RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15473
(190 letters)
>gnl|CDD|238012 cd00055, EGF_Lam, Laminin-type epidermal growth factor-like domain;
laminins are the major noncollagenous components of
basement membranes that mediate cell adhesion, growth
migration, and differentiation; the laminin-type
epidermal growth factor-like module occurs in tandem
arrays; the domain contains 4 disulfide bonds (loops
a-d) the first three resemble epidermal growth factor
(EGF); the number of copies of this domain in the
different forms of laminins is highly variable ranging
from 3 up to 22 copies.
Length = 50
Score = 50.4 bits (121), Expect = 3e-09
Identities = 23/46 (50%), Positives = 30/46 (65%), Gaps = 3/46 (6%)
Query: 105 PCNCNGHADI---CDAESGRCICQDNTGGDNCERCARGYYGNALEG 147
PC+CNGH + CD +G+C C+ NT G C+RCA GYYG +G
Sbjct: 1 PCDCNGHGSLSGQCDPGTGQCECKPNTTGRRCDRCAPGYYGLPSQG 46
Score = 35.0 bits (81), Expect = 0.001
Identities = 14/27 (51%), Positives = 18/27 (66%)
Query: 4 RCICQDNTGGDNCERCARGYYGNALEG 30
+C C+ NT G C+RCA GYYG +G
Sbjct: 20 QCECKPNTTGRRCDRCAPGYYGLPSQG 46
>gnl|CDD|215680 pfam00053, Laminin_EGF, Laminin EGF-like (Domains III and V). This
family is like pfam00008 but has 8 conserved cysteines
instead of six.
Length = 49
Score = 45.4 bits (108), Expect = 2e-07
Identities = 19/42 (45%), Positives = 26/42 (61%), Gaps = 3/42 (7%)
Query: 106 CNCNGHA---DICDAESGRCICQDNTGGDNCERCARGYYGNA 144
C+CN H D CD E+G+C+C+ G +C+RC GYYG
Sbjct: 1 CDCNPHGSLSDTCDPETGQCLCKPGVTGRHCDRCKPGYYGLP 42
Score = 32.7 bits (75), Expect = 0.009
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 4 RCICQDNTGGDNCERCARGYYGNA 27
+C+C+ G +C+RC GYYG
Sbjct: 19 QCLCKPGVTGRHCDRCKPGYYGLP 42
>gnl|CDD|214543 smart00180, EGF_Lam, Laminin-type epidermal growth factor-like
domai.
Length = 46
Score = 43.5 bits (103), Expect = 1e-06
Identities = 18/45 (40%), Positives = 27/45 (60%), Gaps = 3/45 (6%)
Query: 106 CNCNG---HADICDAESGRCICQDNTGGDNCERCARGYYGNALEG 147
C+C+ + CD ++G+C C+ N G C+RCA GYYG+ G
Sbjct: 1 CDCDPGGSASGTCDPDTGQCECKPNVTGRRCDRCAPGYYGDGPPG 45
Score = 33.1 bits (76), Expect = 0.006
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 4 RCICQDNTGGDNCERCARGYYGNALEG 30
+C C+ N G C+RCA GYYG+ G
Sbjct: 19 QCECKPNVTGRRCDRCAPGYYGDGPPG 45
>gnl|CDD|188530 TIGR04015, WcaC, colanic acid biosynthesis glycosyl transferase
WcaC. This gene is one of the glycosyl transferases
involved in the biosynthesis of colanic acid, an
exopolysaccharide expressed in Enterobacteraceae
species.
Length = 405
Score = 31.1 bits (70), Expect = 0.30
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 3/53 (5%)
Query: 18 RCARGYYGNALEGAVTDCKQCPCPNQGPCVQLDDDQVSNLGNRTRIRIKSALG 70
RCA + + EG T C++CP + P V++D G R R ALG
Sbjct: 142 RCA---FTDGCEGWKTGCQKCPTLSNYPPVKVDRAHQLVDGKRQLFRDMLALG 191
Score = 26.8 bits (59), Expect = 7.9
Identities = 12/33 (36%), Positives = 19/33 (57%), Gaps = 3/33 (9%)
Query: 135 RCARGYYGNALEGAVTDCKQCPCPNQGPCVQLD 167
RCA + + EG T C++CP + P V++D
Sbjct: 142 RCA---FTDGCEGWKTGCQKCPTLSNYPPVKVD 171
>gnl|CDD|218313 pfam04890, DUF648, Family of unknown function (DUF648). Family
of hypothetical Chlamydia proteins. This family may
well comprise of two domains, as some members only
match the N-terminus.
Length = 288
Score = 28.2 bits (63), Expect = 2.8
Identities = 6/23 (26%), Positives = 13/23 (56%)
Query: 69 LGGNRTRGLALTRQTHYQLTGYH 91
LGG RT+ ++L+ + ++
Sbjct: 28 LGGKRTKVISLSTENGLRIAAKQ 50
>gnl|CDD|234267 TIGR03573, WbuX, N-acetyl sugar amidotransferase. This enzyme has
been implicated in the formation of the acetamido moiety
(sugar-NC(=NH)CH3) which is found on some
exopolysaccharides and is positively charged at neutral
pH. The reaction involves ligation of ammonia with a
sugar N-acetyl group, displacing water. In E. coli (O145
strain) and Pseudomonas aeruginosa (O12 strain) this
gene is known as wbuX and ifnA respectively and likely
acts on sialic acid. In Campylobacter jejuni, the gene
is known as pseA and acts on pseudaminic acid in the
process of flagellin glycosylation. In other Pseudomonas
strains and various organisms it is unclear what the
identity of the sugar substrate is, and in fact, the
phylogenetic tree of this family sports a considerably
deep branching suggestive of possible major differences
in substrate structure. Nevertheless, the family is
characterized by a conserved tetracysteine motif
(CxxC.....[GN]xCxxC) possibly indicative of a metal
binding site, as well as an invariable contextual
association with homologs of the HisH and HisF proteins
known as WbuY and WbuZ, respectively. These two proteins
are believed to supply the enzyme with ammonium by
hydrolysis of glutamine and delivery through an ammonium
conduit.
Length = 343
Score = 26.5 bits (59), Expect = 8.6
Identities = 11/25 (44%), Positives = 14/25 (56%), Gaps = 1/25 (4%)
Query: 152 CKQCPCPNQGPCVQLDDDQVVCSEC 176
CK+C P P + D+D VCS C
Sbjct: 4 CKRCVMPTTRPGITFDEDG-VCSAC 27
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
0.321 0.139 0.476
Gapped
Lambda K H
0.267 0.0635 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,826,118
Number of extensions: 725904
Number of successful extensions: 553
Number of sequences better than 10.0: 1
Number of HSP's gapped: 550
Number of HSP's successfully gapped: 33
Length of query: 190
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 99
Effective length of database: 6,901,388
Effective search space: 683237412
Effective search space used: 683237412
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 (25.5 bits)