RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12265
(71 letters)
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 34.7 bits (79), Expect = 0.001
Identities = 13/34 (38%), Positives = 17/34 (50%)
Query: 10 HNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLH 43
N KPY CEVC + ++ LKYH+ H
Sbjct: 389 MNIFSAKDKPYRCEVCDKRYKNLNGLKYHRKHSH 422
Score = 32.0 bits (72), Expect = 0.012
Identities = 19/82 (23%), Positives = 26/82 (31%), Gaps = 24/82 (29%)
Query: 11 NRVHLGLKPYGCEV--CGRHFRQWGDLKYHKASLH------------------SDVKAFQ 50
KPY C V C + ++ LKYH H + K ++
Sbjct: 341 MLKVKDGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYR 400
Query: 51 CEYCGKDFAR----KYQAHSYH 68
CE C K + KY H
Sbjct: 401 CEVCDKRYKNLNGLKYHRKHSH 422
>gnl|CDD|212564 cd11674, lambda-1, inner capsid protein lambda-1 or VP3. The
reovirus inner capsid protein lambda-1 displays
nucleoside triphosphate phosphohydrolase (NTPase),
RNA-5'-triphosphatase (RTPase), and RNA helicase
activity and may play a role in the transcription of the
virus genome, the unwinding or reannealing of
double-stranded RNA during RNA synthesis. The RTPase
activity constitutes the first step in the capping of
RNA, resulting in a 5'-diphosphorylated RNA plus-strand.
lambda1 is an Orthoreovirus core protein, VP3 is the
homologous core protein in Aquareoviruses.
Length = 1166
Score = 31.3 bits (71), Expect = 0.020
Identities = 9/29 (31%), Positives = 12/29 (41%)
Query: 20 YGCEVCGRHFRQWGDLKYHKASLHSDVKA 48
Y C VC F L H+ + HS +
Sbjct: 74 YVCNVCMAEFSSMDQLAEHQRTTHSIGAS 102
>gnl|CDD|213927 TIGR04314, methano7heme, methanogenesis multiheme c-type
cytochrome. Members of this protein family are
multiheme cytochrome c proteins of Methanosarcina
acetivorans C2A and several other archaeal methanogens.
All members have N-terminal signal peptides and are
presumed to act in electron transfer reactions
associated with methanogenesis. Putative heme-binding
motifs include five (or six) CXXCH motifs, a CXXXCH
motif, and a CXXXXCH motif. These proteins show multiple
regions of local homology, in the same order, with
multiheme cytochrome c proteins such as octaheme
tetrathionate reductase from Shewanella.
Length = 494
Score = 26.4 bits (58), Expect = 1.3
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 32 WGDLKYHKASLHSDVKAFQC 51
W D YH++ +H+DV +C
Sbjct: 201 WADEDYHESDVHADVNCVEC 220
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 24.7 bits (54), Expect = 1.3
Identities = 13/26 (50%), Positives = 15/26 (57%)
Query: 6 YLKVHNRVHLGLKPYGCEVCGRHFRQ 31
L+ H R H G KPY C VCG+ F
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 23.9 bits (52), Expect = 2.1
Identities = 9/27 (33%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 34 DLKYHKASLHSDVKAFQCEYCGKDFAR 60
+L+ H + H+ K ++C CGK F+
Sbjct: 1 NLRRHMRT-HTGEKPYKCPVCGKSFSS 26
>gnl|CDD|218261 pfam04777, Evr1_Alr, Erv1 / Alr family. Biogenesis of Fe/S
clusters involves a number of essential mitochondrial
proteins. Erv1p of Saccharomyces cerevisiae
mitochondria is required for the maturation of Fe/S
proteins in the cytosol. The ALR (augmenter of liver
regeneration) represents a mammalian orthologue of
yeast Erv1p. Both Erv1p and full-length ALR are located
in the mitochondrial intermembrane an d it thought to
operate downstream of the mitochondrial ABC
transporter.
Length = 95
Score = 24.2 bits (53), Expect = 4.4
Identities = 6/13 (46%), Positives = 8/13 (61%)
Query: 20 YGCEVCGRHFRQW 32
Y CE C HF++
Sbjct: 37 YPCEECAEHFQKI 49
>gnl|CDD|234655 PRK00133, metG, methionyl-tRNA synthetase; Reviewed.
Length = 673
Score = 24.7 bits (55), Expect = 4.6
Identities = 7/11 (63%), Positives = 7/11 (63%), Gaps = 2/11 (18%)
Query: 20 YG--CEVCGRH 28
YG CEVCG
Sbjct: 151 YGDNCEVCGAT 161
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 24.5 bits (53), Expect = 5.7
Identities = 16/41 (39%), Positives = 20/41 (48%), Gaps = 5/41 (12%)
Query: 19 PYGCEVCGRHFRQWGDLKYH-KASLHSDVKAFQCEYCGKDF 58
PY C +C F LK H + + HS V C CGK+F
Sbjct: 73 PYVCPLCLMPFSSSVSLKQHIRYTEHSKV----CPVCGKEF 109
>gnl|CDD|240861 cd12415, RRM3_RBM28_like, RNA recognition motif 3 in RNA-binding
protein 28 (RBM28) and similar proteins. This
subfamily corresponds to the RRM3 of RBM28 and Nop4p.
RBM28 is a specific nucleolar component of the
spliceosomal small nuclear ribonucleoproteins (snRNPs),
possibly coordinating their transition through the
nucleolus. It specifically associates with U1, U2, U4,
U5, and U6 small nuclear RNAs (snRNAs), and may play a
role in the maturation of both small nuclear and
ribosomal RNAs. RBM28 has four RNA recognition motifs
(RRMs), also termed RBDs (RNA binding domains) or RNPs
(ribonucleoprotein domains), and an extremely acidic
region between RRM2 and RRM3. The family also includes
nucleolar protein 4 (Nop4p or Nop77p) encoded by
YPL043W from Saccharomyces cerevisiae. It is an
essential nucleolar protein involved in processing and
maturation of 27S pre-rRNA and biogenesis of 60S
ribosomal subunits. Nop4p also contains four RRMs. .
Length = 82
Score = 23.3 bits (51), Expect = 9.0
Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 5/27 (18%)
Query: 28 HFRQWGDLKY-----HKASLHSDVKAF 49
F Q+G++KY K + HS AF
Sbjct: 20 LFSQFGEVKYARIVKDKLTGHSKGTAF 46
>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 = 22.3 bits (48), Expect = 9.9
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 22 CEVCGRHFRQWGDLKYHKAS 41
C CG+ F + +LK H +
Sbjct: 2 CPDCGKSFSRKSNLKRHLRT 21
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
0.328 0.140 0.482
Gapped
Lambda K H
0.267 0.0722 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,429,277
Number of extensions: 231773
Number of successful extensions: 374
Number of sequences better than 10.0: 1
Number of HSP's gapped: 372
Number of HSP's successfully gapped: 30
Length of query: 71
Length of database: 10,937,602
Length adjustment: 41
Effective length of query: 30
Effective length of database: 9,119,088
Effective search space: 273572640
Effective search space used: 273572640
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 53 (24.2 bits)