RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1183
(106 letters)
>gnl|CDD|217658 pfam03650, UPF0041, Uncharacterized protein family (UPF0041).
Length = 120
Score = 123 bits (311), Expect = 3e-38
Identities = 36/89 (40%), Positives = 49/89 (55%)
Query: 16 STHFWGPVANWGIPLAAIADLKKDPSIISGKMTFALCLYSIVFMRFAWKVQPRNLLLLSC 75
+ HFW P WG+ LA + DLK+ P ISG AL S ++ R++ V+P+N LL S
Sbjct: 18 TVHFWAPTLKWGLVLAGLGDLKRPPEKISGPQNSALLATSAIWTRWSLVVKPKNYLLASV 77
Query: 76 HFTNECAQIVQGSRFIKYNYIDSKKEQQS 104
+F EC Q Q R Y Y + E+QS
Sbjct: 78 NFFLECTQGAQLGRIANYRYQNGDSEKQS 106
>gnl|CDD|185753 cd09214, GH64-like, glycosyl hydrolase 64 family. This family is
represented by the laminaripentaose-producing,
beta-1,3-glucanase (LPHase) of Streptomyces matensis
and related bacterial and ascomycete proteins. LPHase
is a member of glycoside hydrolase family 64 (GH64), it
is an inverting enzyme involved in the cleavage of
long-chain polysaccharide beta-1,3-glucans, into
specific pentasaccharide oligomers. LPHase is a
two-domain crescent fold structure: one domain is
composed of 10 beta-strands, eight coming from the
N-terminus of the protein and two from the C-terminal
region, and the protein has a second inserted domain;
this cd includes both domains. This protein has an
electronegative, substrate-binding cleft, and conserved
Glu and Asp residues involved in the cleavage of the
beta-1,3-glucan, laminarin, a plant and fungal cell
wall component. Among bacteria, many
beta-1,3-glucanases are implicated in fungal cell wall
degradation. Also included in this family is GluB , the
beta-1,3-glucanase B from Lysobacter enzymogenes Strain
N4-7. Recombinant GluB demonstrated higher relative
activity toward the branched-chain beta-1,3 glucan
substrate zymosan A than toward linear beta-1,3 glucan
substrates. Sometimes these two domains are found
associated with other domains such as in the
Catenulispora acidiphila DSM 44928 carbohydrate binding
family 6 protein in which they are positioned
N-terminal of a carbohydrate binding module, family 6
(CBM_6) domain. In the Cellulosimicrobium cellulans,
glucan endo-1,3-beta-glucosidase, they are positioned
N-terminal of a RICIN, carbohydrate-binding domain, and
in the Salinispora tropica CNB-440, coagulation factor
5/8 C-terminal domain (FA58C) protein, they are
positioned C-terminal of two FA58C domains which are
proposed to function as cell surface-attached,
carbohydrate-binding domain. This FA58C-containing
protein has an internal peptide deletion (of approx. 44
residues) in the LPHase domain II.
Length = 319
Score = 26.9 bits (60), Expect = 2.3
Identities = 11/45 (24%), Positives = 18/45 (40%), Gaps = 2/45 (4%)
Query: 16 STHFWGPVANWGIPLAAIADLKKDPSIISGKMTFALC--LYSIVF 58
T G AN L+ ++ P + SG++ + LY F
Sbjct: 53 LTKNGGNYANIFFTLSEASNKILPPPLPSGRIYISFGNPLYIKAF 97
>gnl|CDD|237829 PRK14834, PRK14834, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 249
Score = 26.6 bits (59), Expect = 2.3
Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 7/28 (25%)
Query: 9 LSIFSFSSTHFWGPVANWGIPLAAIADL 36
L++F+FSS NW P + ++DL
Sbjct: 62 LTLFAFSS-------ENWSRPASEVSDL 82
>gnl|CDD|191187 pfam05087, Rota_VP2, Rotavirus VP2 protein. Rotavirus particles
consist of three concentric proteinaceous capsid layers.
The innermost capsid (core) is made of VP2. The genomic
RNA and the two minor proteins VP1 and VP3 are
encapsidated within this layer. The N-terminus of
rotavirus VP2 is necessary for the encapsidation of VP1
and VP3.
Length = 887
Score = 26.8 bits (59), Expect = 2.6
Identities = 12/28 (42%), Positives = 16/28 (57%), Gaps = 4/28 (14%)
Query: 68 RNLLLLSCHFTNECAQIVQGSRFIKYNY 95
R +LLLS N Q+V +R + YNY
Sbjct: 538 RGILLLS----NRLGQLVDLTRLLAYNY 561
>gnl|CDD|235465 PRK05437, PRK05437, isopentenyl pyrophosphate isomerase;
Provisional.
Length = 352
Score = 26.3 bits (59), Expect = 3.8
Identities = 12/27 (44%), Positives = 13/27 (48%), Gaps = 5/27 (18%)
Query: 24 ANWGIP----LAAIADLKKDPSII-SG 45
A+WGIP L L D II SG
Sbjct: 242 ADWGIPTAQSLLEARSLLPDLPIIASG 268
>gnl|CDD|217380 pfam03133, TTL, Tubulin-tyrosine ligase family. Tubulins and
microtubules are subjected to several post-translational
modifications of which the reversible
detyrosination/tyrosination of the carboxy-terminal end
of most alpha-tubulins has been extensively analysed.
This modification cycle involves a specific
carboxypeptidase and the activity of the
tubulin-tyrosine ligase (TTL). The true physiological
function of TTL has so far not been established.
Tubulin-tyrosine ligase (TTL) catalyzes the
ATP-dependent post-translational addition of a tyrosine
to the carboxy terminal end of detyrosinated
alpha-tubulin. In normally cycling cells, the
tyrosinated form of tubulin predominates. However, in
breast cancer cells, the detyrosinated form frequently
predominates, with a correlation to tumour
aggressiveness. On the other hand, 3-nitrotyrosine has
been shown to be incorporated, by TTL, into the carboxy
terminal end of detyrosinated alpha-tubulin. This
reaction is not reversible by the carboxypeptidase
enzyme. Cells cultured in 3-nitrotyrosine rich medium
showed evidence of altered microtubule structure and
function, including altered cell morphology, epithelial
barrier dysfunction, and apoptosis. Bacterial homologs
of TTL are predicted to form peptide tags. Some of these
are fused to a 2-oxoglutarate Fe(II)-dependent
dioxygenase domain.
Length = 291
Score = 25.4 bits (56), Expect = 6.4
Identities = 9/34 (26%), Positives = 14/34 (41%), Gaps = 3/34 (8%)
Query: 53 LYSIVFMRFA---WKVQPRNLLLLSCHFTNECAQ 83
+Y +RFA + +L + H TN Q
Sbjct: 135 VYREGLLRFASVKYSPSVSDLDDVEMHLTNYSIQ 168
>gnl|CDD|201820 pfam01483, P_proprotein, Proprotein convertase P-domain. A
unique feature of the eukaryotic subtilisin-like
proprotein convertases is the presence of an additional
highly conserved sequence of approximately 150 residues
(P domain) located immediately downstream of the
catalytic domain.
Length = 87
Score = 24.5 bits (54), Expect = 6.9
Identities = 7/17 (41%), Positives = 8/17 (47%), Gaps = 2/17 (11%)
Query: 14 FSSTHFWG--PVANWGI 28
F S H WG V W +
Sbjct: 50 FMSVHHWGENAVGTWTL 66
>gnl|CDD|183428 PRK12311, rpsB, 30S ribosomal protein S2/unknown domain fusion
protein; Provisional.
Length = 326
Score = 25.5 bits (56), Expect = 7.1
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 27 GIPLAAIADLKKDPSIIS 44
GIP+AAI D DP I+
Sbjct: 175 GIPVAAIVDTNCDPDGIT 192
>gnl|CDD|225677 COG3135, BenE, Uncharacterized protein involved in benzoate
metabolism [Secondary metabolites biosynthesis,
transport, and catabolism].
Length = 402
Score = 25.0 bits (55), Expect = 8.8
Identities = 10/35 (28%), Positives = 19/35 (54%), Gaps = 3/35 (8%)
Query: 7 SILSIFSFSSTHFWGPVANWGIPLAAIADLKKDPS 41
S L++F + FWG VA + A+ +L++ +
Sbjct: 370 SGLTLFGIGAA-FWGLVAGLLV--LALLNLRRREN 401
>gnl|CDD|188097 TIGR00931, antiport_nhaC, Na+/H+ antiporter NhaC. A single member
of the NhaC family, a protein from Bacillus firmus, has
been functionally characterized.It is involved in pH
homeostasis and sodium extrusion. Members of the NhaC
family are found in both Gram-negative bacteria and
Gram-positive bacteria. Intriguingly, archaeal homolog
ArcD (just outside boundaries of family) has been
identified as an arginine/ornithine antiporter
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 454
Score = 25.1 bits (55), Expect = 8.9
Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 4/42 (9%)
Query: 5 ISSILSIFSFSSTHFWGPVANWGIPLAAIAD-LKKDPSIISG 45
I I+S F+ +S WG V G+ + I L D +I +G
Sbjct: 112 ICMIVSSFTGTS---WGTVGTIGVAMMGIGTGLGIDLAIAAG 150
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
0.326 0.136 0.425
Gapped
Lambda K H
0.267 0.0765 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,213,329
Number of extensions: 425829
Number of successful extensions: 446
Number of sequences better than 10.0: 1
Number of HSP's gapped: 446
Number of HSP's successfully gapped: 20
Length of query: 106
Length of database: 10,937,602
Length adjustment: 71
Effective length of query: 35
Effective length of database: 7,788,468
Effective search space: 272596380
Effective search space used: 272596380
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.1 bits)