RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12678
(80 letters)
>gnl|CDD|216043 pfam00651, BTB, BTB/POZ domain. The BTB (for BR-C, ttk and bab)
or POZ (for Pox virus and Zinc finger) domain is
present near the N-terminus of a fraction of zinc
finger (pfam00096) proteins and in proteins that
contain the pfam01344 motif such as Kelch and a family
of pox virus proteins. The BTB/POZ domain mediates
homomeric dimerisation and in some instances
heteromeric dimerisation. The structure of the
dimerised PLZF BTB/POZ domain has been solved and
consists of a tightly intertwined homodimer. The
central scaffolding of the protein is made up of a
cluster of alpha-helices flanked by short beta-sheets
at both the top and bottom of the molecule. POZ domains
from several zinc finger proteins have been shown to
mediate transcriptional repression and to interact with
components of histone deacetylase co-repressor
complexes including N-CoR and SMRT. The POZ or BTB
domain is also known as BR-C/Ttk or ZiN.
Length = 101
Score = 62.6 bits (153), Expect = 9e-15
Identities = 20/42 (47%), Positives = 23/42 (54%)
Query: 27 FRHLRDEEDFVDVTLACDGCSFTAHKVVLSACSPYFKTLLKS 68
LR+ + DVTL F AHK VL+ACSPYFK L
Sbjct: 1 LNELRENGELCDVTLVVGDKEFHAHKAVLAACSPYFKALFTG 42
>gnl|CDD|197585 smart00225, BTB, Broad-Complex, Tramtrack and Bric a brac.
Domain in Broad-Complex, Tramtrack and Bric a brac.
Also known as POZ (poxvirus and zinc finger) domain.
Known to be a protein-protein interaction motif found
at the N-termini of several C2H2-type transcription
factors as well as Shaw-type potassium channels. Known
structure reveals a tightly intertwined dimer formed
via interactions between N-terminal strand and helix
structures. However in a subset of BTB/POZ domains,
these two secondary structures appear to be missing. Be
aware SMART predicts BTB/POZ domains without the beta1-
and alpha1-secondary structures.
Length = 97
Score = 48.5 bits (116), Expect = 3e-09
Identities = 19/31 (61%), Positives = 20/31 (64%)
Query: 38 DVTLACDGCSFTAHKVVLSACSPYFKTLLKS 68
DVTL G F AHK VL+A SPYFK L S
Sbjct: 1 DVTLVVGGKKFHAHKAVLAAHSPYFKALFSS 31
>gnl|CDD|165086 PHA02713, PHA02713, hypothetical protein; Provisional.
Length = 557
Score = 34.6 bits (79), Expect = 0.002
Identities = 17/47 (36%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 23 ILSSFRHLRDEEDFVDVTLAC-DGCSFTAHKVVLSACSPYFKTLLKS 68
++S+ +L D++ DV + DG AHK +L+A S YF+TL +
Sbjct: 12 VVSNISNLLDDDILCDVIITIGDGEEIKAHKTILAAGSKYFRTLFTT 58
>gnl|CDD|222983 PHA03098, PHA03098, kelch-like protein; Provisional.
Length = 534
Score = 30.1 bits (68), Expect = 0.066
Identities = 10/34 (29%), Positives = 17/34 (50%)
Query: 35 DFVDVTLACDGCSFTAHKVVLSACSPYFKTLLKS 68
+ + G HK++LS+ S YFK + K+
Sbjct: 10 CDESIIIVNGGGIIKVHKIILSSSSEYFKKMFKN 43
>gnl|CDD|216880 pfam02113, Peptidase_S13, D-Ala-D-Ala carboxypeptidase 3 (S13)
family.
Length = 444
Score = 26.3 bits (58), Expect = 1.6
Identities = 9/48 (18%), Positives = 12/48 (25%)
Query: 33 EEDFVDVTLACDGCSFTAHKVVLSACSPYFKTLLKSIDGRRLCVDTAL 80
E + V F V +A Y + L V L
Sbjct: 168 EPATITVPPPIPIAQFQNVAVTTAAEPHYCLLDVVPFGTNTLVVTGCL 215
>gnl|CDD|236187 PRK08207, PRK08207, coproporphyrinogen III oxidase; Provisional.
Length = 488
Score = 26.4 bits (59), Expect = 1.8
Identities = 9/31 (29%), Positives = 13/31 (41%), Gaps = 2/31 (6%)
Query: 43 CDGCSFTAH--KVVLSACSPYFKTLLKSIDG 71
C CSF ++ K PY + L I+
Sbjct: 177 CLYCSFPSYPIKGYKGLVEPYLEALHYEIEE 207
>gnl|CDD|177987 PLN02354, PLN02354, copper ion binding / oxidoreductase.
Length = 552
Score = 25.9 bits (57), Expect = 2.6
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 22 SILSSFRHLRDEEDFVDVTLAC 43
S+LS R LRDE + + L C
Sbjct: 517 SVLSPERSLRDEYNMPENALLC 538
>gnl|CDD|236480 PRK09358, PRK09358, adenosine deaminase; Provisional.
Length = 340
Score = 25.1 bits (56), Expect = 4.0
Identities = 8/32 (25%), Positives = 12/32 (37%), Gaps = 5/32 (15%)
Query: 16 WNDFQTSILSSFRH----LRDEEDFVDVTLAC 43
+ D Q S L + L+ EED +
Sbjct: 56 FRDLQ-SFLDKYDAGVAVLQTEEDLRRLAFEY 86
>gnl|CDD|130188 TIGR01118, lacA, galactose-6-phosphate isomerase, LacA subunit.
This family contains members from low GC gram-positive
bacteria. Galactose-6-phosphate isomerase is involved
in lactose catabolism by the tagatose-6-phosphate
pathway [Energy metabolism, Biosynthesis and
degradation of polysaccharides].
Length = 141
Score = 24.9 bits (54), Expect = 4.9
Identities = 9/12 (75%), Positives = 10/12 (83%)
Query: 31 RDEEDFVDVTLA 42
D +DFVDVTLA
Sbjct: 35 GDGQDFVDVTLA 46
>gnl|CDD|185772 cd09249, BRO1_Rhophilin_2, Protein-interacting Bro1-like domain of
RhoA-binding protein Rhophilin-2. This subfamily
contains the Bro1-like domain of RhoA-binding protein,
Rhophilin-2. It belongs to the BRO1_Alix_like
superfamily which also includes the Bro1-like domain of
mammalian Alix (apoptosis-linked gene-2 interacting
protein X), His-Domain type N23 protein tyrosine
phosphatase (HD-PTP, also known as PTPN23), RhoA-binding
protein Rhophilin-1, Brox, Bro1 and Rim20 (also known as
PalA) from Saccharomyces cerevisiae, Ustilago maydis
Rim23 (also known as PalC), and related domains.
Rhophilin-2, binds both GDP- and GTP-bound RhoA.
Bro1-like domains are boomerang-shaped, and part of the
domain is a tetratricopeptide repeat (TPR)-like
structure. In addition to this Bro1-like domain,
Rhophilin-2 contains an N-terminal Rho-binding domain
and a C-terminal PDZ (PS.D.-95, Disc-large, ZO-1)
domain. Roles for Rhophilin-2 may include limiting
stress fiber formation or increasing the turnover of
F-actin in the absence of high levels of RhoA signaling
activity. Rhophilin-2 lacks the V-shaped (V) domain
found in many members of the BRO1_Alix_like superfamily.
Length = 385
Score = 24.8 bits (54), Expect = 6.2
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 24 LSSFRHLRDEEDFVDVTLACDGCSFTAHKV 53
L + + E+DF+D+ A D S T KV
Sbjct: 340 LLKYAQHQKEDDFLDLIDAPDIVSKTEKKV 369
>gnl|CDD|119335 cd06565, GH20_GcnA-like, Glycosyl hydrolase family 20 (GH20)
catalytic domain of N-acetyl-beta-D-glucosaminidase
(GcnA, also known as BhsA) and related proteins. GcnA
is an exoglucosidase which cleaves
N-acetyl-beta-D-galactosamine (NAG) and
N-acetyl-beta-D-galactosamine residues from
4-methylumbelliferylated (4MU) substrates, as well as
cleaving NAG from chito-oligosaccharides (i.e. NAG
polymers). In contrast, sulfated forms of the substrate
are unable to be cleaved and act instead as mild
competitive inhibitors. Additionally, the enzyme is
known to be poisoned by several first-row transition
metals as well as by mercury. GcnA forms a homodimer
with subunits comprised of three domains, an N-terminal
zincin-like domain, this central catalytic GH20 domain,
and a C-terminal alpha helical domain. The GH20
hexosaminidases are thought to act via a catalytic
mechanism in which the catalytic nucleophile is not
provided by solvent or the enzyme, but by the substrate
itself.
Length = 301
Score = 24.5 bits (54), Expect = 6.5
Identities = 8/34 (23%), Positives = 13/34 (38%), Gaps = 8/34 (23%)
Query: 11 QFALRWNDFQTSILSSFRHLRDEEDFVDVTLACD 44
+F L+ FRHLR+ +D +
Sbjct: 87 EFILKH--------PEFRHLREVDDPPQTLCPGE 112
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
0.326 0.139 0.437
Gapped
Lambda K H
0.267 0.0732 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,987,447
Number of extensions: 293991
Number of successful extensions: 340
Number of sequences better than 10.0: 1
Number of HSP's gapped: 340
Number of HSP's successfully gapped: 13
Length of query: 80
Length of database: 10,937,602
Length adjustment: 49
Effective length of query: 31
Effective length of database: 8,764,256
Effective search space: 271691936
Effective search space used: 271691936
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.2 bits)