RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2856
(136 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 = 19/34 (55%), Positives = 21/34 (61%)
Query: 19 DINECAHPNACGVNALCQNYPGNYTCSCQPGYTG 52
DI+ECA N C C N G+Y CSC PGYTG
Sbjct: 1 DIDECASGNPCQNGGTCVNTVGSYRCSCPPGYTG 34
Score = 43.0 bits (102), Expect = 6e-07
Identities = 18/38 (47%), Positives = 20/38 (52%), Gaps = 3/38 (7%)
Query: 60 DIDECQYASTHPVCGPGARCTNFPGGYHCECPPGYHGD 97
DIDEC ++ C G C N G Y C CPPGY G
Sbjct: 1 DIDEC---ASGNPCQNGGTCVNTVGSYRCSCPPGYTGR 35
Score = 34.9 bits (81), Expect = 7e-04
Identities = 16/33 (48%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 105 DADECVNR-PCGKDALCSNVDGSYTCTCPPGFR 136
D DEC + PC C N GSY C+CPPG+
Sbjct: 1 DIDECASGNPCQNGGTCVNTVGSYRCSCPPGYT 33
>gnl|CDD|214542 smart00179, EGF_CA, Calcium-binding EGF-like domain.
Length = 39
Score = 43.4 bits (103), Expect = 4e-07
Identities = 18/36 (50%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 60 DIDECQYASTHPVCGPGARCTNFPGGYHCECPPGYH 95
DIDEC ++ C G C N G Y CECPPGY
Sbjct: 1 DIDEC---ASGNPCQNGGTCVNTVGSYRCECPPGYT 33
Score = 42.2 bits (100), Expect = 1e-06
Identities = 17/33 (51%), Positives = 19/33 (57%)
Query: 19 DINECAHPNACGVNALCQNYPGNYTCSCQPGYT 51
DI+ECA N C C N G+Y C C PGYT
Sbjct: 1 DIDECASGNPCQNGGTCVNTVGSYRCECPPGYT 33
Score = 34.5 bits (80), Expect = 0.001
Identities = 16/33 (48%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 105 DADECVNR-PCGKDALCSNVDGSYTCTCPPGFR 136
D DEC + PC C N GSY C CPPG+
Sbjct: 1 DIDECASGNPCQNGGTCVNTVGSYRCECPPGYT 33
>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 = 36.3 bits (84), Expect = 2e-04
Identities = 17/32 (53%), Positives = 19/32 (59%)
Query: 22 ECAHPNACGVNALCQNYPGNYTCSCQPGYTGN 53
ECA N C C N PG+Y C C PGYTG+
Sbjct: 1 ECAASNPCSNGGTCVNTPGSYRCVCPPGYTGD 32
Score = 34.4 bits (79), Expect = 0.001
Identities = 15/30 (50%), Positives = 16/30 (53%)
Query: 68 STHPVCGPGARCTNFPGGYHCECPPGYHGD 97
+ C G C N PG Y C CPPGY GD
Sbjct: 3 AASNPCSNGGTCVNTPGSYRCVCPPGYTGD 32
Score = 30.5 bits (69), Expect = 0.034
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 111 NRPCGKDALCSNVDGSYTCTCPPGFR 136
+ PC C N GSY C CPPG+
Sbjct: 5 SNPCSNGGTCVNTPGSYRCVCPPGYT 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 = 34.4 bits (80), Expect = 0.001
Identities = 13/25 (52%), Positives = 18/25 (72%)
Query: 29 CGVNALCQNYPGNYTCSCQPGYTGN 53
C NA C N G++TC+C+ GYTG+
Sbjct: 8 CHPNATCTNTGGSFTCTCKSGYTGD 32
Score = 33.7 bits (78), Expect = 0.002
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 111 NRPCGKDALCSNVDGSYTCTCPPGF 135
N C +A C+N GS+TCTC G+
Sbjct: 5 NGGCHPNATCTNTGGSFTCTCKSGY 29
Score = 32.9 bits (76), Expect = 0.003
Identities = 14/28 (50%), Positives = 15/28 (53%)
Query: 73 CGPGARCTNFPGGYHCECPPGYHGDAFT 100
C P A CTN G + C C GY GD T
Sbjct: 8 CHPNATCTNTGGSFTCTCKSGYTGDGVT 35
>gnl|CDD|221695 pfam12662, cEGF, Complement Clr-like EGF-like. cEGF, or complement
Clr-like EGF, domains have six conserved cysteine
residues disulfide-bonded into the characteristic
pattern 'ababcc'. They are found in blood coagulation
proteins such as fibrillin, Clr and Cls, thrombomodulin,
and the LDL receptor. The core fold of the EGF domain
consists of two small beta-hairpins packed against each
other. Two major structural variants have been
identified based on the structural context of the
C-terminal cysteine residue of disulfide 'c' in the
C-terminal hairpin: hEGFs and cEGFs. In cEGFs the
C-terminal thiol resides on the C-terminal beta-sheet,
resulting in long loop-lengths between the cysteine
residues of disulfide 'c', typically C[10+]XC. These
longer loop-lengths may have arisen by selective
cysteine loss from a four-disulfide EGF template such as
laminin or integrin. Tandem cEGF domains have five
linking residues between terminal cysteines of adjacent
domains. cEGF domains may or may not bind calcium in the
linker region. cEGF domains with the consensus motif
CXN4X[F,Y]XCXC are hydroxylated exclusively on the
asparagine residue.
Length = 24
Score = 32.0 bits (74), Expect = 0.007
Identities = 11/24 (45%), Positives = 11/24 (45%)
Query: 85 GYHCECPPGYHGDAFTTGCVDADE 108
Y C CPPGY C D DE
Sbjct: 1 SYTCSCPPGYQLSGDGRTCEDIDE 24
Score = 30.1 bits (69), Expect = 0.030
Identities = 13/23 (56%), Positives = 14/23 (60%), Gaps = 1/23 (4%)
Query: 42 YTCSCQPGYTGNPFEG-CIDIDE 63
YTCSC PGY + C DIDE
Sbjct: 2 YTCSCPPGYQLSGDGRTCEDIDE 24
Score = 24.7 bits (55), Expect = 2.9
Identities = 8/11 (72%), Positives = 11/11 (100%)
Query: 126 SYTCTCPPGFR 136
SYTC+CPPG++
Sbjct: 1 SYTCSCPPGYQ 11
>gnl|CDD|214544 smart00181, EGF, Epidermal growth factor-like domain.
Length = 35
Score = 31.3 bits (71), Expect = 0.016
Identities = 19/33 (57%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 22 ECAHPNACGVNALCQNYPGNYTCSCQPGYTGNP 54
ECA C N C N PG+YTCSC PGYTG+
Sbjct: 1 ECASGGPCS-NGTCINTPGSYTCSCPPGYTGDK 32
Score = 29.0 bits (65), Expect = 0.12
Identities = 15/30 (50%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 68 STHPVCGPGARCTNFPGGYHCECPPGYHGD 97
++ C G C N PG Y C CPPGY GD
Sbjct: 3 ASGGPCSNG-TCINTPGSYTCSCPPGYTGD 31
Score = 25.6 bits (56), Expect = 1.7
Identities = 13/26 (50%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 111 NRPCGKDALCSNVDGSYTCTCPPGFR 136
PC C N GSYTC+CPPG+
Sbjct: 5 GGPCSNG-TCINTPGSYTCSCPPGYT 29
>gnl|CDD|219496 pfam07645, EGF_CA, Calcium-binding EGF domain.
Length = 42
Score = 30.8 bits (70), Expect = 0.023
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 19 DINECAHP-NACGVNALCQNYPGNYTCSCQPGYTGNP 54
D++ECA + C N +C N G++ C C GY N
Sbjct: 1 DVDECADGTHNCPANTVCVNTIGSFECVCPDGYENNE 37
Score = 30.4 bits (69), Expect = 0.033
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 105 DADECVNRP--CGKDALCSNVDGSYTCTCPPGFR 136
D DEC + C + +C N GS+ C CP G+
Sbjct: 1 DVDECADGTHNCPANTVCVNTIGSFECVCPDGYE 34
Score = 29.6 bits (67), Expect = 0.066
Identities = 14/35 (40%), Positives = 16/35 (45%), Gaps = 2/35 (5%)
Query: 60 DIDECQYASTHPVCGPGARCTNFPGGYHCECPPGY 94
D+DEC A C C N G + C CP GY
Sbjct: 1 DVDEC--ADGTHNCPANTVCVNTIGSFECVCPDGY 33
>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 = 29.7 bits (67), Expect = 0.055
Identities = 14/25 (56%), Positives = 15/25 (60%)
Query: 73 CGPGARCTNFPGGYHCECPPGYHGD 97
C G C + PGGY CECP GY G
Sbjct: 7 CSNGGTCVDTPGGYTCECPEGYTGK 31
Score = 29.3 bits (66), Expect = 0.081
Identities = 14/30 (46%), Positives = 16/30 (53%)
Query: 23 CAHPNACGVNALCQNYPGNYTCSCQPGYTG 52
C+ N C C + PG YTC C GYTG
Sbjct: 1 CSPNNPCSNGGTCVDTPGGYTCECPEGYTG 30
Score = 28.2 bits (63), Expect = 0.22
Identities = 11/25 (44%), Positives = 13/25 (52%)
Query: 111 NRPCGKDALCSNVDGSYTCTCPPGF 135
N PC C + G YTC CP G+
Sbjct: 4 NNPCSNGGTCVDTPGGYTCECPEGY 28
>gnl|CDD|212058 cd11489, SLC5sbd_SGLT5, Na(+)/glucose cotransporter SGLT5 and
related proteins; solute-binding domain. Human SGLT5 is
a glucose transporter, which also transports galactose.
It is encoded by the SLC5A10 gene, and is exclusively
expressed in the renal cortex. This subgroup belongs to
the solute carrier 5 (SLC5) transporter family.
Length = 604
Score = 31.4 bits (71), Expect = 0.13
Identities = 11/24 (45%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 100 TTGCVDADECVNRPCGKDALCSNV 123
CVD +EC+ R CG + CSN+
Sbjct: 313 DVACVDPEECL-RVCGAEVGCSNI 335
>gnl|CDD|212057 cd11488, SLC5sbd_SGLT4, Na(+)/glucose cotransporter SGLT4 and
related proteins; solute-binding domain. Human SGLT4
(hSGLT4) has been reported to be a low-affinity glucose
transporter with unusual sugar selectivity: it
transports D-mannose but not galactose or
3-O-methyl-D-glucoside. It is encoded by the SLC5A9 gene
and is expressed in intestine, kidney, liver, brain,
lung, trachea, uterus, and pancreas. hSLGT4 is predicted
to contain 14 membrane-spanning regions. This subgroup
belongs to the solute carrier 5 (SLC5 )transporter
family.
Length = 605
Score = 30.2 bits (68), Expect = 0.28
Identities = 12/22 (54%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 102 GCVDADECVNRPCGKDALCSNV 123
GCVD DEC + CG CSN+
Sbjct: 312 GCVDPDEC-QKICGAKVGCSNI 332
Score = 26.8 bits (59), Expect = 4.5
Identities = 11/25 (44%), Positives = 14/25 (56%), Gaps = 5/25 (20%)
Query: 57 GCIDIDECQYASTHPVCGPGARCTN 81
GC+D DECQ +CG C+N
Sbjct: 312 GCVDPDECQ-----KICGAKVGCSN 331
>gnl|CDD|212039 cd10329, SLC5sbd_SGLT1-like, Na(+)/glucose cotransporter SGLT1 and
related proteins; solute binding domain. This subfamily
includes the solute-binding domain of SGLT proteins that
cotransport Na+ with various solutes. Its members
include: the human glucose (SGLT1, -2, -4, -5 ),
chiro-inositol (SGLT5), and myo-inositol (SMIT)
cotransporters. It also includes human SGLT3 which has
been characterized as a glucose sensor and not a
transporter. It belongs to the solute carrier 5 (SLC5)
transporter family.
Length = 564
Score = 30.0 bits (68), Expect = 0.33
Identities = 9/22 (40%), Positives = 13/22 (59%), Gaps = 1/22 (4%)
Query: 102 GCVDADECVNRPCGKDALCSNV 123
CV +EC+ + CG CSN+
Sbjct: 315 ACVVPEECM-KVCGNPVGCSNI 335
>gnl|CDD|238752 cd01475, vWA_Matrilin, VWA_Matrilin: In cartilaginous plate,
extracellular matrix molecules mediate cell-matrix and
matrix-matrix interactions thereby providing tissue
integrity. Some members of the matrilin family are
expressed specifically in developing cartilage
rudiments. The matrilin family consists of at least four
members. All the members of the matrilin family contain
VWA domains, EGF-like domains and a heptad repeat
coiled-coiled domain at the carboxy terminus which is
responsible for the oligomerization of the matrilins.
The VWA domains have been shown to be essential for
matrilin network formation by interacting with matrix
ligands.
Length = 224
Score = 29.3 bits (66), Expect = 0.44
Identities = 11/33 (33%), Positives = 14/33 (42%)
Query: 103 CVDADECVNRPCGKDALCSNVDGSYTCTCPPGF 135
CV D C +C + GSY C C G+
Sbjct: 184 CVVPDLCATLSHVCQQVCISTPGSYLCACTEGY 216
Score = 29.3 bits (66), Expect = 0.58
Identities = 11/37 (29%), Positives = 16/37 (43%), Gaps = 5/37 (13%)
Query: 23 CAHPNAC-----GVNALCQNYPGNYTCSCQPGYTGNP 54
C P+ C +C + PG+Y C+C GY
Sbjct: 184 CVVPDLCATLSHVCQQVCISTPGSYLCACTEGYALLE 220
>gnl|CDD|236853 PRK11121, nrdG, anaerobic ribonucleotide reductase-activating
protein; Provisional.
Length = 154
Score = 28.4 bits (64), Expect = 0.90
Identities = 14/30 (46%), Positives = 15/30 (50%)
Query: 65 QYASTHPVCGPGARCTNFPGGYHCECPPGY 94
QY V GPG RCT F G +CP Y
Sbjct: 5 QYYPVDVVNGPGTRCTLFVSGCVHQCPGCY 34
>gnl|CDD|116493 pfam07881, Fucose_iso_N1, L-fucose isomerase, first N-terminal
domain. The members of this family are similar to
L-fucose isomerase expressed by E. coli (EC:5.3.1.3).
This enzyme corresponds to glucose-6-phosphate isomerase
in glycolysis, and converts an aldo-hexose to a ketose
to prepare it for aldol cleavage. The enzyme is a
hexamer, with each subunit being wedge-shaped and
composed of three domains. Both domains 1 and 2 contain
central parallel beta-sheets with surrounding alpha
helices. Domain 1 demonstrates the
beta-alpha-beta-alpha- beta Rossman fold. The active
centre is shared between pairs of subunits related along
the molecular three-fold axis, with domains 2 and 3 from
one subunit providing most of the substrate-contacting
residues, and domain 1 from the adjacent subunit
contributing some other residues.
Length = 171
Score = 28.1 bits (63), Expect = 1.1
Identities = 10/50 (20%), Positives = 14/50 (28%), Gaps = 8/50 (16%)
Query: 94 YHGDAFTTGCVDADECVNRP-----CGKDALCSNVDGS---YTCTCPPGF 135
+ D CV AD + C + NV + C C
Sbjct: 43 RYPDGGPVECVIADTTIGGVAEAAACAEKFKKENVGVTITVTPCWCYGSE 92
>gnl|CDD|201524 pfam00954, S_locus_glycop, S-locus glycoprotein family. In
Brassicaceae, self-incompatible plants have a
self/non-self recognition system. This is
sporophytically controlled by multiple alleles at a
single locus (S). S-locus glycoproteins, as well as
S-receptor kinases, are in linkage with the S-alleles.
Length = 110
Score = 26.5 bits (59), Expect = 3.3
Identities = 12/32 (37%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 106 ADEC-VNRPCGKDALCSNVDGSYTCTCPPGFR 136
D+C V CG C +V+ S C C GF
Sbjct: 77 KDQCDVYGRCGPYGYC-DVNTSPKCNCIKGFV 107
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
0.325 0.143 0.520
Gapped
Lambda K H
0.267 0.0720 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,707,523
Number of extensions: 540141
Number of successful extensions: 379
Number of sequences better than 10.0: 1
Number of HSP's gapped: 368
Number of HSP's successfully gapped: 71
Length of query: 136
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 49
Effective length of database: 7,078,804
Effective search space: 346861396
Effective search space used: 346861396
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (24.6 bits)