RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8966
(175 letters)
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 47.8 bits (113), Expect = 7e-07
Identities = 26/80 (32%), Positives = 32/80 (40%), Gaps = 24/80 (30%)
Query: 8 GIRPYKCPVEYCEKAFSTQYSRKAHIRTH--------------------TGEKPYRCAHE 47
+PYKCPVE C K + Q K H H +KPYRC E
Sbjct: 346 DGKPYKCPVEGCNKKYKNQNGLKYH-MLHGHQNQKLHENPSPEKMNIFSAKDKPYRC--E 402
Query: 48 FCSKSFKTSGDLQKHVRTHT 67
C K +K L+ H R H+
Sbjct: 403 VCDKRYKNLNGLKYH-RKHS 421
Score = 47.8 bits (113), Expect = 7e-07
Identities = 26/80 (32%), Positives = 32/80 (40%), Gaps = 24/80 (30%)
Query: 94 GIRPYKCPVEYCEKAFSTQYSRKAHIRTH--------------------TGEKPYRCAHE 133
+PYKCPVE C K + Q K H H +KPYRC E
Sbjct: 346 DGKPYKCPVEGCNKKYKNQNGLKYH-MLHGHQNQKLHENPSPEKMNIFSAKDKPYRC--E 402
Query: 134 FCSKSFKTSGDLQKHVRTHT 153
C K +K L+ H R H+
Sbjct: 403 VCDKRYKNLNGLKYH-RKHS 421
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 44.3 bits (104), Expect = 1e-05
Identities = 37/150 (24%), Positives = 53/150 (35%), Gaps = 27/150 (18%)
Query: 7 SGIRPYKCPVEYCEKAFSTQYSRKAHIRTHTGEKPYRCAHEFCSKSFKTSGDLQKHVRTH 66
++P+ CP C K FS + K HI HT P +
Sbjct: 317 ESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKE---------------------- 354
Query: 67 TGKYTPGPGIDSRLIVREDFVHLRIHSGIRPYK---CPVEYCEKAFSTQYSRKAHIRTHT 123
K S L+ E L+ + ++ K C + F + HI TH
Sbjct: 355 --KLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHL 412
Query: 124 GEKPYRCAHEFCSKSFKTSGDLQKHVRTHT 153
+PY C + CSKSF +L H + HT
Sbjct: 413 SFRPYNCKNPPCSKSFNRHYNLIPHKKIHT 442
Score = 40.8 bits (95), Expect = 2e-04
Identities = 26/58 (44%), Positives = 34/58 (58%), Gaps = 2/58 (3%)
Query: 10 RPYKCPVEYCEKAFSTQYSRKAHIRTHTGEKPYRCAHEFCSKSFKTSGDLQKHVRTHT 67
RP CP C +FS HIR+HTGEKP +C++ C KSF +L +H+RTH
Sbjct: 32 RPDSCP--NCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHH 87
Score = 40.8 bits (95), Expect = 2e-04
Identities = 26/58 (44%), Positives = 34/58 (58%), Gaps = 2/58 (3%)
Query: 96 RPYKCPVEYCEKAFSTQYSRKAHIRTHTGEKPYRCAHEFCSKSFKTSGDLQKHVRTHT 153
RP CP C +FS HIR+HTGEKP +C++ C KSF +L +H+RTH
Sbjct: 32 RPDSCP--NCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHH 87
Score = 36.2 bits (83), Expect = 0.006
Identities = 16/58 (27%), Positives = 25/58 (43%)
Query: 2 HLRIHSGIRPYKCPVEYCEKAFSTQYSRKAHIRTHTGEKPYRCAHEFCSKSFKTSGDL 59
H+R H+G +P +C C+K+FS H+RTH + + K S
Sbjct: 52 HIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHNNPSDLNSKSLPLSNSKASSSS 109
Score = 36.2 bits (83), Expect = 0.006
Identities = 16/58 (27%), Positives = 25/58 (43%)
Query: 88 HLRIHSGIRPYKCPVEYCEKAFSTQYSRKAHIRTHTGEKPYRCAHEFCSKSFKTSGDL 145
H+R H+G +P +C C+K+FS H+RTH + + K S
Sbjct: 52 HIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHNNPSDLNSKSLPLSNSKASSSS 109
Score = 32.4 bits (73), Expect = 0.10
Identities = 27/122 (22%), Positives = 41/122 (33%), Gaps = 32/122 (26%)
Query: 42 YRCAHEFCSKSFKTSGDLQKHVRT--HTGKYTPGPGIDSRLIVREDFVHLRIHSGIRPYK 99
+ C+ SF S L +H+R+ H+G ++P+
Sbjct: 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSG------------------------ESLKPFS 323
Query: 100 CPVEYCEKAFSTQYSRKAHIRTHTGEKPYRCAHEFCSKSF------KTSGDLQKHVRTHT 153
CP C K FS + K HI HT P + S F + LQ++
Sbjct: 324 CPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKN 383
Query: 154 GK 155
K
Sbjct: 384 DK 385
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 31.6 bits (72), Expect = 0.013
Identities = 15/28 (53%), Positives = 20/28 (71%), Gaps = 2/28 (7%)
Query: 28 SRKAHIRTHTGEKPYRCAHEFCSKSFKT 55
+ + H+RTHTGEKPY+C C KSF +
Sbjct: 1 NLRRHMRTHTGEKPYKC--PVCGKSFSS 26
Score = 31.6 bits (72), Expect = 0.013
Identities = 15/28 (53%), Positives = 20/28 (71%), Gaps = 2/28 (7%)
Query: 114 SRKAHIRTHTGEKPYRCAHEFCSKSFKT 141
+ + H+RTHTGEKPY+C C KSF +
Sbjct: 1 NLRRHMRTHTGEKPYKC--PVCGKSFSS 26
Score = 28.5 bits (64), Expect = 0.18
Identities = 14/25 (56%), Positives = 19/25 (76%), Gaps = 2/25 (8%)
Query: 1 VHLRIHSGIRPYKCPVEYCEKAFST 25
H+R H+G +PYKCPV C K+FS+
Sbjct: 4 RHMRTHTGEKPYKCPV--CGKSFSS 26
Score = 28.5 bits (64), Expect = 0.18
Identities = 14/25 (56%), Positives = 19/25 (76%), Gaps = 2/25 (8%)
Query: 87 VHLRIHSGIRPYKCPVEYCEKAFST 111
H+R H+G +PYKCPV C K+FS+
Sbjct: 4 RHMRTHTGEKPYKCPV--CGKSFSS 26
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 26.7 bits (59), Expect = 0.97
Identities = 12/25 (48%), Positives = 16/25 (64%), Gaps = 2/25 (8%)
Query: 42 YRCAHEFCSKSFKTSGDLQKHVRTH 66
YRC C K FK+ L++H+RTH
Sbjct: 1 YRC--PECGKVFKSKSALREHMRTH 23
Score = 26.7 bits (59), Expect = 0.97
Identities = 12/25 (48%), Positives = 16/25 (64%), Gaps = 2/25 (8%)
Query: 128 YRCAHEFCSKSFKTSGDLQKHVRTH 152
YRC C K FK+ L++H+RTH
Sbjct: 1 YRC--PECGKVFKSKSALREHMRTH 23
>gnl|CDD|226903 COG4520, LipA, Surface antigen [Cell envelope biogenesis, outer
membrane].
Length = 136
Score = 28.6 bits (64), Expect = 1.1
Identities = 10/41 (24%), Positives = 15/41 (36%), Gaps = 7/41 (17%)
Query: 40 KPYRCAHEFC---SKSFKTSGDLQK----HVRTHTGKYTPG 73
+PY+ + C S + G Q R G +TP
Sbjct: 95 QPYQVGSQNCRQYSHTVTIGGHQQTARGTACRNPDGSWTPL 135
>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 = 1.6
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 47 EFCSKSFKTSGDLQKHVRTH 66
C KSF +L++H+RTH
Sbjct: 3 PDCGKSFSRKSNLKRHLRTH 22
Score = 25.8 bits (57), Expect = 1.6
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 133 EFCSKSFKTSGDLQKHVRTH 152
C KSF +L++H+RTH
Sbjct: 3 PDCGKSFSRKSNLKRHLRTH 22
Score = 24.2 bits (53), Expect = 6.2
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 17 EYCEKAFSTQYSRKAHIRTH 36
C K+FS + + K H+RTH
Sbjct: 3 PDCGKSFSRKSNLKRHLRTH 22
Score = 24.2 bits (53), Expect = 6.2
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 103 EYCEKAFSTQYSRKAHIRTH 122
C K+FS + + K H+RTH
Sbjct: 3 PDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|213988 cd07433, PHP_PolIIIA_DnaE1, Polymerase and Histidinol Phosphatase
domain of alpha-subunit of bacterial polymerase III
DnaE1. PolIIIAs that contain an N-terminal PHP domain
have been classified into four basic groups based on
genome composition, phylogenetic, and domain structural
analysis: polC, dnaE1, dnaE2, and dnaE3. The PHP (also
called histidinol phosphatase-2/HIS2) domain is
associated with several types of DNA polymerases, such
as PolIIIA and family X DNA polymerases, stand alone
histidinol phosphate phosphatases (HisPPases), and a
number of uncharacterized protein families. DNA
polymerase III holoenzyme is one of the five
eubacterial DNA polymerases that are responsible for
the replication of the DNA duplex. PolIIIA core enzyme
catalyzes the reaction for polymerizing both DNA
strands. dnaE1 is the longest compared to dnaE2 and
dnaE3. A unique motif was also identified in dnaE1 and
dnaE3 genes.
Length = 277
Score = 27.8 bits (63), Expect = 2.5
Identities = 7/9 (77%), Positives = 8/9 (88%)
Query: 85 DFVHLRIHS 93
FVHLR+HS
Sbjct: 1 SFVHLRVHS 9
>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 = 23.8 bits (51), Expect = 9.3
Identities = 9/25 (36%), Positives = 15/25 (60%), Gaps = 2/25 (8%)
Query: 42 YRCAHEFCSKSFKTSGDLQKHVRTH 66
++C C KSF + L++H+R H
Sbjct: 1 FKC--PLCGKSFSSKDALKRHLRKH 23
Score = 23.8 bits (51), Expect = 9.3
Identities = 9/25 (36%), Positives = 15/25 (60%), Gaps = 2/25 (8%)
Query: 128 YRCAHEFCSKSFKTSGDLQKHVRTH 152
++C C KSF + L++H+R H
Sbjct: 1 FKC--PLCGKSFSSKDALKRHLRKH 23
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 0.137 0.442
Gapped
Lambda K H
0.267 0.0655 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,464,153
Number of extensions: 710404
Number of successful extensions: 470
Number of sequences better than 10.0: 1
Number of HSP's gapped: 463
Number of HSP's successfully gapped: 41
Length of query: 175
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 85
Effective length of database: 6,945,742
Effective search space: 590388070
Effective search space used: 590388070
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: 41 (22.0 bits)
S2: 56 (25.5 bits)