RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7604
(118 letters)
>gnl|CDD|214546 smart00184, RING, Ring finger. E3 ubiquitin-protein ligase
activity is intrinsic to the RING domain of c-Cbl and
is likely to be a general function of this domain;
Various RING fingers exhibit binding activity towards
E2 ubiquitin-conjugating enzymes (Ubc' s).
Length = 40
Score = 29.4 bits (66), Expect = 0.072
Identities = 9/26 (34%), Positives = 10/26 (38%), Gaps = 1/26 (3%)
Query: 36 CEICFTNMPSTLMTGLECSHRFCTQC 61
C IC + L C H FC C
Sbjct: 1 CPICLEEYLKDPVI-LPCGHTFCRSC 25
>gnl|CDD|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger).
Length = 45
Score = 28.2 bits (63), Expect = 0.19
Identities = 11/38 (28%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 32 SKSKCEICFTNMPSTLMTGLECSHRFCTQCWCEYLTTK 69
+ +C IC + ++ C H FC +C YL K
Sbjct: 1 EELECPICLDLLRDPVVL-TPCGHVFCRECILRYLKKK 37
>gnl|CDD|238093 cd00162, RING, RING-finger (Really Interesting New Gene) domain,
a specialized type of Zn-finger of 40 to 60 residues
that binds two atoms of zinc; defined by the
'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)-
H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved
in mediating protein-protein interactions; identified
in a proteins with a wide range of functions such as
viral replication, signal transduction, and
development; has two variants, the C3HC4-type and a
C3H2C3-type (RING-H2 finger), which have different
cysteine/histidine pattern; a subset of RINGs are
associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H).
Length = 45
Score = 28.2 bits (63), Expect = 0.22
Identities = 10/35 (28%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 35 KCEICFTNMPSTLMTGLECSHRFCTQCWCEYLTTK 69
+C IC ++ L C H FC C ++L +
Sbjct: 1 ECPICLEEFREPVVL-LPCGHVFCRSCIDKWLKSG 34
>gnl|CDD|222279 pfam13639, zf-RING_2, Ring finger domain.
Length = 46
Score = 27.4 bits (61), Expect = 0.41
Identities = 10/35 (28%), Positives = 15/35 (42%), Gaps = 1/35 (2%)
Query: 36 CEICFTNM-PSTLMTGLECSHRFCTQCWCEYLTTK 69
C IC P + L C H F +C ++L +
Sbjct: 3 CPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSS 37
>gnl|CDD|227861 COG5574, PEX10, RING-finger-containing E3 ubiquitin ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 271
Score = 29.1 bits (65), Expect = 0.45
Identities = 11/35 (31%), Positives = 12/35 (34%), Gaps = 2/35 (5%)
Query: 35 KCEICFTNMPSTLMTGLECSHRFCTQCWCEYLTTK 69
KC +C T C H FC C T K
Sbjct: 217 KCFLCLEEPEVPSCTP--CGHLFCLSCLLISWTKK 249
>gnl|CDD|236299 PRK08575, PRK08575,
5-methyltetrahydropteroyltriglutamate--homocysteine
methyltransferase; Provisional.
Length = 326
Score = 27.8 bits (62), Expect = 1.3
Identities = 8/23 (34%), Positives = 11/23 (47%)
Query: 3 RYYDGDQEQLFAEARVINPLVKN 25
YY E + A V+N L+K
Sbjct: 147 EYYKNLIELMEDYASVVNSLIKE 169
>gnl|CDD|173798 cd05562, Peptidases_S53_like, Peptidase domain in the S53 family.
Members of the peptidase S53 (sedolisin) family
include endopeptidases and exopeptidases. The S53
family contains a catalytic triad Glu/Asp/Ser with an
additional acidic residue Asp in the oxyanion hole,
similar to that of Asn in subtilisin. The stability of
these enzymes may be enhanced by calcium, some members
have been shown to bind up to 4 ions via binding sites
with different affinity. Some members of this clan
contain disulfide bonds. These enzymes can be intra-
and extracellular, some function at extreme
temperatures and pH values. Characterized sedolisins
include Kumamolisin, an extracellular calcium-dependent
thermostable endopeptidase from Bacillus. The enzyme is
synthesized with a 188 amino acid N-terminal preprotein
region which is cleaved after the extraction into the
extracellular space with low pH. One kumamolysin
paralog, kumamolisin-As, is believed to be a
collagenase. TPP1 is a serine protease that functions
as a tripeptidyl exopeptidase as well as an
endopeptidase. Less is known about PSCP from
Pseudomonas which is thought to be an aspartic
proteinase.
Length = 275
Score = 27.3 bits (61), Expect = 2.1
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 82 AAHGCNILVDD 92
AA G +I+VDD
Sbjct: 87 AAAGADIIVDD 97
>gnl|CDD|190527 pfam03110, SBP, SBP domain. SBP domains (for SQUAMOSA-pROMOTER
BINDING PROTEIN) are found in plant proteins. It is a
sequence specific DNA-binding domain. Members of family
probably function as transcription factors involved in
the control of early flower development. The domain
contains 10 conserved cysteine and histidine residues
that probably are zinc ligands.
Length = 79
Score = 26.1 bits (58), Expect = 2.4
Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 3/26 (11%)
Query: 36 CEICFTNMPSTLMTGLECSHRFCTQC 61
CE+ + P L++GLE RFC QC
Sbjct: 24 CEVH-SKAPVVLVSGLE--QRFCQQC 46
>gnl|CDD|227481 COG5152, COG5152, Uncharacterized conserved protein, contains RING
and CCCH-type Zn-fingers [General function prediction
only].
Length = 259
Score = 27.0 bits (59), Expect = 2.6
Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 12/61 (19%)
Query: 1 MERYYDGDQEQLFAEARVINPLVKNSQPSTSSKSKCEICFTNMPSTLMTGLECSHRFCTQ 60
+ + ++ + E EA VI+ P C IC + S ++T EC H FC+
Sbjct: 174 LNQEWNAEYE----EAPVIS------GPGEKIPFLCGICKKDYESPVVT--ECGHSFCSL 221
Query: 61 C 61
C
Sbjct: 222 C 222
>gnl|CDD|215715 pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING finger). The
C3HC4 type zinc-finger (RING finger) is a cysteine-rich
domain of 40 to 60 residues that coordinates two zinc
ions, and has the consensus sequence:
C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C
where X is any amino acid. Many proteins containing a
RING finger play a key role in the ubiquitination
pathway.
Length = 40
Score = 25.1 bits (55), Expect = 2.9
Identities = 11/26 (42%), Positives = 14/26 (53%), Gaps = 1/26 (3%)
Query: 36 CEICFTNMPSTLMTGLECSHRFCTQC 61
C IC P +T L C H FC++C
Sbjct: 1 CPICLEE-PKDPVTILPCGHLFCSKC 25
>gnl|CDD|233043 TIGR00599, rad18, DNA repair protein rad18. All proteins in this
family for which functions are known are involved in
nucleotide excision repair.This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 397
Score = 26.9 bits (59), Expect = 3.1
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 35 KCEICFTNMPSTLMTGLECSHRFCTQCWCEYLTT 68
+C IC ++T CSH FC+ C L+
Sbjct: 28 RCHICKDFFDVPVLT--SCSHTFCSLCIRRCLSN 59
>gnl|CDD|172968 PRK14497, PRK14497, putative molybdopterin biosynthesis protein
MoeA/unknown domain fusion protein; Provisional.
Length = 546
Score = 26.7 bits (59), Expect = 3.8
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 10/47 (21%)
Query: 69 KIIQEGMGQTIACAAHGCNILVDDGTVM-RLVRDPKVKLKYQHLITN 114
+I+ G G+ I DD M ++V++P VKLK I +
Sbjct: 467 QILVNGEGEEIG---------YDDWIGMSKIVKNPVVKLKSPSTIYS 504
>gnl|CDD|132356 TIGR03313, Se_sel_red_Mo, probable selenate reductase,
molybdenum-binding subunit. Our comparative genomics
suggests this protein family to be a subunit of a
selenium-dependent molybdenum hydroxylase, although the
substrate is not specified. This protein is suggested by
Bebien, et al., to be the molybdenum-binding subunit of
a molydbopterin-containing selenate reductase. Xi, et
al, however, show that mutation of this gene in E. coli
conferred sensitivity to adenine, suggesting a defect in
purine interconversion. This finding, plus homology of
nearby genes in a 23-gene purine catabolism region in E.
coli to xanthine dehydrogase subunits suggests xanthine
dehydrogenase activity.
Length = 951
Score = 26.5 bits (58), Expect = 3.8
Identities = 14/37 (37%), Positives = 18/37 (48%)
Query: 7 GDQEQLFAEARVINPLVKNSQPSTSSKSKCEICFTNM 43
GD + FAEA VI S + ++ ICFT M
Sbjct: 362 GDLNKGFAEADVIIERTYESTQAQQCPTETHICFTYM 398
>gnl|CDD|182084 PRK09800, PRK09800, putative hypoxanthine oxidase; Provisional.
Length = 956
Score = 25.6 bits (56), Expect = 7.6
Identities = 14/37 (37%), Positives = 20/37 (54%)
Query: 7 GDQEQLFAEARVINPLVKNSQPSTSSKSKCEICFTNM 43
GD ++ FA+A VI NS + ++ ICFT M
Sbjct: 366 GDMDKGFADADVIIERTYNSTQAQQCPTETHICFTRM 402
>gnl|CDD|234832 PRK00772, PRK00772, 3-isopropylmalate dehydrogenase; Provisional.
Length = 358
Score = 25.4 bits (57), Expect = 8.8
Identities = 8/16 (50%), Positives = 12/16 (75%), Gaps = 1/16 (6%)
Query: 88 ILVDDGTVMRLVRDPK 103
+ VD+ M+LVR+PK
Sbjct: 220 MYVDNAA-MQLVRNPK 234
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
0.322 0.134 0.418
Gapped
Lambda K H
0.267 0.0635 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,568,599
Number of extensions: 422310
Number of successful extensions: 366
Number of sequences better than 10.0: 1
Number of HSP's gapped: 365
Number of HSP's successfully gapped: 23
Length of query: 118
Length of database: 10,937,602
Length adjustment: 81
Effective length of query: 37
Effective length of database: 7,344,928
Effective search space: 271762336
Effective search space used: 271762336
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 (22.0 bits)
S2: 53 (24.4 bits)