RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9695
(159 letters)
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 39.3 bits (92), Expect = 2e-05
Identities = 14/26 (53%), Positives = 22/26 (84%)
Query: 33 ALQIHMRTHTGDKPFRCTICQKAFTT 58
L+ HMRTHTG+KP++C +C K+F++
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 39.3 bits (92), Expect = 2e-05
Identities = 14/26 (53%), Positives = 22/26 (84%)
Query: 92 ALQIHMRTHTGDKPFRCTICQKAFTT 117
L+ HMRTHTG+KP++C +C K+F++
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
>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 = 35.1 bits (81), Expect = 0.010
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 18 KHLCHVCHKNFSSSSALQIHMRT 40
++C+VC FSS L H RT
Sbjct: 73 SYVCNVCMAEFSSMDQLAEHQRT 95
Score = 35.1 bits (81), Expect = 0.010
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 77 KHLCHVCHKNFSSSSALQIHMRT 99
++C+VC FSS L H RT
Sbjct: 73 SYVCNVCMAEFSSMDQLAEHQRT 95
>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 = 31.5 bits (72), Expect = 0.012
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 21 CHVCHKNFSSSSALQIHMRTH 41
C C K+FS S L+ H+RTH
Sbjct: 2 CPDCGKSFSRKSNLKRHLRTH 22
Score = 31.5 bits (72), Expect = 0.012
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 80 CHVCHKNFSSSSALQIHMRTH 100
C C K+FS S L+ H+RTH
Sbjct: 2 CPDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 29.4 bits (66), Expect = 0.082
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 21 CHVCHKNFSSSSALQIHMRTH 41
C C K F S SAL+ HMRTH
Sbjct: 3 CPECGKVFKSKSALREHMRTH 23
Score = 29.4 bits (66), Expect = 0.082
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 80 CHVCHKNFSSSSALQIHMRTH 100
C C K F S SAL+ HMRTH
Sbjct: 3 CPECGKVFKSKSALREHMRTH 23
>gnl|CDD|221755 pfam12756, zf-C2H2_2, C2H2 type zinc-finger (2 copies). This
family contains two copies of a C2H2-like zinc finger
domain.
Length = 100
Score = 29.9 bits (68), Expect = 0.20
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 18 KHLCHVCHKNFSSSSALQIHMR 39
+ C C K F S AL+ HMR
Sbjct: 50 GNECLYCGKQFKSLEALRQHMR 71
Score = 29.9 bits (68), Expect = 0.20
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 77 KHLCHVCHKNFSSSSALQIHMR 98
+ C C K F S AL+ HMR
Sbjct: 50 GNECLYCGKQFKSLEALRQHMR 71
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 30.5 bits (68), Expect = 0.41
Identities = 18/83 (21%), Positives = 32/83 (38%), Gaps = 16/83 (19%)
Query: 43 GDKPFRCTI--CQKAFTTKGNLKLIPNAVFNVAGMPKHLCH-VCHKNFSSSSALQIHMRT 99
KP++C + C K + + LK H+ H ++ + + +
Sbjct: 346 DGKPYKCPVEGCNKKYKNQNGLKY-------------HMLHGHQNQKLHENPSPEKMNIF 392
Query: 100 HTGDKPFRCTICQKAFTTKGNLK 122
DKP+RC +C K + LK
Sbjct: 393 SAKDKPYRCEVCDKRYKNLNGLK 415
>gnl|CDD|166018 PLN02377, PLN02377, 3-ketoacyl-CoA synthase.
Length = 502
Score = 30.0 bits (67), Expect = 0.52
Identities = 22/53 (41%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 60 GNLK--LIPNAVFNVAGMPKHLCHVCHKNFSSSSALQIHMRTHTG--DKPFRC 108
GN K LIPN +F V G L + S L +RTH G DK FRC
Sbjct: 271 GNKKSMLIPNCLFRVGGSAVLLSNKSRDKRRSKYKLVHVVRTHRGADDKAFRC 323
Score = 29.2 bits (65), Expect = 0.90
Identities = 19/50 (38%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 2 RGKLIPNAVFNVAGMPKHLCHVCHKNFSSSSALQIHMRTHTG--DKPFRC 49
+ LIPN +F V G L + S L +RTH G DK FRC
Sbjct: 274 KSMLIPNCLFRVGGSAVLLSNKSRDKRRSKYKLVHVVRTHRGADDKAFRC 323
>gnl|CDD|206083 pfam13912, zf-C2H2_6, C2H2-type zinc finger.
Length = 27
Score = 27.2 bits (61), Expect = 0.52
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 19 HLCHVCHKNFSSSSALQIHMRTH 41
H C VC K FSS AL H ++H
Sbjct: 2 HTCGVCGKTFSSLQALGGHKKSH 24
Score = 27.2 bits (61), Expect = 0.52
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 78 HLCHVCHKNFSSSSALQIHMRTH 100
H C VC K FSS AL H ++H
Sbjct: 2 HTCGVCGKTFSSLQALGGHKKSH 24
>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 = 26.8 bits (59), Expect = 0.61
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 19 HLCHVCHKNFSSSSALQIHMRTH 41
C +C K+FSS AL+ H+R H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
Score = 26.8 bits (59), Expect = 0.61
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 78 HLCHVCHKNFSSSSALQIHMRTH 100
C +C K+FSS AL+ H+R H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
>gnl|CDD|182508 PRK10512, PRK10512, selenocysteinyl-tRNA-specific translation
factor; Provisional.
Length = 614
Score = 29.2 bits (66), Expect = 0.91
Identities = 12/27 (44%), Positives = 14/27 (51%), Gaps = 1/27 (3%)
Query: 34 LQIHMRTHTGDKPFRCTICQKAFTTKG 60
LQ+ R H FR I +AFT KG
Sbjct: 162 LQLPEREHAAQHRFRLAI-DRAFTVKG 187
Score = 29.2 bits (66), Expect = 0.91
Identities = 12/27 (44%), Positives = 14/27 (51%), Gaps = 1/27 (3%)
Query: 93 LQIHMRTHTGDKPFRCTICQKAFTTKG 119
LQ+ R H FR I +AFT KG
Sbjct: 162 LQLPEREHAAQHRFRLAI-DRAFTVKG 187
>gnl|CDD|204841 pfam12171, zf-C2H2_jaz, Zinc-finger double-stranded RNA-binding.
This domain family is found in archaea and eukaryotes,
and is approximately 30 amino acids in length. The
mammalian members of this group occur multiple times
along the protein, joined by flexible linkers, and are
referred to as JAZ - dsRNA-binding ZF protein -
zinc-fingers. The JAZ proteins are expressed in all
tissues tested and localise in the nucleus,
particularly the nucleolus. JAZ preferentially binds to
double-stranded (ds) RNA or RNA/DNA hybrids rather than
DNA. In addition to binding double-stranded RNA, these
zinc-fingers are required for nucleolar localisation.
Length = 27
Score = 26.4 bits (59), Expect = 1.1
Identities = 8/23 (34%), Positives = 14/23 (60%)
Query: 18 KHLCHVCHKNFSSSSALQIHMRT 40
+ C C K F S +AL+ H+++
Sbjct: 1 QFYCVACDKYFKSENALENHLKS 23
Score = 26.4 bits (59), Expect = 1.1
Identities = 8/23 (34%), Positives = 14/23 (60%)
Query: 77 KHLCHVCHKNFSSSSALQIHMRT 99
+ C C K F S +AL+ H+++
Sbjct: 1 QFYCVACDKYFKSENALENHLKS 23
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 28.3 bits (63), Expect = 1.1
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 19 HLCHVCHKNFSSSSALQIHMRTHTGDKPFRCTICQKAFT 57
++C +C FSSS +L+ H+R K C +C K F
Sbjct: 74 YVCPLCLMPFSSSVSLKQHIRYTEHSK--VCPVCGKEFR 110
Score = 28.3 bits (63), Expect = 1.1
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 78 HLCHVCHKNFSSSSALQIHMRTHTGDKPFRCTICQKAFT 116
++C +C FSSS +L+ H+R K C +C K F
Sbjct: 74 YVCPLCLMPFSSSVSLKQHIRYTEHSK--VCPVCGKEFR 110
>gnl|CDD|227561 COG5236, COG5236, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 493
Score = 28.4 bits (63), Expect = 1.6
Identities = 24/100 (24%), Positives = 32/100 (32%), Gaps = 16/100 (16%)
Query: 24 CHKNFSSSSALQIHMRTHTGDKPFRCTIC---QKAFT------TKGNLKLIPNAVFNVAG 74
CH+ S L+ H + G C+ C +K F L+ N G
Sbjct: 159 CHRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEG 216
Query: 75 MPKH-LCHVCHKNFSSSSALQIHMRTHTGDKPFRCTICQK 113
H LC C F L+ H R + C IC
Sbjct: 217 FKGHPLCIFCKIYFYDDDELRRHCR----LRHEACHICDM 252
>gnl|CDD|177808 PLN00415, PLN00415, 3-ketoacyl-CoA synthase.
Length = 466
Score = 28.5 bits (63), Expect = 1.7
Identities = 17/50 (34%), Positives = 22/50 (44%), Gaps = 2/50 (4%)
Query: 2 RGKLIPNAVFNVAGMPKHLCHVCHKNFSSSSALQIHMRTHTG--DKPFRC 49
R L+PN +F V G L + S L +RTH G DK + C
Sbjct: 236 RSMLVPNCLFRVGGAAVMLSNRSQDRVRSKYELTHIVRTHKGSSDKHYTC 285
Score = 27.0 bits (59), Expect = 5.4
Identities = 20/74 (27%), Positives = 31/74 (41%), Gaps = 3/74 (4%)
Query: 64 LIPNAVFNVAGMPKHLCHVCHKNFSSSSALQIHMRTHTGDKPFRCTICQKAFTTKGNLKV 123
L+PN +F V G L + S L +RTH G T ++ +KG + V
Sbjct: 239 LVPNCLFRVGGAAVMLSNRSQDRVRSKYELTHIVRTHKGSSDKHYTCAEQKEDSKGIVGV 298
Query: 124 ---REIEINIGSQL 134
+E+ + G L
Sbjct: 299 ALSKELTVVAGDTL 312
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 28.5 bits (63), Expect = 1.7
Identities = 25/101 (24%), Positives = 39/101 (38%), Gaps = 8/101 (7%)
Query: 24 CHKNFSSSSALQIHMRTHTGDKPFRC--TICQKAFTTKGNLKLIPNAVFNV--AGMPKHL 79
C K FS + AL+ H+ HT P + F+ N + + K
Sbjct: 329 CGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSE 388
Query: 80 C--HVCHKNFSSSSALQIHMRTHTGDKP--FRCTICQKAFT 116
+ C +NF S L +H+ TH +P + C K+F
Sbjct: 389 TLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFN 429
Score = 28.1 bits (62), Expect = 2.5
Identities = 22/93 (23%), Positives = 32/93 (34%), Gaps = 29/93 (31%)
Query: 19 HLCHVCHKNFSSSSALQIHMRTHTGDKPFRCTICQKAFTTKGNLKLIPNAVFNVAGMPKH 78
C C +FS L H+R+HTG+KP +C+
Sbjct: 34 DSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSG------------------------- 68
Query: 79 LCHVCHKNFSSSSALQIHMRTHTGDKPFRCTIC 111
C K+FS L H+RTH + +
Sbjct: 69 ----CDKSFSRPLELSRHLRTHHNNPSDLNSKS 97
>gnl|CDD|216370 pfam01218, Coprogen_oxidas, Coproporphyrinogen III oxidase.
Length = 296
Score = 27.5 bits (62), Expect = 2.9
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 131 GSQLPKKAQQHIGAVEGKSFQA 152
G+ LP A + G+ FQA
Sbjct: 63 GTLLPASATAMRPELAGRPFQA 84
>gnl|CDD|205121 pfam12874, zf-met, Zinc-finger of C2H2 type. This is a
zinc-finger domain with the CxxCx(12)Hx(6)H motif,
found in multiple copies in a wide range of proteins
from plants to metazoans. Some member proteins,
particularly those from plants, are annotated as being
RNA-binding.
Length = 25
Score = 24.8 bits (55), Expect = 3.4
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 21 CHVCHKNFSSSSALQIHMR 39
C +C+ F+S S L+ H+R
Sbjct: 3 CELCNVTFTSESQLKSHLR 21
Score = 24.8 bits (55), Expect = 3.4
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 80 CHVCHKNFSSSSALQIHMR 98
C +C+ F+S S L+ H+R
Sbjct: 3 CELCNVTFTSESQLKSHLR 21
>gnl|CDD|168292 PRK05906, PRK05906, lipid A biosynthesis lauroyl acyltransferase;
Provisional.
Length = 454
Score = 26.3 bits (58), Expect = 8.2
Identities = 12/48 (25%), Positives = 27/48 (56%), Gaps = 7/48 (14%)
Query: 54 KAFTTKGNLKLIPN---AVFNVAGMPKHLCHVCHKNFSSSSALQIHMR 98
+ F+++ L +PN A+F++ G+ + L K+F + + +I+ R
Sbjct: 380 QFFSSEEELLALPNSFPAIFDLFGLSRKL----RKHFKRTGSRKIYTR 423
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
0.323 0.133 0.419
Gapped
Lambda K H
0.267 0.0759 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,294,885
Number of extensions: 580354
Number of successful extensions: 783
Number of sequences better than 10.0: 1
Number of HSP's gapped: 774
Number of HSP's successfully gapped: 70
Length of query: 159
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 70
Effective length of database: 6,990,096
Effective search space: 489306720
Effective search space used: 489306720
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (24.9 bits)