RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17051
(152 letters)
>gnl|CDD|216531 pfam01496, V_ATPase_I, V-type ATPase 116kDa subunit family. This
family consists of the 116kDa V-type ATPase (vacuolar
(H+)-ATPases) subunits, as well as V-type ATP synthase
subunit i. The V-type ATPases family are proton pumps
that acidify intracellular compartments in eukaryotic
cells for example yeast central vacuoles,
clathrin-coated and synaptic vesicles. They have
important roles in membrane trafficking processes. The
116kDa subunit (subunit a) in the V-type ATPase is part
of the V0 functional domain responsible for proton
transport. The a subunit is a transmembrane glycoprotein
with multiple putative transmembrane helices it has a
hydrophilic amino terminal and a hydrophobic carboxy
terminal. It has roles in proton transport and assembly
of the V-type ATPase complex. This subunit is encoded by
two homologous gene in yeast VPH1 and STV1.
Length = 707
Score = 109 bits (274), Expect = 1e-28
Identities = 49/98 (50%), Positives = 61/98 (62%), Gaps = 8/98 (8%)
Query: 47 FVAGVALRERMPAFERMLWRACRGNVFLRQAEIETPLEDINSGDPVYKSVFIIFFQGDQL 106
FVAGV RE++ AFER LWRACRG ++RQAEIE PLED K+VFIIFF G +
Sbjct: 144 FVAGVINREKLEAFERELWRACRG--YIRQAEIEEPLEDPK------KTVFIIFFVGKED 195
Query: 107 KTRVMKICEGFRATLYPCPEAPTDRREMSMGVTTRIDD 144
+V KI + F LY PE +R E+ V RI++
Sbjct: 196 LDKVKKILDSFGFELYDVPETEGERSELISKVNKRIEE 233
>gnl|CDD|238509 cd01038, Endonuclease_DUF559, Domain of unknown function, appears
to be related to a diverse group of endonucleases.
Length = 108
Score = 27.6 bits (62), Expect = 1.5
Identities = 12/33 (36%), Positives = 14/33 (42%), Gaps = 5/33 (15%)
Query: 52 ALRERMPAFERMLWRACRGNV-----FLRQAEI 79
LR ER+LW+ R F RQA I
Sbjct: 8 ELRRNQTDAERLLWQELRRRRLNGFKFRRQAPI 40
>gnl|CDD|180486 PRK06246, PRK06246, fumarate hydratase; Provisional.
Length = 280
Score = 27.8 bits (63), Expect = 2.3
Identities = 12/40 (30%), Positives = 19/40 (47%)
Query: 72 VFLRQAEIETPLEDINSGDPVYKSVFIIFFQGDQLKTRVM 111
+LR++ + PL N+GD + GD+LK V
Sbjct: 104 GYLRKSVVADPLTRKNTGDNTPAVIHTEIVPGDKLKITVA 143
>gnl|CDD|113256 pfam04480, DUF559, Protein of unknown function (DUF559).
Length = 109
Score = 26.6 bits (59), Expect = 2.9
Identities = 12/33 (36%), Positives = 13/33 (39%), Gaps = 5/33 (15%)
Query: 52 ALRERMPAFERMLWRACR-----GNVFLRQAEI 79
LR ER LW+ R G F RQ I
Sbjct: 9 RLRRDQTDAERKLWQLLRNRRLNGFKFRRQKPI 41
>gnl|CDD|225408 COG2852, COG2852, Very-short-patch-repair endonuclease
[Replication, recombination, and repair].
Length = 129
Score = 26.9 bits (60), Expect = 3.0
Identities = 10/33 (30%), Positives = 12/33 (36%), Gaps = 5/33 (15%)
Query: 52 ALRERMPAFERMLWRACRGNV-----FLRQAEI 79
LR E+ LW+ R F RQ I
Sbjct: 21 RLRRDQTDAEKALWQHLRNRRLNGFKFRRQQPI 53
>gnl|CDD|215507 PLN02939, PLN02939, transferase, transferring glycosyl groups.
Length = 977
Score = 27.6 bits (61), Expect = 3.6
Identities = 14/34 (41%), Positives = 16/34 (47%), Gaps = 8/34 (23%)
Query: 19 LRAGGQTLKLGSSPPLSWGGPGVPHFNRFVAGVA 52
GGQ + LGSSP VPH R G+A
Sbjct: 805 AELGGQFVLLGSSP--------VPHIQREFEGIA 830
>gnl|CDD|227260 COG4923, COG4923, Predicted nuclease (RNAse H fold) [General
function prediction only].
Length = 245
Score = 26.9 bits (59), Expect = 5.1
Identities = 14/41 (34%), Positives = 19/41 (46%), Gaps = 2/41 (4%)
Query: 11 VTLLGEEGLRAGGQTLK--LGSSPPLSWGGPGVPHFNRFVA 49
V L+G +G RAG ++ LGS+P P F F
Sbjct: 4 VVLVGVDGCRAGWIVVRRGLGSTPRSPGSAPSFEEFASFAD 44
>gnl|CDD|131074 TIGR02019, BchJ, bacteriochlorophyll 4-vinyl reductase. This model
represents the component of bacteriochlorophyll
synthetase responsible for reduction of the B-ring
pendant ethylene (4-vinyl) group. It appears that this
step must precede the reduction of ring D, at least by
the "dark" protochlorophyllide reductase enzymes BchN,
BchB and BchL. This family appears to be present in
photosynthetic bacteria except for the cyanobacterial
clade. Cyanobacteria must use a non-orthologous gene to
carry out this required step for the biosynthesis of
both bacteriochlorophyll and chlorophyll [Biosynthesis
of cofactors, prosthetic groups, and carriers,
Chlorophyll and bacteriochlorphyll].
Length = 188
Score = 26.0 bits (57), Expect = 7.5
Identities = 16/59 (27%), Positives = 20/59 (33%), Gaps = 6/59 (10%)
Query: 7 EDEQVTLLGEEGLRAGGQTLKLGSSPPLSWGGPGVPHFNRFVAGVALRERMPAFERMLW 65
E LL E GL L PP +P AG+A R + A + W
Sbjct: 62 ETAAARLLRESGLATADYILANRIPPPAQRLIRALP------AGLAARVLLTAIAKHAW 114
>gnl|CDD|241437 cd13283, PH_GPBP, Goodpasture antigen binding protein Pleckstrin
homology (PH) domain. The GPBP (also called Collagen
type IV alpha-3-binding protein/hCERT; START
domain-containing protein 11/StARD11; StAR-related
lipid transfer protein 11) is a kinase that
phosphorylates an N-terminal region of the alpha 3
chain of type IV collagen, which is commonly known as
the goodpasture antigen. Its splice variant the
ceramide transporter (CERT) mediates the cytosolic
transport of ceramide. There have been additional
splice variants identified, but all of them function as
ceramide transport proteins. GPBP and CERT both contain
an N-terminal PH domain, followed by a serine rich
domain, and a C-terminal START domain. However, GPBP
has an additional serine rich domain just upstream of
its START domain. They are members of the oxysterol
binding protein (OSBP) family which includes OSBP,
OSBP-related proteins (ORP), Goodpasture antigen
binding protein (GPBP), and Four phosphate adaptor
protein 1 (FAPP1). They have a wide range of purported
functions including sterol transport, cell cycle
control, pollen development and vessicle transport from
Golgi recognize both PI lipids and ARF proteins. PH
domains have diverse functions, but in general are
involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from
other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 100
Score = 25.3 bits (56), Expect = 7.5
Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 5/33 (15%)
Query: 66 RACRGNVFLRQAEIET----PLE-DINSGDPVY 93
CRG++ LR+A I+ D++ D V+
Sbjct: 38 YGCRGSISLRKAVIKPHEFDECRFDVSVNDSVW 70
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 0.139 0.443
Gapped
Lambda K H
0.267 0.0792 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,226,488
Number of extensions: 748407
Number of successful extensions: 464
Number of sequences better than 10.0: 1
Number of HSP's gapped: 461
Number of HSP's successfully gapped: 15
Length of query: 152
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 64
Effective length of database: 7,034,450
Effective search space: 450204800
Effective search space used: 450204800
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: 55 (24.8 bits)