), Gaps = 1/37 (2%)
Query: 348 DFDECLS-NPCFNGATCQNKINGYTCVCAPGYSGKEC 383
D DEC S NPC NG TC N + Y C C PGY+G+ C
Sbjct: 1 DIDECASGNPCQNGGTCVNTVGSYRCSCPPGYTGRNC 37
Score = 40.7 bits (96), Expect = 2e-05
Identities = 19/38 (50%), Positives = 27/38 (71%), Gaps = 1/38 (2%)
Query: 386 NINECES-SPCLHGATCIDEVATFSCVCPKGLTGRLCE 422
+I+EC S +PC +G TC++ V ++ C CP G TGR CE
Sbjct: 1 DIDECASGNPCQNGGTCVNTVGSYRCSCPPGYTGRNCE 38
Score = 30.7 bits (70), Expect = 0.095
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 5/39 (12%)
Query: 294 CVGPDTCLNGGTCKPYLVDETQHRFNCTCPSGYHGKICE 332
C + C NGGTC T + C+CP GY G+ CE
Sbjct: 5 CASGNPCQNGGTCVN-----TVGSYRCSCPPGYTGRNCE 38
Score = 29.9 bits (68), Expect = 0.20
Identities = 15/31 (48%), Positives = 21/31 (67%), Gaps = 1/31 (3%)
Query: 258 TGDPCK-HGSCVDKRAGYFCDCPPTYGGKNC 287
+G+PC+ G+CV+ Y C CPP Y G+NC
Sbjct: 7 SGNPCQNGGTCVNTVGSYRCSCPPGYTGRNC 37
Score = 28.4 bits (64), Expect = 0.72
Identities = 15/30 (50%), Positives = 16/30 (53%), Gaps = 2/30 (6%)
Query: 67 CTTAPPCLNGATCRPQLTEQLYECVCPPGY 96
C + PC NG TC T Y C CPPGY
Sbjct: 5 CASGNPCQNGGTCVN--TVGSYRCSCPPGY 32
>gnl|CDD|214542 smart00179, EGF_CA, Calcium-binding EGF-like domain.
Length = 39
Score = 41.5 bits (98), Expect = 1e-05
Identities = 21/38 (55%), Positives = 24/38 (63%), Gaps = 2/38 (5%)
Query: 348 DFDECLS-NPCFNGATCQNKINGYTCVCAPGYS-GKEC 383
D DEC S NPC NG TC N + Y C C PGY+ G+ C
Sbjct: 1 DIDECASGNPCQNGGTCVNTVGSYRCECPPGYTDGRNC 38
Score = 37.2 bits (87), Expect = 4e-04
Identities = 19/39 (48%), Positives = 27/39 (69%), Gaps = 2/39 (5%)
Query: 386 NINECES-SPCLHGATCIDEVATFSCVCPKGLT-GRLCE 422
+I+EC S +PC +G TC++ V ++ C CP G T GR CE
Sbjct: 1 DIDECASGNPCQNGGTCVNTVGSYRCECPPGYTDGRNCE 39
Score = 29.9 bits (68), Expect = 0.19
Identities = 17/37 (45%), Positives = 20/37 (54%), Gaps = 2/37 (5%)
Query: 67 CTTAPPCLNGATCRPQLTEQLYECVCPPGYKEIRDCT 103
C + PC NG TC T Y C CPPGY + R+C
Sbjct: 5 CASGNPCQNGGTCVN--TVGSYRCECPPGYTDGRNCE 39
Score = 26.8 bits (60), Expect = 2.1
Identities = 15/32 (46%), Positives = 22/32 (68%), Gaps = 2/32 (6%)
Query: 258 TGDPCKHGS-CVDKRAGYFCDCPPTY-GGKNC 287
+G+PC++G CV+ Y C+CPP Y G+NC
Sbjct: 7 SGNPCQNGGTCVNTVGSYRCECPPGYTDGRNC 38
>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 = 35.1 bits (81), Expect = 0.002
Identities = 17/29 (58%), Positives = 18/29 (62%)
Query: 353 LSNPCFNGATCQNKINGYTCVCAPGYSGK 381
SNPC NG TC N Y CVC PGY+G
Sbjct: 4 ASNPCSNGGTCVNTPGSYRCVCPPGYTGD 32
Score = 30.1 bits (68), Expect = 0.15
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 391 ESSPCLHGATCIDEVATFSCVCPKGLTGR 419
S+PC +G TC++ ++ CVCP G TG
Sbjct: 4 ASNPCSNGGTCVNTPGSYRCVCPPGYTGD 32
Score = 29.8 bits (67), Expect = 0.21
Identities = 18/37 (48%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 67 CTTAPPCLNGATCRPQLTEQLYECVCPPGYKEIRDCT 103
C + PC NG TC T Y CVCPPGY R C
Sbjct: 2 CAASNPCSNGGTCVN--TPGSYRCVCPPGYTGDRSCE 36
Score = 25.1 bits (55), Expect = 9.9
Identities = 14/36 (38%), Positives = 16/36 (44%), Gaps = 5/36 (13%)
Query: 294 CVGPDTCLNGGTCKPYLVDETQHRFNCTCPSGYHGK 329
C + C NGGTC T + C CP GY G
Sbjct: 2 CAASNPCSNGGTCVN-----TPGSYRCVCPPGYTGD 32
>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 = 33.6 bits (77), Expect = 0.009
Identities = 16/27 (59%), Positives = 18/27 (66%)
Query: 355 NPCFNGATCQNKINGYTCVCAPGYSGK 381
NPC NG TC + GYTC C GY+GK
Sbjct: 5 NPCSNGGTCVDTPGGYTCECPEGYTGK 31
Score = 28.9 bits (65), Expect = 0.37
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 394 PCLHGATCIDEVATFSCVCPKGLTGR 419
PC +G TC+D ++C CP+G TG+
Sbjct: 6 PCSNGGTCVDTPGGYTCECPEGYTGK 31
Score = 27.8 bits (62), Expect = 1.0
Identities = 15/34 (44%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 67 CTTAPPCLNGATCRPQLTEQLYECVCPPGYKEIR 100
C+ PC NG TC T Y C CP GY R
Sbjct: 1 CSPNNPCSNGGTCVD--TPGGYTCECPEGYTGKR 32
Score = 26.2 bits (58), Expect = 3.0
Identities = 14/27 (51%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 261 PCKH-GSCVDKRAGYFCDCPPTYGGKN 286
PC + G+CVD GY C+CP Y GK
Sbjct: 6 PCSNGGTCVDTPGGYTCECPEGYTGKR 32
>gnl|CDD|219496 pfam07645, EGF_CA, Calcium-binding EGF domain.
Length = 42
Score = 30.4 bits (69), Expect = 0.13
Identities = 14/37 (37%), Positives = 16/37 (43%), Gaps = 2/37 (5%)
Query: 348 DFDECLS--NPCFNGATCQNKINGYTCVCAPGYSGKE 382
D DEC + C C N I + CVC GY E
Sbjct: 1 DVDECADGTHNCPANTVCVNTIGSFECVCPDGYENNE 37
>gnl|CDD|214544 smart00181, EGF, Epidermal growth factor-like domain.
Length = 35
Score = 27.9 bits (62), Expect = 0.94
Identities = 18/31 (58%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
Query: 351 ECLS-NPCFNGATCQNKINGYTCVCAPGYSG 380
EC S PC NG TC N YTC C PGY+G
Sbjct: 1 ECASGGPCSNG-TCINTPGSYTCSCPPGYTG 30
Score = 26.3 bits (58), Expect = 3.8
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 258 TGDPCKHGSCVDKRAGYFCDCPPTYGG 284
+G PC +G+C++ Y C CPP Y G
Sbjct: 4 SGGPCSNGTCINTPGSYTCSCPPGYTG 30
>gnl|CDD|205157 pfam12947, EGF_3, EGF domain. This family includes a variety of
EGF-like domain homologues. This family includes the
C-terminal domain of the malaria parasite MSP1 protein.
Length = 36
Score = 27.5 bits (62), Expect = 1.2
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 361 ATCQNKINGYTCVCAPGYSG 380
ATC N +TC C GY+G
Sbjct: 12 ATCTNTGGSFTCTCKSGYTG 31
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
0.322 0.141 0.505
Gapped
Lambda K H
0.267 0.0667 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,385,196
Number of extensions: 1806472
Number of successful extensions: 1082
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1059
Number of HSP's successfully gapped: 112
Length of query: 429
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 329
Effective length of database: 6,502,202
Effective search space: 2139224458
Effective search space used: 2139224458
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: 60 (27.0 bits)