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1O94
Asym. Unit
Info
Asym.Unit (412 KB)
Biol.Unit 1 (400 KB)
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(1)
Title
:
TERNARY COMPLEX BETWEEN TRIMETHYLAMINE DEHYDROGENASE AND ELECTRON TRANSFERRING FLAVOPROTEIN
Authors
:
D. Leys, J. Basran, F. Talfournier, M. J. Sutcliffe, N. S. Scrutton
Date
:
11 Dec 02 (Deposition) - 06 Feb 03 (Release) - 18 Sep 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (1x)
Keywords
:
Electron Transport, Protein Complex, Electron Transfer, Dehydrogenase
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
D. Leys, J. Basran, F. Talfournier, M. J. Sutcliffe, N. S. Scrutton
Extensive Conformational Sampling In A Ternary Electron Transfer Complex.
Nat. Struct. Biol. V. 10 219 2003
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Hetero Components
(4, 8)
Info
All Hetero Components
1a: ADENOSINE-5'-DIPHOSPHATE (ADPa)
1b: ADENOSINE-5'-DIPHOSPHATE (ADPb)
2a: ADENOSINE MONOPHOSPHATE (AMPa)
2b: ADENOSINE MONOPHOSPHATE (AMPb)
3a: FLAVIN MONONUCLEOTIDE (FMNa)
3b: FLAVIN MONONUCLEOTIDE (FMNb)
4a: IRON/SULFUR CLUSTER (SF4a)
4b: IRON/SULFUR CLUSTER (SF4b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ADP
2
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE
2
AMP
2
Ligand/Ion
ADENOSINE MONOPHOSPHATE
3
FMN
2
Ligand/Ion
FLAVIN MONONUCLEOTIDE
4
SF4
2
Ligand/Ion
IRON/SULFUR CLUSTER
[
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
VAL A:27 , PRO A:28 , HIS A:29 , CYS A:30 , GLU A:59 , TYR A:60 , GLU A:103 , TYR A:169 , HIS A:172 , ARG A:222 , TRP A:264 , ASP A:267 , VAL A:297 , ARG A:299 , CYS A:320 , ALA A:321 , ARG A:322 , PRO A:323 , ILE A:352 , HOH A:2712 , HOH A:2714 , HOH A:2715
BINDING SITE FOR RESIDUE FMN A1730
2
AC2
SOFTWARE
VAL A:395 , GLY A:396 , GLY A:398 , PRO A:399 , SER A:400 , ASP A:419 , THR A:420 , GLY A:426 , HIS A:427 , PRO A:469 , MET A:470 , ALA A:486 , THR A:487 , GLY A:488 , GLY A:673 , ASP A:674 , HOH A:2402 , HOH A:2488 , HOH A:2716 , HOH A:2717 , HOH A:2718
BINDING SITE FOR RESIDUE ADP A1731
3
AC3
SOFTWARE
ARG A:322 , ILE A:325 , CYS A:345 , ILE A:346 , GLY A:347 , CYS A:348 , ASN A:349 , CYS A:351 , CYS A:364 , THR A:365
BINDING SITE FOR RESIDUE SF4 A1732
4
AC4
SOFTWARE
VAL B:27 , PRO B:28 , HIS B:29 , CYS B:30 , GLU B:59 , TYR B:60 , GLU B:103 , TYR B:169 , HIS B:172 , ARG B:222 , TRP B:264 , ASP B:267 , ALA B:268 , VAL B:297 , ARG B:299 , CYS B:320 , ALA B:321 , ARG B:322 , PRO B:323 , ILE B:352 , HOH B:2388 , HOH B:2823 , HOH B:2824
BINDING SITE FOR RESIDUE FMN B1730
5
AC5
SOFTWARE
VAL B:395 , GLY B:396 , GLY B:398 , PRO B:399 , SER B:400 , ASP B:419 , THR B:420 , GLY B:426 , HIS B:427 , PRO B:469 , MET B:470 , ALA B:486 , THR B:487 , GLY B:488 , GLY B:673 , ASP B:674 , HOH B:2825 , HOH B:2826 , HOH B:2827 , HOH B:2828 , HOH B:2829 , HOH B:2830
BINDING SITE FOR RESIDUE ADP B1731
6
AC6
SOFTWARE
ARG B:322 , ILE B:325 , CYS B:345 , CYS B:348 , ASN B:349 , CYS B:351 , CYS B:364 , THR B:365
BINDING SITE FOR RESIDUE SF4 B1732
7
AC7
SOFTWARE
ALA C:6 , VAL C:7 , LYS C:8 , ASN C:36 , ASP C:39 , VAL C:62 , SER C:63 , VAL C:64 , ALA C:118 , GLY C:119 , GLN C:121 , SER C:122 , TYR C:127 , ALA C:128 , SER C:129 , THR C:130 , HOH C:2113 , HOH C:2114 , HOH C:2177 , HOH C:2178
BINDING SITE FOR RESIDUE AMP C1236
8
AC8
SOFTWARE
ALA E:6 , VAL E:7 , LYS E:8 , ASN E:36 , ASP E:39 , VAL E:62 , SER E:63 , VAL E:64 , VAL E:100 , ALA E:118 , GLY E:119 , GLN E:121 , SER E:122 , TYR E:127 , ALA E:128 , SER E:129 , THR E:130 , HOH E:2117 , HOH E:2126 , HOH E:2197 , HOH E:2198
BINDING SITE FOR RESIDUE AMP E1237
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: ETF_BETA (C:160-181,E:160-181)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ETF_BETA
PS01065
Electron transfer flavoprotein beta-subunit signature.
ETFB_METME
160-181
2
C:160-181
E:160-181
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(5, 10)
Info
All SCOP Domains
1a: SCOP_d1o94d_ (D:)
1b: SCOP_d1o94f_ (F:)
2a: SCOP_d1o94c_ (C:)
2b: SCOP_d1o94e_ (E:)
3a: SCOP_d1o94a2 (A:490-645)
3b: SCOP_d1o94b2 (B:490-645)
4a: SCOP_d1o94a3 (A:341-489,A:646-729)
4b: SCOP_d1o94b3 (B:341-489,B:646-729)
5a: SCOP_d1o94a1 (A:1-340)
5b: SCOP_d1o94b1 (B:1-340)
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Classes
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)
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Folds
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Superfamilies
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Families
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Adenine nucleotide alpha hydrolase-like
(440)
Superfamily
:
Adenine nucleotide alpha hydrolases-like
(110)
Family
:
ETFP subunits
(25)
Protein domain
:
Large, alpha subunit of electron transfer flavoprotein ETFP, N-terminal domain
(11)
Methylophilus methylotrophus [TaxId: 17]
(8)
1a
d1o94d_
D:
1b
d1o94f_
F:
Protein domain
:
Small, beta subunit of electron transfer flavoprotein ETFP
(12)
Methylophilus methylotrophus [TaxId: 17]
(8)
2a
d1o94c_
C:
2b
d1o94e_
E:
Fold
:
FAD/NAD(P)-binding domain
(331)
Superfamily
:
FAD/NAD(P)-binding domain
(331)
Family
:
C-terminal domain of adrenodoxin reductase-like
(19)
Protein domain
:
Trimethylamine dehydrogenase, C-terminal domain
(5)
Methylophilus methylotrophus, w3a1 [TaxId: 17]
(5)
3a
d1o94a2
A:490-645
3b
d1o94b2
B:490-645
Fold
:
Nucleotide-binding domain
(33)
Superfamily
:
Nucleotide-binding domain
(33)
Family
:
N-terminal domain of adrenodoxin reductase-like
(19)
Protein domain
:
Trimethylamine dehydrogenase, middle domain
(5)
Methylophilus methylotrophus, w3a1 [TaxId: 17]
(5)
4a
d1o94a3
A:341-489,A:646-729
4b
d1o94b3
B:341-489,B:646-729
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
FMN-linked oxidoreductases
(290)
Family
:
FMN-linked oxidoreductases
(242)
Protein domain
:
Trimethylamine dehydrogenase, N-terminal domain
(5)
Methylophilus methylotrophus, w3a1 [TaxId: 17]
(5)
5a
d1o94a1
A:1-340
5b
d1o94b1
B:1-340
[
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CATH Domains
(4, 10)
Info
all CATH domains
1a: CATH_1o94A02 (A:385-491,A:644-704)
1b: CATH_1o94B02 (B:385-491,B:644-704)
2a: CATH_1o94D00 (D:1-189)
2b: CATH_1o94F00 (F:1-189)
2c: CATH_1o94C00 (C:1-235)
2d: CATH_1o94E00 (E:1-236)
3a: CATH_1o94A03 (A:492-643)
3b: CATH_1o94B03 (B:492-643)
4a: CATH_1o94A01 (A:1-384)
4b: CATH_1o94B01 (B:1-384)
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)
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Topologies
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)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Methylophilus methylotrophus. Organism_taxid: 17. Methylophilus methylotrophus. Organism_taxid: 17.
(2)
1a
1o94A02
A:385-491,A:644-704
1b
1o94B02
B:385-491,B:644-704
Homologous Superfamily
:
Tyrosyl-Transfer RNA Synthetase , subunit E, domain 1
(328)
Methylophilus methylotrophus. Organism_taxid: 17. Methylophilus methylotrophus. Organism_taxid: 17.
(2)
2a
1o94D00
D:1-189
2b
1o94F00
F:1-189
2c
1o94C00
C:1-235
2d
1o94E00
E:1-236
Architecture
:
3-Layer(bba) Sandwich
(528)
Topology
:
FAD/NAD(P)-binding domain
(373)
Homologous Superfamily
:
[code=3.50.50.60, no name defined]
(373)
Methylophilus methylotrophus. Organism_taxid: 17. Methylophilus methylotrophus. Organism_taxid: 17.
(2)
3a
1o94A03
A:492-643
3b
1o94B03
B:492-643
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Aldolase class I
(887)
Methylophilus methylotrophus. Organism_taxid: 17. Methylophilus methylotrophus. Organism_taxid: 17.
(2)
4a
1o94A01
A:1-384
4b
1o94B01
B:1-384
[
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]
Pfam Domains
(3, 8)
Info
all PFAM domains
1a: PFAM_ETF_1o94F01 (F:2-162)
1b: PFAM_ETF_1o94F02 (F:2-162)
1c: PFAM_ETF_1o94E01 (E:23-189)
1d: PFAM_ETF_1o94E02 (E:23-189)
2a: PFAM_Pyr_redox_2_1o94B01 (B:391-534)
2b: PFAM_Pyr_redox_2_1o94B02 (B:391-534)
3a: PFAM_Oxidored_FMN_1o94B03 (B:8-341)
3b: PFAM_Oxidored_FMN_1o94B04 (B:8-341)
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Clans
(
)
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)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
HUP
(230)
Family
:
ETF
(4)
Methylophilus methylotrophus (Bacterium W3A1)
(3)
1a
ETF-1o94F01
F:2-162
1b
ETF-1o94F02
F:2-162
1c
ETF-1o94E01
E:23-189
1d
ETF-1o94E02
E:23-189
Clan
:
NADP_Rossmann
(1239)
Family
:
Pyr_redox_2
(69)
Methylophilus methylotrophus (Bacterium W3A1)
(3)
2a
Pyr_redox_2-1o94B01
B:391-534
2b
Pyr_redox_2-1o94B02
B:391-534
Clan
:
TIM_barrel
(694)
Family
:
Oxidored_FMN
(38)
Methylophilus methylotrophus (Bacterium W3A1)
(3)
3a
Oxidored_FMN-1o94B03
B:8-341
3b
Oxidored_FMN-1o94B04
B:8-341
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