RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13973
(230 letters)
>gnl|CDD|200442 cd11286, ADF_cofilin_like, Cofilin, Destrin, and related actin
depolymerizing factors. Actin depolymerization
factor/cofilin-like domains (ADF domains) are present
in a family of essential eukaryotic actin regulatory
proteins. These proteins enhance the turnover rate of
actin, and interact with actin monomers (G-actin) as
well as actin filaments (F-actin), typically with a
preference for ADP-G-actin subunits. The basic function
of cofilin is to promote disassembly of aged actin
filaments. Vertebrates have three isoforms of cofilin:
cofilin-1 (Cfl1, non-muscle cofilin), cofilin-2 (muscle
cofilin), and ADF (destrin). When bound to actin
monomers, cofilins inhibit their spontaneous exchange
of nucleotides. The cooperative binding to (aged)
ADP-F-actin induces a local change in the actin
filament structure and further promotes aging.
Length = 133
Score = 95.3 bits (238), Expect = 5e-25
Identities = 38/74 (51%), Positives = 51/74 (68%), Gaps = 4/74 (5%)
Query: 11 SGVTVSDICKTTYEEIKKDKKHRYVVFFIRDE-KQIDVEYIGDRNATYDSFLEDLQKAGS 69
SGV VSD C T + E+K KKH+Y++F I D+ K+I VE +G+R+A+YD FLE L
Sbjct: 1 SGVKVSDECITAFNELKLKKKHKYIIFKISDDKKEIVVEKVGERDASYDDFLEKL---PE 57
Query: 70 GECRYGLFDFEYTH 83
ECRY ++DFEY
Sbjct: 58 NECRYAVYDFEYET 71
>gnl|CDD|143992 pfam00241, Cofilin_ADF, Cofilin/tropomyosin-type actin-binding
protein. Severs actin filaments and binds to actin
monomers.
Length = 127
Score = 73.2 bits (180), Expect = 1e-16
Identities = 30/67 (44%), Positives = 43/67 (64%), Gaps = 4/67 (5%)
Query: 19 CKTTYEEIKKDKKHRYVVFFIRDEK-QIDVEYIGDRNATYDSFLEDLQKAGSGECRYGLF 77
K ++ E+KK KKH Y++F I +K QI VE +GD +YD F+E+L + ECRY ++
Sbjct: 3 LKASFNELKKRKKHNYIIFKIDKDKDQIVVEQVGDTGDSYDEFVEELPE---RECRYAVY 59
Query: 78 DFEYTHQ 84
D EYT
Sbjct: 60 DVEYTTD 66
>gnl|CDD|214516 smart00102, ADF, Actin depolymerisation factor/cofilin -like
domains. Severs actin filaments and binds to actin
monomers.
Length = 127
Score = 70.4 bits (173), Expect = 1e-15
Identities = 25/69 (36%), Positives = 43/69 (62%), Gaps = 4/69 (5%)
Query: 17 DICKTTYEEIKKDKKHRYVVFFIRDEK-QIDVEYIGDRNATYDSFLEDLQKAGSGECRYG 75
+ CK + E+KK +KH ++F I + +I VE +G +YD F+E+L + ECRY
Sbjct: 1 EDCKEAFNELKKKRKHSAIIFKIDKDNEEIVVEEVGSTEDSYDEFVEELPE---DECRYA 57
Query: 76 LFDFEYTHQ 84
L+D+++T +
Sbjct: 58 LYDYKFTTE 66
>gnl|CDD|178755 PLN03216, PLN03216, actin depolymerizing factor; Provisional.
Length = 141
Score = 50.3 bits (120), Expect = 4e-08
Identities = 25/72 (34%), Positives = 45/72 (62%), Gaps = 4/72 (5%)
Query: 11 SGVTVSDICKTTYEEIKKDKKHRYVVFFIRDE-KQIDVEYIGDRNATYDSFLEDLQKAGS 69
+G+ V+D CK ++ E+K K HRY+VF I ++ +++ V+ +G +YD L +
Sbjct: 8 TGMWVTDECKNSFMEMKWKKVHRYIVFKIDEKSRKVTVDKVGGPGESYDDLAASLP---T 64
Query: 70 GECRYGLFDFEY 81
+CRY +FDF++
Sbjct: 65 DDCRYAVFDFDF 76
>gnl|CDD|173441 PTZ00152, PTZ00152, cofilin/actin-depolymerizing factor 1-like
protein; Provisional.
Length = 122
Score = 43.8 bits (103), Expect = 7e-06
Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 2/69 (2%)
Query: 10 ASGVTVSDICKTTYEEIKKDKKHRYVVFFIRDEKQIDVEYIGDRNATYDSFLEDLQKAGS 69
SG+ V+D C T + +K K R+++F I + + I + G T + + K
Sbjct: 2 ISGIRVNDNCVTEFNNMKIRKTCRWIIFVIENCE-IIIHSKGATT-TLTELVGSIDKNDK 59
Query: 70 GECRYGLFD 78
+C Y +FD
Sbjct: 60 IQCAYVVFD 68
>gnl|CDD|217873 pfam04073, YbaK, YbaK / prolyl-tRNA synthetases associated
domain. This domain of unknown function is found in
numerous prokaryote organisms. The structure of YbaK
shows a novel fold. This domain also occurs in a number
of prolyl-tRNA synthetases (proRS) from prokaryotes.
Thus, the domain is thought to be involved in
oligo-nucleotide binding, with possible roles in
recognition/discrimination or editing of prolyl-tRNA.
Length = 122
Score = 32.2 bits (74), Expect = 0.075
Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 10 ASGVTVSDICKTTYEEIKKDKKHRYVVFFIRDEKQID 46
A GV I KT + KDKK RYV+ + ++++D
Sbjct: 13 ALGVPPGRIAKTL---VLKDKKGRYVLVVLPGDRELD 46
>gnl|CDD|239824 cd04332, YbaK_like, YbaK-like. The YbaK family of deacylase
domains includes the INS amino acid-editing domain of
the bacterial class II prolyl tRNA synthetase (ProRS),
and it's trans-acting homologs, YbaK, ProX, and PrdX.
The primary function of INS is to hydrolyze mischarged
cysteinyl-tRNA(Pro)'s, thus helping ensure the fidelity
of translation. Organisms whose ProRS lacks the INS
domain express an INS homolog in trans (e.g. YbaK,
ProX, or PrdX).
Length = 136
Score = 29.8 bits (68), Expect = 0.56
Identities = 10/35 (28%), Positives = 16/35 (45%), Gaps = 3/35 (8%)
Query: 12 GVTVSDICKTTYEEIKKDKKHRYVVFFIRDEKQID 46
GV I KT + KD K V+ + + ++D
Sbjct: 22 GVPPGQIAKTL---VLKDDKGGLVLVVVPGDHELD 53
>gnl|CDD|215249 PLN02454, PLN02454, triacylglycerol lipase.
Length = 414
Score = 29.8 bits (67), Expect = 1.1
Identities = 11/21 (52%), Positives = 11/21 (52%)
Query: 55 ATYDSFLEDLQKAGSGECRYG 75
ATYDSF D G RYG
Sbjct: 42 ATYDSFNNDQNSKYCGASRYG 62
>gnl|CDD|225898 COG3363, COG3363, Archaeal IMP cyclohydrolase [Nucleotide transport
and metabolism].
Length = 200
Score = 28.3 bits (63), Expect = 2.5
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 2/35 (5%)
Query: 165 EHHEYTIKTPGLAKVLDDFVCIVGLVRSQRVKTKR 199
E EY TP +A +LD +G+V + V +
Sbjct: 103 EKDEY--NTPRIAAILDGETAYLGIVAADEVYVRV 135
>gnl|CDD|233639 TIGR01922, purO_arch, IMP cyclohydrolase. This model represents
IMP cyclohydrolase, the final step in the biosynthesis
of inosine monophosphate (IMP) in archaea. In bacteria
this step is catalyzed by a bifunctional enzyme (purH).
Length = 199
Score = 28.3 bits (63), Expect = 2.7
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 2/35 (5%)
Query: 165 EHHEYTIKTPGLAKVLDDFVCIVGLVRSQRVKTKR 199
E EY TP +A +LD +G+V + V +
Sbjct: 103 EKDEY--NTPRIAAILDGETAYLGIVAADEVYVRV 135
>gnl|CDD|227786 COG5499, COG5499, Predicted transcription regulator containing HTH
domain [Transcription].
Length = 120
Score = 27.1 bits (60), Expect = 3.8
Identities = 10/47 (21%), Positives = 18/47 (38%)
Query: 146 TNAQDIVRLRLGATQLSHPEHHEYTIKTPGLAKVLDDFVCIVGLVRS 192
++ R + AT + E Y I P +V+ + GL +
Sbjct: 31 NPLLELDRADILATLIEAYEFKHYPIAAPDPVEVIRTLMDQYGLTLA 77
>gnl|CDD|234430 TIGR03986, TIGR03986, CRISPR-associated protein. Members of this
protein family, part of the larger RAMP family, are
found exclusively in species with CRISPR systems, in
local contexts containing other RAMP (Repeat-Associated
Mystery Proteins).
Length = 562
Score = 27.7 bits (62), Expect = 6.7
Identities = 19/82 (23%), Positives = 25/82 (30%), Gaps = 18/82 (21%)
Query: 30 KKHRYVVFFIRDEK-----QIDVEYIGDRNATYDSFLEDLQKAGSGE------------- 71
KKH Y FF E ++D E I D L + GS +
Sbjct: 229 KKHNYAFFFPPKEPEDARIRLDKELIEDYQEDESRQLLQRRDNGSSDLLKEYRKLPEGKP 288
Query: 72 CRYGLFDFEYTHQCQGTTELYR 93
Y D G + +YR
Sbjct: 289 VFYVELDKGGKVTSFGHSPIYR 310
>gnl|CDD|212477 cd01730, LSm3, Like-Sm protein 3. The eukaryotic LSm proteins
(LSm2-8 or LSm1-7) assemble into a hetero-heptameric
ring around the 3'-terminus uridylation tag of the
gamma-methyl triphosphate (gamma-m-P3) capped U6 snRNA.
LSm2-8 form the core of the snRNP particle that, in
turn, assembles with other components onto the pre-mRNA
to form the spliceosome which is responsible for the
excision of introns and the ligation of exons. LSm1-7
is involved in recognition of the 3' uridylation tag
and recruitment of the decapping machinery. Members of
this family share a highly conserved Sm fold containing
an N-terminal helix followed by a strongly bent
five-stranded antiparallel beta-sheet.
Length = 82
Score = 25.6 bits (57), Expect = 7.7
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 13 VTVSDICKTTYEEIKKDKKHRYVVFFIR 40
+T +I + TYEEI K K + F+R
Sbjct: 46 ITTVEIDEETYEEIYKTTKRNIPMLFVR 73
>gnl|CDD|218750 pfam05789, Baculo_VP1054, Baculovirus VP1054 protein. This family
consists of several VP1054 proteins from the
Baculoviruses. VP1054 is a virus structural protein
required for nucleocapsid assembly.
Length = 314
Score = 27.2 bits (61), Expect = 8.2
Identities = 9/36 (25%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 14 TVSDICKTTYEEIKKDKKHRYVVFFIRDEKQIDVEY 49
+ + KT Y+ + Y++ F DE +D+ Y
Sbjct: 113 VLRMVIKTVYDYLYNLCSKVYILMF--DELYVDLLY 146
>gnl|CDD|184907 PRK14943, PRK14943, DNA polymerase III subunit beta; Provisional.
Length = 374
Score = 27.2 bits (60), Expect = 9.2
Identities = 8/20 (40%), Positives = 15/20 (75%)
Query: 173 TPGLAKVLDDFVCIVGLVRS 192
+PG+ K LD+F+C++ +R
Sbjct: 354 SPGVFKTLDEFLCVIMPMRL 373
>gnl|CDD|238340 cd00607, RNase_Sa, RNase_Sa. Ribonucleases first isolated from
Streptomyces aureofaciens. In general, ribonucleases
cleave phosphodiester bonds in RNA and are essential
for both non-specific RNA degradation and for numerous
forms of RNA processing. RNAse Sa is a guanylate
specific endoribonuclease which belongs to the
superfamily of microbial ribonucleases. Typical of this
sub-family, the enzyme hydrolyses the phosphodiester
bonds of RNA at the 3' oxygen end of guanosine residues
to yield oligonucleotides with the
guanosine-2',3'-cyclophosphate at the 3' end and the
hydroxyl group at the 5' end. The terminal
guanosine-2,3'-cyclophosphate is hydrolysed by guanyl
RNAses to give guanosine-3'-phosphate.
Length = 95
Score = 25.8 bits (57), Expect = 9.6
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 166 HHEYTIKTPGLA 177
+HEYT+KTPG
Sbjct: 51 YHEYTVKTPGSR 62
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
0.321 0.135 0.404
Gapped
Lambda K H
0.267 0.0743 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,431,624
Number of extensions: 1039227
Number of successful extensions: 773
Number of sequences better than 10.0: 1
Number of HSP's gapped: 764
Number of HSP's successfully gapped: 21
Length of query: 230
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 136
Effective length of database: 6,768,326
Effective search space: 920492336
Effective search space used: 920492336
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.7 bits)