RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12679
(76 letters)
>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 = 47.7 bits (114), Expect = 7e-09
Identities = 17/52 (32%), Positives = 32/52 (61%)
Query: 11 EHPIVILRDVKEHDMEALLSFMYNGEVRIGQDQLQEFLKTAQTLQVRGLTDV 62
+ + L DV D ALL+F+Y G++ + ++ ++E L+ A LQ+ GL ++
Sbjct: 37 DKSEIYLDDVSPEDFRALLNFLYTGKLDLPEENVEELLELADYLQIPGLVEL 88
>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 = 47.6 bits (114), Expect = 7e-09
Identities = 18/49 (36%), Positives = 27/49 (55%)
Query: 14 IVILRDVKEHDMEALLSFMYNGEVRIGQDQLQEFLKTAQTLQVRGLTDV 62
+ L DV D EALL F+Y G++ I ++ + + L A LQ+ L D
Sbjct: 47 EITLEDVSPEDFEALLEFIYTGKLEITEENVDDLLALADKLQIPALIDK 95
>gnl|CDD|132036 TIGR02991, ectoine_eutB, ectoine utilization protein EutB. Members
of this protein family are EutB, a predicted
arylmalonate decarboxylase found in a conserved ectoine
utilization operon of species that include Sinorhizobium
meliloti 1021 (where it is known to be induced by
ectoine), Mesorhizobium loti, Silicibacter pomeroyi,
Agrobacterium tumefaciens, and Pseudomonas putida.
Members of this family resemble threonine dehydratases.
Length = 317
Score = 27.5 bits (61), Expect = 0.52
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 5/39 (12%)
Query: 32 MYNGEVRI---GQDQLQEFLKTAQTLQVRGLTDVPPKDH 67
EVRI QD QE + + + RGLT +PP DH
Sbjct: 111 RLGAEVRIVGRSQDDAQE--EVERLVADRGLTMLPPFDH 147
>gnl|CDD|182589 PRK10614, PRK10614, multidrug efflux system subunit MdtC;
Provisional.
Length = 1025
Score = 27.4 bits (61), Expect = 0.62
Identities = 23/62 (37%), Positives = 30/62 (48%), Gaps = 18/62 (29%)
Query: 4 YIYANPCEHPIVILRDVKEHDMEALLSFMYNGEVRIGQDQLQEFLKT--AQTL-QVRGLT 60
Y ANP + PI+IL L S Y+ Q QL +F T AQT+ Q+ G+
Sbjct: 129 YRKANPSDAPIMIL---------TLTSDTYS------QGQLYDFASTQLAQTISQIDGVG 173
Query: 61 DV 62
DV
Sbjct: 174 DV 175
>gnl|CDD|224102 COG1181, DdlA, D-alanine-D-alanine ligase and related ATP-grasp
enzymes [Cell envelope biogenesis, outer membrane].
Length = 317
Score = 26.9 bits (60), Expect = 0.99
Identities = 12/59 (20%), Positives = 20/59 (33%), Gaps = 5/59 (8%)
Query: 14 IVILRDVKEHDMEALLSFMYNGEVRIGQD-QLQEF----LKTAQTLQVRGLTDVPPKDH 67
+ + L+F Y+ +V Q +E L Q L ++PPK
Sbjct: 158 RSPVNVEGDLQSALELAFKYDRDVLREQGITGREIEVGVLGNDYEEQALPLGEIPPKGE 216
>gnl|CDD|223716 COG0643, CheA, Chemotaxis protein histidine kinase and related
kinases [Cell motility and secretion / Signal
transduction mechanisms].
Length = 716
Score = 26.5 bits (59), Expect = 1.3
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 23 HDMEALLSFMYNGEVRIGQDQLQEFLKTAQTLQ 55
H ME LL + NGE+ + + L L+ L+
Sbjct: 68 HAMEDLLDALRNGELELTSELLDLLLEALDALE 100
>gnl|CDD|224092 COG1171, IlvA, Threonine dehydratase [Amino acid transport and
metabolism].
Length = 347
Score = 25.6 bits (57), Expect = 2.3
Identities = 13/37 (35%), Positives = 17/37 (45%), Gaps = 1/37 (2%)
Query: 32 MYNGEVRIGQDQLQEFLKTAQTL-QVRGLTDVPPKDH 67
Y EV + D + A+ L + GLT VPP D
Sbjct: 118 GYGAEVILHGDNFDDAYAAAEELAEEEGLTFVPPFDD 154
>gnl|CDD|236025 PRK07476, eutB, threonine dehydratase; Provisional.
Length = 322
Score = 25.3 bits (56), Expect = 3.3
Identities = 14/35 (40%), Positives = 18/35 (51%), Gaps = 5/35 (14%)
Query: 36 EVRI---GQDQLQEFLKTAQTLQVRGLTDVPPKDH 67
EVRI QD Q + + ++ GLT VPP D
Sbjct: 115 EVRIVGRSQDDAQA--EVERLVREEGLTMVPPFDD 147
>gnl|CDD|237379 PRK13412, fkp, bifunctional
fucokinase/L-fucose-1-P-guanylyltransferase;
Provisional.
Length = 974
Score = 25.6 bits (56), Expect = 3.4
Identities = 10/45 (22%), Positives = 21/45 (46%), Gaps = 10/45 (22%)
Query: 5 IYANPCEHPIVILRDVKEHDMEALLSFMYNGEVRIGQDQLQEFLK 49
+Y PC P ++LR + ME + + ++L+++ K
Sbjct: 653 VYVKPCSEPHIVLRSIDLGAMEVVRTN----------EELRDYKK 687
>gnl|CDD|241346 cd13192, FERM_C_FRMD3_FRMD5, FERM domain-containing protein 3 and
5 FERM (FRMD3 and 5) domain C-lobe. FRMD3 (also called
Band 4.1-like protein 4O/4.1O though it is not a true
member of that family) is a novel putative tumor
suppressor gene that is implicated in the origin and
progression of lung cancer. In humans there are 5
isoforms that are produced by alternative splicing.
Less is known about FRMD5, though there are 2 isoforms
of the human protein are produced by alternative
splicing. Both FRMD3 and FRMD5 contain a N-terminal
FERM domain, followed by a FERM adjacent (FA) domain,
and 4.1 protein C-terminal domain (CTD). The FERM
domain has a cloverleaf tripart structure (FERM_N,
FERM_M, FERM_C/N, alpha-, and C-lobe/A-lobe, B-lobe,
C-lobe/F1, F2, F3). The C-lobe/F3 within the FERM
domain is part of the PH domain family. The FERM domain
is found in the cytoskeletal-associated proteins such
as ezrin, moesin, radixin, 4.1R, and merlin. These
proteins provide a link between the membrane and
cytoskeleton and are involved in signal transduction
pathways. The FERM domain is also found in protein
tyrosine phosphatases (PTPs) , the tyrosine kinases FAK
and JAK, in addition to other proteins involved in
signaling. This domain is structurally similar to the
PH and PTB domains and consequently is capable of
binding to both peptides and phospholipids at different
sites.
Length = 105
Score = 24.6 bits (54), Expect = 3.9
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 46 EFLKTAQTLQVRGLTDVPPKDHY 68
FL+ A TL+ G+ P KDHY
Sbjct: 4 NFLRKAHTLETYGVDPHPVKDHY 26
>gnl|CDD|213331 cd05129, RasGAP_RAP6, Ras-GTPase Activating Domain of
Rab5-activating protein 6. Rab5-activating protein 6
(RAP6) is an endosomal protein with a role in the
regulation of receptor-mediated endocytosis. RAP6
contains a Vps9 domain, which is involved in the
activation of Rab5, and a Ras GAP domain (RGD). Rab5 is
a small GTPase required for the control of the endocytic
route, and its activity is regulated by guanine
nucleotide exchange factor, such as Rabex5, and GAPs,
such as RN-tre. Human Rap6 protein is localized on the
plasma membrane and on the endosome. RAP6 binds to Rab5
and Ras through the Vps9 and RGD domains, respectively.
Length = 365
Score = 24.6 bits (54), Expect = 5.6
Identities = 9/37 (24%), Positives = 14/37 (37%), Gaps = 4/37 (10%)
Query: 20 VKEHDMEALLSFMY----NGEVRIGQDQLQEFLKTAQ 52
+ E D+ L+ F+ E + Q L LK
Sbjct: 325 ITESDLATLVEFLRSVKTGDEEKEDQMALDNLLKNLP 361
>gnl|CDD|235802 PRK06446, PRK06446, hypothetical protein; Provisional.
Length = 436
Score = 24.7 bits (54), Expect = 6.1
Identities = 10/36 (27%), Positives = 19/36 (52%)
Query: 14 IVILRDVKEHDMEALLSFMYNGEVRIGQDQLQEFLK 49
I + +H + + F+Y GE IG L++F++
Sbjct: 113 FAIKHLIDKHKLNVNVKFLYEGEEEIGSPNLEDFIE 148
>gnl|CDD|222034 pfam13302, Acetyltransf_3, Acetyltransferase (GNAT) domain. This
domain catalyzes N-acetyltransferase reactions.
Length = 136
Score = 24.2 bits (53), Expect = 7.1
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 15 VILRDVKEHDMEALLSFMYNGEVR 38
+ILR + D EAL + + EV
Sbjct: 2 LILRPLTLEDAEALYELLSDPEVM 25
>gnl|CDD|145924 pfam03034, PSS, Phosphatidyl serine synthase. Phosphatidyl serine
synthase is also known as serine exchange enzyme. This
family represents eukaryotic PSS I and II which are
membrane bound proteins which catalyzes the replacement
of the head group of a phospholipid (phosphotidylcholine
or phosphotidylethanolamine) by L-serine.
Length = 278
Score = 24.2 bits (53), Expect = 7.6
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 2 MKYIYANPCEHPIVILR 18
+K+I P HP+V+ R
Sbjct: 211 LKHILWIPPSHPLVLYR 227
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
0.324 0.139 0.411
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: 3,873,280
Number of extensions: 296288
Number of successful extensions: 271
Number of sequences better than 10.0: 1
Number of HSP's gapped: 271
Number of HSP's successfully gapped: 14
Length of query: 76
Length of database: 10,937,602
Length adjustment: 46
Effective length of query: 30
Effective length of database: 8,897,318
Effective search space: 266919540
Effective search space used: 266919540
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.2 bits)