RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9687
(141 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 = 44.2 bits (105), Expect = 2e-07
Identities = 21/37 (56%), Positives = 26/37 (70%), Gaps = 1/37 (2%)
Query: 55 NIDDCA-PNPCKNGARCVDKVKDYLCECYPGYTGKTC 90
+ID+CA NPC+NG CV+ V Y C C PGYTG+ C
Sbjct: 1 DIDECASGNPCQNGGTCVNTVGSYRCSCPPGYTGRNC 37
Score = 40.7 bits (96), Expect = 5e-06
Identities = 20/39 (51%), Positives = 27/39 (69%), Gaps = 2/39 (5%)
Query: 16 NIDDCESG-PCLNGGLCKDLLNNYTCNCQQTGYTGPHCE 53
+ID+C SG PC NGG C + + +Y C+C GYTG +CE
Sbjct: 1 DIDECASGNPCQNGGTCVNTVGSYRCSCPP-GYTGRNCE 38
>gnl|CDD|214542 smart00179, EGF_CA, Calcium-binding EGF-like domain.
Length = 39
Score = 40.7 bits (96), Expect = 5e-06
Identities = 22/38 (57%), Positives = 27/38 (71%), Gaps = 2/38 (5%)
Query: 55 NIDDCA-PNPCKNGARCVDKVKDYLCECYPGYT-GKTC 90
+ID+CA NPC+NG CV+ V Y CEC PGYT G+ C
Sbjct: 1 DIDECASGNPCQNGGTCVNTVGSYRCECPPGYTDGRNC 38
Score = 36.8 bits (86), Expect = 2e-04
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 16 NIDDCES-GPCLNGGLCKDLLNNYTCNCQQTGYTGPHCE 53
+ID+C S PC NGG C + + +Y C C G +CE
Sbjct: 1 DIDECASGNPCQNGGTCVNTVGSYRCECPPGYTDGRNCE 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 = 35.5 bits (82), Expect = 5e-04
Identities = 19/32 (59%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 59 CAPN-PCKNGARCVDKVKDYLCECYPGYTGKT 89
C+PN PC NG CVD Y CEC GYTGK
Sbjct: 1 CSPNNPCSNGGTCVDTPGGYTCECPEGYTGKR 32
Score = 28.6 bits (64), Expect = 0.14
Identities = 15/28 (53%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 24 PCLNGGLCKDLLNNYTCNCQQTGYTGPH 51
PC NGG C D YTC C + GYTG
Sbjct: 6 PCSNGGTCVDTPGGYTCECPE-GYTGKR 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 = 34.0 bits (78), Expect = 0.002
Identities = 16/30 (53%), Positives = 17/30 (56%)
Query: 60 APNPCKNGARCVDKVKDYLCECYPGYTGKT 89
A NPC NG CV+ Y C C PGYTG
Sbjct: 4 ASNPCSNGGTCVNTPGSYRCVCPPGYTGDR 33
Score = 30.1 bits (68), Expect = 0.041
Identities = 16/34 (47%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 21 ESGPCLNGGLCKDLLNNYTCNCQQTGYTGP-HCE 53
S PC NGG C + +Y C C GYTG CE
Sbjct: 4 ASNPCSNGGTCVNTPGSYRCVCPP-GYTGDRSCE 36
>gnl|CDD|236205 PRK08259, PRK08259, enoyl-CoA hydratase; Provisional.
Length = 254
Score = 28.3 bits (64), Expect = 1.2
Identities = 12/39 (30%), Positives = 16/39 (41%), Gaps = 5/39 (12%)
Query: 107 TCLEHSNMSLYQRSDLPALPKIFAQEFNYST----AEGL 141
TCL +S ++ LP A EF + AE L
Sbjct: 201 TCLRADRLSALEQWGLP-EEAALANEFAHGLAVLAAEAL 238
>gnl|CDD|214544 smart00181, EGF, Epidermal growth factor-like domain.
Length = 35
Score = 25.9 bits (57), Expect = 1.3
Identities = 13/27 (48%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 61 PNPCKNGARCVDKVKDYLCECYPGYTG 87
PC NG C++ Y C C PGYTG
Sbjct: 5 GGPCSNG-TCINTPGSYTCSCPPGYTG 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 = 24.4 bits (54), Expect = 5.3
Identities = 13/36 (36%), Positives = 15/36 (41%), Gaps = 5/36 (13%)
Query: 52 CEINIDDCAPNPCKNGARCVDKVKDYLCECYPGYTG 87
C N C PN A C + + C C GYTG
Sbjct: 1 CAENNGGCHPN-----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
0.319 0.138 0.468
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: 6,616,621
Number of extensions: 521367
Number of successful extensions: 293
Number of sequences better than 10.0: 1
Number of HSP's gapped: 290
Number of HSP's successfully gapped: 41
Length of query: 141
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 54
Effective length of database: 7,078,804
Effective search space: 382255416
Effective search space used: 382255416
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 (21.7 bits)
S2: 54 (24.8 bits)