RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6616
(71 letters)
>gnl|CDD|206639 cd00066, G-alpha, Alpha subunit of G proteins (guanine nucleotide
binding). The alpha subunit of G proteins contains the
guanine nucleotide binding site. The heterotrimeric
GNP-binding proteins are signal transducers that
communicate signals from many hormones,
neurotransmitters, chemokines, and autocrine and
paracrine factors. Extracellular signals are received by
receptors, which activate the G proteins, which in turn
route the signals to several distinct intracellular
signaling pathways. The alpha subunit of G proteins is a
weak GTPase. In the resting state, heterotrimeric G
proteins are associated at the cytosolic face of the
plasma membrane and the alpha subunit binds to GDP. Upon
activation by a receptor GDP is replaced with GTP, and
the G-alpha/GTP complex dissociates from the beta and
gamma subunits. This results in activation of downstream
signaling pathways, such as cAMP synthesis by adenylyl
cyclase, which is terminated when GTP is hydrolized and
the heterotrimers reconstitute.
Length = 315
Score = 98.4 bits (246), Expect = 7e-27
Identities = 34/64 (53%), Positives = 43/64 (67%)
Query: 2 KYFTELLSGAQEYGEAAAYIQAQFEAKNKSTTKEIYCHMTCATDTNNIQFVFDAVTDVII 61
YF + +Y EAA YI+ +F N++ KEIY H TCATDT NI+FVFDAV D+I+
Sbjct: 252 DYFPDYTGPPNDYEEAAKYIKKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDAVKDIIL 311
Query: 62 ANNL 65
NNL
Sbjct: 312 QNNL 315
>gnl|CDD|214595 smart00275, G_alpha, G protein alpha subunit. Subunit of G
proteins that contains the guanine nucleotide binding
site.
Length = 342
Score = 87.2 bits (217), Expect = 1e-22
Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 2/69 (2%)
Query: 2 KYFTELLSGAQEYGEAAAYIQAQFEAKNKSTT-KEIYCHMTCATDTNNIQFVFDAVTDVI 60
YF + G +Y AA +I+ +F N++++ K IY H TCATDT NI+ VFDAV D+I
Sbjct: 275 DYFPDY-KGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVFDAVKDII 333
Query: 61 IANNLRGCG 69
+ NL+ G
Sbjct: 334 LQRNLKDAG 342
>gnl|CDD|215955 pfam00503, G-alpha, G-protein alpha subunit. G proteins couple
receptors of extracellular signals to intracellular
signaling pathways. The G protein alpha subunit binds
guanyl nucleotide and is a weak GTPase. A set of
residues that are unique to G-alpha as compared to its
ancestor the Arf-like family form a ring of residues
centered on the nucleotide binding site. A Ggamma is
found fused to an inactive Galpha in the Dictyostelium
protein gbqA.
Length = 329
Score = 82.3 bits (204), Expect = 1e-20
Identities = 31/71 (43%), Positives = 45/71 (63%), Gaps = 1/71 (1%)
Query: 2 KYFTELLSGAQEYGEAAAYIQAQFEAKNK-STTKEIYCHMTCATDTNNIQFVFDAVTDVI 60
YF E +Y A+ YI+ +F NK ++ ++IY H T ATDT N++FVF+AV D+I
Sbjct: 259 DYFPEYEGDPNDYESASKYIRNKFLELNKNNSERKIYTHFTNATDTENVRFVFEAVKDII 318
Query: 61 IANNLRGCGLY 71
+ NNL+ GL
Sbjct: 319 LQNNLKESGLL 329
>gnl|CDD|185770 cd09247, BRO1_Alix_like_2, Protein-interacting Bro1-like domain of
an Uncharacterized family of the BRO1_Alix_like
superfamily. This domain family is comprised of
uncharacterized proteins. It belongs to the
BRO1_Alix_like superfamily which includes the Bro1-like
domains of mammalian Alix (apoptosis-linked gene-2
interacting protein X), His-Domain type N23 protein
tyrosine phosphatase (HD-PTP, also known as PTPN23),
RhoA-binding proteins Rhophilin-1 and -2, Brox, Bro1 and
Rim20 (also known as PalA) from Saccharomyces
cerevisiae, Ustilago maydis Rim23 (also known as PalC),
and related domains. Alix, HD-PTP, Brox, Bro1, Rim20 and
Rim23 interact with the ESCRT (Endosomal Sorting
Complexes Required for Transport) system. Alix
participates in membrane remodeling processes during the
budding of enveloped viruses, vesicle budding inside
late endosomal multivesicular bodies (MVBs), and the
abscission reactions of mammalian cell division. It also
functions in apoptosis. HD-PTP and Bro1 function in
endosomal trafficking, with HD-PTP having additional
functions in cell migration. Rim20 and Rim23 play roles
in the response to the external pH via the Rim101
pathway. Bro1-like domains are boomerang-shaped, and
part of the domain is a tetratricopeptide repeat
(TPR)-like structure. These domains bind components of
the ESCRT-III complex: CHMP4 (in the case of Alix, Brox
and HD-PTP) and Snf7 (in the case of yeast Bro1 and
Rim20). The Bro1-like domains of Alix, HD-PTP, Brox, and
Rhophilin can bind human immunodeficiency virus type 1
(HIV-1) nucleocapsid. This family lacks the V-shaped (V)
domain found in many members of the BRO1_Alix_like
superfamily.
Length = 346
Score = 27.4 bits (61), Expect = 0.47
Identities = 9/59 (15%), Positives = 16/59 (27%), Gaps = 1/59 (1%)
Query: 1 MKYFTELLSGAQEYGEAAAYIQ-AQFEAKNKSTTKEIYCHMTCATDTNNIQFVFDAVTD 58
Y L A G A ++ A K K +I + + + +
Sbjct: 256 QLYLARRLKEAGHIGVAVGVLREALRNLKKKLPGSDISSPVIFRDERAEVATLLQKYEK 314
>gnl|CDD|184536 PRK14145, PRK14145, heat shock protein GrpE; Provisional.
Length = 196
Score = 26.4 bits (58), Expect = 1.2
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 11 AQEYGEAAAYIQAQFEAKNKSTTKE 35
AQEY + A ++A+FE K T KE
Sbjct: 61 AQEYLDIAQRLKAEFENYRKRTEKE 85
>gnl|CDD|235351 PRK05137, tolB, translocation protein TolB; Provisional.
Length = 435
Score = 25.6 bits (57), Expect = 2.4
Identities = 8/30 (26%), Positives = 13/30 (43%), Gaps = 1/30 (3%)
Query: 42 CATDTNNIQFVFDAVTDVIIANNLRGCGLY 71
T + + VI AN+L+ GL+
Sbjct: 42 FVAGTALADELGADIAKVI-ANDLKRSGLF 70
>gnl|CDD|227702 COG5415, COG5415, Predicted integral membrane metal-binding protein
[General function prediction only].
Length = 251
Score = 25.3 bits (55), Expect = 2.7
Identities = 15/67 (22%), Positives = 21/67 (31%), Gaps = 8/67 (11%)
Query: 6 ELLSGAQEYGEAAAYIQ--------AQFEAKNKSTTKEIYCHMTCATDTNNIQFVFDAVT 57
E L Y ++ IQ E N T KE + + + FD V
Sbjct: 117 EKLKEETHYNATSSIIQKYSEELNAKYQELNNLKTEKEKFKKESHVKKKEDSDAWFDKVI 176
Query: 58 DVIIANN 64
V+ N
Sbjct: 177 SVLAGGN 183
>gnl|CDD|224086 COG1164, COG1164, Oligoendopeptidase F [Amino acid transport and
metabolism].
Length = 598
Score = 25.0 bits (55), Expect = 3.4
Identities = 11/48 (22%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 4 FTELLSGAQEYGEAAAYIQAQFEAKNKSTTKEIYCHMTCATDTNNIQF 51
F EL+ A++ EA ++ + + Y M +TDT + +
Sbjct: 42 FYELILSAEDLLEA---LEEYEKLEELLGRLYAYASMKLSTDTTDEEA 86
>gnl|CDD|217440 pfam03231, Bunya_NS-S_2, Bunyavirus non-structural protein NS-S.
This family represents the Bunyavirus NS-S family.
Bunyavirus has three genomic segments: small (S),
middle-sized (M), and large (L). The S segment encodes
the nucleocapsid and a non-structural protein. The M
segment codes for two glycoproteins, G1 and G2, and
another non-structural protein (NSm). The L segment
codes for an RNA polymerase.
Length = 444
Score = 25.1 bits (55), Expect = 3.6
Identities = 8/39 (20%), Positives = 14/39 (35%), Gaps = 2/39 (5%)
Query: 21 IQAQFEAKNKSTTKEIYCHMTCATDTNNIQ--FVFDAVT 57
I F + + IY C DT+N + + +
Sbjct: 269 IARTFCIPDDPKNRIIYFSSKCLGDTSNERTTLIIKVIC 307
>gnl|CDD|193493 cd02690, M28, M28 Zn-peptidases include aminopeptidases and
carboxypeptidases. Peptidase M28 family (also called
aminopeptidase Y family) contains aminopeptidases as
well as carboxypeptidases. They have co-catalytic zinc
ions; each zinc ion is tetrahedrally co-ordinated, with
three amino acid ligands plus activated water; one
aspartate residue binds both metal ions. The
aminopeptidases in this family are also called
bacterial leucyl aminopeptidases, but are able to
release a variety of N-terminal amino acids. IAP
aminopeptidase and aminopeptidase Y preferentially
release basic amino acids while glutamate
carboxypeptidase II preferentially releases C-terminal
glutamates. Plasma glutamate carboxypeptidase (PGCP)
and glutamate carboxypeptidase II (NAALADase) hydrolyze
dipeptides. Several members of the M28 peptidase family
have PA domain inserts which may participate in
substrate binding and/or in promoting conformational
changes, which influence the stability and
accessibility of the site to substrate. These include
prostate-specific membrane antigen (PSMA), yeast
aminopeptidase S (SGAP), human transferrin receptors
(TfR1 and TfR2), plasma glutamate carboxypeptidase
(PGCP) and several predicted aminopeptidases where
relatively little is known about them. Also included in
the M28 family are the glutaminyl cyclases (QC) which
are involved in N-terminal glutamine cyclization of
many endocrine peptides. Nicastrin and nicalin belong
to this family but lack the amino-acid conservation
required for catalytically active aminopeptidases.
Length = 252
Score = 24.7 bits (54), Expect = 4.7
Identities = 8/32 (25%), Positives = 15/32 (46%)
Query: 4 FTELLSGAQEYGEAAAYIQAQFEAKNKSTTKE 35
+ ++G+ AA YI+AQ +A +
Sbjct: 9 LSGTMAGSPGERLAADYIKAQLQALGYKVELQ 40
>gnl|CDD|224689 COG1775, HgdB, Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA
dehydratase subunit, BcrC/BadD/HgdB [Amino acid
transport and metabolism].
Length = 379
Score = 23.9 bits (52), Expect = 9.5
Identities = 9/37 (24%), Positives = 18/37 (48%)
Query: 35 EIYCHMTCATDTNNIQFVFDAVTDVIIANNLRGCGLY 71
+ Y + CA + N +F ++ ++ N+ G LY
Sbjct: 290 DQYFKIPCACYSPNDEFRVKYISRMVKEYNVDGVVLY 326
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 0.132 0.387
Gapped
Lambda K H
0.267 0.0791 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,331,709
Number of extensions: 224620
Number of successful extensions: 205
Number of sequences better than 10.0: 1
Number of HSP's gapped: 203
Number of HSP's successfully gapped: 11
Length of query: 71
Length of database: 10,937,602
Length adjustment: 41
Effective length of query: 30
Effective length of database: 9,119,088
Effective search space: 273572640
Effective search space used: 273572640
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: 53 (24.1 bits)