RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6426
(74 letters)
>gnl|CDD|218474 pfam05163, DinB, DinB family. DNA damage-inducible (din) genes
in Bacillus subtilis are coordinately regulated and
together compose a global regulatory network that has
been termed the SOS-like or SOB regulon. This family
includes DinB from B. subtilis.
Length = 166
Score = 28.5 bits (64), Expect = 0.19
Identities = 9/36 (25%), Positives = 13/36 (36%)
Query: 33 ENDRIEVVLKKLDEEHNKYKFMEYSLSLLGVLFSLV 68
DR L L +E + SLL L ++
Sbjct: 15 ARDRTYDALAALPDEELDAEIGSGFPSLLQTLNHIL 50
>gnl|CDD|220767 pfam10459, Peptidase_S46, Peptidase S46. Dipeptidyl-peptidase 7
(DPP-7) is the best characterized member of this family.
It is a serine peptidase that is located on the cell
surface and is predicted to have two N-terminal
transmembrane domains.
Length = 696
Score = 27.2 bits (61), Expect = 0.69
Identities = 9/33 (27%), Positives = 15/33 (45%)
Query: 13 YGGIPEAVFVDDVDKYMSLPENDRIEVVLKKLD 45
+ +AV +++Y L DR+ V K L
Sbjct: 426 DAEVDKAVLAAMLEEYRELLGADRLPAVDKVLG 458
>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional.
Length = 258
Score = 26.3 bits (59), Expect = 1.4
Identities = 12/27 (44%), Positives = 16/27 (59%), Gaps = 6/27 (22%)
Query: 7 DKKVKSYGGI------PEAVFVDDVDK 27
+K KS GGI P+A+FV D +K
Sbjct: 142 EKLEKSLGGIKDMGGLPDALFVVDPNK 168
>gnl|CDD|188093 TIGR00864, PCC, polycystin cation channel protein. The Polycystin
Cation Channel (PCC) Family (TC 1.A.5) Polycystin is a
huge protein of 4303aas. Its repeated leucine-rich (LRR)
segment is found in many proteins. It contains 16
polycystic kidney disease (PKD) domains, one LDL-receptor
class A domain, one C-type lectin family domain, and
16-18 putative TMSs in positions between residues 2200
and 4100. Polycystin-L has been shown to be a cation
(Na+, K+ and Ca2+) channel that is activated by Ca2+. Two
members of the PCC family (polycystin 1 and 2) are
mutated in autosomal dominant polycystic kidney disease,
and polycystin-L is deleted in mice with renal and
retinal defects. Note: this model is restricted to the
amino half for technical reasons.
Length = 2740
Score = 25.8 bits (56), Expect = 2.0
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 27 KYMSLPE--NDRIEVVLKKLDEEHNKYKFMEYSLSLLGVL 64
+ LP +D I LK L ++ + +E SL+L+ VL
Sbjct: 2592 EASGLPHWLHDLIASKLKGLLDQADFQHVIELSLALITVL 2631
>gnl|CDD|218749 pfam05788, Orbi_VP1, Orbivirus RNA-dependent RNA polymerase (VP1).
This family consists of the RNA-dependent RNA polymerase
protein VP1 from the Orbiviruses. VP1 may have both
enzymatic and structural roles in the virus life cycle.
Length = 1301
Score = 25.5 bits (56), Expect = 3.3
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 19 AVFVDDVDKYMSLPENDRIE 38
VF DKY+SL E +RI+
Sbjct: 653 RVFKMLFDKYLSLSEEERIQ 672
>gnl|CDD|106307 PRK13349, PRK13349, superantigen-like protein; Reviewed.
Length = 241
Score = 24.6 bits (53), Expect = 4.7
Identities = 9/20 (45%), Positives = 16/20 (80%)
Query: 24 DVDKYMSLPENDRIEVVLKK 43
D ++Y+ P+N +IEV+L+K
Sbjct: 220 DANRYVKKPQNAKIEVILEK 239
>gnl|CDD|188679 cd08724, RGS_GRK-like, Regulator of G protein signaling domain
(RGS) found in G protein-coupled receptor kinase (GRK).
The RGS domain is found in G protein-coupled receptor
kinases (GRKs). These proteins play a key role in
phosphorylation-dependent
desensitization/resensitization of GPCRs (G
protein-coupled receptors), intracellular trafficking,
endocytosis, as well as in the modulation of important
intracellular signaling cascades by GPCR. GRKs also
modulate cellular response in
phosphorylation-independent manner using their ability
to interact with multiple signaling proteins involved
in many essential cellular pathways. The RGS domain of
the GRKs has very little sequence similarity with the
canonical RGS domain of the RGS proteins and therefore
is often refered to as the RH (RGS Homology) domain.
Based on sequence homology the GRK family consists of
three major subfamilies: the GRK4 subfamily (GRK4, GRK5
and GRK6), the rhodopsin kinase or visual GRK subfamily
(GRK1 and GRK7), and the beta-adrenergic receptor
kinases subfamily (GRK2/GRK3). RGS proteins regulate
many aspects of embryonic development such as glial
differentiation, embryonic axis formation, skeletal and
muscle development, cell migration during early
embryogenesis, as well as apoptosis, cell
proliferation, and modulation of cardiac development.
Length = 114
Score = 24.5 bits (54), Expect = 5.2
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 9/50 (18%)
Query: 16 IPEAV----FVDDVDKYMSLPENDRIEVVLKKLDEEHNKYKFMEYSLSLL 61
PE V F+D++ +Y + +R KK E ++KY M+ SL+
Sbjct: 19 RPELVPQIEFLDEIKEYEVAEDEERA----KKAREIYDKY-IMKESLAHS 63
>gnl|CDD|132740 cd06942, NR_LBD_Sex_1_like, The ligand binding domain of
Caenorhabditis elegans nuclear hormone receptor Sex-1
protein. The ligand binding domain (LBD) of
Caenorhabditis elegans nuclear hormone receptor Sex-1
protein like: Sex-1 protein of C. elegans is a
transcription factor belonging to the nuclear receptor
superfamily. Sex-1 plays pivotal role in sex fate of C.
elegans by regulating the transcription of the
sex-determination gene xol-1, which specifies male (XO)
fate when active and hermaphrodite (XX) fate when
inactive. The Sex-1 protein directly represses xol-1
transcription by binding to its promoter. However, the
active ligand for Sex-1 protein has not yet been
identified. Like other members of the nuclear receptor
(NR) superfamily of ligand-activated transcription
factors, Sex-1 like receptors have a central well
conserved DNA binding domain (DBD), a variable
N-terminal domain, a non-conserved hinge and a
C-terminal ligand binding domain (LBD).
Length = 191
Score = 24.2 bits (53), Expect = 6.0
Identities = 10/29 (34%), Positives = 13/29 (44%), Gaps = 2/29 (6%)
Query: 16 IPEAV-FVDDVDKYMSLPENDRIEVVLKK 43
I E V FV + + L DR +LK
Sbjct: 15 IQEIVQFVKSIPGFNQLSGEDRA-QLLKG 42
>gnl|CDD|172532 PRK14038, PRK14038, ADP-dependent glucokinase; Provisional.
Length = 453
Score = 24.0 bits (52), Expect = 8.5
Identities = 9/28 (32%), Positives = 18/28 (64%)
Query: 22 VDDVDKYMSLPENDRIEVVLKKLDEEHN 49
+DDV K + +P N++ V + L++E+
Sbjct: 380 IDDVRKALDVPVNEKALEVEEALEKEYG 407
>gnl|CDD|99919 cd05536, POLBc_B3, DNA polymerase type-B B3 subfamily catalytic
domain. Archaeal proteins that are involved in DNA
replication are similar to those from eukaryotes. Some
members of the archaea also possess multiple family B
DNA polymerases (B1, B2 and B3). So far there is no
specific function(s) has been assigned for different
members of the archaea type B DNA polymerases.
Phylogenetic analyses of eubacterial, archaeal, and
eukaryotic family B DNA polymerases are support
independent gene duplications during the evolution of
archaeal and eukaryotic family B DNA polymerases.
Structural comparison of the thermostable DNA polymerase
type B to its mesostable homolog suggests several
adaptations to high temperature such as shorter loops,
disulfide bridges, and increasing electrostatic
interaction at subdomain interfaces.
Length = 371
Score = 24.2 bits (53), Expect = 9.0
Identities = 12/34 (35%), Positives = 19/34 (55%)
Query: 31 LPENDRIEVVLKKLDEEHNKYKFMEYSLSLLGVL 64
L E RI+ +KKLD E +YK ++ + +L
Sbjct: 77 LEERRRIKEKMKKLDPESEEYKLLDERQRAIKIL 110
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
0.313 0.134 0.365
Gapped
Lambda K H
0.267 0.0721 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,837,138
Number of extensions: 307908
Number of successful extensions: 289
Number of sequences better than 10.0: 1
Number of HSP's gapped: 289
Number of HSP's successfully gapped: 21
Length of query: 74
Length of database: 10,937,602
Length adjustment: 44
Effective length of query: 30
Effective length of database: 8,986,026
Effective search space: 269580780
Effective search space used: 269580780
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.2 bits)