RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2103
(203 letters)
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 38.1 bits (89), Expect = 8e-05
Identities = 13/26 (50%), Positives = 20/26 (76%)
Query: 8 HLKNHERIHSGERPYQCEVCEKTFAR 33
+L+ H R H+GE+PY+C VC K+F+
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 36.2 bits (84), Expect = 4e-04
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 37 LWNHRRIHTGEKPYRCSICGSAFNQ 61
L H R HTGEKPY+C +CG +F+
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 29.3 bits (66), Expect = 0.12
Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 5/30 (16%)
Query: 64 HLKNHAKVGKCKVHTGEKPHHCDICDVGFS 93
+L+ H + HTGEKP+ C +C FS
Sbjct: 1 NLRRH-----MRTHTGEKPYKCPVCGKSFS 25
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 35.1 bits (80), Expect = 0.020
Identities = 27/89 (30%), Positives = 36/89 (40%), Gaps = 7/89 (7%)
Query: 48 KPYRCSICGSAFNQATHLKNHAKVGKCKVHTGEKPHHC--DICDVGFSDKFALKRHRLIH 105
+P C C +F++ HL H + HTGEKP C CD FS L RH H
Sbjct: 32 RPDSCPNCTDSFSRLEHLTRHIRS-----HTGEKPSQCSYSGCDKSFSRPLELSRHLRTH 86
Query: 106 EKYARNSTVNQSHDSQTTPPQSTPTHSSS 134
+ S + S+ + SSS
Sbjct: 87 HNNPSDLNSKSLPLSNSKASSSSLSSSSS 115
Score = 31.2 bits (70), Expect = 0.37
Identities = 22/63 (34%), Positives = 28/63 (44%), Gaps = 2/63 (3%)
Query: 3 FSQSPHLKNHERIHSGERPYQCEV--CEKTFARHSTLWNHRRIHTGEKPYRCSICGSAFN 60
FS+ HL H R H+GE+P QC C+K+F+R L H R H S N
Sbjct: 43 FSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHNNPSDLNSKSLPLSN 102
Query: 61 QAT 63
Sbjct: 103 SKA 105
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 34.3 bits (78), Expect = 0.037
Identities = 18/74 (24%), Positives = 25/74 (33%), Gaps = 21/74 (28%)
Query: 18 GERPYQCEV--CEKTFARHSTLWNHRR-------------------IHTGEKPYRCSICG 56
+PY+C V C K + + L H +KPYRC +C
Sbjct: 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCD 405
Query: 57 SAFNQATHLKNHAK 70
+ LK H K
Sbjct: 406 KRYKNLNGLKYHRK 419
Score = 34.3 bits (78), Expect = 0.038
Identities = 19/73 (26%), Positives = 27/73 (36%), Gaps = 16/73 (21%)
Query: 46 GEKPYRCSI--CGSAFNQATHLKNHAKVGKCKVHTGE--------------KPHHCDICD 89
KPY+C + C + LK H G E KP+ C++CD
Sbjct: 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCD 405
Query: 90 VGFSDKFALKRHR 102
+ + LK HR
Sbjct: 406 KRYKNLNGLKYHR 418
>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 = 29.2 bits (66), Expect = 0.11
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 23 QCEVCEKTFARHSTLWNHRRIH 44
+C C K+F+R S L H R H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 24.6 bits (54), Expect = 4.5
Identities = 10/21 (47%), Positives = 10/21 (47%)
Query: 85 CDICDVGFSDKFALKRHRLIH 105
C C FS K LKRH H
Sbjct: 2 CPDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 28.2 bits (63), Expect = 0.25
Identities = 10/23 (43%), Positives = 11/23 (47%)
Query: 22 YQCEVCEKTFARHSTLWNHRRIH 44
Y+C C K F S L H R H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 25.5 bits (56), Expect = 2.2
Identities = 8/23 (34%), Positives = 10/23 (43%)
Query: 83 HHCDICDVGFSDKFALKRHRLIH 105
+ C C F K AL+ H H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
>gnl|CDD|235290 PRK04351, PRK04351, hypothetical protein; Provisional.
Length = 149
Score = 27.5 bits (62), Expect = 3.1
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 8/35 (22%)
Query: 22 YQCEVCEKTFARHSTLWNHRRIHTGEKPYRCSICG 56
Y+C+ C + + R RRI+T K YRC C
Sbjct: 113 YECQSCGQQYLRK------RRINT--KRYRCGKCR 139
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 27.1 bits (60), Expect = 4.1
Identities = 15/40 (37%), Positives = 17/40 (42%), Gaps = 2/40 (5%)
Query: 1 MLFSQSPHLKNHERIHSGERPYQCEVCEKTFARHSTLWNH 40
M FS S LK H I E C VC K F + +H
Sbjct: 81 MPFSSSVSLKQH--IRYTEHSKVCPVCGKEFRNTDSTLDH 118
Score = 26.4 bits (58), Expect = 6.1
Identities = 17/57 (29%), Positives = 22/57 (38%), Gaps = 6/57 (10%)
Query: 21 PYQCEVCEKTFARHSTLWNHRRIHTGEKPYRCSICGSAFNQATHLKNHAKVGKCKVH 77
PY C +C F+ +L H R K C +CG F +H CK H
Sbjct: 73 PYVCPLCLMPFSSSVSLKQHIRYTEHSK--VCPVCGKEFRNTDSTLDHV----CKKH 123
>gnl|CDD|197732 smart00451, ZnF_U1, U1-like zinc finger. Family of C2H2-type zinc
fingers, present in matrin, U1 small nuclear
ribonucleoprotein C and other RNA-binding proteins.
Length = 35
Score = 24.5 bits (54), Expect = 6.7
Identities = 6/21 (28%), Positives = 14/21 (66%)
Query: 81 KPHHCDICDVGFSDKFALKRH 101
+C +C+V F+D+ +++ H
Sbjct: 2 GGFYCKLCNVTFTDEISVEAH 22
>gnl|CDD|220661 pfam10263, SprT-like, SprT-like family. This family represents a
domain found in eukaryotes and prokaryotes. The domain
contains a characteristic motif of the zinc
metallopeptidases. This family includes the bacterial
SprT protein.
Length = 153
Score = 26.6 bits (59), Expect = 6.9
Identities = 10/40 (25%), Positives = 15/40 (37%), Gaps = 8/40 (20%)
Query: 22 YQCEVCEKTFARHSTLWNHRRIHTGEKPYRCSICGSAFNQ 61
Y+C C + + R + H+ YRC CG
Sbjct: 120 YRCGSCGQLYPRKRRIRRHK--------YRCGRCGGKLKL 151
>gnl|CDD|238464 cd00924, Cyt_c_Oxidase_Vb, Cytochrome c oxidase subunit Vb.
Cytochrome c oxidase (CcO), the terminal oxidase in the
respiratory chains of eukaryotes and most bacteria, is
a multi-chain transmembrane protein located in the
inner membrane of mitochondria and the cell membrane of
prokaryotes. It catalyzes the reduction of O2 and
simultaneously pumps protons across the membrane. The
number of subunits varies from three to five in
bacteria and up to 13 in mammalian mitochondria.
Subunits I, II, and III of mammalian CcO are encoded
within the mitochondrial genome and the remaining 10
subunits are encoded within the nuclear genome. Found
only in eukaryotes, subunit Vb is one of three
mammalian subunits that lacks a transmembrane region.
Subunit Vb is located on the matrix side of the
membrane and binds the regulatory subunit of protein
kinase A. The abnormally extended conformation is
stable only in the CcO assembly.
Length = 97
Score = 25.7 bits (57), Expect = 7.0
Identities = 10/26 (38%), Positives = 12/26 (46%), Gaps = 3/26 (11%)
Query: 34 HSTLWNHRRIHTGEKPYRCSICGSAF 59
H +W + G KP RC CG F
Sbjct: 67 HDVIWMW--LEKG-KPKRCPECGHVF 89
>gnl|CDD|224908 COG1997, RPL43A, Ribosomal protein L37AE/L43A [Translation,
ribosomal structure and biogenesis].
Length = 89
Score = 25.8 bits (57), Expect = 7.7
Identities = 11/40 (27%), Positives = 17/40 (42%), Gaps = 10/40 (25%)
Query: 20 RPYQCEVCEKTFARHSTLWNHRRIHTGEKPYRCSICGSAF 59
+ C C +T +RI TG ++C CG+ F
Sbjct: 34 AKHVCPFCGRT--------TVKRIATG--IWKCRKCGAKF 63
>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 = 24.0 bits (53), Expect = 8.0
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 22 YQCEVCEKTFARHSTLWNH 40
+ CE+C TF S L +H
Sbjct: 1 FYCELCNVTFTSESQLKSH 19
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
0.319 0.129 0.418
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: 9,543,271
Number of extensions: 782586
Number of successful extensions: 729
Number of sequences better than 10.0: 1
Number of HSP's gapped: 718
Number of HSP's successfully gapped: 49
Length of query: 203
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 111
Effective length of database: 6,857,034
Effective search space: 761130774
Effective search space used: 761130774
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (25.7 bits)