RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy511
(67 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 = 63.9 bits (156), Expect = 6e-14
Identities = 32/60 (53%), Positives = 39/60 (65%), Gaps = 8/60 (13%)
Query: 1 MPAFERMLWRACRGNVFLRQAEIETPLEDINSGDPVYKSVFIIFFQGDQLKTRVMKICEG 60
+ AFER LWRACRG ++RQAEIE PLED K+VFIIFF G + +V KI +
Sbjct: 154 LEAFERELWRACRG--YIRQAEIEEPLEDPK------KTVFIIFFVGKEDLDKVKKILDS 205
>gnl|CDD|180486 PRK06246, PRK06246, fumarate hydratase; Provisional.
Length = 280
Score = 27.4 bits (62), Expect = 0.42
Identities = 12/40 (30%), Positives = 19/40 (47%)
Query: 16 VFLRQAEIETPLEDINSGDPVYKSVFIIFFQGDQLKTRVM 55
+LR++ + PL N+GD + GD+LK V
Sbjct: 104 GYLRKSVVADPLTRKNTGDNTPAVIHTEIVPGDKLKITVA 143
>gnl|CDD|222333 pfam13709, DUF4159, Domain of unknown function (DUF4159). Members
of this family are hypothetical proteins. TM prediction
shows them to have two transmembrane regions, with a
cytosolic region of about 25 amino acids between the
two, and an N-terminus outside the membrane.
Length = 203
Score = 26.8 bits (60), Expect = 0.63
Identities = 7/25 (28%), Positives = 15/25 (60%)
Query: 24 ETPLEDINSGDPVYKSVFIIFFQGD 48
E PLE + + +++S +++ F G
Sbjct: 110 EPPLEPLPADHVLFRSFYLLDFPGR 134
>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 = 25.7 bits (57), Expect = 1.3
Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 5/33 (15%)
Query: 10 RACRGNVFLRQAEIET----PLE-DINSGDPVY 37
CRG++ LR+A I+ D++ D V+
Sbjct: 38 YGCRGSISLRKAVIKPHEFDECRFDVSVNDSVW 70
>gnl|CDD|227804 COG5517, COG5517, Small subunit of phenylpropionate dioxygenase
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 164
Score = 24.7 bits (54), Expect = 3.5
Identities = 16/56 (28%), Positives = 22/56 (39%), Gaps = 7/56 (12%)
Query: 9 WRACRGNVFLRQAEIETPL---EDINSGDPVYKSVFIIFFQGDQLKTRVMKICEGK 61
W A F QAE P E + DP ++ I + L+ RV +I G
Sbjct: 29 WLAQ----FDEQAEYWMPPWDDEQTLTRDPQRETSLIYYDSKGGLEDRVFRIRTGM 80
>gnl|CDD|221299 pfam11897, DUF3417, Protein of unknown function (DUF3417). This
family of proteins are functionally uncharacterized.
This protein is found in bacteria and archaea. Proteins
in this family are typically between 145 to 860 amino
acids in length. This protein is found associated with
pfam00343. This protein has a conserved AYF sequence
motif.
Length = 119
Score = 24.5 bits (54), Expect = 4.0
Identities = 9/34 (26%), Positives = 11/34 (32%), Gaps = 8/34 (23%)
Query: 4 FERM---LWRACRGN--VFLR---QAEIETPLED 29
F R+ LW N L Q +E D
Sbjct: 37 FRRLDPELWEETGHNPVRLLGEVSQERLEELAAD 70
>gnl|CDD|237785 PRK14671, uvrC, excinuclease ABC subunit C; Provisional.
Length = 621
Score = 24.7 bits (54), Expect = 4.1
Identities = 20/70 (28%), Positives = 26/70 (37%), Gaps = 10/70 (14%)
Query: 5 ERMLWRACRGNVFLRQAEIETPLE---------DINSGDPVYKSVFIIFFQGDQLKTRVM 55
E M A F AE++ +E + S D + VF + D V
Sbjct: 222 EEMQRAAAELK-FEEAAELKDQIESLKRYAERQKVVSQDGADRDVFAVAVGEDDACGVVF 280
Query: 56 KICEGKKLSS 65
KI EGK L S
Sbjct: 281 KIREGKLLGS 290
>gnl|CDD|225586 COG3044, COG3044, Predicted ATPase of the ABC class [General
function prediction only].
Length = 554
Score = 24.5 bits (53), Expect = 5.8
Identities = 8/31 (25%), Positives = 12/31 (38%)
Query: 22 EIETPLEDINSGDPVYKSVFIIFFQGDQLKT 52
EIE P G + + + +I KT
Sbjct: 226 EIELPNGKEVVGMGIPQGITLITGGNFHGKT 256
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 0.140 0.426
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: 3,409,903
Number of extensions: 244939
Number of successful extensions: 220
Number of sequences better than 10.0: 1
Number of HSP's gapped: 218
Number of HSP's successfully gapped: 10
Length of query: 67
Length of database: 10,937,602
Length adjustment: 38
Effective length of query: 29
Effective length of database: 9,252,150
Effective search space: 268312350
Effective search space used: 268312350
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 (21.6 bits)
S2: 53 (24.1 bits)