RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10560
(74 letters)
>gnl|CDD|99998 cd04949, GT1_gtfA_like, This family is most closely related to the
GT1 family of glycosyltransferases and is named after
gtfA in Streptococcus gordonii, where it plays a role in
the O-linked glycosylation of GspB, a cell surface
glycoprotein involved in platelet binding. In general
glycosyltransferases catalyze the transfer of sugar
moieties from activated donor molecules to specific
acceptor molecules, forming glycosidic bonds. The
acceptor molecule can be a lipid, a protein, a
heterocyclic compound, or another carbohydrate residue.
This group of glycosyltransferases is most closely
related to the previously defined glycosyltransferase
family 1 (GT1). The members of this family may transfer
UDP, ADP, GDP, or CMP linked sugars. The diverse
enzymatic activities among members of this family
reflect a wide range of biological functions. The
protein structure available for this family has the GTB
topology, one of the two protein topologies observed for
nucleotide-sugar-dependent glycosyltransferases. GTB
proteins have distinct N- and C- terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two domains
includes the catalytic center and permits a high degree
of flexibility. The members of this family are found in
bacteria.
Length = 372
Score = 25.3 bits (56), Expect = 2.8
Identities = 8/23 (34%), Positives = 10/23 (43%)
Query: 10 QRAAHTYAVSHSGHSEGIQDSEH 32
++AA V HS H D H
Sbjct: 119 KKAAKVVVVLHSNHVSDNNDPVH 141
>gnl|CDD|233354 TIGR01312, XylB, D-xylulose kinase. This model describes
D-xylulose kinases, a subfamily of the FGGY family of
carbohydrate kinases. The member from Klebsiella
pneumoniae, designated DalK (see PMID:9324246), was
annotated erroneously in GenBank as D-arabinitol kinase
but is authentic D-xylulose kinase. D-xylulose kinase
(XylB) generally is found with xylose isomerase (XylA)
and acts in xylose utilization [Energy metabolism,
Sugars].
Length = 481
Score = 24.6 bits (54), Expect = 5.0
Identities = 11/27 (40%), Positives = 12/27 (44%), Gaps = 2/27 (7%)
Query: 6 VCETQRAAHTYAVSHSGHSEGIQDSEH 32
V + A HT H G SE QD E
Sbjct: 21 VIASGSAPHTVISPHPGWSE--QDPED 45
>gnl|CDD|204999 pfam12661, hEGF, Human growth factor-like EGF. hEGF, or human
growth factor-like EGF, domains have six conserved
residues disulfide-bonded into the characteristic
'ababcc' pattern. They are involved in growth and
proliferation of cells, in proteins of the Notch/Delta
pathway, neurogulin and selectins. hEGFs are also found
in mosaic proteins with four-disulfide laminin EGFs
such as aggrecan and perlecan. 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 Cys residue of disulfide 'c' in the
C-terminal hairpin: hEGFs and cEGFs. In hEGFs the
C-terminal thiol resides in the beta-turn, resulting in
shorter loop-lengths between the Cys residues of
disulfide 'c', typically C[8-9]XC. These shorter
loop-lengths are also typical of the four-disulfide EGF
domains, laminin ad integrin. Tandem hEGF domains have
six linking residues between terminal cysteines of
adjacent domains. hEGF domains may or may not bind
calcium in the linker region. hEGF domains with the
consensus motif CXD4X[F,Y]XCXC are hydroxylated
exclusively in the Asp residue.
Length = 13
Score = 22.7 bits (50), Expect = 7.4
Identities = 5/12 (41%), Positives = 7/12 (58%)
Query: 55 CVCNAGWSGEYC 66
C C G++G C
Sbjct: 2 CQCPPGYTGPRC 13
>gnl|CDD|220638 pfam10230, DUF2305, Uncharacterized conserved protein (DUF2305).
This family of proteins is conserved from plants to
humans. The function is unknown.
Length = 260
Score = 24.2 bits (53), Expect = 7.4
Identities = 4/23 (17%), Positives = 12/23 (52%)
Query: 11 RAAHTYAVSHSGHSEGIQDSEHT 33
+ +SH+GH+ ++++
Sbjct: 31 PSFDVLGISHAGHTLSPGNNKNE 53
>gnl|CDD|219677 pfam07974, EGF_2, EGF-like domain. This family contains EGF
domains found in a variety of extracellular proteins.
Length = 31
Score = 22.8 bits (49), Expect = 7.7
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 2/28 (7%)
Query: 41 DKDCGTHGHCVGDA--CVCNAGWSGEYC 66
C G CV CVC++G+ G C
Sbjct: 4 SGICNGRGTCVRPCGKCVCDSGYQGATC 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 0.131 0.457
Gapped
Lambda K H
0.267 0.0632 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,158,617
Number of extensions: 195993
Number of successful extensions: 141
Number of sequences better than 10.0: 1
Number of HSP's gapped: 140
Number of HSP's successfully gapped: 17
Length of query: 74
Length of database: 10,937,602
Length adjustment: 44
Effective length of query: 30
Effective length of database: 8,986,026
Effective search space: 269580780
Effective search space used: 269580780
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: 53 (24.4 bits)