RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8623
(68 letters)
>gnl|CDD|206637 cd11304, Cadherin_repeat, Cadherin tandem repeat domain.
Cadherins are glycoproteins involved in Ca2+-mediated
cell-cell adhesion. The cadherin repeat domains occur
as tandem repeats in the extracellular regions, which
are thought to mediate cell-cell contact when bound to
calcium. They play numerous roles in cell fate,
signalling, proliferation, differentiation, and
migration; members include E-, N-, P-, T-, VE-, CNR-,
proto-, and FAT-family cadherin, desmocollin, and
desmoglein, a large variety of domain architectures
with varying repeat copy numbers. Cadherin-repeat
containing proteins exist as monomers, homodimers, or
heterodimers.
Length = 98
Score = 68.5 bits (168), Expect = 3e-17
Identities = 28/63 (44%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 2 LRVSASDPDCGVNAMVNYTLGESPSRTNHFYMKSVSGEICIAQDLDFESRSSYEFPVVAT 61
L VSA+DPD G N V Y++ S + F + +GEI A+ LD E +SSY V AT
Sbjct: 17 LTVSATDPDSGENGEVTYSI-VSGNEDGLFSIDPSTGEITTAKPLDREEQSSYTLTVTAT 75
Query: 62 DRG 64
D G
Sbjct: 76 DGG 78
>gnl|CDD|214520 smart00112, CA, Cadherin repeats. Cadherins are glycoproteins
involved in Ca2+-mediated cell-cell adhesion. Cadherin
domains occur as repeats in the extracellular regions
which are thought to mediate cell-cell contact when
bound to calcium.
Length = 81
Score = 61.2 bits (149), Expect = 1e-14
Identities = 22/60 (36%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Query: 5 SASDPDCGVNAMVNYTLGESPSRTNHFYMKSVSGEICIAQDLDFESRSSYEFPVVATDRG 64
SA+D D G N V Y++ S + F + +GEI + LD E + Y V ATD G
Sbjct: 1 SATDADSGENGKVTYSI-LSGNDDGLFSIDPETGEITTTKPLDREEQPEYTLTVEATDGG 59
>gnl|CDD|215665 pfam00028, Cadherin, Cadherin domain.
Length = 92
Score = 58.1 bits (141), Expect = 3e-13
Identities = 21/63 (33%), Positives = 32/63 (50%), Gaps = 1/63 (1%)
Query: 2 LRVSASDPDCGVNAMVNYTLGESPSRTNHFYMKSVSGEICIAQDLDFESRSSYEFPVVAT 61
L V+A+D D G N + Y++ F + +G++ + LD ES YE V+AT
Sbjct: 16 LTVTATDADLGPNGRIFYSILGGGPG-GWFRIDPDTGDLSTTKPLDRESIGEYELTVLAT 74
Query: 62 DRG 64
D G
Sbjct: 75 DSG 77
>gnl|CDD|193454 pfam12981, DUF3865, Domain of Unknown Function with PDB structure
(DUF3865). Family based of PDB:3B5P encoded by
ZP_00108531 from nitrogen-fixing cyanobacterium Nostoc
punctiforme pcc 73102 is a CADD-like protein of unknown
function. Superposition between protein structures
encoded by CT610 from Chlamydia trachomatis (PDB code
1rwc), pyrroloquinolinquinone synthase C (PqqC, PDB code
1otv) and ZP_00108531 revealed that putative active
sites in CT610 and ZP_00108531 are identical. ( REF:
http://www.topsan.org/Proteins/JCSG/3B5P).
Length = 231
Score = 26.5 bits (58), Expect = 0.92
Identities = 10/38 (26%), Positives = 17/38 (44%), Gaps = 5/38 (13%)
Query: 17 VNYTLG-----ESPSRTNHFYMKSVSGEICIAQDLDFE 49
V+Y LG E+ + + + E I +DL +E
Sbjct: 132 VDYVLGATYAIEATAIPELTLIVELVHEGAIPKDLQYE 169
>gnl|CDD|199905 cd10317, RGL4_C, C-terminal domain of rhamnogalacturonan lyase, a
family 4 polysaccharide lyase. The rhamnogalacturonan
lyase of the polysaccharide lyase family 4 (RGL4) is
involved in the degradation of RG (rhamnogalacturonan)
type-I, an important pectic plant cell wall
polysaccharide, by cleaving the alpha-1,4 glycoside
bond between L-rhamnose and D-galacturonic acids in the
backbone of RG type-I through a beta-elimination
reaction. RGL4 consists of three domains, an N-terminal
catalytic domain, a middle domain with a FNIII type
fold and a C-terminal domain with a jelly roll fold.
Both the middle and the C-terminal domain are putative
carbohydrate binding modules. There are two types of RG
lyases, which both cleave the alpha-1,4 bonds of the
RG-I main chain (RG chain) through the beta-elimination
reaction, but belong to two structurally unrelated
polysaccharide lyase (PL) families, 4 and 11.
Length = 161
Score = 24.9 bits (55), Expect = 2.9
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 17 VNYTLGESPSRTNHFYMKSVSGEICIAQDLD 47
+ YT+G S S + +Y +SV+G I DL
Sbjct: 35 LTYTVGSSDSDFDWYYAQSVNGPWTIRFDLT 65
>gnl|CDD|220147 pfam09229, Aha1_N, Activator of Hsp90 ATPase, N-terminal. Members
of this family, which are predominantly found in the
protein 'Activator of Hsp90 ATPase' adopt a secondary
structure consisting of an N-terminal alpha-helix
leading into a four-stranded meandering antiparallel
beta-sheet, followed by a C-terminal alpha-helix. The
two helices are packed together, with the beta-sheet
curving around them. They bind to the molecular
chaperone HSP82 and stimulate its ATPase activity.
Length = 137
Score = 24.5 bits (54), Expect = 4.9
Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 34 KSVSGEICIAQDLDFES-RSSYEFPVVATDRGKETQ 68
+ V G I I +L ++ YEF + TD KE+Q
Sbjct: 72 EKVKGTIEIP-ELSHDNEEDDYEFEISITDDTKESQ 106
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
0.315 0.129 0.372
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,120,517
Number of extensions: 205686
Number of successful extensions: 121
Number of sequences better than 10.0: 1
Number of HSP's gapped: 118
Number of HSP's successfully gapped: 6
Length of query: 68
Length of database: 10,937,602
Length adjustment: 39
Effective length of query: 29
Effective length of database: 9,207,796
Effective search space: 267026084
Effective search space used: 267026084
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.2 bits)