RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2911
(234 letters)
>gnl|CDD|220656 pfam10256, Erf4, Golgin subfamily A member 7/ERF4 family. This
family of proteins includes Golgin subfamily A member 7
proteins as well as Ras modification protein ERF4.
Length = 118
Score = 90.8 bits (226), Expect = 2e-23
Identities = 18/73 (24%), Positives = 30/73 (41%)
Query: 112 EFGLSNKFETDFPSSLISRVAPEEYQTTIEQINTVLKKTLPVNAKWLFCGCVCCCCTLGC 171
L+ +F T +P L R++ EE++ I +IN L + + + C TL
Sbjct: 11 SGDLAPQFSTLYPGELEGRISEEEFEEIINRINDYLAEAFEPISWRNLLEGILGCLTLYL 70
Query: 172 SLWPVVCLSKRRF 184
S + KR
Sbjct: 71 SSLILKTHYKRTL 83
>gnl|CDD|223481 COG0404, GcvT, Glycine cleavage system T protein
(aminomethyltransferase) [Amino acid transport and
metabolism].
Length = 379
Score = 31.1 bits (71), Expect = 0.44
Identities = 14/47 (29%), Positives = 19/47 (40%), Gaps = 10/47 (21%)
Query: 1 MGKIVVKGPMNETEKFL-----RDFRKLTTGKLTTAPFSFALDQFGF 42
MGK+ V GP + FL D KL G+ L++ G
Sbjct: 56 MGKVEVSGP--DAAAFLQRLLTNDVSKLKPGRARYTLM---LNEDGG 97
>gnl|CDD|234742 PRK00389, gcvT, glycine cleavage system aminomethyltransferase T;
Reviewed.
Length = 359
Score = 30.1 bits (69), Expect = 0.85
Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 7/32 (21%)
Query: 1 MGKIVVKGPMNETEKFLR-----DFRKLTTGK 27
MG++ V GP + FL+ D KL GK
Sbjct: 52 MGEVDVTGP--DALAFLQYLLANDVSKLKPGK 81
>gnl|CDD|241285 cd01254, PH_PLD, Phospholipase D pleckstrin homology (PH) domain.
PLD hydrolyzes phosphatidylcholine to phosphatidic acid
(PtdOH), which can bind target proteins. PLD contains a
PH domain, a PX domain and four conserved PLD signature
domains. The PLD PH domain is specific for
bisphosphorylated inositides. 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 = 134
Score = 27.6 bits (62), Expect = 3.2
Identities = 13/40 (32%), Positives = 18/40 (45%), Gaps = 6/40 (15%)
Query: 146 VLKKTLPVNAKWLFCGCVCCCCTLGCSLWPVVCLSKRRFF 185
+ K++ W C CCC ++ CS W SKR F
Sbjct: 30 LKKRSGGHRQGWRVCHFCCCCKSM-CSRW-----SKRWFI 63
>gnl|CDD|188709 cd08755, RGS_p115RhoGEF, Regulator of G protein signaling (RGS)
domain found in the Rho guanine nucleotide exchange
factor (GEF), p115 RhoGEF. The RGS (Regulator of
G-protein Signaling) domain is an essential part of the
p115RhoGEF protein, a member of the RhoGEF (Rho guanine
nucleotide exchange factor) subfamily of the RGS protein
family. The RhoGEFs are peripheral membrane proteins
that regulate essential cellular processes, including
cell shape, cell migration, cell cycle progression of
cells, and gene transcription by linking signals from
heterotrimeric G-alpha12/13 protein-coupled receptors to
Rho GTPase activation, leading to various cellular
responses, such as actin reorganization and gene
expression. The RhoGEF subfamily includes p115RhoGEF,
LARG, PDZ-RhoGEF and its rat specific splice variant
GTRAP48. The RGS domain of RhoGEFs has very little
sequence similarity with the canonical RGS domain of the
RGS proteins and is often refered to as RH (RGS
Homology) domain. In addition to being a G-alpha13/12
effector, the p115RhoGEF protein also functions as a
GTPase-activating protein (GAP) for G-alpha13. RGS
proteins play critical regulatory role as GTPase
activating proteins (GAPs) of the heterotrimeric
G-protein G-alpha-subunits. RGS proteins play critical
regulatory role as GTPase activating proteins (GAPs) of
the heterotrimeric G-protein G-alpha-subunits. RGS
proteins regulate many aspects of embryonic development
such as glial differentiation, embryonic axis formation,
skeletal and muscle development, cell migration during
early embryogenesis, as well as apoptosis, cell
proliferation, and modulation of cardiac development.
Length = 193
Score = 27.5 bits (61), Expect = 5.0
Identities = 13/34 (38%), Positives = 17/34 (50%)
Query: 197 VSPSVFVKEVETHCPHVTSREGSAAIVNKIIYYI 230
V+ S+ K VE + V E S AI I YY+
Sbjct: 142 VAESLLEKLVEMNPTIVPDEEKSNAIFGAIAYYM 175
>gnl|CDD|176201 cd08239, THR_DH_like, L-threonine dehydrogenase (TDH)-like.
MDR/AHD-like proteins, including a protein annotated as
a threonine dehydrogenase. L-threonine dehydrogenase
(TDH) catalyzes the zinc-dependent formation of
2-amino-3-ketobutyrate from L-threonine via
NAD(H)-dependent oxidation. The zinc-dependent alcohol
dehydrogenases (ADHs) catalyze the NAD(P)(H)-dependent
interconversion of alcohols to aldehydes or ketones.
Zinc-dependent ADHs are medium chain
dehydrogenase/reductase type proteins (MDRs) and have a
NAD(P)(H)-binding domain in a Rossmann fold of an
beta-alpha form. The N-terminal region typically has an
all-beta catalytic domain. In addition to alcohol
dehydrogenases, this group includes quinone reductase,
sorbitol dehydrogenase, formaldehyde dehydrogenase,
butanediol DH, ketose reductase, cinnamyl reductase, and
numerous others. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 339
Score = 27.7 bits (62), Expect = 5.3
Identities = 12/32 (37%), Positives = 15/32 (46%), Gaps = 4/32 (12%)
Query: 159 FCGCVCCCCTLGCSLWPVVCLSKRRFFGVSRP 190
CG C C G W +C SKR +G +R
Sbjct: 89 GCG-ACRNCRRG---WMQLCTSKRAAYGWNRD 116
>gnl|CDD|216597 pfam01601, Corona_S2, Coronavirus S2 glycoprotein. The coronavirus
spike glycoprotein forms the characteristic 'corona'
after which the group is named. The Spike glycoprotein
is translated as a large polypeptide that is
subsequently cleaved to S1 pfam01600 and S2.
Length = 609
Score = 27.6 bits (62), Expect = 5.9
Identities = 9/45 (20%), Positives = 12/45 (26%), Gaps = 7/45 (15%)
Query: 157 WLFC--GCVCCCCTLGCSLWPVVCLSKRRFFGVSRPLPKCLNVSP 199
+ C GC CC G C ++ L V
Sbjct: 566 FCCCMTGCCGCCGCFGSK-----CGGCCSYYTTFDDLVPYEPVEK 605
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
0.322 0.136 0.427
Gapped
Lambda K H
0.267 0.0728 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,376,026
Number of extensions: 1004513
Number of successful extensions: 818
Number of sequences better than 10.0: 1
Number of HSP's gapped: 811
Number of HSP's successfully gapped: 11
Length of query: 234
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 140
Effective length of database: 6,768,326
Effective search space: 947565640
Effective search space used: 947565640
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: 57 (25.7 bits)