RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13039
(199 letters)
>gnl|CDD|239582 cd03505, Delta9-FADS-like, The Delta9 Fatty Acid Desaturase
(Delta9-FADS)-like CD includes the delta-9 and delta-11
acyl CoA desaturases found in various eukaryotes
including vertebrates, insects, higher plants, and
fungi. The delta-9 acyl-lipid desaturases are found in a
wide range of bacteria. These enzymes play essential
roles in fatty acid metabolism and the regulation of
cell membrane fluidity. Acyl-CoA desaturases are the
enzymes involved in the CoA-bound desaturation of fatty
acids. Mammalian stearoyl-CoA delta-9 desaturase is a
key enzyme in the biosynthesis of monounsaturated fatty
acids, and in yeast, the delta-9 acyl-CoA desaturase
(OLE1) reaction accounts for all de nova unsaturated
fatty acid production in Saccharomyces cerevisiae. These
non-heme, iron-containing, ER membrane-bound enzymes are
part of a three-component enzyme system involving
cytochrome b5, cytochrome b5 reductase, and the delta-9
fatty acid desaturase. This complex catalyzes the NADH-
and oxygen-dependent insertion of a cis double bond
between carbons 9 and 10 of the saturated fatty acyl
substrates, palmitoyl (16:0)-CoA or stearoyl (18:0)-CoA,
yielding the monoenoic products palmitoleic (16:l) or
oleic (18:l) acids, respectively. In cyanobacteria, the
biosynthesis of unsaturated fatty acids is initiated by
delta 9 acyl-lipid desaturase (DesC) which introduces
the first double bond at the delta-9 position of a
saturated fatty acid that has been esterified to a
glycerolipid. This domain family has extensive
hydrophobic regions that would be capable of spanning
the membrane bilayer at least twice. Comparison of
sequences also reveals the existence of three regions of
conserved histidine cluster motifs that contain the
residues: HXXXXH, HXXHH, and H/QXXHH. These histidine
residues are reported to be catalytically essential and
proposed to be the ligands for the iron atoms contained
within the rat stearoyl CoA delta-9 desaturase. Some
eukaryotic (Fungi, Euglenozoa, Mycetozoa, Rhodophyta)
desaturase domains have an adjacent C-terminal
cytochrome b5-like domain.
Length = 178
Score = 86.8 bits (216), Expect = 1e-21
Identities = 30/65 (46%), Positives = 39/65 (60%), Gaps = 1/65 (1%)
Query: 2 RPYDKHISSSENSSVAFLAFGEGWHNYHHTFPWDYKAAELGNYRLNLTTAIIDMFAWIGW 61
RPYD +S N VA L FGEGWHN HH FP D + L Y+++ T +I + +G
Sbjct: 115 RPYDTRDTSRNNWWVALLTFGEGWHNNHHAFPGDARNG-LKWYQIDPTKWVIRLLEKLGL 173
Query: 62 AYDLK 66
A+DLK
Sbjct: 174 AWDLK 178
Score = 78.8 bits (195), Expect = 1e-18
Identities = 26/59 (44%), Positives = 35/59 (59%), Gaps = 1/59 (1%)
Query: 96 ISSSENSSVAFLAFGEGWHNYHHTFPWDYKAAELGNYRLNLTTAIIDMFAWIGWAYDLK 154
+S N VA L FGEGWHN HH FP D + L Y+++ T +I + +G A+DLK
Sbjct: 121 DTSRNNWWVALLTFGEGWHNNHHAFPGDARNG-LKWYQIDPTKWVIRLLEKLGLAWDLK 178
>gnl|CDD|224316 COG1398, OLE1, Fatty-acid desaturase [Lipid metabolism].
Length = 289
Score = 63.2 bits (154), Expect = 4e-12
Identities = 24/68 (35%), Positives = 36/68 (52%), Gaps = 1/68 (1%)
Query: 2 RPYDKHISSSENSSVAFLAFGEGWHNYHHTFPWDYKAAELGNYRLNLTTAIIDMFAWIGW 61
RP+D ++ VA + FGEGWHN HH FP + L + ++T II + + +G
Sbjct: 215 RPFDCRDTARNCWWVALVTFGEGWHNNHHAFPNSARNG-LKWWEFDVTWWIIKLLSLLGL 273
Query: 62 AYDLKTAS 69
A +K A
Sbjct: 274 AKVVKLAP 281
Score = 57.4 bits (139), Expect = 4e-10
Identities = 21/54 (38%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 104 VAFLAFGEGWHNYHHTFPWDYKAAELGNYRLNLTTAIIDMFAWIGWAYDLKTAS 157
VA + FGEGWHN HH FP + L + ++T II + + +G A +K A
Sbjct: 229 VALVTFGEGWHNNHHAFPNSARNG-LKWWEFDVTWWIIKLLSLLGLAKVVKLAP 281
>gnl|CDD|177866 PLN02220, PLN02220, delta-9 acyl-lipid desaturase.
Length = 299
Score = 33.6 bits (77), Expect = 0.042
Identities = 19/63 (30%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 16 VAFLAFGEGWHNYHHTFPWDYKAAELGNYRLNLTTAIIDMFAWIGWAYDLKTASPEMVSR 75
++ GE WHN HH F + L +++++T +I F +G A D+K + E R
Sbjct: 236 LSLFTMGESWHNNHHAFESSARQG-LEWWQIDITWYLIRFFEVLGLATDVKLPT-EAQKR 293
Query: 76 RVA 78
++A
Sbjct: 294 KMA 296
Score = 33.6 bits (77), Expect = 0.042
Identities = 19/63 (30%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 104 VAFLAFGEGWHNYHHTFPWDYKAAELGNYRLNLTTAIIDMFAWIGWAYDLKTASPEMVSR 163
++ GE WHN HH F + L +++++T +I F +G A D+K + E R
Sbjct: 236 LSLFTMGESWHNNHHAFESSARQG-LEWWQIDITWYLIRFFEVLGLATDVKLPT-EAQKR 293
Query: 164 RVA 166
++A
Sbjct: 294 KMA 296
>gnl|CDD|238511 cd01060, Membrane-FADS-like, The membrane fatty acid desaturase
(Membrane_FADS)-like CD includes membrane FADSs, alkane
hydroxylases, beta carotene ketolases (CrtW-like),
hydroxylases (CrtR-like), and other related proteins.
They are present in all groups of organisms with the
exception of archaea. Membrane FADSs are non-heme,
iron-containing, oxygen-dependent enzymes involved in
regioselective introduction of double bonds in fatty
acyl aliphatic chains. They play an important role in
the maintenance of the proper structure and functioning
of biological membranes. Alkane hydroxylases are
bacterial, integral-membrane di-iron enzymes that share
a requirement for iron and oxygen for activity similar
to that of membrane FADSs, and are involved in the
initial oxidation of inactivated alkanes. Beta-carotene
ketolase and beta-carotene hydroxylase are carotenoid
biosynthetic enzymes for astaxanthin and zeaxanthin,
respectively. This superfamily domain has extensive
hydrophobic regions that would be capable of spanning
the membrane bilayer at least twice. Comparison of these
sequences also reveals three regions of conserved
histidine cluster motifs that contain eight histidine
residues: HXXX(X)H, HXX(X)HH, and HXXHH (an additional
conserved histidine residue is seen between clusters 2
and 3). Spectroscopic and genetic evidence point to a
nitrogen-rich coordination environment located in the
cytoplasm with as many as eight histidines coordinating
the two iron ions and a carboxylate residue bridging the
two metals in the Pseudomonas oleovorans alkane
hydroxylase (AlkB). In addition, the eight histidine
residues are reported to be catalytically essential and
proposed to be the ligands for the iron atoms contained
within the rat stearoyl CoA delta-9 desaturase.
Length = 122
Score = 31.7 bits (72), Expect = 0.084
Identities = 12/41 (29%), Positives = 15/41 (36%)
Query: 81 GDGTRHGHSHENQVHISSSENSSVAFLAFGEGWHNYHHTFP 121
GD + +S L G G+HN HH FP
Sbjct: 82 GDRPFDTDGEWLRTTDNSRNGWLNLLLTGGLGYHNEHHLFP 122
Score = 29.7 bits (67), Expect = 0.38
Identities = 10/27 (37%), Positives = 12/27 (44%)
Query: 7 HISSSENSSVAFLAFGEGWHNYHHTFP 33
+S L G G+HN HH FP
Sbjct: 96 TDNSRNGWLNLLLTGGLGYHNEHHLFP 122
>gnl|CDD|132592 TIGR03553, F420_FbiB_CTERM, F420 biosynthesis protein FbiB,
C-terminal domain. Coenzyme F420 differs between the
Archaea and the Actinobacteria, where the numbers of
glutamate residues attached are 2 (Archaea) or 5-6
(Mycobacterium). The enzyme in the Archaea is
homologous to the N-terminal domain of FbiB from
Mycobacterium bovis, and is responsible for glutamate
ligation. Therefore it seems likely that the C-terminal
domain of FbiB, modeled by This model, is involved in
additional glutamate ligation [Biosynthesis of
cofactors, prosthetic groups, and carriers, Other].
Length = 194
Score = 31.3 bits (71), Expect = 0.21
Identities = 18/53 (33%), Positives = 23/53 (43%), Gaps = 7/53 (13%)
Query: 29 HHTFPWDYKAAELGNYRLNLTTAIIDMFAWIGWAYDLKT--ASPEMVSRRVAR 79
HHT P + E R L A+ D W DL+ S + + RRVAR
Sbjct: 36 HHTRPVRFVWVEDAERRTRLLDAMAD-----AWRADLRADGLSADAIDRRVAR 83
Score = 31.3 bits (71), Expect = 0.21
Identities = 18/53 (33%), Positives = 23/53 (43%), Gaps = 7/53 (13%)
Query: 117 HHTFPWDYKAAELGNYRLNLTTAIIDMFAWIGWAYDLKT--ASPEMVSRRVAR 167
HHT P + E R L A+ D W DL+ S + + RRVAR
Sbjct: 36 HHTRPVRFVWVEDAERRTRLLDAMAD-----AWRADLRADGLSADAIDRRVAR 83
>gnl|CDD|183957 PRK13294, PRK13294, F420-0--gamma-glutamyl ligase; Provisional.
Length = 448
Score = 30.4 bits (69), Expect = 0.57
Identities = 17/53 (32%), Positives = 22/53 (41%), Gaps = 7/53 (13%)
Query: 29 HHTFPWDYKAAELGNYRLNLTTAIIDMFAWIGWAYDLKT--ASPEMVSRRVAR 79
HHT P + R L A+ D W DL+ S E ++RRV R
Sbjct: 290 HHTRPVRFVWLRSAAVRTRLLDAMRD-----AWRADLRADGLSEESIARRVRR 337
Score = 30.4 bits (69), Expect = 0.57
Identities = 17/53 (32%), Positives = 22/53 (41%), Gaps = 7/53 (13%)
Query: 117 HHTFPWDYKAAELGNYRLNLTTAIIDMFAWIGWAYDLKT--ASPEMVSRRVAR 167
HHT P + R L A+ D W DL+ S E ++RRV R
Sbjct: 290 HHTRPVRFVWLRSAAVRTRLLDAMRD-----AWRADLRADGLSEESIARRVRR 337
>gnl|CDD|132716 cd07040, HP, Histidine phosphatase domain found in a functionally
diverse set of proteins, mostly phosphatases; contains a
His residue which is phosphorylated during the reaction.
Catalytic domain of a functionally diverse set of
proteins, most of which are phosphatases. The conserved
catalytic core of this domain contains a His residue
which is phosphorylated in the reaction. This set of
proteins includes cofactor-dependent and
cofactor-independent phosphoglycerate mutases (dPGM, and
BPGM respectively), fructose-2,6-bisphosphatase
(F26BP)ase, Sts-1, SixA, histidine acid phosphatases,
phytases, and related proteins. Functions include roles
in metabolism, signaling, or regulation, for example
F26BPase affects glycolysis and gluconeogenesis through
controlling the concentration of F26BP; BPGM controls
the concentration of 2,3-BPG (the main allosteric
effector of hemoglobin in human blood cells); human
Sts-1 is a T-cell regulator; Escherichia coli Six A
participates in the ArcB-dependent His-to-Asp
phosphorelay signaling system; phytases scavenge
phosphate from extracellular sources. Deficiency and
mutation in many of the human members result in disease,
for example erythrocyte BPGM deficiency is a disease
associated with a decrease in the concentration of
2,3-BPG. Clinical applications include the use of
prostatic acid phosphatase (PAP) as a serum marker for
prostate cancer. Agricultural applications include the
addition of phytases to animal feed.
Length = 153
Score = 29.3 bits (66), Expect = 0.83
Identities = 12/30 (40%), Positives = 15/30 (50%), Gaps = 3/30 (10%)
Query: 173 RHG---HSHENQVWGWNDEDLTEEDRMLAE 199
RHG + E + GW D LTE+ R A
Sbjct: 6 RHGEREPNAEGRFTGWGDGPLTEKGRQQAR 35
>gnl|CDD|185594 PTZ00395, PTZ00395, Sec24-related protein; Provisional.
Length = 1560
Score = 28.1 bits (62), Expect = 3.8
Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 67 TASPEMVSRRVARTGDGT---RHGHSHENQVHISSSENSS 103
TA P +++R GT ++ S E V SSSENSS
Sbjct: 540 TADPNGIAKREDHPEGGTNRQKYEQSDEESVESSSSENSS 579
>gnl|CDD|221113 pfam11453, DUF2950, Protein of unknown function (DUF2950). This is
a bacterial family of uncharacterized proteins.
Length = 266
Score = 27.6 bits (62), Expect = 4.2
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 60 GWAYDLKTASPEMVSRRVAR 79
GW +D E+++RR+ R
Sbjct: 90 GWRFDTAAGREEILTRRIGR 109
Score = 27.6 bits (62), Expect = 4.2
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 148 GWAYDLKTASPEMVSRRVAR 167
GW +D E+++RR+ R
Sbjct: 90 GWRFDTAAGREEILTRRIGR 109
>gnl|CDD|184519 PRK14120, gpmA, phosphoglyceromutase; Provisional.
Length = 249
Score = 27.7 bits (62), Expect = 4.4
Identities = 12/26 (46%), Positives = 14/26 (53%), Gaps = 3/26 (11%)
Query: 173 RHGHSH---ENQVWGWNDEDLTEEDR 195
RHG S +N GW D DLTE+
Sbjct: 11 RHGESEWNAKNLFTGWVDVDLTEKGE 36
>gnl|CDD|184516 PRK14115, gpmA, phosphoglyceromutase; Provisional.
Length = 247
Score = 27.1 bits (61), Expect = 5.3
Identities = 12/23 (52%), Positives = 14/23 (60%), Gaps = 3/23 (13%)
Query: 173 RHGHSH---ENQVWGWNDEDLTE 192
RHG S EN+ GW D DL+E
Sbjct: 7 RHGESQWNKENRFTGWTDVDLSE 29
>gnl|CDD|214859 smart00855, PGAM, Phosphoglycerate mutase family. Phosphoglycerate
mutase (PGAM) and bisphosphoglycerate mutase (BPGM) are
structurally related enzymes that catalyse reactions
involving the transfer of phospho groups between the
three carbon atoms of phosphoglycerate... Both enzymes
can catalyse three different reactions with different
specificities, the isomerization of 2-phosphoglycerate
(2-PGA) to 3-phosphoglycerate (3-PGA) with
2,3-diphosphoglycerate (2,3-DPG) as the primer of the
reaction, the synthesis of 2,3-DPG from 1,3-DPG with
3-PGA as a primer and the degradation of 2,3-DPG to
3-PGA (phosphatase activity). In mammals, PGAM is a
dimeric protein with two isoforms, the M (muscle) and B
(brain) forms. In yeast, PGAM is a tetrameric protein.
Length = 158
Score = 26.7 bits (59), Expect = 5.6
Identities = 9/24 (37%), Positives = 11/24 (45%), Gaps = 3/24 (12%)
Query: 173 RHGHSHENQVW---GWNDEDLTEE 193
RHG + N+ G D LTE
Sbjct: 6 RHGETEWNREGRLYGDTDVPLTEL 29
>gnl|CDD|223661 COG0588, GpmA, Phosphoglycerate mutase 1 [Carbohydrate transport
and metabolism].
Length = 230
Score = 26.9 bits (60), Expect = 6.5
Identities = 13/24 (54%), Positives = 14/24 (58%), Gaps = 3/24 (12%)
Query: 173 RHGHS---HENQVWGWNDEDLTEE 193
RHG S EN GW D DLTE+
Sbjct: 8 RHGQSEWNKENLFTGWVDVDLTEK 31
>gnl|CDD|215943 pfam00487, FA_desaturase, Fatty acid desaturase.
Length = 251
Score = 26.9 bits (59), Expect = 6.6
Identities = 10/42 (23%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 80 TGDGTRHGHSHENQVHISSSENSSVAFLAFGEGWHNYHHTFP 121
T +E Q +++S + + +L +H HH FP
Sbjct: 182 TEPERAARTWYERQ-LVTTSNSWVLNWLTGNLNYHIEHHLFP 222
>gnl|CDD|213020 cd10585, CE4_SF, Catalytic NodB homology domain of the carbohydrate
esterase 4 superfamily. The carbohydrate esterase 4
(CE4) superfamily mainly includes chitin deacetylases
(EC 3.5.1.41), bacterial peptidoglycan
N-acetylglucosamine deacetylases (EC 3.5.1.-), and
acetylxylan esterases (EC 3.1.1.72), which catalyze the
N- or O-deacetylation of substrates such as acetylated
chitin, peptidoglycan, and acetylated xylan,
respectively. Members in this superfamily contain a NodB
homology domain that adopts a deformed (beta/alpha)8
barrel fold, which encompasses a mononuclear
metalloenzyme employing a conserved His-His-Asp
zinc-binding triad, closely associated with the
conserved catalytic base (aspartic acid) and acid
(histidine) to carry out acid/base catalysis. The NodB
homology domain of CE4 superfamily is remotely related
to the 7-stranded beta/alpha barrel catalytic domain of
the superfamily consisting of family 38 glycoside
hydrolases (GH38), family 57 heat stable retaining
glycoside hydrolases (GH57), lactam utilization protein
LamB/YcsF family proteins, and YdjC-family proteins.
Length = 142
Score = 26.3 bits (58), Expect = 7.2
Identities = 12/82 (14%), Positives = 25/82 (30%), Gaps = 1/82 (1%)
Query: 113 WHNYHHTFPWDYKAAELGNYRLNLTTAIIDMFAWIGWAYDLKTASPEMVSRRVARTGDGT 172
L Y + T +I A + +++ +A +
Sbjct: 10 PAFEGSPAALQRLLDLLEGYGIPATLFVIPGNANPD-KLMKSPLNWDLLRELLAYGHEIG 68
Query: 173 RHGHSHENQVWGWNDEDLTEED 194
HG++H + +G + ED
Sbjct: 69 LHGYTHPDLAYGNLSPEEVLED 90
>gnl|CDD|215845 pfam00300, His_Phos_1, Histidine phosphatase superfamily (branch
1). The histidine phosphatase superfamily is so named
because catalysis centres on a conserved His residue
that is transiently phosphorylated during the catalytic
cycle. Other conserved residues contribute to a
'phosphate pocket' and interact with the phospho group
of substrate before, during and after its transfer to
the His residue. Structure and sequence analyses show
that different families contribute different additional
residues to the 'phosphate pocket' and, more
surprisingly, differ in the position, in sequence and in
three dimensions, of a catalytically essential acidic
residue. The superfamily may be divided into two main
branches. The larger branch 1 contains a wide variety of
catalytic functions, the best known being fructose
2,6-bisphosphatase (found in a bifunctional protein with
2-phosphofructokinase) and cofactor-dependent
phosphoglycerate mutase. The latter is an unusual
example of a mutase activity in the superfamily: the
vast majority of members appear to be phosphatases. The
bacterial regulatory protein phosphatase SixA is also in
branch 1 and has a minimal, and possible ancestral-like
structure, lacking the large domain insertions that
contribute to binding of small molecules in branch 1
members.
Length = 154
Score = 26.3 bits (58), Expect = 9.5
Identities = 11/29 (37%), Positives = 12/29 (41%), Gaps = 2/29 (6%)
Query: 173 RHGHSHENQVW--GWNDEDLTEEDRMLAE 199
RHG + N G D LTE R A
Sbjct: 6 RHGETEWNVERLQGDTDSPLTELGREQAR 34
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
0.318 0.131 0.436
Gapped
Lambda K H
0.267 0.0657 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,148,027
Number of extensions: 894505
Number of successful extensions: 849
Number of sequences better than 10.0: 1
Number of HSP's gapped: 839
Number of HSP's successfully gapped: 41
Length of query: 199
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 107
Effective length of database: 6,857,034
Effective search space: 733702638
Effective search space used: 733702638
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (25.5 bits)