RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7255
(289 letters)
>gnl|CDD|213807 TIGR03378, glycerol3P_GlpB, glycerol-3-phosphate dehydrogenase,
anaerobic, B subunit. Members of this protein family
are the B subunit, product of the glpB gene, of a
three-subunit, membrane-anchored, FAD-dependent
anaerobic glycerol-3-phosphate dehydrogenase [Energy
metabolism, Anaerobic].
Length = 419
Score = 32.7 bits (75), Expect = 0.22
Identities = 14/57 (24%), Positives = 18/57 (31%), Gaps = 13/57 (22%)
Query: 173 RDPWILQRTAHPRPDQTFGVSV----HVDITAAGLQNLFGNGTFSMGALIGVVTSHF 225
RD W R P P FGV ++NL+ IG V +
Sbjct: 348 RDQWYQHRFFAPHPFMQFGVKTDAQLRPSRGGQTIENLYA---------IGAVLGGY 395
>gnl|CDD|239537 cd03453, SAV4209_like, SAV4209_like. Similar in sequence to the
Streptomyces avermitilis SAV4209 protein, with a hot dog
fold that is similar to those of (R)-specific enoyl-CoA
hydratase, the peroxisomal
Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the
fatty acid synthase beta subunit.
Length = 127
Score = 29.6 bits (67), Expect = 0.77
Identities = 10/33 (30%), Positives = 15/33 (45%), Gaps = 3/33 (9%)
Query: 194 VHVDI---TAAGLQNLFGNGTFSMGALIGVVTS 223
+H D GL + +G +MG L +VT
Sbjct: 30 IHYDEDFAKKVGLPGVIAHGMLTMGLLGRLVTD 62
>gnl|CDD|197296 cd09200, PLDc_pPLDbeta_2, Catalytic domain, repeat 2, of plant
beta-type phospholipase D. Catalytic domain, repeat 2,
of plant beta-type phospholipase D (PLDbeta, EC
3.1.4.4). Plant PLDbeta is a phosphatidylinositol
4,5-bisphosphate (PIP2)-dependent PLD that possesses a
regulatory calcium-dependent phospholipid-binding C2
domain in the N-terminus and requires nanomolar calcium
and cytosolic factors for optimal activity. The C2
domain is unique to plant PLDs and is not present in
animal or fungal PLDs. Sequence analysis shows that
plant PLDbeta is evolutionarily divergent from
alpha-type plant PLD, and plant PLDbeta is more closely
related to mammalian and yeast PLDs than to plant
PLDalpha. Like other PLD enzymes, the monomer of plant
PLDbeta consists of two catalytic domains, each of which
contains one copy of the conserved HKD motif
(H-x-K-x(4)-D, where x represents any amino acid
residue). Two HKD motifs from two domains form a single
active site. Plant PLDbeta may utilize a common two-step
ping-pong catalytic mechanism involving an
enzyme-substrate intermediate to cleave phosphodiester
bonds. The two histidine residues from the two HKD
motifs play key roles in the catalysis. Upon substrate
binding, a histidine residue from one HKD motif could
function as the nucleophile, attacking the
phosphodiester bond to create a covalent
phosphohistidine intermediate, while the other histidine
residue from the second HKD motif could serve as a
general acid, stabilizing the leaving group.
Length = 211
Score = 28.7 bits (64), Expect = 3.0
Identities = 19/58 (32%), Positives = 23/58 (39%), Gaps = 9/58 (15%)
Query: 70 YLEN-------YLWPNYKTGEASHEHLMSIVIMTNEKFR--ERVNAWETFRKHPEHFP 118
Y+EN Y WP YK A + M I + EK R ER + PE P
Sbjct: 25 YIENQYFIGSSYNWPAYKDAGADNLIPMEIALKIAEKIRAGERFAVYIVIPMWPEGVP 82
>gnl|CDD|119322 cd06580, TM_PBP1_transp_TpRbsC_like, Transmembrane subunit (TM) of
Treponema pallidum (Tp) RbsC-1, RbsC-2 and related
proteins. This is a functionally uncharacterized
subgroup of TMs which belong to a larger group of TMs of
Periplasmic Binding Protein (PBP)-dependent ATP-Binding
Cassette (ABC) transporters, which are mainly involved
in the uptake of branched-chain amino acids (AAs) or in
the uptake of monosaccharides including ribose,
galactose, and arabinose, and which generally bind type
1 PBPs. PBP-dependent ABC transporters consist of a PBP,
two TMs, and two cytoplasmic ABCs, and are mainly
involved in importing solutes from the environment. The
solute is captured by the PBP, which delivers it to a
gated translocation pathway formed by the two TMs. The
two ABCs bind and hydrolyze ATP and drive the transport
reaction.
Length = 234
Score = 28.6 bits (65), Expect = 3.6
Identities = 6/29 (20%), Positives = 12/29 (41%)
Query: 201 AGLQNLFGNGTFSMGALIGVVTSHFSAPY 229
AG+ N+ G +GA + + +
Sbjct: 17 AGVFNIGLEGQMLLGAFAAALVALYLGLP 45
>gnl|CDD|227352 COG5019, CDC3, Septin family protein [Cell division and chromosome
partitioning / Cytoskeleton].
Length = 373
Score = 28.8 bits (65), Expect = 3.8
Identities = 14/61 (22%), Positives = 24/61 (39%), Gaps = 14/61 (22%)
Query: 64 MLEFSQYLENYLWPNYKT---------GEASHEHLMSIVIM-----TNEKFRERVNAWET 109
+ E + EN L+ NY+T GE S + + + +KF E++ E
Sbjct: 272 LQELKETTENLLYENYRTEKLSGLKNSGEPSLKEIHEARLNEEERELKKKFTEKIREKEK 331
Query: 110 F 110
Sbjct: 332 R 332
>gnl|CDD|197313 cd09079, RgfB-like, Streptococcus agalactiae RgfB, part of a
putative two component signal transduction system, and
related proteins. This family includes Streptococcus
agalactiae RgfB (for regulator of fibrinogen binding)
and related proteins. The function of RgfB is unknown.
It is part of a putative two component signal
transduction system designated rgfBDAC (the rgf locus
was identified in a screen for mutants of Streptococcus
agalactiae with altered binding to fibrinogen).
RgfA,-C,and -D do not belong to this superfamily: rgfA
encodes a putative response regulator, and rgfC, a
putative histidine kinase. All four genes are
co-transcribed, and may be involved in regulating
expression of bacterial cell surface components. This
family belongs to the large EEP
(exonuclease/endonuclease/phosphatase) superfamily that
contains functionally diverse enzymes that share a
common catalytic mechanism of cleaving phosphodiester
bonds.
Length = 259
Score = 28.4 bits (64), Expect = 4.2
Identities = 15/67 (22%), Positives = 22/67 (32%), Gaps = 2/67 (2%)
Query: 177 ILQRTAHPRPDQTFGVSVHVDITAAGLQNLFGNGTFSMGALIGVVTSHFSAPYDLHESRR 236
IL + + + VS D T + + G G I V + H YD E
Sbjct: 91 ILSKRPIAEVEDFY-VSKSQDYTDYKSRKILGATIEINGQPIDVYSCHLGWWYD-EEEPF 148
Query: 237 EQELRNV 243
E +
Sbjct: 149 AYEWSKL 155
>gnl|CDD|148614 pfam07106, TBPIP, Tat binding protein 1(TBP-1)-interacting protein
(TBPIP). This family consists of several eukaryotic
TBP-1 interacting protein (TBPIP) sequences. TBP-1 has
been demonstrated to interact with the human
immunodeficiency virus type 1 (HIV-1) viral protein Tat,
then modulate the essential replication process of HIV.
In addition, TBP-1 has been shown to be a component of
the 26S proteasome, a basic multiprotein complex that
degrades ubiquitinated proteins in an ATP-dependent
fashion. Human TBPIP interacts with human TBP-1 then
modulates the inhibitory action of human TBP-1 on
HIV-Tat-mediated transactivation.
Length = 169
Score = 28.0 bits (63), Expect = 4.3
Identities = 14/49 (28%), Positives = 21/49 (42%), Gaps = 7/49 (14%)
Query: 233 ESRREQELRNVPKWRKY---WKLIMKKDNPEEKEKLEWERKYLHKIMLK 278
+ +++ K WK + PEE EK++ E K LHK K
Sbjct: 119 QELKKEVREIEEKLESLEEGWKPV----TPEEMEKVKKEYKDLHKEWKK 163
>gnl|CDD|183610 PRK12585, PRK12585, putative monovalent cation/H+ antiporter
subunit G; Reviewed.
Length = 197
Score = 28.1 bits (62), Expect = 4.8
Identities = 33/130 (25%), Positives = 56/130 (43%), Gaps = 27/130 (20%)
Query: 165 LLKVLGASRDPWILQRTAHPRPDQTFGVSVHVDITAAGLQNLFGNGT-FSMGALIGVVTS 223
+L +G R P + RT TFGVS+ + A + F +G F+ L+ V+
Sbjct: 21 ILAAIGVIRLPDVYTRTHAAGISNTFGVSL---LLFATVGYFFHSGEGFNARVLLAVLFI 77
Query: 224 HFSAPYDLHESRR-------------EQELRNVPK--WRKYWKLIMKKDNPEE------- 261
+ P H R +LR+V K +K LI++++ E+
Sbjct: 78 FLTTPVASHLINRAAYDTGVPLAIRIRDQLRSVKKDDIKKKKSLIIRQEQIEKARQEREE 137
Query: 262 -KEKLEWERK 270
+E++EWER+
Sbjct: 138 LEERMEWERR 147
>gnl|CDD|129795 TIGR00712, glpT, glycerol-3-phosphate transporter. This model
describes a very hydrophobic protein, predicted to span
the membrane at least 8 times. The two members confirmed
experimentally as glycerol-3-phosphate transporters,
from E. coli and B. subtilis, share more than 50 % amino
acid identity. Proteins of the hexose phosphate and
phosphoglycerate transport systems are also quite
similar [Transport and binding proteins, Other].
Length = 438
Score = 28.3 bits (63), Expect = 5.2
Identities = 11/29 (37%), Positives = 15/29 (51%), Gaps = 2/29 (6%)
Query: 199 TAAGLQNLFG--NGTFSMGALIGVVTSHF 225
TAAG LFG G+ + A++G F
Sbjct: 381 TAAGFTGLFGYLGGSVAASAIVGYTVDFF 409
>gnl|CDD|184614 PRK14314, glmM, phosphoglucosamine mutase; Provisional.
Length = 450
Score = 28.4 bits (64), Expect = 5.6
Identities = 9/26 (34%), Positives = 16/26 (61%)
Query: 123 HVLETTLKSSAVLMSEQTALVVFLNH 148
+V+E + A L EQ+ ++FL+H
Sbjct: 314 YVVEEMRRGGANLGGEQSGHLIFLDH 339
>gnl|CDD|233224 TIGR00993, 3a0901s04IAP86, chloroplast protein import component
Toc86/159, G and M domains. The long precursor of the
86K protein originally described is proposed to have
three domains. The N-terminal A-domain is acidic,
repetitive, weakly conserved, readily removed by
proteolysis during chloroplast isolation, and not
required for protein translocation. The other domains
are designated G (GTPase) and M (membrane anchor); this
family includes most of the G domain and all of M
[Transport and binding proteins, Amino acids, peptides
and amines].
Length = 763
Score = 28.0 bits (62), Expect = 6.6
Identities = 24/104 (23%), Positives = 36/104 (34%), Gaps = 26/104 (25%)
Query: 176 WILQRTAHPR-PDQTFGVSVHVDITAAGLQNLFGNGTFSMGALIGVVTSHFSAPYDLHES 234
W+LQ AHP+ P+Q G DI D E
Sbjct: 367 WLLQSRAHPKLPEQQGGDEEDSDIELEDSS-------------------------DSDEE 401
Query: 235 RREQELRNVPKWRKYWKLIMKKDNPEEKEKLEWERKYLHKIMLK 278
E E +P ++ K M K + E+++ E Y K++ K
Sbjct: 402 SGEDEYDQLPPFKPLTKAQMAKLSKEQRKAYLEEYDYRVKLLQK 445
>gnl|CDD|239525 cd03441, R_hydratase_like, (R)-hydratase [(R)-specific enoyl-CoA
hydratase]. Catalyzes the hydration of trans-2-enoyl
CoA to (R)-3-hydroxyacyl-CoA as part of the PHA
(polyhydroxyalkanoate) biosynthetic pathway. The
structure of the monomer includes a five-strand
antiparallel beta-sheet wrapped around a central alpha
helix, referred to as a hot dog fold. The active site
lies within a substrate-binding tunnel formed by the
homodimer. Other enzymes with this fold include MaoC
dehydratase, Hydratase-Dehydrogenase-Epimerase protein
(HDE), and the fatty acid synthase beta subunit.
Length = 127
Score = 26.8 bits (60), Expect = 7.2
Identities = 7/36 (19%), Positives = 13/36 (36%), Gaps = 3/36 (8%)
Query: 194 VHVDITAA---GLQNLFGNGTFSMGALIGVVTSHFS 226
+HVD A G +G ++ G++
Sbjct: 28 IHVDPEYAKAAGFGGRIAHGMLTLSLASGLLVQWLP 63
>gnl|CDD|218199 pfam04665, Pox_A32, Poxvirus A32 protein. The A32 protein is
thought to be involved in viral DNA packaging.
Length = 241
Score = 27.7 bits (62), Expect = 7.3
Identities = 16/76 (21%), Positives = 31/76 (40%), Gaps = 9/76 (11%)
Query: 74 YLWPNYKTGEASHEHLMSIVIMTNEKFRERVNAWETFRKHPEHFPGLFHHVLETTLKSSA 133
Y+WP++ ++E L + T EK E+ + + +K F + + + +S
Sbjct: 58 YVWPDHIFKVTTNEELEYALSKTKEKI-EKFSKKASNQKENFRFLIILDDLGDMQTRSK- 115
Query: 134 VLMSEQTALVVFLNHC 149
L+ F NH
Sbjct: 116 -------TLLNFTNHG 124
>gnl|CDD|225327 COG2607, COG2607, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 287
Score = 27.3 bits (61), Expect = 9.7
Identities = 5/23 (21%), Positives = 9/23 (39%)
Query: 88 HLMSIVIMTNEKFRERVNAWETF 110
HL+ + NE ++ E
Sbjct: 185 HLLPEDMKDNEGSTGEIHPSEAV 207
>gnl|CDD|133362 cd04162, Arl9_Arfrp2_like, Arf-like 9 (Arl9)/Arfrp2-like GTPase.
Arl9/Arfrp2-like subfamily. Arl9 (Arf-like 9) was first
identified as part of the Human Cancer Genome Project.
It maps to chromosome 4q12 and is sometimes referred to
as Arfrp2 (Arf-related protein 2). This is a novel
subfamily identified in human cancers that is
uncharacterized to date.
Length = 164
Score = 26.6 bits (59), Expect = 9.9
Identities = 10/37 (27%), Positives = 18/37 (48%), Gaps = 7/37 (18%)
Query: 247 RKYWKLIMKKD-------NPEEKEKLEWERKYLHKIM 276
RKYWK + + + E+L R+ LH+++
Sbjct: 58 RKYWKRYLSGSQGLIFVVDSADSERLPLARQELHQLL 94
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
0.320 0.134 0.410
Gapped
Lambda K H
0.267 0.0720 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,886,179
Number of extensions: 1402212
Number of successful extensions: 1284
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1283
Number of HSP's successfully gapped: 18
Length of query: 289
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 193
Effective length of database: 6,679,618
Effective search space: 1289166274
Effective search space used: 1289166274
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 (21.8 bits)
S2: 58 (26.1 bits)