RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5467
(77 letters)
>gnl|CDD|215889 pfam00385, Chromo, Chromo (CHRromatin Organisation MOdifier)
domain.
Length = 52
Score = 63.7 bits (156), Expect = 1e-15
Identities = 28/48 (58%), Positives = 32/48 (66%), Gaps = 3/48 (6%)
Query: 29 VETILDKRIVN-GKIEYLLKWKGYSDDDNTWEPEENLDC--PDLIANF 73
VE ILD R+ G EYL+KWKGY D+ TWEPEENL P+LI F
Sbjct: 2 VERILDHRLRKGGNKEYLVKWKGYPYDEATWEPEENLKACFPELIQAF 49
>gnl|CDD|237991 cd00024, CHROMO, Chromatin organization modifier (chromo) domain
is a conserved region of around 50 amino acids found in
a variety of chromosomal proteins, which appear to play
a role in the functional organization of the eukaryotic
nucleus. Experimental evidence implicates the chromo
domain in the binding activity of these proteins to
methylated histone tails and maybe RNA. May occur as
single instance, in a tandem arrangement or followd by
a related "chromo shadow" domain.
Length = 55
Score = 61.5 bits (150), Expect = 9e-15
Identities = 30/51 (58%), Positives = 36/51 (70%), Gaps = 3/51 (5%)
Query: 26 EFSVETILDKRIV--NGKIEYLLKWKGYSDDDNTWEPEENL-DCPDLIANF 73
E+ VE ILD R G+ EYL+KWKGYS ++TWEPEENL DC +LI F
Sbjct: 2 EYEVEKILDHRKKKDGGEYEYLVKWKGYSYSEDTWEPEENLEDCKELIDEF 52
>gnl|CDD|214605 smart00298, CHROMO, Chromatin organization modifier domain.
Length = 55
Score = 60.3 bits (147), Expect = 3e-14
Identities = 27/50 (54%), Positives = 35/50 (70%), Gaps = 2/50 (4%)
Query: 26 EFSVETILDKR-IVNGKIEYLLKWKGYSDDDNTWEPEENLD-CPDLIANF 73
E+ VE ILD R G++EYL+KWKGYS ++TWEPEENL C + N+
Sbjct: 1 EYEVEKILDHRWKKKGELEYLVKWKGYSYSEDTWEPEENLLNCSKKLDNY 50
>gnl|CDD|206231 pfam14061, Mtf2_C, Polycomb-like MTF2 factor 2. Mammalian
Polycomb-like gene MTF2/PCL2 forms a complex with
Polycomb repressive complex-2 (PRC2) and collaborates
with PRC1 to achieve repression of Hox gene expression.
The human MTF2 gene is expressed in three splicing
variants, each of them contains the short C-terminal
domain defined here. The domain is subject to structure
determination by the Joint Center of Structural
Genomics.
Length = 51
Score = 30.9 bits (70), Expect = 0.008
Identities = 8/21 (38%), Positives = 17/21 (80%), Gaps = 1/21 (4%)
Query: 31 TILDKRI-VNGKIEYLLKWKG 50
+L +R+ +GK++YL++W+G
Sbjct: 28 RVLARRVTPDGKVQYLVEWEG 48
>gnl|CDD|235968 PRK07209, PRK07209, ribonucleotide-diphosphate reductase subunit
beta; Validated.
Length = 369
Score = 28.0 bits (63), Expect = 0.32
Identities = 17/69 (24%), Positives = 25/69 (36%), Gaps = 12/69 (17%)
Query: 3 EETPAAPTSSTPPAEVAPEEEGAEFSVETILDKRIVNGK--------IEYLLKWKGYSDD 54
PA + E A +V+ DKRI+N + +Y W+ Y
Sbjct: 10 AVMPALDALAVATGLEELEGGAARVNVD---DKRIINCRADVNQLVPFKYKWAWEKYLAG 66
Query: 55 -DNTWEPEE 62
N W P+E
Sbjct: 67 CANHWMPQE 75
>gnl|CDD|238654 cd01344, PL2_Passenger_AT, Pertactin-like passenger domains
(virulence factors), C-terminal, subgroup 2, of
autotransporter proteins of the type V secretion system
of Gram-negative bacteria. This subgroup includes the
passenger domains of the nonprotease autotransporters,
Ag43, AIDA-1 and IcsA, as well as, the less
characterized ShdA, MisL, and BapA autotransporters.
Length = 188
Score = 26.9 bits (60), Expect = 0.84
Identities = 15/42 (35%), Positives = 17/42 (40%), Gaps = 4/42 (9%)
Query: 17 EVAPEEEGAEFSVETILDKRIVNGKIEYLLKWKGYSDDDNTW 58
EV FS L R+V G EY L G S +D W
Sbjct: 142 EVGGTSSNGAFS----LAGRVVAGAYEYRLYRGGVSGNDGNW 179
>gnl|CDD|218680 pfam05664, DUF810, Protein of unknown function (DUF810). This
family consists of several plant proteins of unknown
function.
Length = 677
Score = 25.2 bits (55), Expect = 4.4
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 28 SVETILDKRIVNGKIEYLLKWKGYSDDDNTWEPEEN 63
SV L K +N KI+ L +W + + TW+P+ N
Sbjct: 515 SVIGNLVKTWINEKIDRLKEWVDRAIEQETWKPKSN 550
>gnl|CDD|197638 smart00300, ChSh, Chromo Shadow Domain.
Length = 61
Score = 23.9 bits (52), Expect = 5.1
Identities = 13/48 (27%), Positives = 24/48 (50%), Gaps = 5/48 (10%)
Query: 28 SVETILDKRIVNGKIEYLLKWKGYSDD--DNTWEPEENLDCPDLIANF 73
S E I+ +G++ +L+KWK + + E N+ CP ++ F
Sbjct: 8 SWEDIVGATKDDGELTFLIKWKDDAASLVPSK---EANVKCPQMVIRF 52
>gnl|CDD|234070 TIGR02956, TMAO_torS, TMAO reductase sytem sensor TorS. This
protein, TorS, is part of a regulatory system for the
torCAD operon that encodes the pterin molybdenum
cofactor-containing enzyme trimethylamine-N-oxide (TMAO)
reductase (TorA), a cognate chaperone (TorD), and a
penta-haem cytochrome (TorC). TorS works together with
the inducer-binding protein TorT and the response
regulator TorR. TorS contains histidine kinase ATPase
(pfam02518), HAMP (pfam00672), phosphoacceptor
(pfam00512), and phosphotransfer (pfam01627) domains and
a response regulator receiver domain (pfam00072) [Signal
transduction, Two-component systems].
Length = 968
Score = 24.7 bits (54), Expect = 5.3
Identities = 9/45 (20%), Positives = 20/45 (44%)
Query: 1 MSEETPAAPTSSTPPAEVAPEEEGAEFSVETILDKRIVNGKIEYL 45
+ +P+ ++S A + + + E +LD+ + IE L
Sbjct: 832 VLSASPSFDSASVIENAQADDIPESNQASEFLLDEEQLQQDIEVL 876
>gnl|CDD|237998 cd00034, ChSh, Chromo Shadow Domain, found in association with
N-terminal chromo (CHRromatin Organization MOdifier)
domain; Chromo domains mediate the interaction of the
heterochromatin with other heterochromatin proteins,
thereby affecting chromatin structure (e.g. Drosophila
and human heterochromatin protein (HP1) and mammalian
modifier 1 and modifier 2).
Length = 54
Score = 23.4 bits (51), Expect = 6.1
Identities = 12/37 (32%), Positives = 19/37 (51%), Gaps = 5/37 (13%)
Query: 39 NGKIEYLLKWKGYSDD--DNTWEPEENLDCPDLIANF 73
+G++ +L KWK N E N+ CP L+ +F
Sbjct: 13 DGELTFLAKWKDGQASLVPNK---ELNVKCPLLVISF 46
>gnl|CDD|234240 TIGR03514, GldB_lipo, gliding motility-associated lipoprotein GldB.
RN RM PMID:10648514 RT Cloning and characterization of
the Flavobacterium johnsoniae gliding-motility genes
gldB and gldC. RA Hunnicutt DW, McBride MJ RL J
Bacteriol. 2000 Feb;182(4):911-8.
Length = 319
Score = 24.6 bits (54), Expect = 6.5
Identities = 10/39 (25%), Positives = 16/39 (41%), Gaps = 10/39 (25%)
Query: 30 ETILDKRIVNGKIEYLLK----------WKGYSDDDNTW 58
T+L + I GKI Y + GY+ ++ W
Sbjct: 192 RTLLAEMIYYGKILYFVDQLLPCTSDSLKIGYTSEELKW 230
>gnl|CDD|236552 PRK09534, btuF, corrinoid ABC transporter substrate-binding
protein; Reviewed.
Length = 359
Score = 24.5 bits (53), Expect = 6.7
Identities = 5/25 (20%), Positives = 8/25 (32%)
Query: 6 PAAPTSSTPPAEVAPEEEGAEFSVE 30
+ P A+ A + F V
Sbjct: 21 AGGALAPAPAAQHADADRACSFPVT 45
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
0.309 0.131 0.391
Gapped
Lambda K H
0.267 0.0699 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,082,661
Number of extensions: 316527
Number of successful extensions: 318
Number of sequences better than 10.0: 1
Number of HSP's gapped: 315
Number of HSP's successfully gapped: 21
Length of query: 77
Length of database: 10,937,602
Length adjustment: 46
Effective length of query: 31
Effective length of database: 8,897,318
Effective search space: 275816858
Effective search space used: 275816858
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 53 (24.3 bits)