RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11499
(70 letters)
>gnl|CDD|214696 smart00494, ChtBD2, Chitin-binding domain type 2.
Length = 49
Score = 35.1 bits (81), Expect = 2e-04
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 24 RFPVPGDRERLITCVDGHPRLISCGDGKLFDEASLTC 60
+P P D + C +G P + SC G +F+ A+ TC
Sbjct: 10 LYPHPTDCSKYYQCSNGRPIVGSCPAGLVFNPATQTC 46
>gnl|CDD|216601 pfam01607, CBM_14, Chitin binding Peritrophin-A domain. This
domain is called the Peritrophin-A domain and is found
in chitin binding proteins particularly peritrophic
matrix proteins of insects and animal chitinases.
Copies of the domain are also found in some
baculoviruses. Relevant references that describe
proteins with this domain include. It is an
extracellular domain that contains six conserved
cysteines that probably form three disulphide bridges.
Chitin binding has been demonstrated for a protein
containing only two of these domains.
Length = 53
Score = 32.4 bits (74), Expect = 0.002
Identities = 15/44 (34%), Positives = 23/44 (52%)
Query: 25 FPVPGDRERLITCVDGHPRLISCGDGKLFDEASLTCLGPEDYTD 68
+P PGD + C +G + +C G +FD A TC P++ D
Sbjct: 9 YPDPGDCSKYYQCSNGKAVVFTCPAGLVFDPALGTCDYPDNVVD 52
>gnl|CDD|173550 PTZ00357, PTZ00357, methyltransferase; Provisional.
Length = 1072
Score = 27.0 bits (59), Expect = 0.76
Identities = 16/43 (37%), Positives = 18/43 (41%), Gaps = 5/43 (11%)
Query: 13 HSVAAKFWPYPRFPVPGDRERLITCVDGHPRLISCGDGKLFDE 55
AK R PVP ER + H L+ CG G L DE
Sbjct: 680 SEFFAKHGVMQRVPVPSPDERTL-----HLVLLGCGRGPLIDE 717
>gnl|CDD|236884 PRK11234, nfrB, bacteriophage N4 adsorption protein B; Provisional.
Length = 727
Score = 26.6 bits (59), Expect = 1.1
Identities = 11/19 (57%), Positives = 11/19 (57%), Gaps = 4/19 (21%)
Query: 48 GDGKLFDEASLTCLGPEDY 66
GDG FD SLT EDY
Sbjct: 248 GDGIAFDVQSLT----EDY 262
>gnl|CDD|143498 cd06825, PLPDE_III_VanT, Type III Pyridoxal 5-phosphate
(PLP)-Dependent Enzymes, VanT and similar proteins.
This subfamily is composed of Enterococcus gallinarum
VanT and similar proteins. VanT is a membrane-bound
serine racemase (EC 5.1.1.18) that is essential for
vancomycin resistance in Enterococcus gallinarum. It
converts L-serine into its D-enantiomer (D-serine) for
peptidoglycan synthesis. The C-terminal region of this
protein contains a PLP-binding TIM-barrel domain
followed by beta-sandwich domain, which is homologous to
the fold type III PLP-dependent enzyme, bacterial
alanine racemase (AR). AR exists as homodimers with
active sites that lie at the interface between the TIM
barrel domain of one subunit and the beta-sandwich
domain of the other subunit. On the basis of this
similarity, it has been suggested that dimer formation
of VanT is required for its catalytic activity, and that
it catalyzes the racemization of serine in a
mechanistically similar manner to that of alanine by
bacterial AR. Some biochemical evidence indicates that
VanT also exhibits alanine racemase activity and plays a
role in the racemization of L-alanine. VanT contains a
unique N-terminal transmembrane domain, which may
function as an L-serine transporter. VanT serine
racemases are not related to eukaryotic serine
racemases, which are fold type II PLP-dependent enzymes.
Length = 368
Score = 25.0 bits (55), Expect = 3.1
Identities = 8/30 (26%), Positives = 11/30 (36%), Gaps = 5/30 (16%)
Query: 28 PGDRERLITCV-----DGHPRLISCGDGKL 52
R I V DG+PR +S +
Sbjct: 265 VASRTTRIATVSIGYADGYPRSLSNQKAYV 294
>gnl|CDD|233831 TIGR02352, thiamin_ThiO, glycine oxidase ThiO. This family
consists of the homotetrameric, FAD-dependent glycine
oxidase ThiO, from species such as Bacillus subtilis
that use glycine in thiamine biosynthesis. In general,
members of this family will not be found in species such
as E. coli that instead use tyrosine and the ThiH
protein [Biosynthesis of cofactors, prosthetic groups,
and carriers, Thiamine].
Length = 337
Score = 25.0 bits (55), Expect = 3.5
Identities = 8/27 (29%), Positives = 9/27 (33%)
Query: 16 AAKFWPYPRFPVPGDRERLITCVDGHP 42
A + P P PV G RL
Sbjct: 193 AGELLPLPLRPVRGQPLRLEAPAVPLL 219
>gnl|CDD|132500 TIGR03460, crt_membr_arch, carotene biosynthesis associated
membrane protein.
Length = 232
Score = 24.4 bits (53), Expect = 4.9
Identities = 7/14 (50%), Positives = 9/14 (64%)
Query: 9 SVDPHSVAAKFWPY 22
+DP VAA FW +
Sbjct: 139 VIDPAMVAAGFWRW 152
>gnl|CDD|215329 PLN02610, PLN02610, probable methionyl-tRNA synthetase.
Length = 801
Score = 24.4 bits (53), Expect = 6.9
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 21 PYPRFPVPGDRERLIT 36
P+ P+PG R LIT
Sbjct: 7 SPPKLPIPGKRNILIT 22
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 0.146 0.501
Gapped
Lambda K H
0.267 0.0665 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,658,340
Number of extensions: 268574
Number of successful extensions: 206
Number of sequences better than 10.0: 1
Number of HSP's gapped: 206
Number of HSP's successfully gapped: 8
Length of query: 70
Length of database: 10,937,602
Length adjustment: 40
Effective length of query: 30
Effective length of database: 9,163,442
Effective search space: 274903260
Effective search space used: 274903260
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 (24.3 bits)