RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11318
(263 letters)
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 30.8 bits (70), Expect = 0.046
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 130 DLRRHMKLHFNGKRYHCTQCSKFYIQ 155
+LRRHM+ H K Y C C K +
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 27.4 bits (61), Expect = 0.66
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 18 LNKHMDIHKGVR-YQCEECPKDFST 41
L +HM H G + Y+C C K FS+
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKSFSS 26
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 28.2 bits (63), Expect = 0.38
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 144 YHCTQCSKFYIQESDLMEHMAVH 166
Y C +C K + +S L EHM H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 25.9 bits (57), Expect = 2.2
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 3 YYCNACSKNFSAKDTLNKHMDIH 25
Y C C K F +K L +HM H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 25.5 bits (56), Expect = 3.2
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 86 HPCSECPKTFASRHSLKNHILK 107
+ C EC K F S+ +L+ H+
Sbjct: 1 YRCPECGKVFKSKSALREHMRT 22
Score = 24.3 bits (53), Expect = 7.4
Identities = 10/25 (40%), Positives = 14/25 (56%), Gaps = 2/25 (8%)
Query: 114 YQCNECSTSKDYLTKRDLRRHMKLH 138
Y+C EC + +K LR HM+ H
Sbjct: 1 YRCPECGKV--FKSKSALREHMRTH 23
Score = 24.3 bits (53), Expect = 9.7
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 30 YQCEECPKDFSTRKYLTQHQ 49
Y+C EC K F ++ L +H
Sbjct: 1 YRCPECGKVFKSKSALREHM 20
>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 = 27.6 bits (61), Expect = 0.67
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 86 HPCSECPKTFASRHSLKNHILKIH 109
C C K+F+S+ +LK H+ K H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKHH 24
Score = 24.9 bits (54), Expect = 5.4
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 30 YQCEECPKDFSTRKYLTQHQNAIH 53
++C C K FS++ L +H H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKHH 24
>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 = 1.6
Identities = 11/24 (45%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 88 CSECPKTFASRHSLKNHIL-KIHK 110
C C K F S ++L+NH+ K HK
Sbjct: 4 CVACDKYFKSENALENHLKSKKHK 27
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 29.7 bits (66), Expect = 1.8
Identities = 33/176 (18%), Positives = 55/176 (31%), Gaps = 21/176 (11%)
Query: 5 CNACSKNFSAKDTLNKHM-----DIHKGVRYQCEE--CPKDFSTRKYLTQHQNAIHRGIR 57
C+ +FS L +H+ + C C K FS L +H +H I
Sbjct: 292 SKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHIL-LHTSIS 350
Query: 58 FQCNKCFRAYKLKKDLLA---HTMLEHFGIRHP-------CSECPKTFASRHSLKNHILK 107
K + LL L+ + + C + F +L HI+
Sbjct: 351 PAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIIT 410
Query: 108 IHKAVLYQCNECSTSKDYLTKR-DLRRHMKLHFNGKRYHCTQCSKFYIQESDLMEH 162
H + + + +L H K+H N K + ++ DL H
Sbjct: 411 -HLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTN-HAPLLCSILKSFRRDLDLSNH 464
>gnl|CDD|221320 pfam11927, DUF3445, Protein of unknown function (DUF3445). This
family of proteins are functionally uncharacterized.
This protein is found in bacteria and eukaryotes.
Proteins in this family are typically between 264 to 418
amino acids in length. This protein has a conserved RLP
sequence motif. This protein has two completely
conserved R residues that may be functionally important.
Length = 245
Score = 29.1 bits (66), Expect = 1.8
Identities = 11/60 (18%), Positives = 21/60 (35%), Gaps = 10/60 (16%)
Query: 93 KTFASRHSLKNHILKIHKAVLYQCNECS---------TSKDYLTKRDLRRHMKLHFNGKR 143
T+A R + + +L H + + +YL R ++ L +G R
Sbjct: 16 NTYADRMAERARLLAEHPDRVLALLPEAEPAAWELLELVLEYLPARY-PQYFSLTRDGDR 74
>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 = 25.8 bits (57), Expect = 2.4
Identities = 7/20 (35%), Positives = 13/20 (65%)
Query: 88 CSECPKTFASRHSLKNHILK 107
C +C K+F+ + +LK H+
Sbjct: 2 CPDCGKSFSRKSNLKRHLRT 21
Score = 25.4 bits (56), Expect = 3.6
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 31 QCEECPKDFSTRKYLTQHQN 50
+C +C K FS + L +H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLR 20
Score = 25.4 bits (56), Expect = 3.8
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 5 CNACSKNFSAKDTLNKHMDIH 25
C C K+FS K L +H+ H
Sbjct: 2 CPDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|239075 cd02335, ZZ_ADA2, Zinc finger, ZZ type. Zinc finger present in
ADA2, a putative transcriptional adaptor, and related
proteins. The ZZ motif coordinates two zinc ions and
most likely participates in ligand binding or molecular
scaffolding.
Length = 49
Score = 26.1 bits (58), Expect = 3.6
Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 18/54 (33%)
Query: 3 YYCNACSKNFSAKDTLNKHMDIHKGVRYQCEECP------KDFSTRKYLTQHQN 50
Y+C+ CSK DI +R +C ECP + FS + +H+N
Sbjct: 1 YHCDYCSK------------DITGTIRIKCAECPDFDLCLECFSAGAEIGKHRN 42
>gnl|CDD|227561 COG5236, COG5236, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 493
Score = 28.1 bits (62), Expect = 5.6
Identities = 21/88 (23%), Positives = 31/88 (35%), Gaps = 13/88 (14%)
Query: 87 PCSECPKTFASRHSLKNHILKIHKAVLYQCNECSTSK-------DYLTKRDLRRHMKLHF 139
P S+C + S LK H H VL C+EC +K LR H
Sbjct: 155 PKSKCHRRCGSLKELKKHYKAQHGFVL--CSECIGNKKDFWNEIRLFRSSTLRDHKNGGL 212
Query: 140 NGKRYH----CTQCSKFYIQESDLMEHM 163
+ + C C ++ + +L H
Sbjct: 213 EEEGFKGHPLCIFCKIYFYDDDELRRHC 240
>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 = 27.8 bits (62), Expect = 6.6
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 30 YQCEECPKDFSTRKYLTQHQNAIHR 54
Y C C +FS+ L +HQ H
Sbjct: 74 YVCNVCMAEFSSMDQLAEHQRTTHS 98
>gnl|CDD|187796 cd09665, Cas8a1_I-A, CRISPR/Cas system-associated protein Cas8a1.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Large proteins, some contain Zn-finger domain; signature
gene for I-A subtype; also known as CXXC_CXXC family.
Length = 334
Score = 27.5 bits (61), Expect = 6.9
Identities = 17/69 (24%), Positives = 28/69 (40%), Gaps = 1/69 (1%)
Query: 92 PKTFASRHSLKNHILKIHKAVLYQCNECSTSKDYLTKRDLRRHMKLHFNGKRYHCTQCSK 151
K + S K H KI K V + S L L+ +K + +Y+ T
Sbjct: 160 QKNWESIVYRKEHQDKIKKEVDEKILGNSLYFKLLNGSILKYFIK-NAKRSKYYDTNLLP 218
Query: 152 FYIQESDLM 160
+Y+ E +L+
Sbjct: 219 YYLTELNLL 227
>gnl|CDD|221734 pfam12722, Hid1, High-temperature-induced dauer-formation protein.
Hid1 (high-temperature-induced dauer-formation protein
1) represents proteins of approximately 800 residues
long and is conserved from fungi to humans. It contains
up to seven potential transmembrane domains separated by
regions of low complexity. Functionally it might be
involved in vesicle secretion or be an inter-cellular
signalling protein or be a novel insulin receptor.
Length = 813
Score = 27.7 bits (62), Expect = 7.9
Identities = 9/17 (52%), Positives = 9/17 (52%)
Query: 58 FQCNKCFRAYKLKKDLL 74
QCNK FR Y K L
Sbjct: 383 IQCNKRFRNYVADKRAL 399
>gnl|CDD|178429 PLN02835, PLN02835, oxidoreductase.
Length = 539
Score = 27.6 bits (61), Expect = 8.2
Identities = 23/70 (32%), Positives = 29/70 (41%), Gaps = 1/70 (1%)
Query: 191 VGFPMKTDHWSNQNRTDLRGSGIAPSWI-SNGIGATTPPSVMGKTKLFRAPDPRFRNALR 249
VG KT H + Q R D P + NG +T GKT +FR + +L
Sbjct: 167 VGDWYKTSHKTLQQRLDSGKVLPFPDGVLINGQTQSTFSGDQGKTYMFRISNVGLSTSLN 226
Query: 250 FRISVPKPKL 259
FRI KL
Sbjct: 227 FRIQGHTMKL 236
>gnl|CDD|172627 PRK14138, PRK14138, NAD-dependent deacetylase; Provisional.
Length = 244
Score = 27.1 bits (60), Expect = 8.3
Identities = 11/33 (33%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 135 MKLHFNGKRYHCTQCSKFYIQESDLMEHMAVHS 167
++LH N + Y+C +C K Y E D++E +
Sbjct: 111 IELHGNVEEYYCVRCGKRYTVE-DVIEKLEKSD 142
Score = 27.1 bits (60), Expect = 9.3
Identities = 10/34 (29%), Positives = 18/34 (52%), Gaps = 3/34 (8%)
Query: 2 RYYCNACSKNFSAKDTLNKHMDIHKGVRYQCEEC 35
YYC C K ++ +D + K + K +C++C
Sbjct: 119 EYYCVRCGKRYTVEDVIEK---LEKSDVPRCDDC 149
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
0.324 0.136 0.437
Gapped
Lambda K H
0.267 0.0704 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,945,173
Number of extensions: 1163635
Number of successful extensions: 1408
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1398
Number of HSP's successfully gapped: 67
Length of query: 263
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 168
Effective length of database: 6,723,972
Effective search space: 1129627296
Effective search space used: 1129627296
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 58 (26.2 bits)