RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11501
(133 letters)
>gnl|CDD|131814 TIGR02767, TraG-Ti, Ti-type conjugative transfer system protein
TraG. This protein is found in the Agrobacterium
tumefaciens Ti plasmid tra region responsible for
conjugative transfer of the entire plasmid among
Agrobacterium strains. The protein is distantly related
to the F-type conjugation system TraG protein. Both of
these systems are examples of type IV secretion systems.
Length = 623
Score = 32.2 bits (73), Expect = 0.071
Identities = 12/45 (26%), Positives = 16/45 (35%), Gaps = 6/45 (13%)
Query: 75 PANGQCLCAPGW---MGSVCNVPCTPG---MWGQGCTVPCECFNG 113
P G + + SV +P P WG G P F+G
Sbjct: 163 PERGGIVIGERYRVDRDSVAAMPFRPDDRQTWGAGGKAPLLTFDG 207
>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 = 28.1 bits (63), Expect = 0.25
Identities = 17/41 (41%), Positives = 21/41 (51%), Gaps = 1/41 (2%)
Query: 27 GAECHPATGECSCQPGFTGSLCEERCPPGTHGPSCINRCRC 67
C P TG+C C+PG TG C +RC PG +G C
Sbjct: 10 SDTCDPETGQCLCKPGVTGRHC-DRCKPGYYGLPSDPGQGC 49
Score = 24.6 bits (54), Expect = 4.7
Identities = 16/41 (39%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 70 GAICNPANGQCLCAPGWMGSVCNVPCTPGMWGQGCTVPCEC 110
C+P GQCLC PG G C+ C PG +G C
Sbjct: 10 SDTCDPETGQCLCKPGVTGRHCDR-CKPGYYGLPSDPGQGC 49
>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 = 28.1 bits (63), Expect = 0.26
Identities = 15/34 (44%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 27 GAECHPATGECSCQPGFTGSLCEERCPPGTHGPS 60
+C P TG+C C+P TG C +RC PG +G
Sbjct: 11 SGQCDPGTGQCECKPNTTGRRC-DRCAPGYYGLP 43
>gnl|CDD|224166 COG1245, COG1245, Predicted ATPase, RNase L inhibitor (RLI)
homolog [General function prediction only].
Length = 591
Score = 28.0 bits (63), Expect = 1.4
Identities = 9/25 (36%), Positives = 10/25 (40%)
Query: 38 SCQPGFTGSLCEERCPPGTHGPSCI 62
CQP G C + CP G I
Sbjct: 12 RCQPKKCGYECIKYCPVVRTGKETI 36
>gnl|CDD|214543 smart00180, EGF_Lam, Laminin-type epidermal growth factor-like
domai.
Length = 46
Score = 25.7 bits (57), Expect = 1.7
Identities = 15/33 (45%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 29 ECHPATGECSCQPGFTGSLCEERCPPGTHGPSC 61
C P TG+C C+P TG C +RC PG +G
Sbjct: 12 TCDPDTGQCECKPNVTGRRC-DRCAPGYYGDGP 43
>gnl|CDD|237522 PRK13822, PRK13822, conjugal transfer coupling protein TraG;
Provisional.
Length = 641
Score = 27.2 bits (61), Expect = 2.5
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 3/28 (10%)
Query: 89 SVCNVPCTPG---MWGQGCTVPCECFNG 113
SV +P P WG+G P F+G
Sbjct: 193 SVAALPFRPDDRTTWGKGGKAPLLTFDG 220
>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 = 25.3 bits (56), Expect = 2.8
Identities = 15/34 (44%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 18 CSQECQCRNGAECHPATG--ECSCQPGFTGSLCE 49
C+ C+NG C G CSC PG+TG CE
Sbjct: 5 CASGNPCQNGGTCVNTVGSYRCSCPPGYTGRNCE 38
>gnl|CDD|233524 TIGR01677, pln_FAD_oxido, plant-specific FAD-dependent
oxidoreductase. This model represents an
uncharacterized plant-specific family of FAD-dependent
oxidoreductases. At least seven distinct members are
found in Arabidopsis thaliana. The family shows
considerable sequence similarity to three different
enzymes of ascorbic acid biosynthesis:
L-galactono-1,4-lactone dehydrogenase (EC 1.3.2.3) from
higher plants, D-arabinono-1,4-lactone oxidase (EC
1.1.3.37 from Saccharomyces cerevisiae, and
L-gulonolactone oxidase (EC 1.1.3.8) from mouse, as well
as to a bacterial sorbitol oxidase. The class of
compound acted on by members of this family is unknown.
Length = 557
Score = 26.0 bits (57), Expect = 7.1
Identities = 11/37 (29%), Positives = 14/37 (37%), Gaps = 1/37 (2%)
Query: 49 EERCPPGTHGPSCINRCRCQNGAICNPANGQCLCAPG 85
+ G + C C A C P+ G LC PG
Sbjct: 512 KGNASIKADGCALEGLCVCSEDAHCAPSKGY-LCRPG 547
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
0.323 0.140 0.546
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: 6,000,985
Number of extensions: 456122
Number of successful extensions: 442
Number of sequences better than 10.0: 1
Number of HSP's gapped: 408
Number of HSP's successfully gapped: 99
Length of query: 133
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 47
Effective length of database: 7,123,158
Effective search space: 334788426
Effective search space used: 334788426
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.4 bits)