RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy553
(129 letters)
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 40.8 bits (96), Expect = 3e-06
Identities = 14/25 (56%), Positives = 17/25 (68%)
Query: 47 LVQHIRVHTGEKPYKCTYCERRFKQ 71
L +H+R HTGEKPYKC C + F
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKSFSS 26
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 36.8 bits (85), Expect = 7e-04
Identities = 20/54 (37%), Positives = 25/54 (46%), Gaps = 6/54 (11%)
Query: 26 LEANKPHQCQQCLKSFSSNHQLVQHIRVHTGEKPYKCTYCERRFKQ----LSHV 75
+A P+ C CL FSS+ L QHIR K C C + F+ L HV
Sbjct: 68 SKAVSPYVCPLCLMPFSSSVSLKQHIRYTEHSK--VCPVCGKEFRNTDSTLDHV 119
>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 = 30.4 bits (69), Expect = 0.021
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 33 QCQQCLKSFSSNHQLVQHIRVH 54
+C C KSFS L +H+R H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 28.1 bits (63), Expect = 0.16
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 61 KCTYCERRFKQLSHVQQHTRLH 82
KC C + F + S++++H R H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 33.1 bits (75), Expect = 0.024
Identities = 25/72 (34%), Positives = 34/72 (47%), Gaps = 2/72 (2%)
Query: 27 EANKPHQCQQCLKSFSSNHQLVQHIRVHTGEKPYKCTYCER--RFKQLSHVQQHTRLHTV 84
A +P C C SFS L +HIR HTGEKP +C+Y F + + +H R H
Sbjct: 29 NAPRPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHN 88
Query: 85 EGVNSCLQILSL 96
+ + L L
Sbjct: 89 NPSDLNSKSLPL 100
Score = 31.2 bits (70), Expect = 0.13
Identities = 22/60 (36%), Positives = 34/60 (56%), Gaps = 6/60 (10%)
Query: 30 KPHQCQQCLKSFSSNHQLVQHIR--VHTGE--KPYKCTY--CERRFKQLSHVQQHTRLHT 83
P + +QC SFS + L +H+R H+GE KP+ C Y C + F + +++H LHT
Sbjct: 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHT 347
Score = 29.7 bits (66), Expect = 0.44
Identities = 17/48 (35%), Positives = 20/48 (41%), Gaps = 2/48 (4%)
Query: 26 LEANKPHQC--QQCLKSFSSNHQLVQHIRVHTGEKPYKCTYCERRFKQ 71
E+ KP C C K FS N L +HI +HT P K K
Sbjct: 316 GESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKF 363
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 29.7 bits (67), Expect = 0.050
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 32 HQCQQCLKSFSSNHQLVQHIRVH 54
++C +C K F S L +H+R H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 29.0 bits (65), Expect = 0.079
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 60 YKCTYCERRFKQLSHVQQHTRLH 82
Y+C C + FK S +++H R H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
>gnl|CDD|132779 cd06869, PX_UP2_fungi, The phosphoinositide binding Phox Homology
domain of uncharacterized fungal proteins. The PX
domain is a phosphoinositide (PI) binding module
involved in targeting proteins to PI-enriched
membranes. Members in this subfamily are
uncharacterized fungal proteins containing a PX domain.
PX domain harboring proteins have been implicated in
highly diverse functions such as cell signaling,
vesicular trafficking, protein sorting, lipid
modification, cell polarity and division, activation of
T and B cells, and cell survival. In addition to
protein-lipid interaction, the PX domain may also be
involved in protein-protein interaction.
Length = 119
Score = 28.8 bits (65), Expect = 0.43
Identities = 11/27 (40%), Positives = 14/27 (51%), Gaps = 3/27 (11%)
Query: 51 IRVHTGEKPYKCTYCERR---FKQLSH 74
IRV + Y+ Y RR FK+L H
Sbjct: 38 IRVRREGEEYRTIYVARRYSDFKKLHH 64
>gnl|CDD|180854 PRK07121, PRK07121, hypothetical protein; Validated.
Length = 492
Score = 29.5 bits (67), Expect = 0.48
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 12 RAGSVGGASSLSGGL 26
RA GGA++LSGG+
Sbjct: 51 RAAGAGGATALSGGV 65
>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 = 29.0 bits (65), Expect = 0.85
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 32 HQCQQCLKSFSSNHQLVQHIR 52
+ C C+ FSS QL +H R
Sbjct: 74 YVCNVCMAEFSSMDQLAEHQR 94
Score = 26.7 bits (59), Expect = 4.7
Identities = 9/32 (28%), Positives = 13/32 (40%)
Query: 60 YKCTYCERRFKQLSHVQQHTRLHTVEGVNSCL 91
Y C C F + + +H R G +S L
Sbjct: 74 YVCNVCMAEFSSMDQLAEHQRTTHSIGASSLL 105
>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 = 26.1 bits (57), Expect = 0.97
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 32 HQCQQCLKSFSSNHQLVQHIRVH 54
+C C KSFSS L +H+R H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
Score = 26.1 bits (57), Expect = 1.0
Identities = 7/23 (30%), Positives = 12/23 (52%)
Query: 60 YKCTYCERRFKQLSHVQQHTRLH 82
+KC C + F +++H R H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 28.5 bits (63), Expect = 1.1
Identities = 9/22 (40%), Positives = 17/22 (77%)
Query: 57 EKPYKCTYCERRFKQLSHVQQH 78
+KPY+C C++R+K L+ ++ H
Sbjct: 396 DKPYRCEVCDKRYKNLNGLKYH 417
>gnl|CDD|132684 TIGR03645, glyox_marine, lactoylglutathione lyase family protein.
Members of this protein family share homology with
lactoylglutathione lyase (glyoxalase I) and are found
mainly in marine members of the gammaproteobacteria,
including CPS_0532 from Colwellia psychrerythraea 34H.
This family excludes a well-separated, more narrowly
distributed paralogous family, exemplified by CPS_3492
from C. psychrerythraea. The function is of this protein
family is unknown.
Length = 162
Score = 27.8 bits (62), Expect = 1.4
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 56 GEKPYKCTYCERRFKQLSHVQQHT-RLHTVEG 86
GEKPY+ Y E F + + H+ L G
Sbjct: 129 GEKPYRMIYMEDPFGNILEIYSHSYELTYSAG 160
>gnl|CDD|227288 COG4952, COG4952, Predicted sugar isomerase [Cell envelope
biogenesis, outer membrane].
Length = 430
Score = 28.0 bits (62), Expect = 1.6
Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 9/61 (14%)
Query: 68 RFKQLSHVQQHTRLHTVEGVNSCLQI--------LSLWIQLDLKDEPRNRNYVVRFSWWD 119
++ LSH TR +E C++I L++W+ D + P N+ F +
Sbjct: 142 KYGSLSHTDAATRRQAIEHNLECVEIGKALGSKALTVWVG-DGSNFPGQSNFTRAFERYL 200
Query: 120 D 120
D
Sbjct: 201 D 201
>gnl|CDD|206083 pfam13912, zf-C2H2_6, C2H2-type zinc finger.
Length = 27
Score = 25.3 bits (56), Expect = 1.7
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 32 HQCQQCLKSFSSNHQLVQHIRVH 54
H C C K+FSS L H + H
Sbjct: 2 HTCGVCGKTFSSLQALGGHKKSH 24
>gnl|CDD|234859 PRK00893, PRK00893, aspartate carbamoyltransferase regulatory
subunit; Reviewed.
Length = 152
Score = 27.1 bits (61), Expect = 1.9
Identities = 7/31 (22%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 42 SSNHQLVQH--IRVHTGEKPYKCTYCERRFK 70
++ ++ V+ V +C YCE+ F
Sbjct: 115 TNTNEPVESRFYVVDKEPIKLRCKYCEKEFS 145
>gnl|CDD|215465 PLN02863, PLN02863, UDP-glucoronosyl/UDP-glucosyl transferase
family protein.
Length = 477
Score = 27.5 bits (61), Expect = 2.3
Identities = 9/31 (29%), Positives = 17/31 (54%)
Query: 86 GVNSCLQILSLWIQLDLKDEPRNRNYVVRFS 116
G + + SLW ++ K P ++N ++ FS
Sbjct: 145 GAMALSIMYSLWREMPTKINPDDQNEILSFS 175
>gnl|CDD|224695 COG1781, PyrI, Aspartate carbamoyltransferase, regulatory subunit
[Nucleotide transport and metabolism].
Length = 153
Score = 26.1 bits (58), Expect = 5.3
Identities = 7/31 (22%), Positives = 13/31 (41%), Gaps = 2/31 (6%)
Query: 42 SSNHQLVQH--IRVHTGEKPYKCTYCERRFK 70
++ + V+ V +C YCE+ F
Sbjct: 116 TNAEEPVESKFYVVSKEPLALRCKYCEKTFS 146
>gnl|CDD|219211 pfam06876, SCRL, Plant self-incompatibility response (SCRL)
protein. This family consists of several Plant
self-incompatibility response (SCRL) proteins. The male
component of the self-incompatibility response in
Brassica has been shown to be encoded by the S locus
cysteine-rich gene (SCR). SCR is related, at the
sequence level, to the pollen coat protein (PCP) gene
family whose members encode small, cysteine-rich
proteins located in the proteo-lipidic surface layer
(tryphine) of Brassica pollen grains.
Length = 67
Score = 24.6 bits (54), Expect = 6.2
Identities = 14/66 (21%), Positives = 20/66 (30%), Gaps = 26/66 (39%)
Query: 20 SSLSGGLEANKPHQC---------------QQCLKSFSSNHQLVQHIRVHTGEKPYKCTY 64
SS +EAN +C + C K F + +P+ CT
Sbjct: 4 SSHVQEVEANLMKRCTRKQTFPGKCGNDGNKTCEKDFKKKKKK----------RPFSCT- 52
Query: 65 CERRFK 70
C K
Sbjct: 53 CTPSHK 58
>gnl|CDD|178450 PLN02859, PLN02859, glutamine-tRNA ligase.
Length = 788
Score = 25.9 bits (57), Expect = 7.1
Identities = 10/28 (35%), Positives = 15/28 (53%), Gaps = 3/28 (10%)
Query: 48 VQHIR--VH-TGEKPYKCTYCERRFKQL 72
+ HI V G +P+K TY F++L
Sbjct: 316 IDHIEEIVEWMGWEPFKITYTSDYFQEL 343
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
0.321 0.131 0.417
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: 6,061,633
Number of extensions: 473595
Number of successful extensions: 468
Number of sequences better than 10.0: 1
Number of HSP's gapped: 465
Number of HSP's successfully gapped: 34
Length of query: 129
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 43
Effective length of database: 7,123,158
Effective search space: 306295794
Effective search space used: 306295794
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 (21.9 bits)
S2: 53 (24.3 bits)