RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1991
(366 letters)
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 37.4 bits (87), Expect = 3e-04
Identities = 12/26 (46%), Positives = 19/26 (73%)
Query: 330 ELTRHFRKHTGDRPFQCTLCERAFSR 355
L RH R HTG++P++C +C ++FS
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 30.4 bits (69), Expect = 0.080
Identities = 12/17 (70%), Positives = 16/17 (94%)
Query: 300 HLKAHLRTHTGEKPYQC 316
+L+ H+RTHTGEKPY+C
Sbjct: 1 NLRRHMRTHTGEKPYKC 17
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 34.7 bits (79), Expect = 0.080
Identities = 45/273 (16%), Positives = 88/273 (32%), Gaps = 13/273 (4%)
Query: 83 QDIIPNVESSTSNTPVSNYYIDFNTSNNYKNKPPDQIVPNLLYSEIKKYEDVYKNEPLSA 142
+ + + ++S++ S+ + + + P L + +N PL
Sbjct: 96 KSLPLSNSKASSSSLSSSSSNSNDNNLLSSHSLPPSSRDPQLPDLLSIS--NLRNNPLPG 153
Query: 143 FVEYSVKSENSSNLSDEHKQTLSCNYNQYPSQHSIDSSSVNNYSSLYLSPVTPSNPEFYP 202
SV + S++L I S+ + S + S+
Sbjct: 154 NNSSSVNTPQSNSLHPPLPANSLSKDPSSNLSLLISSNVSTSIPSSSENSPLSSSYSIPS 213
Query: 203 ENYQYHHYRDDYSLDIKYQPEYEHYRVNSSSHGNYNKLHIHPYYQTHHHTQIFQTPSITI 262
+ + SL + + + S S + + + + S +
Sbjct: 214 SSSDQNLENSSSSLPLTTNSQLSPKSLLSQSPSSLSSSDSSSSASESPRSSLPTASSQSS 273
Query: 263 KSSLLSKPKRRQNWSRRKIIMHTCSHNGCGKTYTKSSHLKAHLRT--HTGE--KPYQCGW 318
+ + C ++++SS L HLR+ H+GE KP+ C +
Sbjct: 274 SPNESDSSSEKGFSLP-------IKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPY 326
Query: 319 KGCGWKFARSDELTRHFRKHTGDRPFQCTLCER 351
CG F+R+D L RH HT P + L
Sbjct: 327 SLCGKLFSRNDALKRHILLHTSISPAKEKLLNS 359
Score = 31.2 bits (70), Expect = 0.85
Identities = 44/225 (19%), Positives = 72/225 (32%), Gaps = 16/225 (7%)
Query: 150 SENSSNLSDEHKQTLSCNYNQYPSQHSIDSSSVNNYSS----LYLSPVTPSNPE----FY 201
S +S + SD + P+ S SS + SS L +
Sbjct: 244 SPSSLSSSDSSSSASESPRSSLPTASSQSSSPNESDSSSEKGFSLPIKSKQCNISFSRSS 303
Query: 202 PENYQYHHYRDDYSLDIKYQPEYEHYRVNSSSHGNYNKLHIHPYYQTHHHTQIFQTPSIT 261
P + Y S + + + + ++ + S
Sbjct: 304 PLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSS-- 361
Query: 262 IKSSLLSKPKRRQNWSRRKIIMHT----CSHNGCGKTYTKSSHLKAHLRTHTGEKPYQCG 317
K S L + Q+ + K + + N C + + + S+L H+ TH +PY C
Sbjct: 362 -KFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCK 420
Query: 318 WKGCGWKFARSDELTRHFRKHTGDRPFQCTLCERAFSRSDHLSLH 362
C F R L H + HT P C ++F R LS H
Sbjct: 421 NPPCSKSFNRHYNLIPHKKIHTNHAPLLC-SILKSFRRDLDLSNH 464
Score = 29.3 bits (65), Expect = 3.7
Identities = 23/53 (43%), Positives = 33/53 (62%)
Query: 289 NGCGKTYTKSSHLKAHLRTHTGEKPYQCGWKGCGWKFARSDELTRHFRKHTGD 341
C ++++ HL H+R+HTGEKP QC + GC F+R EL+RH R H +
Sbjct: 37 PNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHNN 89
>gnl|CDD|200998 pfam00096, zf-C2H2, Zinc finger, C2H2 type. The C2H2 zinc finger
is the classical zinc finger domain. The two conserved
cysteines and histidines co-ordinate a zinc ion. The
following pattern describes the zinc finger.
#-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C] Where X can
be any amino acid, and numbers in brackets indicate the
number of residues. The positions marked # are those
that are important for the stable fold of the zinc
finger. The final position can be either his or cys. The
C2H2 zinc finger is composed of two short beta strands
followed by an alpha helix. The amino terminal part of
the helix binds the major groove in DNA binding zinc
fingers. The accepted consensus binding sequence for Sp1
is usually defined by the asymmetric hexanucleotide core
GGGCGG but this sequence does not include, among others,
the GAG (=CTC) repeat that constitutes a high-affinity
site for Sp1 binding to the wt1 promoter.
Length = 22
Score = 30.0 bits (68), Expect = 0.11
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 345 QCTLCERAFSRSDHLSLHMKRH 366
+C C ++FSR +L H++ H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 29.2 bits (66), Expect = 0.22
Identities = 11/20 (55%), Positives = 16/20 (80%)
Query: 289 NGCGKTYTKSSHLKAHLRTH 308
CGK++++ S+LK HLRTH
Sbjct: 3 PDCGKSFSRKSNLKRHLRTH 22
Score = 25.8 bits (57), Expect = 4.0
Identities = 9/20 (45%), Positives = 10/20 (50%)
Query: 319 KGCGWKFARSDELTRHFRKH 338
CG F+R L RH R H
Sbjct: 3 PDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 34.0 bits (77), Expect = 0.14
Identities = 26/113 (23%), Positives = 43/113 (38%), Gaps = 15/113 (13%)
Query: 74 DYTAASDLVQDIIPNVESSTSNTPVSNYYIDFNTSN-NYKNKPPDQIVPNLLYSEIKKY- 131
D+ DL +D +E + + I+ N N K D I L E K
Sbjct: 1869 DFNKEKDLKEDDEEEIEEADEIEKIDKDDIEREIPNNNMAGKNNDIIDDKLDKDEYIKRD 1928
Query: 132 -------------EDVYKNEPLSAFVEYSVKSENSSNLSDEHKQTLSCNYNQY 171
+D+ N+ S F +Y + +S N SDE ++ L C+ + +
Sbjct: 1929 AEETREEIIKISKKDMCINDFSSKFCDYMKDNISSGNCSDEERKELCCSISDF 1981
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 29.0 bits (65), Expect = 0.27
Identities = 7/23 (30%), Positives = 11/23 (47%)
Query: 344 FQCTLCERAFSRSDHLSLHMKRH 366
++C C + F L HM+ H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 25.5 bits (56), Expect = 5.1
Identities = 9/25 (36%), Positives = 10/25 (40%), Gaps = 2/25 (8%)
Query: 314 YQCGWKGCGWKFARSDELTRHFRKH 338
Y+C CG F L H R H
Sbjct: 1 YRCPE--CGKVFKSKSALREHMRTH 23
Score = 25.1 bits (55), Expect = 6.7
Identities = 10/25 (40%), Positives = 14/25 (56%), Gaps = 2/25 (8%)
Query: 284 HTCSHNGCGKTYTKSSHLKAHLRTH 308
+ C CGK + S L+ H+RTH
Sbjct: 1 YRCPE--CGKVFKSKSALREHMRTH 23
>gnl|CDD|206065 pfam13894, zf-C2H2_4, C2H2-type zinc finger. This family contains
a number of divergent C2H2 type zinc fingers.
Length = 24
Score = 28.4 bits (63), Expect = 0.40
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 344 FQCTLCERAFSRSDHLSLHMKRH 366
F+C LC ++FS D L H+++H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
>gnl|CDD|173617 PTZ00427, PTZ00427, isoleucine-tRNA ligase, putative; Provisional.
Length = 1205
Score = 32.2 bits (73), Expect = 0.51
Identities = 27/87 (31%), Positives = 40/87 (45%), Gaps = 13/87 (14%)
Query: 91 SSTSNTPVSNYYIDFNTSNNYKNKP-PDQIVPNLLYSEIKKYEDVYKNEPLSAF------ 143
S NTP+SN+ ++ NYK+ P P I+ +L S+ K E+ E
Sbjct: 245 SCKCNTPISNFELNL----NYKDTPDPSIIISFVLCSDFPKVEEECNIEEDKQLLGEKYS 300
Query: 144 VEYSVKSENSSNLSDEHKQTLSCNYNQ 170
V Y+ K ENS+N + T + Y Q
Sbjct: 301 VLYNNKRENSNN--GNNNSTNNVCYAQ 325
>gnl|CDD|218591 pfam05443, ROS_MUCR, ROS/MUCR transcriptional regulator protein.
This family consists of several ROS/MUCR transcriptional
regulator proteins. The ros chromosomal gene is present
in octopine and nopaline strains of Agrobacterium
tumefaciens as well as in Rhizobium meliloti. This gene
encodes a 15.5-kDa protein that specifically represses
the virC and virD operons in the virulence region of the
Ti plasmid and is necessary for succinoglycan
production. Sinorhizobium meliloti can produce two types
of acidic exopolysaccharides, succinoglycan and
galactoglucan, that are interchangeable for infection of
alfalfa nodules. MucR from Sinorhizobium meliloti acts
as a transcriptional repressor that blocks the
expression of the exp genes responsible for
galactoglucan production therefore allowing the
exclusive production of succinoglycan.
Length = 130
Score = 30.6 bits (70), Expect = 0.56
Identities = 12/25 (48%), Positives = 15/25 (60%), Gaps = 3/25 (12%)
Query: 291 CGKTYTKSSHLKAHLRTHTGEKPYQ 315
GK + K+ LK HLRTH G P +
Sbjct: 76 DGKKF-KT--LKRHLRTHHGLTPEE 97
>gnl|CDD|191675 pfam07047, OPA3, Optic atrophy 3 protein (OPA3). This family
consists of several optic atrophy 3 (OPA3) proteins.
OPA3 deficiency causes type III 3-methylglutaconic
aciduria (MGA) in humans. This disease manifests with
early bilateral optic atrophy, spasticity,
extrapyramidal dysfunction, ataxia, and cognitive
deficits, but normal longevity.
Length = 134
Score = 29.2 bits (66), Expect = 1.6
Identities = 18/93 (19%), Positives = 31/93 (33%), Gaps = 30/93 (32%)
Query: 7 KLNSIGIQHCS------IKHKQAHSSQFSSTLPTCLGLDKCPFPYILFCFLCCPQVWHDI 60
KL ++ I+ S IK + + F + + Q++H
Sbjct: 4 KLGTLAIRQISKPIANRIKRRAKKNPFFRK-----------------YICIPPAQLYHWF 46
Query: 61 ETVMS----GEGPPVFIDY---TAASDLVQDII 86
ET + G PV I A +L D++
Sbjct: 47 ETRIKRRIYGHATPVTIKPLNEEKAVELGADLL 79
>gnl|CDD|165320 PHA03022, PHA03022, hypothetical protein; Provisional.
Length = 335
Score = 29.9 bits (67), Expect = 1.9
Identities = 32/168 (19%), Positives = 65/168 (38%), Gaps = 23/168 (13%)
Query: 92 STSNTPVSNYYIDFNTSNNYKNKPPDQIVPNLLYS--EIKKYEDVYKNEPLSAFVEYSVK 149
S N + N + F ++ N ++P ++ E+KK++ N + Y
Sbjct: 114 SQINKKIDNNFNMFASAENIDDEPDINDTDKIISDKLELKKHDSGDLN------IGYMAH 167
Query: 150 SENSSNLSDEHKQTLSCN-YNQYPSQHSIDSSSVNNYSSLYLSPVTPS-NPEFYPENYQY 207
+ + N +E+K + N YN+ + ID + + ++ S EF+ ++
Sbjct: 168 DKFTLNKDNEYKYMIDPNGYNKTAAIFKIDLDILTEFIKKLIATKGASIEIEFFKNTIKF 227
Query: 208 HHYRDDY-------------SLDIKYQPEYEHYRVNSSSHGNYNKLHI 242
YR+D S+ Y+P Y++ + KL+I
Sbjct: 228 KAYRNDNIKNNIIDESCFYCSIINLYKPILRKYKIALENFALLKKLNI 275
>gnl|CDD|180650 PRK06665, flgK, flagellar hook-associated protein FlgK; Validated.
Length = 627
Score = 30.0 bits (68), Expect = 2.0
Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 10/57 (17%)
Query: 65 SGEGPPVFIDYTAASDLVQDIIPNVESSTSNTPVSNYYIDFN-------TSNNYKNK 114
S + V I Y A +D V D+I + +S + V+ Y N +++ +N
Sbjct: 382 SNKNGTVEIPYNA-TDTVNDVIKRINNSNAQ--VTAYLNHNNKLVLKATKADDDENP 435
>gnl|CDD|227270 COG4934, COG4934, Predicted protease [Posttranslational modification,
protein turnover, chaperones].
Length = 1174
Score = 29.0 bits (65), Expect = 4.6
Identities = 14/123 (11%), Positives = 31/123 (25%), Gaps = 16/123 (13%)
Query: 79 SDLVQDIIPNVESSTSNTPVSNYYIDFNTSNNYKNKPPDQIVPNLLYSEIKKYEDVYKNE 138
S+L + +V +S S+ I + N + V +
Sbjct: 955 SNLQIYFLSSVPTSGLTGKSSDGGIKNFVIDVLVN-----TNGISAINNGTGNYYVIASV 1009
Query: 139 P--LSAFVEYSVKSENSSNLSDEHKQTLSCN--------YNQYPSQHSIDSSSVNNYSSL 188
+F + ++ N++ S N + I + +
Sbjct: 1010 SNGTISFSS-QIYGKDVYNITVAEGNITSVNSALSNLIVSLSSTTVPIIKNVLPSLVYGE 1068
Query: 189 YLS 191
Y
Sbjct: 1069 YNI 1071
>gnl|CDD|227461 COG5132, BUD31, Cell cycle control protein, G10 family
[Transcription / Cell division and chromosome
partitioning].
Length = 146
Score = 27.6 bits (61), Expect = 5.8
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 191 SPVTPSNPEFYPENYQYHHYRDDYSLDIKYQPE 223
+P+ PS PE +Q HH R Y ++ Y+
Sbjct: 36 APLAPSKPENLWPIFQLHHQRSRYIYNLYYKRG 68
>gnl|CDD|224319 COG1401, McrB, GTPase subunit of restriction endonuclease [Defense
mechanisms].
Length = 601
Score = 28.6 bits (64), Expect = 5.8
Identities = 14/67 (20%), Positives = 30/67 (44%), Gaps = 2/67 (2%)
Query: 98 VSNYYIDFNTSNNYKNKPPDQIVPNLLYSEIKKYEDVYKNEPLSAFVEYSVKSENSSNLS 157
VS + +F ++ K+K + IK ++DV N+ ++ + ++ + N
Sbjct: 350 VSYGFGEFLST--LKSKKSGEGNKEAESEPIKIHDDVIANKVIALRIPENLYLVGTMNTI 407
Query: 158 DEHKQTL 164
D+ TL
Sbjct: 408 DKSLLTL 414
>gnl|CDD|198233 cd10370, SH2_Src_Src42, Src homology 2 (SH2) domain found in the
Src oncogene at 42A (Src42). Src42 is a member of the
Src non-receptor type tyrosine kinase family of
proteins. The integration of receptor tyrosine
kinase-induced RAS and Src42 signals by Connector
eNhancer of KSR (CNK) as a two-component input is
essential for RAF activation in Drosophila. Src42 is
present in a wide variety of organisms including:
California sea hare, pea aphid, yellow fever mosquito,
honey bee, Panamanian leafcutter ant, and sea urchin.
Src42 has a unique N-terminal domain, an SH3 domain, an
SH2 domain, a kinase domain and a regulatory tail, as do
the other members of the family. Like the other members
of the Src family the SH2 domain in addition to binding
the target, also plays an autoinhibitory role by binding
to its C-terminal tail. In general SH2 domains are
involved in signal transduction. They typically bind
pTyr-containing ligands via two surface pockets, a pTyr
and hydrophobic binding pocket, allowing proteins with
SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 96
Score = 27.1 bits (60), Expect = 6.2
Identities = 8/27 (29%), Positives = 14/27 (51%)
Query: 211 RDDYSLDIKYQPEYEHYRVNSSSHGNY 237
+DYSL ++ +HYR+ G +
Sbjct: 38 HNDYSLSVRDGDTVKHYRIRQLDEGGF 64
>gnl|CDD|227430 COG5099, COG5099, RNA-binding protein of the Puf family,
translational repressor [Translation, ribosomal
structure and biogenesis].
Length = 777
Score = 28.2 bits (63), Expect = 8.9
Identities = 21/129 (16%), Positives = 32/129 (24%), Gaps = 25/129 (19%)
Query: 115 PPDQIVPNLLYSEIKKYEDVYKNEPLS-------AFVEY---SVKSENSSNLSDEHKQTL 164
P + NLL S + K+ P S + ++ S L
Sbjct: 1 PNSDTMNNLLPSIKSQLHHSKKSPPSSTTSQELMNGNSTPNSFSPIPSKASSSATFTLNL 60
Query: 165 SCN------YNQYPSQ---------HSIDSSSVNNYSSLYLSPVTPSNPEFYPENYQYHH 209
N S +I SS+ + S L P + NP N
Sbjct: 61 PINNSVNHKITSSSSSRRKPSGSWSVAISSSTSGSQSLLMELPSSSFNPSTSSRNKSNSA 120
Query: 210 YRDDYSLDI 218
+
Sbjct: 121 LSSTQQGNA 129
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
0.318 0.131 0.418
Gapped
Lambda K H
0.267 0.0655 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,760,631
Number of extensions: 1602025
Number of successful extensions: 1526
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1517
Number of HSP's successfully gapped: 45
Length of query: 366
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 268
Effective length of database: 6,590,910
Effective search space: 1766363880
Effective search space used: 1766363880
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 (21.7 bits)
S2: 60 (27.0 bits)