RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 028945
(201 letters)
>gnl|CDD|153251 cd07989, LPLAT_AGPAT-like, Lysophospholipid Acyltransferases
(LPLATs) of Glycerophospholipid Biosynthesis:
AGPAT-like. Lysophospholipid acyltransferase (LPLAT)
superfamily member: acyltransferases of de novo and
remodeling pathways of glycerophospholipid biosynthesis
which catalyze the incorporation of an acyl group from
either acylCoAs or acyl-acyl carrier proteins (acylACPs)
into acceptors such as glycerol 3-phosphate,
dihydroxyacetone phosphate or lyso-phosphatidic acid.
Included in this subgroup are such LPLATs as
1-acyl-sn-glycerol-3-phosphate acyltransferase (AGPAT,
PlsC), Tafazzin (product of Barth syndrome gene), and
similar proteins.
Length = 184
Score = 42.3 bits (100), Expect = 4e-05
Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 1/45 (2%)
Query: 2 VVPFVHTGMQEVMPIGATFPRIGKTVTVLIGDPIEFDDLVDEEQT 46
+VP +G +P G VTV IG+PI + L E+
Sbjct: 132 IVPVAISGTWGSLPKGK-KLPRPGRVTVRIGEPIPPEGLELAEED 175
>gnl|CDD|222426 pfam13870, DUF4201, Domain of unknown function (DUF4201). This is
a family of coiled-coil proteins from eukaryotes. The
function is not known.
Length = 177
Score = 31.4 bits (72), Expect = 0.17
Identities = 13/44 (29%), Positives = 25/44 (56%), Gaps = 7/44 (15%)
Query: 64 HRLKKLKLQVDRLALEQPSAECVADILHMVDQESLGLQNHLLNE 107
H L K++ ++++ E + + LH++D E L ++N LNE
Sbjct: 20 HTLAKIQEKLEQK-------EELGEGLHLIDFEQLQIENQALNE 56
>gnl|CDD|224118 COG1197, Mfd, Transcription-repair coupling factor (superfamily II
helicase) [DNA replication, recombination, and repair /
Transcription].
Length = 1139
Score = 30.7 bits (70), Expect = 0.59
Identities = 21/71 (29%), Positives = 30/71 (42%), Gaps = 26/71 (36%)
Query: 30 LIGDPIEFDDL----VDEEQTKYLSRGKLYDAVASRIG----HRLKKLKLQVDRLALEQP 81
L+ ++F DL +DEEQ R G +LK+L+ VD L L
Sbjct: 707 LLSKDVKFKDLGLLIIDEEQ---------------RFGVKHKEKLKELRANVDVLTL--- 748
Query: 82 SAECVADILHM 92
SA + L+M
Sbjct: 749 SATPIPRTLNM 759
>gnl|CDD|132744 cd06946, NR_LBD_ERR, The ligand binding domain of estrogen
receptor-related nuclear receptors. The ligand binding
domain of estrogen receptor-related receptors (ERRs):
The family of estrogen receptor-related receptors
(ERRs), a subfamily of nuclear receptors, is closely
related to the estrogen receptor (ER) family, but it
lacks the ability to bind estrogen. ERRs can interfere
with the classic ER-mediated estrogen signaling pathway,
positively or negatively. ERRs share target genes,
co-regulators and promoters with the estrogen receptor
(ER) family. There are three subtypes of ERRs: alpha,
beta and gamma. ERRs bind at least two types of DNA
sequence, the estrogen response element and another
site, originally characterized as SF-1 (steroidogenic
factor 1) response element. Like other members of the
nuclear receptor (NR) superfamily of ligand-activated
transcription factors, ERR has a central well conserved
DNA binding domain (DBD), a variable N-terminal domain,
a flexible hinge and a C-terminal ligand binding domain
(LBD).
Length = 221
Score = 29.3 bits (66), Expect = 1.0
Identities = 20/70 (28%), Positives = 39/70 (55%), Gaps = 2/70 (2%)
Query: 38 DDLVDEEQTKYLSRGKLYDAVASRIGHRLKKLKLQVDRLALEQPSAECVADILHMVDQES 97
D ++DEE + +LY A ++ RL++L+L+ + L + A +D +H+ D E+
Sbjct: 93 DFILDEELAREAGLLELYSACL-QLVRRLQRLRLEKEEYVLLKALALANSDSVHIEDVEA 151
Query: 98 L-GLQNHLLN 106
+ L++ LL
Sbjct: 152 VRQLRDALLE 161
>gnl|CDD|182930 PRK11054, helD, DNA helicase IV; Provisional.
Length = 684
Score = 29.5 bits (67), Expect = 1.4
Identities = 17/90 (18%), Positives = 30/90 (33%), Gaps = 14/90 (15%)
Query: 43 EEQTKYLSRGKLYDAVASRIGHRLKKLKLQVDRLALEQPSAECVADILHMVDQESLGLQN 102
+Q K+L+R ++ + +I L L L V+RL E L +
Sbjct: 114 TQQDKWLTRSQV-SGLQQQIRQALSALPLPVERLEAFDNCREAWRKCLAWLQDGEAARLQ 172
Query: 103 HLLNEDYSLAQEALVQSKLDITPTQERSFF 132
H N+ + + + FF
Sbjct: 173 H--NQAW-----------TEAMLEEYADFF 189
>gnl|CDD|219347 pfam07247, AATase, Alcohol acetyltransferase. This family
contains a number of alcohol acetyltransferase
(EC:2.3.1.84) enzymes approximately 500 residues long
found in both bacteria and metazoa. These catalyze the
esterification of isoamyl alcohol by acetyl coenzyme A.
Length = 479
Score = 28.9 bits (65), Expect = 1.6
Identities = 10/39 (25%), Positives = 15/39 (38%), Gaps = 3/39 (7%)
Query: 10 MQEVMPIGA---TFPRIGKTVTVLIGDPIEFDDLVDEEQ 45
+ P G V+I + I+ DD+V EQ
Sbjct: 51 ATNIYYTSDEYYNAPFNGHDFIVVILETIKLDDVVKNEQ 89
>gnl|CDD|223282 COG0204, PlsC, 1-acyl-sn-glycerol-3-phosphate acyltransferase
[Lipid metabolism].
Length = 255
Score = 27.6 bits (61), Expect = 4.9
Identities = 12/42 (28%), Positives = 17/42 (40%), Gaps = 5/42 (11%)
Query: 2 VVPFVHTGMQEVMPIGATFPRIGKTVTVLIGDPIEFDDLVDE 43
+VP G +E+ P V V IG PI+ L +
Sbjct: 174 IVPVAIVGAEELFPSLKKGK-----VKVRIGPPIDISALPEP 210
>gnl|CDD|233032 TIGR00580, mfd, transcription-repair coupling factor (mfd). All
proteins in this family for which functions are known
are DNA-dependent ATPases that function in the process
of transcription-coupled DNA repair in which the repair
of the transcribed strand of actively transcribed genes
is repaired at a higher rate than the repair of
non-transcribed regions of the genome and than the
non-transcribed strand of the same gene. This family is
based on the phylogenomic analysis of JA Eisen (1999,
Ph.D. Thesis, Stanford University). This family is
closely related to the RecG and UvrB families [DNA
metabolism, DNA replication, recombination, and repair].
Length = 926
Score = 27.3 bits (61), Expect = 6.4
Identities = 22/71 (30%), Positives = 30/71 (42%), Gaps = 26/71 (36%)
Query: 30 LIGDPIEFDDL----VDEEQTKYLSRGKLYDAVASRIG----HRLKKLKLQVDRLALEQP 81
L+ ++F DL +DEEQ R G +LK+L+ VD L L
Sbjct: 564 LLQKDVKFKDLGLLIIDEEQ---------------RFGVKQKEKLKELRTSVDVLTL--- 605
Query: 82 SAECVADILHM 92
SA + LHM
Sbjct: 606 SATPIPRTLHM 616
>gnl|CDD|224689 COG1775, HgdB, Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA
dehydratase subunit, BcrC/BadD/HgdB [Amino acid
transport and metabolism].
Length = 379
Score = 27.0 bits (60), Expect = 7.5
Identities = 21/91 (23%), Positives = 42/91 (46%), Gaps = 3/91 (3%)
Query: 25 KTVTVLIGDPIEFDDLVDEEQTKYLSRGKLYDAVASRIGHRLKKLKLQVDRLALEQPSAE 84
+V + +F +L++E ++ KL DA+A +RL++ ++ +LA +PS
Sbjct: 136 PSVKYWHNELDKFKELLEELTGNEITEEKLRDAIA--RYNRLREALAKLYKLAKHKPSPL 193
Query: 85 CVADIL-HMVDQESLGLQNHLLNEDYSLAQE 114
+D M L ++ + E L +E
Sbjct: 194 SGSDAFNVMAFAVFLRDKDAFIEELEELIEE 224
>gnl|CDD|218770 pfam05834, Lycopene_cycl, Lycopene cyclase protein. This family
consists of lycopene beta and epsilon cyclase proteins.
Carotenoids with cyclic end groups are essential
components of the photosynthetic membranes in all
plants, algae, and cyanobacteria. These lipid-soluble
compounds protect against photo-oxidation, harvest light
for photosynthesis, and dissipate excess light energy
absorbed by the antenna pigments. The cyclisation of
lycopene (psi, psi-carotene) is a key branch point in
the pathway of carotenoid biosynthesis. Two types of
cyclic end groups are found in higher plant carotenoids:
the beta and epsilon rings. Carotenoids with two beta
rings are ubiquitous, and those with one beta and one
epsilon ring are common; however, carotenoids with two
epsilon rings are rare.
Length = 374
Score = 26.9 bits (60), Expect = 8.0
Identities = 8/34 (23%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 44 EQTKYLSRGKL-YDAVASRIGHRLKKLKLQVDRL 76
E T Y L +DA+ R+ + L ++ +
Sbjct: 200 EDTCYADGPALPFDALKQRLMDYARALGWRILEV 233
>gnl|CDD|129460 TIGR00363, TIGR00363, lipoprotein, YaeC family. This family of
putative lipoproteins contains a consensus site for
lipoprotein signal sequence cleavage. Included in this
family is the E. coli hypothetical protein yaeC. About
half of the proteins between the noise and trusted
cutoffs contain the consensus lipoprotein signature and
may belong to this family [Cell envelope, Other].
Length = 258
Score = 26.8 bits (59), Expect = 8.0
Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 9/73 (12%)
Query: 86 VADILHMVDQESLGLQNHLLN-EDYSLAQEALVQSKLDITPTQERSFFRMGL-------- 136
VA++ V +E GL L+ DY+L EA+ + LD Q + +
Sbjct: 32 VAEVAAKVAKEKYGLDVELVEFNDYALPNEAVSKGDLDANAFQHKPYLDQDAKAKGYKLV 91
Query: 137 SYGDAFASRMRGY 149
+ G+ F + GY
Sbjct: 92 AVGNTFVYPLAGY 104
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 0.137 0.400
Gapped
Lambda K H
0.267 0.0783 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,534,024
Number of extensions: 1000261
Number of successful extensions: 811
Number of sequences better than 10.0: 1
Number of HSP's gapped: 810
Number of HSP's successfully gapped: 18
Length of query: 201
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 109
Effective length of database: 6,857,034
Effective search space: 747416706
Effective search space used: 747416706
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: 56 (25.2 bits)