RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12834
(275 letters)
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 33.5 bits (77), Expect = 0.004
Identities = 14/26 (53%), Positives = 17/26 (65%)
Query: 85 NLEVHLAVHTGNRPFICRVCGKSFVR 110
NL H+ HTG +P+ C VCGKSF
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 33.5 bits (77), Expect = 0.005
Identities = 14/24 (58%), Positives = 17/24 (70%)
Query: 113 EVKDHERTHTGEKPYQCEFCGAQF 136
++ H RTHTGEKPY+C CG F
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSF 24
Score = 32.0 bits (73), Expect = 0.020
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 57 NLVQHEKTHSGSKDFVCTECGKAF 80
NL +H +TH+G K + C CGK+F
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSF 24
Score = 28.9 bits (65), Expect = 0.23
Identities = 12/27 (44%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 160 NLQSHKRATHFNDKRYPCTSCPKAFKR 186
NL+ H R TH +K Y C C K+F
Sbjct: 1 NLRRHMR-THTGEKPYKCPVCGKSFSS 26
Score = 28.1 bits (63), Expect = 0.39
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 218 HFKKHRRIHTGEKPYVCEVRLAVFYY 243
+ ++H R HTGEKPY C V F
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 27.7 bits (62), Expect = 0.59
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 1 MEDHLVSHTGARPYECKTCKKTFVS 25
+ H+ +HTG +PY+C C K+F S
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 27.4 bits (61), Expect = 0.74
Identities = 11/26 (42%), Positives = 17/26 (65%), Gaps = 1/26 (3%)
Query: 190 LDYHIKAAHTGERPYQCDICNATFIY 215
L H++ HTGE+PY+C +C +F
Sbjct: 2 LRRHMRT-HTGEKPYKCPVCGKSFSS 26
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 35.4 bits (81), Expect = 0.024
Identities = 36/162 (22%), Positives = 48/162 (29%), Gaps = 44/162 (27%)
Query: 13 PYECKTCKKTFVSKYTYKAHL--VTHTDRK-RPFSC--EKCDKSFYTQQNLVQHEKTHSG 67
P + K C +F HL V H+ +PFSC C K F L +H H+
Sbjct: 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTS 348
Query: 68 SKDFVCT-------------------------------------ECGKAFGTLRNLEVHL 90
C + F NL +H+
Sbjct: 349 ISPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHI 408
Query: 91 AVHTGNRP--FICRVCGKSFVRKAEVKDHERTHTGEKPYQCE 130
H RP C KSF R + H++ HT P C
Sbjct: 409 ITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPLLCS 450
Score = 34.7 bits (79), Expect = 0.053
Identities = 16/33 (48%), Positives = 18/33 (54%)
Query: 202 RPYQCDICNATFIYPEHFKKHRRIHTGEKPYVC 234
RP C C +F EH +H R HTGEKP C
Sbjct: 32 RPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQC 64
Score = 32.0 bits (72), Expect = 0.39
Identities = 21/59 (35%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 40 KRPFSCEKCDKSFYTQQNLVQHEKTHSGSKDFVCT--ECGKAFGTLRNLEVHLAVHTGN 96
RP SC C SF ++L +H ++H+G K C+ C K+F L HL H N
Sbjct: 31 PRPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHNN 89
Score = 30.4 bits (68), Expect = 1.2
Identities = 19/47 (40%), Positives = 22/47 (46%)
Query: 96 NRPFICRVCGKSFVRKAEVKDHERTHTGEKPYQCEFCGAQFRFKGSS 142
RP C C SF R + H R+HTGEKP QC + G F
Sbjct: 31 PRPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPL 77
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 33.2 bits (75), Expect = 0.13
Identities = 18/84 (21%), Positives = 32/84 (38%), Gaps = 12/84 (14%)
Query: 41 RPFSCE--KCDKSFYTQQNLVQHEKTHSGSKDFVCTECGKAFGTLRNLEVHLAVHTGNRP 98
+P+ C C+K Y QN +++ H + + E ++P
Sbjct: 348 KPYKCPVEGCNKK-YKNQNGLKYHMLHG--------HQNQKLHENPSPEKMNIFSAKDKP 398
Query: 99 FICRVCGKSFVRKAEVKDHERTHT 122
+ C VC K + +K H R H+
Sbjct: 399 YRCEVCDKRYKNLNGLKYH-RKHS 421
Score = 32.8 bits (74), Expect = 0.20
Identities = 23/94 (24%), Positives = 30/94 (31%), Gaps = 35/94 (37%)
Query: 123 GEKPYQCEFCGAQFRFKGSSGTESIDKLLLCFLSQRSNLQSHKRATHFN----------- 171
KPY+C G ++K +G L+ H H N
Sbjct: 346 DGKPYKCPVEGCNKKYKNQNG-----------------LKYHMLHGHQNQKLHENPSPEK 388
Query: 172 -------DKRYPCTSCPKAFKRRRLLDYHIKAAH 198
DK Y C C K +K L YH K +H
Sbjct: 389 MNIFSAKDKPYRCEVCDKRYKNLNGLKYHRKHSH 422
Score = 29.7 bits (66), Expect = 1.6
Identities = 16/61 (26%), Positives = 21/61 (34%), Gaps = 10/61 (16%)
Query: 176 PCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNATFIYPEHFKKHRRIHTGEKPYVCE 235
P C K +K + L YH+ H N +K +KPY CE
Sbjct: 353 PVEGCNKKYKNQNGLKYHMLHGH----------QNQKLHENPSPEKMNIFSAKDKPYRCE 402
Query: 236 V 236
V
Sbjct: 403 V 403
>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 = 28.5 bits (64), Expect = 0.31
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 44 SCEKCDKSFYTQQNLVQHEKTH 65
C C KSF + NL +H +TH
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 26.9 bits (60), Expect = 1.1
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 100 ICRVCGKSFVRKAEVKDHERTH 121
C CGKSF RK+ +K H RTH
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 26.5 bits (59), Expect = 1.5
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 15 ECKTCKKTFVSKYTYKAHLVTH 36
+C C K+F K K HL TH
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 25.8 bits (57), Expect = 2.3
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 205 QCDICNATFIYPEHFKKHRRIH 226
+C C +F + K+H R H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 25.8 bits (57), Expect = 2.3
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 72 VCTECGKAFGTLRNLEVHLAVH 93
C +CGK+F NL+ HL H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 28.2 bits (63), Expect = 0.43
Identities = 8/23 (34%), Positives = 14/23 (60%)
Query: 43 FSCEKCDKSFYTQQNLVQHEKTH 65
+ C +C K F ++ L +H +TH
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 27.4 bits (61), Expect = 0.61
Identities = 7/23 (30%), Positives = 10/23 (43%)
Query: 204 YQCDICNATFIYPEHFKKHRRIH 226
Y+C C F ++H R H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 26.7 bits (59), Expect = 1.1
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 71 FVCTECGKAFGTLRNLEVHLAVH 93
+ C ECGK F + L H+ H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 26.3 bits (58), Expect = 1.8
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 99 FICRVCGKSFVRKAEVKDHERTH 121
+ C CGK F K+ +++H RTH
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 25.9 bits (57), Expect = 2.7
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 14 YECKTCKKTFVSKYTYKAHLVTH 36
Y C C K F SK + H+ TH
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
>gnl|CDD|215124 PLN02195, PLN02195, cellulose synthase A.
Length = 977
Score = 31.9 bits (72), Expect = 0.48
Identities = 15/68 (22%), Positives = 24/68 (35%), Gaps = 14/68 (20%)
Query: 72 VCTECGKAFGTLRNLEVHLAVHTGNRPF--------------ICRVCGKSFVRKAEVKDH 117
+C CG+ G N E +A H + P +C CG + + D
Sbjct: 8 ICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYDAENVFDDV 67
Query: 118 ERTHTGEK 125
E H+ +
Sbjct: 68 ETKHSRNQ 75
>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 = 27.2 bits (61), Expect = 0.97
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 42 PFSCEKCDKSFYTQQNLVQHEKT 64
F C CDK F ++ L H K+
Sbjct: 1 QFYCVACDKYFKSENALENHLKS 23
Score = 26.0 bits (58), Expect = 2.2
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 13 PYECKTCKKTFVSKYTYKAHL 33
+ C C K F S+ + HL
Sbjct: 1 QFYCVACDKYFKSENALENHL 21
>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 = 26.7 bits (60), Expect = 1.4
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 14 YECKTCKKTFVSKYTYKAHL 33
+ C+ C TF S+ K+HL
Sbjct: 1 FYCELCNVTFTSESQLKSHL 20
>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 = 28.7 bits (65), Expect = 1.5
Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 4/29 (13%)
Query: 68 SKDF-VCTECGKAFGTLRNLEVHLAVHTG 95
+ D+ +C E GK F TL+ HL H G
Sbjct: 67 TPDYIICLEDGKKFKTLKR---HLRTHHG 92
>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 = 29.4 bits (66), Expect = 2.6
Identities = 14/40 (35%), Positives = 15/40 (37%), Gaps = 1/40 (2%)
Query: 159 SNLQSHKRATHFNDKRYPCTSCPKAFKRRRLLDYHIKAAH 198
S QS K AT N Y C C F L H + H
Sbjct: 59 SPPQSKK-ATPINPSSYVCNVCMAEFSSMDQLAEHQRTTH 97
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 27.9 bits (62), Expect = 3.1
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 2/47 (4%)
Query: 71 FVCTECGKAFGTLRNLEVHLAVHTGNRPFICRVCGKSFVRKAEVKDH 117
+VC C F + +L+ H+ ++ +C VCGK F DH
Sbjct: 74 YVCPLCLMPFSSSVSLKQHIRYTEHSK--VCPVCGKEFRNTDSTLDH 118
>gnl|CDD|224508 COG1592, COG1592, Rubrerythrin [Energy production and conversion].
Length = 166
Score = 28.1 bits (63), Expect = 4.0
Identities = 13/40 (32%), Positives = 16/40 (40%), Gaps = 13/40 (32%)
Query: 95 GNRPFICRVCGKSFVRKAEVKDHERTHTGEKPYQCEFCGA 134
+ ++C VCG TH GE P C CGA
Sbjct: 131 EGKVWVCPVCG-------------YTHEGEAPEVCPICGA 157
>gnl|CDD|238698 cd01407, SIR2-fam, SIR2 family of proteins includes silent
information regulator 2 (Sir2) enzymes which catalyze
NAD+-dependent protein/histone deacetylation, where the
acetyl group from the lysine epsilon-amino group is
transferred to the ADP-ribose moiety of NAD+, producing
nicotinamide and the novel metabolite
O-acetyl-ADP-ribose. Sir2 proteins, also known as
sirtuins, are found in all eukaryotes and many archaea
and prokaryotes and have been shown to regulate gene
silencing, DNA repair, metabolic enzymes, and life span.
The most-studied function, gene silencing, involves the
inactivation of chromosome domains containing key
regulatory genes by packaging them into a specialized
chromatin structure that is inaccessible to DNA-binding
proteins. The oligomerization state of Sir2 appears to
be organism-dependent, sometimes occurring as a monomer
and sometimes as a multimer.
Length = 218
Score = 27.9 bits (63), Expect = 4.5
Identities = 12/38 (31%), Positives = 16/38 (42%), Gaps = 4/38 (10%)
Query: 100 ICRVCGKSFVRKAEVKDHERTHTGEKPYQCEFCGAQFR 137
C CGK + R D +R E+ +C CG R
Sbjct: 111 RCTKCGKEYPRDELQADIDR----EEVPRCPKCGGLLR 144
>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 = 24.9 bits (54), Expect = 4.9
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 99 FICRVCGKSFVRKAEVKDHERTH 121
F C +CGKSF K +K H R H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
Score = 24.5 bits (53), Expect = 8.9
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 204 YQCDICNATFIYPEHFKKHRRIH 226
++C +C +F + K+H R H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
>gnl|CDD|206083 pfam13912, zf-C2H2_6, C2H2-type zinc finger.
Length = 27
Score = 25.3 bits (56), Expect = 4.9
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 43 FSCEKCDKSFYTQQNLVQHEKTH 65
+C C K+F + Q L H+K+H
Sbjct: 2 HTCGVCGKTFSSLQALGGHKKSH 24
Score = 24.5 bits (54), Expect = 8.6
Identities = 9/23 (39%), Positives = 11/23 (47%)
Query: 71 FVCTECGKAFGTLRNLEVHLAVH 93
C CGK F +L+ L H H
Sbjct: 2 HTCGVCGKTFSSLQALGGHKKSH 24
>gnl|CDD|214336 CHL00018, rpoC1, RNA polymerase beta' subunit.
Length = 663
Score = 27.6 bits (62), Expect = 8.3
Identities = 13/37 (35%), Positives = 14/37 (37%), Gaps = 10/37 (27%)
Query: 100 ICRVCGKSFVRKAEVKDHERTHTGEKPYQCEFCGAQF 136
IC CG V E E P CE CG +F
Sbjct: 68 ICA-CGNYRVIGDE---------KEDPKFCEQCGVEF 94
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
0.326 0.137 0.445
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: 13,254,643
Number of extensions: 1161056
Number of successful extensions: 1369
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1354
Number of HSP's successfully gapped: 89
Length of query: 275
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 179
Effective length of database: 6,679,618
Effective search space: 1195651622
Effective search space used: 1195651622
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 (21.7 bits)
S2: 58 (26.1 bits)