RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6122
(98 letters)
>gnl|CDD|238058 cd00110, LamG, Laminin G domain; Laminin G-like domains are
usually Ca++ mediated receptors that can have binding
sites for steroids, beta1 integrins, heparin,
sulfatides, fibulin-1, and alpha-dystroglycans.
Proteins that contain LamG domains serve a variety of
purposes including signal transduction via cell-surface
steroid receptors, adhesion, migration and
differentiation through mediation of cell adhesion
molecules.
Length = 151
Score = 30.8 bits (70), Expect = 0.053
Identities = 12/45 (26%), Positives = 20/45 (44%), Gaps = 5/45 (11%)
Query: 31 ATFRGLEFLVYDQTRIGGEPIISSQDTISLYFRTKHSTGLILHAD 75
+F G ++ P ++ +IS FRT GL+L+A
Sbjct: 2 VSFSGSSYVRLPT-----LPAPRTRLSISFSFRTTSPNGLLLYAG 41
>gnl|CDD|233422 TIGR01460, HAD-SF-IIA, Haloacid Dehalogenase Superfamily Class
(subfamily) IIA. This model represents one structural
subclass of the Haloacid Dehalogenase (HAD) superfamily
of aspartate-nucleophile hydrolases. The superfamily is
defined by the presence of three short catalytic motifs.
The classes are defined based on the location and the
observed or predicted fold of a so-called "capping
domain", or the absence of such a domain. Class I
consists of sequences in which the capping domain is
found in between the first and second catalytic motifs.
Class II consists of sequences in which the capping
domain is found between the second and third motifs.
Class III sequences have no capping domain in iether of
these positions. The Class IIA capping domain is
predicted by PSI-PRED to consist of a mixed alpha-beta
fold with the basic pattern:
Helix-Helix-Helix-Sheet-Helix-Loop-Sheet-Helix-Sheet-
Helix. Presently, this subfamily encompasses a single
equivalog model (TIGR01452) for the eukaryotic
phosphoglycolate phosphatase, as well as four
hypothetical equivalogs covering closely related
sequences (TIGR01456 and TIGR01458 in eukaryotes,
TIGR01457 in gram positive bacteria and TIGR01459 in
gram negative bacteria). The Escherishia coli NagD gene
and the Bacillus subtilus AraL gene are members of this
subfamily but are not members of the any of the
presently defined equivalogs within it. NagD is part of
the NAG operon responsible for N-acetylglucosamine
metabolism. The function of this gene is unknown. Genes
from several organisms have been annotated as NagD, or
NagD-like. However, without data on the presence of
other members of this pathway, (such as in the case of
Yersinia pestis) these assignments should not be given
great weight. The AraL gene is similar: it is part of
the L-arabinose operon, but the function is unknown. A
gene from Halobacterium has been annotated as AraL, but
no other Ara operon genes have been annotated. Many of
the genes in this subfamily have been annotated as
"pNPPase" "4-nitrophenyl phosphatase" or "NPPase". These
all refer to the same activity versus a common lab test
compound used to determine phosphatase activity. There
is no evidence that this activity is physiologically
relevant [Unknown function, Enzymes of unknown
specificity].
Length = 236
Score = 28.4 bits (64), Expect = 0.41
Identities = 12/78 (15%), Positives = 23/78 (29%), Gaps = 5/78 (6%)
Query: 11 RSTPLILTTNNGDEDKAPSEATFRGLEFLVYDQTRIGGEPIISSQDTISLYFRTKHSTGL 70
+ P++ TNN + L + + + II+S R +
Sbjct: 29 KGKPVVFLTNNSSRSEEDYAEKLSSLLGV-----DVSPDQIITSGSVTKDLLRQRFEGEK 83
Query: 71 ILHADKAPSEATFRGLEF 88
+ + GL F
Sbjct: 84 VYVIGVGELRESLEGLGF 101
>gnl|CDD|214598 smart00282, LamG, Laminin G domain.
Length = 132
Score = 26.9 bits (60), Expect = 1.2
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 57 TISLYFRTKHSTGLILHAD 75
+IS FRT GL+L+A
Sbjct: 1 SISFSFRTTSPNGLLLYAG 19
>gnl|CDD|184171 PRK13598, hisB, imidazoleglycerol-phosphate dehydratase;
Provisional.
Length = 193
Score = 27.1 bits (60), Expect = 1.3
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 30 EATFRGLEFLVYDQTRIGGEPIISSQDTI 58
EA+F+GL +Y+ TRI I S++ +
Sbjct: 165 EASFKGLGLALYEATRIVDNEIRSTKGVL 193
>gnl|CDD|240057 cd04702, ASRGL1_like, ASRGL1_like domains, a subfamily of the
L-Asparaginase type 2-like enzymes. The wider family
includes Glycosylasparaginase, Taspase 1 and
L-Asparaginase type 2 enzymes. The proenzymes undergo
autoproteolytic cleavage before a threonine to generate
alpha and beta subunits. The threonine becomes the
N-terminal residue of the beta subunit and is the
catalytic residue. ASRGL1, or asparaginase-like 1, has
been cloned from mammalian testis cDNA libraries. It has
been identified as a sperm antigen that may induce the
production of autoantibodies following obstruction of
the male reproductive tract, e.g. vasectomy.
Length = 261
Score = 26.5 bits (59), Expect = 2.1
Identities = 8/42 (19%), Positives = 17/42 (40%)
Query: 25 DKAPSEATFRGLEFLVYDQTRIGGEPIISSQDTISLYFRTKH 66
+ EA + +E++ GG ++ S + F +K
Sbjct: 204 GGSAQEAADKAIEYMTERVKGTGGAIVLDSSGEVGAAFNSKR 245
>gnl|CDD|183684 PRK12689, flgF, flagellar basal body rod protein FlgF; Reviewed.
Length = 253
Score = 26.2 bits (58), Expect = 3.2
Identities = 12/34 (35%), Positives = 16/34 (47%)
Query: 7 YVIPRSTPLILTTNNGDEDKAPSEATFRGLEFLV 40
YV R TPL L+ ++ K P + G FL
Sbjct: 63 YVQDRGTPLDLSQGPLEQTKNPLDVAIDGDAFLA 96
>gnl|CDD|137624 PRK09978, PRK09978, DNA-binding transcriptional regulator GadX;
Provisional.
Length = 274
Score = 26.0 bits (57), Expect = 3.8
Identities = 19/67 (28%), Positives = 30/67 (44%), Gaps = 11/67 (16%)
Query: 16 ILTTNNGDEDKAPSEATFRGLEFLVYDQTRIGGEP-----IISSQDTISLYFRTKHSTGL 70
ILT NG+ F G + + D ++I + ++ S+DT+SL+ L
Sbjct: 18 ILTMVNGEY------RYFNGGDLVFADASQIRVDKCVENFVLVSRDTLSLFLPMLKEEAL 71
Query: 71 ILHADKA 77
LHA K
Sbjct: 72 NLHAHKK 78
>gnl|CDD|234179 TIGR03355, VI_chp_2, type VI secretion protein, EvpB/VC_A0108
family. Work by Mougous, et al. (2006), describes
IAHP-related loci as a type VI secretion system
(PMID:16763151). This protein family is associated with
type VI secretion loci, although not treated explicitly
by Mougous, et al [Protein fate, Protein and peptide
secretion and trafficking, Cellular processes,
Pathogenesis].
Length = 473
Score = 25.7 bits (57), Expect = 3.9
Identities = 11/24 (45%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 70 LILHADKAPS-EATFRGLEFLVYE 92
ILHA + E+T+RGL++LV
Sbjct: 67 AILHAPEFQQLESTWRGLKYLVDR 90
>gnl|CDD|226681 COG4228, COG4228, Mu-like prophage DNA circulation protein
[General function prediction only].
Length = 451
Score = 25.6 bits (56), Expect = 5.4
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 31 ATFRGLEFLVYDQTRIGGEPIIS 53
A+FRG+ FLV + GG I+
Sbjct: 12 ASFRGVPFLVEREQGEGGRRIVE 34
>gnl|CDD|218272 pfam04797, Herpes_ORF11, Herpesvirus dUTPase protein. This family
of proteins are found in Herpesvirus proteins. This
family includes proteins called ORF10 and ORF11 amongst
others. However, these proteins seem to be related to
other dUTPases pfam00692 suggesting that these proteins
are also dUTPases (Bateman A pers. obs.).
Length = 374
Score = 25.4 bits (56), Expect = 6.2
Identities = 7/25 (28%), Positives = 15/25 (60%)
Query: 43 QTRIGGEPIISSQDTISLYFRTKHS 67
Q + G+P+ +S +T + YF + +
Sbjct: 153 QLFLSGQPVRTSPETYTPYFLAQKT 177
>gnl|CDD|237895 PRK15065, PRK15065, PTS system mannose-specific transporter subunit
IIC; Provisional.
Length = 262
Score = 25.2 bits (56), Expect = 7.2
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 67 STGLILHADKAPSEATFRGLEFL 89
+ ADKA E FR +E+L
Sbjct: 117 TVAFQHAADKAAEEGNFRAIEWL 139
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
0.320 0.137 0.400
Gapped
Lambda K H
0.267 0.0715 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,723,619
Number of extensions: 373634
Number of successful extensions: 281
Number of sequences better than 10.0: 1
Number of HSP's gapped: 281
Number of HSP's successfully gapped: 16
Length of query: 98
Length of database: 10,937,602
Length adjustment: 64
Effective length of query: 34
Effective length of database: 8,098,946
Effective search space: 275364164
Effective search space used: 275364164
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: 53 (24.2 bits)