RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16402
(77 letters)
>gnl|CDD|153343 cd07659, BAR_PICK1, The Bin/Amphiphysin/Rvs (BAR) domain of
Protein Interacting with C Kinase 1. The BAR domain of
Arfaptin-like proteins, also called the Arfaptin
domain, is a dimerization and lipid binding module that
can detect and drive membrane curvature. Protein
Interacting with C Kinase 1 (PICK1), also called
Protein kinase C-alpha-binding protein, is highly
expressed in brain and testes. PICK1 plays a key role
in the trafficking of AMPA receptors, which are
critical for regulating synaptic strength and may be
important in cellular processes involved in learning
and memory. PICK1 is also critical in the early stages
of spermiogenesis. Mice deficient in PICK1 are
infertile and show characteristics of the human disease
globozoospermia such as round-headed sperm, reduced
sperm count, and severely impaired sperm motility.
PICK1 may also be involved in the neuropathogenesis of
schizophrenia. PICK1 contains an N-terminal PDZ domain
and a C-terminal BAR domain. BAR domains form dimers
that bind to membranes, induce membrane bending and
curvature, and may also be involved in protein-protein
interactions. The BAR domain of PICK1 is necessary for
its membrane localization and activation.
Length = 215
Score = 57.7 bits (140), Expect = 7e-12
Identities = 22/40 (55%), Positives = 31/40 (77%)
Query: 31 NDTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYK 70
ND LVKK+EELE T ++YKGLVEH K++L+ F + + +K
Sbjct: 1 NDGLVKKLEELEQTAELYKGLVEHTKRLLRAFYALSQTHK 40
>gnl|CDD|203455 pfam06456, Arfaptin, Arfaptin-like domain. Arfaptin interacts
with ARF1, a small GTPase involved in vesicle budding
at the Golgi complex and immature secretory granules.
The structure of arfaptin shows that upon binding to a
small GTPase, arfaptin forms an elongated,
crescent-shaped dimer of three-helix coiled-coils. The
N-terminal region of ICA69 is similar to arfaptin.
Length = 229
Score = 42.3 bits (100), Expect = 3e-06
Identities = 14/48 (29%), Positives = 23/48 (47%)
Query: 23 SLSRAILCNDTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYK 70
S AI +D L K+E L + ++ Y GLV+ + K + + K
Sbjct: 24 EDSHAITSDDELDAKLEVLRSIQRTYLGLVKLARNYSKRLYDLSQTQK 71
>gnl|CDD|214974 smart01015, Arfaptin, Arfaptin-like domain. Arfaptin interacts
with ARF1, a small GTPase involved in vesicle budding
at the Golgi complex and immature secretory granules.
The structure of arfaptin shows that upon binding to a
small GTPase, arfaptin forms an elongated,
crescent-shaped dimer of three-helix coiled-coils. The
N-terminal region of ICA69 is similar to arfaptin.
Length = 217
Score = 37.6 bits (88), Expect = 1e-04
Identities = 8/44 (18%), Positives = 21/44 (47%)
Query: 27 AILCNDTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYK 70
+ + L K+E L +T++ Y+ L++ +K + + +
Sbjct: 22 VVASDAELDAKLELLRSTQRTYEDLLKLIEKYQQRLCNLSQTEN 65
>gnl|CDD|153270 cd00011, BAR_Arfaptin_like, The Bin/Amphiphysin/Rvs (BAR) domain
of Arfaptin-like proteins, a dimerization module that
binds and bends membranes. The BAR domain of
Arfaptin-like proteins, also called the Arfaptin
domain, is a dimerization, lipid binding and curvature
sensing module present in Arfaptins, PICK1, ICA69, and
similar proteins. Arfaptins are ubiquitously expressed
proteins implicated in mediating cross-talk between
Rac, a member of the Rho family GTPases, and Arf
(ADP-ribosylation factor) small GTPases. Arfaptins bind
to GTP-bound Arf1, Arf5, and Arf6, with strongest
binding to GTP-Arf1. Arfaptins also binds to Rac-GTP
and Rac-GDP with similar affinities. The Arfs are
thought to bind to the same surface as Rac, and their
binding is mutually exclusive. Protein Interacting with
C Kinase 1 (PICK1) plays a key role in the trafficking
of AMPA receptors, which are critical for regulating
synaptic strength and may be important in cellular
processes involved in learning and memory. Islet cell
autoantigen 69-kDa (ICA69) is a diabetes-associated
autoantigen that is involved in membrane trafficking at
the Golgi complex in neurosecretory cells. ICA69
associates with PICK1 through their BAR domains to form
a heterodimer which is involved in regulating the
synaptic targeting and surface expression of AMPA
receptors. BAR domains form dimers that bind to
membranes, induce membrane bending and curvature, and
may also be involved in protein-protein interactions.
Length = 203
Score = 31.4 bits (71), Expect = 0.020
Identities = 5/37 (13%), Positives = 18/37 (48%)
Query: 31 NDTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILR 67
+ L ++E L T++ Y+ +++ + + + +
Sbjct: 1 DLELELQLELLRETKRKYESVLQLGRALTAHLYSLSQ 37
>gnl|CDD|178606 PLN03043, PLN03043, Probable pectinesterase/pectinesterase
inhibitor; Provisional.
Length = 538
Score = 27.1 bits (60), Expect = 0.78
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 5/44 (11%)
Query: 15 DYLQGLNQSLSRAILCNDTLVKKMEEL-----ENTEQMYKGLVE 53
DYL+ ++ L A L D LV+++ L N + Y GLV+
Sbjct: 84 DYLETISSELKSAELMTDALVERVTSLLSGVVTNQQTCYDGLVD 127
>gnl|CDD|227361 COG5028, COG5028, Vesicle coat complex COPII, subunit SEC24/subunit
SFB2/subunit SFB3 [Intracellular trafficking and
secretion].
Length = 861
Score = 27.1 bits (60), Expect = 0.87
Identities = 8/25 (32%), Positives = 11/25 (44%)
Query: 51 LVEHCKKVLKGFLGILRVYKGCLAG 75
L E + K + IL+ YK L
Sbjct: 626 LKEARVLINKSMVDILKAYKKELVK 650
>gnl|CDD|178513 PLN02925, PLN02925, 4-hydroxy-3-methylbut-2-en-1-yl diphosphate
synthase.
Length = 733
Score = 26.6 bits (59), Expect = 1.4
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 39 EELENTEQMYKGLVEHCKK 57
+ELE+ E+++ LVE CKK
Sbjct: 203 KELEHIEEVFTPLVEKCKK 221
>gnl|CDD|218661 pfam05622, HOOK, HOOK protein. This family consists of several
HOOK1, 2 and 3 proteins from different eukaryotic
organisms. The different members of the human gene
family are HOOK1, HOOK2 and HOOK3. Different domains
have been identified in the three human HOOK proteins,
and it was demonstrated that the highly conserved
NH2-domain mediates attachment to microtubules, whereas
the central coiled-coil motif mediates homodimerisation
and the more divergent C-terminal domains are involved
in binding to specific organelles (organelle-binding
domains). It has been demonstrated that endogenous HOOK3
binds to Golgi membranes, whereas both HOOK1 and HOOK2
are localised to discrete but unidentified cellular
structures. In mice the Hook1 gene is predominantly
expressed in the testis. Hook1 function is necessary for
the correct positioning of microtubular structures
within the haploid germ cell. Disruption of Hook1
function in mice causes abnormal sperm head shape and
fragile attachment of the flagellum to the sperm head.
Length = 713
Score = 26.3 bits (58), Expect = 1.6
Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 12 LLDDYLQGLNQSLSRAIL-CNDTLVKKMEELENTEQMYKGLVEHCKKVLK 60
+++ +Q+LSR I L KK E++ E+ YK VE ++V+K
Sbjct: 562 QIEELEPDQDQNLSRKIAELEAALQKKDEDMRAMEERYKKYVEKAREVIK 611
>gnl|CDD|217688 pfam03715, Noc2, Noc2p family. At least one member, Noc2p from
yeast, is required for a late step in 60S subunit
export from the nucleus. It has also been shown to
co-precipitate with Nug1p, a nuclear GTPase also
required for ribosome nucleus export. This family was
formerly known as UPF0120.
Length = 301
Score = 25.6 bits (57), Expect = 2.4
Identities = 7/29 (24%), Positives = 11/29 (37%)
Query: 46 QMYKGLVEHCKKVLKGFLGILRVYKGCLA 74
MY V++ K L ++ K A
Sbjct: 11 GMYLAFVKNSKFTNPHTLPLINFMKNSAA 39
>gnl|CDD|220387 pfam09763, Sec3, Exocyst complex component Sec3. This entry is the
conserved middle and C-terminus of the Sec3 protein.
Sec3 binds to the C-terminal cytoplasmic domain of GLYT1
(glycine transporter protein 1). Sec3 is the exocyst
component that is closest to the plasma membrane docking
site and it serves as a spatial landmark in the plasma
membrane for incoming secretory vesicles. Sec3 is
recruited to the sites of polarised membrane growth
through its interaction with Rho1p, a small GTP-binding
protein.
Length = 691
Score = 25.4 bits (56), Expect = 3.0
Identities = 9/35 (25%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 36 KKMEELENTEQMYKGLVEHCKKV-LKGFLGILRVY 69
L N +Y GL+ K+V + + +L+ Y
Sbjct: 202 PDHLNLLNNLLIYSGLMLFLKEVDRETYEALLKAY 236
>gnl|CDD|223440 COG0363, NagB, 6-phosphogluconolactonase/Glucosamine-6-phosphate
isomerase/deaminase [Carbohydrate transport and
metabolism].
Length = 238
Score = 24.9 bits (55), Expect = 4.7
Identities = 9/41 (21%), Positives = 15/41 (36%)
Query: 37 KMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGCLAGGR 77
K+ E+ E++ K E L+ L+GG
Sbjct: 2 KLIIFEDAEELAKAAAEIIADKLQAAKAERGRAVLALSGGS 42
>gnl|CDD|217443 pfam03234, CDC37_N, Cdc37 N terminal kinase binding. Cdc37 is a
molecular chaperone required for the activity of
numerous eukaryotic protein kinases. This domain
corresponds to the N terminal domain which binds
predominantly to protein kinases and is found N
terminal to the Hsp (Heat shocked protein) 90-binding
domain pfam08565. Expression of a construct consisting
of only the N-terminal domain of Saccharomyces pombe
Cdc37 results in cellular viability. This indicates
that interactions with the cochaperone Hsp90 may not be
essential for Cdc37 function.
Length = 172
Score = 24.0 bits (52), Expect = 8.9
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 36 KKMEELENTEQMYKGLVEHCKKVL 59
+++EELE M L+E K+L
Sbjct: 46 QEIEELEKERIMNDRLLERVDKLL 69
>gnl|CDD|218899 pfam06102, DUF947, Domain of unknown function (DUF947). Family of
eukaryotic proteins with unknown function.
Length = 168
Score = 23.8 bits (52), Expect = 9.6
Identities = 14/48 (29%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Query: 11 SLLDDYLQGLNQSLSRAI-LCNDTLVKKMEELENTEQMYKGLVEHCKK 57
LDDY + + L +A+ D ++ EEL+ T Q K ++ K
Sbjct: 55 KFLDDYREKEIEELEKALKKTKD--SEEKEELKRTLQSMKSRLKTLKN 100
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
0.319 0.136 0.387
Gapped
Lambda K H
0.267 0.0749 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,718,318
Number of extensions: 276910
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: 18
Length of query: 77
Length of database: 10,937,602
Length adjustment: 46
Effective length of query: 31
Effective length of database: 8,897,318
Effective search space: 275816858
Effective search space used: 275816858
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 (21.7 bits)
S2: 53 (24.2 bits)