RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4019
(109 letters)
>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 = 0.21
Identities = 6/26 (23%), Positives = 14/26 (53%), Gaps = 2/26 (7%)
Query: 16 YVCGEENCTKRYTDPSSLRKHIKTVH 41
+ C C K ++ +L++H++ H
Sbjct: 1 FKC--PLCGKSFSSKDALKRHLRKHH 24
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 26.3 bits (58), Expect = 0.55
Identities = 9/24 (37%), Positives = 14/24 (58%), Gaps = 2/24 (8%)
Query: 16 YVCGEENCTKRYTDPSSLRKHIKT 39
Y C C K + S+LR+H++T
Sbjct: 1 YRC--PECGKVFKSKSALREHMRT 22
>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 = 26.2 bits (58), Expect = 0.59
Identities = 6/19 (31%), Positives = 14/19 (73%)
Query: 21 ENCTKRYTDPSSLRKHIKT 39
+C K ++ S+L++H++T
Sbjct: 3 PDCGKSFSRKSNLKRHLRT 21
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 27.8 bits (61), Expect = 1.4
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 5/47 (10%)
Query: 13 QKPYVCGEENCTKRYTDPSSLRKHIKTVHGEHCYANKKHKGMPSKDK 59
KPY C E C K+Y + + L+ H+ H + N+K PS +K
Sbjct: 347 GKPYKCPVEGCNKKYKNQNGLKYHML-----HGHQNQKLHENPSPEK 388
Score = 26.6 bits (58), Expect = 2.8
Identities = 13/28 (46%), Positives = 16/28 (57%), Gaps = 2/28 (7%)
Query: 14 KPYVCGEENCTKRYTDPSSLRKHIKTVH 41
KPY C E C KRY + + L+ H K H
Sbjct: 397 KPYRC--EVCDKRYKNLNGLKYHRKHSH 422
>gnl|CDD|222450 pfam13909, zf-H2C2_5, C2H2-type zinc-finger domain.
Length = 24
Score = 24.1 bits (53), Expect = 3.9
Identities = 6/15 (40%), Positives = 9/15 (60%)
Query: 28 TDPSSLRKHIKTVHG 42
+ P L +H+K HG
Sbjct: 10 STPKKLERHLKLHHG 24
>gnl|CDD|216841 pfam02006, DUF137, Protein of unknown function DUF137. This family
of archaeal proteins has no known function.
Length = 178
Score = 25.6 bits (57), Expect = 5.4
Identities = 7/16 (43%), Positives = 14/16 (87%)
Query: 88 KSEVSVDLDPLSPSSR 103
K+ +++DL+PLS ++R
Sbjct: 111 KTVIAIDLNPLSRTAR 126
>gnl|CDD|202190 pfam02288, Dehydratase_MU, Dehydratase medium subunit. This family
contains the medium subunit of the trimeric diol
dehydratases and glycerol dehydratases. These enzymes
are produced by some enterobacteria in response to
growth substances.
Length = 112
Score = 25.2 bits (56), Expect = 5.6
Identities = 13/44 (29%), Positives = 19/44 (43%), Gaps = 10/44 (22%)
Query: 67 PSRSDDMPLSAKTASVSSPS-----IKSEVSV-----DLDPLSP 100
+ D+ A A+ S I+S+ +V DL PLSP
Sbjct: 38 VFDTSDVVFLAHQAAKLSGLGVGIGIQSKGTVVIHQKDLPPLSP 81
>gnl|CDD|215349 PLN02647, PLN02647, acyl-CoA thioesterase.
Length = 437
Score = 25.5 bits (56), Expect = 6.1
Identities = 16/45 (35%), Positives = 19/45 (42%), Gaps = 6/45 (13%)
Query: 58 DKDGLGGA------SPSRSDDMPLSAKTASVSSPSIKSEVSVDLD 96
D D L G S S PL TASV +K + VD+D
Sbjct: 119 DLDALAGTISVKHCSDDDSTTRPLLLVTASVDKIVLKKPIRVDVD 163
>gnl|CDD|222655 pfam14291, DUF4371, Domain of unknown function (DUF4371).
Length = 179
Score = 25.3 bits (56), Expect = 6.3
Identities = 6/29 (20%), Positives = 11/29 (37%)
Query: 22 NCTKRYTDPSSLRKHIKTVHGEHCYANKK 50
+ + KH+ V+ H A +K
Sbjct: 6 EGFRNWHKKERFDKHVGKVNSAHNNAQEK 34
>gnl|CDD|225384 COG2828, COG2828, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 378
Score = 25.5 bits (56), Expect = 6.3
Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 11/44 (25%)
Query: 54 MPSKDK---DGLGGASPSRSDDMPLSAKTASVSSPSIKSEVSVD 94
M S D DG+GG + S K A + S S + + VD
Sbjct: 41 MGSPDPYQIDGIGGGNSLTS-------KVAII-SKSSRPDHDVD 76
>gnl|CDD|184308 PRK13761, PRK13761, hypothetical protein; Provisional.
Length = 248
Score = 25.5 bits (57), Expect = 6.7
Identities = 7/16 (43%), Positives = 14/16 (87%)
Query: 88 KSEVSVDLDPLSPSSR 103
K+ +++DL+PLS ++R
Sbjct: 172 KTVIAIDLNPLSRTAR 187
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
0.308 0.125 0.358
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: 4,998,975
Number of extensions: 378306
Number of successful extensions: 195
Number of sequences better than 10.0: 1
Number of HSP's gapped: 195
Number of HSP's successfully gapped: 20
Length of query: 109
Length of database: 10,937,602
Length adjustment: 74
Effective length of query: 35
Effective length of database: 7,655,406
Effective search space: 267939210
Effective search space used: 267939210
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 53 (24.3 bits)