RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12912
(185 letters)
>gnl|CDD|217833 pfam03997, VPS28, VPS28 protein.
Length = 187
Score = 243 bits (621), Expect = 4e-83
Identities = 101/167 (60%), Positives = 126/167 (75%), Gaps = 6/167 (3%)
Query: 23 ADLYAVINTLQNLEKAYIRDCVTPKEYTAACSKLLVQYKAAFKQVQGEEYPTVEHFVKKY 82
++LYA++ L+ LEKAYI+DCV+P EYT+ CSKL+VQYK AF+ VQG E+P++E F KKY
Sbjct: 2 SELYAILKALEQLEKAYIKDCVSPSEYTSTCSKLIVQYKVAFRSVQGTEFPSIEDFCKKY 61
Query: 83 RLDCPSALERIREDRPITIKD------DKGNTSKCIADIVSLFITTMDKLRLDIKAMDEL 136
RLDCP+A+ERIRE RPIT +D DKGN +KCIA+IV FIT MD LRL+I A D+L
Sbjct: 62 RLDCPAAIERIREGRPITAEDSIAPSNDKGNIAKCIAEIVQNFITVMDALRLNINAKDQL 121
Query: 137 QPDLRDLMDTMNRLSILPSGFEGKEKVSGWLTTLESMSASDELNETQ 183
P L +L+ +MNRLS LP FEG+ KV WL L MSASDEL + Q
Sbjct: 122 HPLLSELIVSMNRLSRLPIDFEGRNKVKQWLIRLNKMSASDELTDVQ 168
>gnl|CDD|238473 cd00936, WEPRS_RNA, WEPRS_RNA binding domain. This short
RNA-binding domain is found in several higher eukaryote
aminoacyl-tRNA synthetases (aaRSs). It is found in
multiple copies in eukaryotic bifunctional
glutamyl-prolyl-tRNA synthetases (EPRS) in a region
that separates the N-terminal glutamyl-tRNA synthetase
(GluRS) from the C-terminal prolyl-tRNA synthetase
(ProRS). It is also found at the N-terminus of
vertebrate tryptophanyl-tRNA synthetases (TrpRS). This
domain consists of a helix-turn-helix structure, which
is similar to other RNA-binding proteins. It is
involved in both protein-RNA interactions by binding
tRNA and protein-protein interactions, which are
important for the formation of aaRSs into multienzyme
complexes.
Length = 50
Score = 28.0 bits (63), Expect = 0.50
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 46 PKEYTAACSKLLVQYKAAFKQVQGEEYP 73
PKE A K L+ KA +K+ G++Y
Sbjct: 21 PKEEIDAAVKKLLALKADYKEATGQDYK 48
>gnl|CDD|218037 pfam04348, LppC, LppC putative lipoprotein. This family includes
several bacterial outer membrane antigens, whose
molecular function is unknown.
Length = 535
Score = 30.2 bits (68), Expect = 0.57
Identities = 15/46 (32%), Positives = 25/46 (54%)
Query: 123 MDKLRLDIKAMDELQPDLRDLMDTMNRLSILPSGFEGKEKVSGWLT 168
MD+L D+K E Q + L+ +++ + + EG +SGWLT
Sbjct: 124 MDQLLSDVKRKQENQDKIWALLRSLDHGVLNNAAAEGNAALSGWLT 169
>gnl|CDD|176461 cd01334, Lyase_I, Lyase class I family; a group of proteins which
catalyze similar beta-elimination reactions. The Lyase
class I family contains class II fumarase, aspartase,
adenylosuccinate lyase (ASL), argininosuccinate lyase
(ASAL), prokaryotic-type 3-carboxy-cis,cis-muconate
cycloisomerase (pCMLE), and related proteins. It belongs
to the Lyase_I superfamily. Proteins of this family for
the most part catalyze similar beta-elimination
reactions in which a C-N or C-O bond is cleaved with the
release of fumarate as one of the products. These
proteins are active as tetramers. The four active sites
of the homotetrameric enzyme are each formed by residues
from three different subunits.
Length = 325
Score = 29.4 bits (67), Expect = 1.0
Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 119 FITTMDKLRLDIKAMDELQPDLRDLMDTMNRLS 151
+ T +L L A+D L P L+ L+D + +
Sbjct: 83 IVDTALRLAL-RDALDILLPALKALIDALAAKA 114
>gnl|CDD|219448 pfam07522, DRMBL, DNA repair metallo-beta-lactamase. The
metallo-beta-lactamase fold contains five sequence
motifs. The first four motifs are found in pfam00753 and
are common to all metallo-beta-lactamases. The fifth
motif appears to be specific to function. This entry
represents the fifth motif from metallo-beta-lactamases
involved in DNA repair.
Length = 107
Score = 27.3 bits (61), Expect = 2.3
Identities = 8/57 (14%), Positives = 25/57 (43%), Gaps = 6/57 (10%)
Query: 114 DIVSLFITTMDKLRLDIKAMDELQPD-LRDLMDTMNR-----LSILPSGFEGKEKVS 164
+++S+ T R+ + M +++ + L + ++I P+G+ + +
Sbjct: 2 ELLSVLTTDPSSTRIHVVPMGKIRYEALLSYLKAFKEHFDSVIAIRPTGWTFRPPKT 58
>gnl|CDD|236151 PRK08099, PRK08099, bifunctional DNA-binding transcriptional
repressor/ NMN adenylyltransferase; Provisional.
Length = 399
Score = 28.5 bits (64), Expect = 2.4
Identities = 10/24 (41%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 63 AF-KQVQGEEYPTVEHFVKKYRLD 85
AF K+ +G E+P V+ + +YR D
Sbjct: 305 AFCKKYEGREHPFVQALIDEYRFD 328
>gnl|CDD|219987 pfam08719, DUF1768, Domain of unknown function (DUF1768). This is
a domain of unknown function. It is alpha helical in
structure. The GO annotation for this protein suggests
it is involved in nematode larval development and has a
positive regulation on growth rate.
Length = 146
Score = 27.6 bits (62), Expect = 2.8
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 5/47 (10%)
Query: 60 YKAAFKQVQGEEYPTVEHF--VKKYRL-DCPSALERIREDR-PITIK 102
Y + F V G +PTVEH+ +K+RL +I + P K
Sbjct: 17 YPSPFT-VDGVTWPTVEHYFQAQKFRLFGDREIAAKILAAKSPAEAK 62
>gnl|CDD|234175 TIGR03348, VI_IcmF, type VI secretion protein IcmF. Members of
this protein family are IcmF homologs and tend to be
associated with type VI secretion systems [Cellular
processes, Pathogenesis].
Length = 1169
Score = 27.7 bits (62), Expect = 3.9
Identities = 10/45 (22%), Positives = 18/45 (40%), Gaps = 1/45 (2%)
Query: 139 DLRDLMDTMNRLSILPSGFEGKEKVSGWLTTLESMSASDELNETQ 183
D+ L+ ++ L P GF ++ L + D+L E
Sbjct: 483 DVLALLPALDALRDAPLGFGNYDEAPPLLARF-GLYQGDKLGEAV 526
>gnl|CDD|224604 COG1690, RtcB, Uncharacterized conserved protein [Function
unknown].
Length = 432
Score = 27.3 bits (61), Expect = 5.3
Identities = 10/36 (27%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 133 MDELQPDLRDLMDTMNRLSILPSGFEGKEKVSGWLT 168
++LQP L +MD ++R +P G + T
Sbjct: 90 REDLQPRLPAVMDRLDR--AIPRGVGTAGVLPDRNT 123
>gnl|CDD|183384 PRK11924, PRK11924, RNA polymerase sigma factor; Provisional.
Length = 179
Score = 26.5 bits (59), Expect = 7.2
Identities = 10/39 (25%), Positives = 13/39 (33%), Gaps = 7/39 (17%)
Query: 132 AMDELQPDLRDLMDTMNRLSILPSGFEGKEKVSGWLTTL 170
A D +Q + R F GK WL T+
Sbjct: 40 AEDAVQ-------EAFLRAWRKADLFNGKGSARTWLLTI 71
>gnl|CDD|215047 PLN00070, PLN00070, aconitate hydratase.
Length = 936
Score = 26.7 bits (59), Expect = 8.3
Identities = 9/32 (28%), Positives = 18/32 (56%)
Query: 80 KKYRLDCPSALERIREDRPITIKDDKGNTSKC 111
++Y +D PS + I+ + +T+ D G + C
Sbjct: 876 ERYTIDLPSNISEIKPGQDVTVTTDNGKSFTC 907
>gnl|CDD|239886 cd04439, DEP_1_P-Rex, DEP (Dishevelled, Egl-10, and Pleckstrin)
domain 1 found in P-Rex-like proteins. The P-Rex family
is the guanine-nucleotide exchange factor (GEF) for the
small GTPase Rac that contains an N-terminal RhoGEF
domain, two DEP and PDZ domains. Rac-GEF activity is
stimulated by phosphatidylinositol (3,4,5)-trisphosphate
(PtdIns(3,4,5)P3), a lipid second messenger, and by the
G beta-gamma subunits of heterotrimeric G proteins. The
DEP domains are not involved in mediating these stimuli,
but may be of importance for basal and stimulated levels
Rac-GEF activity.
Length = 81
Score = 25.2 bits (55), Expect = 8.8
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 145 DTMNRLSILPSGFEGKEKVSGWLTTLESMSASDE 178
D +LS P F G E VS WL + +S +E
Sbjct: 17 DRRRKLSTFPKCFLGNEFVS-WLLEIGEISKPEE 49
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
0.316 0.132 0.370
Gapped
Lambda K H
0.267 0.0714 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,209,723
Number of extensions: 845801
Number of successful extensions: 791
Number of sequences better than 10.0: 1
Number of HSP's gapped: 790
Number of HSP's successfully gapped: 30
Length of query: 185
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 94
Effective length of database: 6,901,388
Effective search space: 648730472
Effective search space used: 648730472
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: 56 (25.4 bits)