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1DJN
Asym. Unit
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Asym.Unit (252 KB)
Biol.Unit 1 (247 KB)
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(1)
Title
:
STRUCTURAL AND BIOCHEMICAL CHARACTERIZATION OF RECOMBINANT WILD TYPE TRIMETHYLAMINE DEHYDROGENASE FROM METHYLOPHILUS METHYLOTROPHUS (SP. W3A1)
Authors
:
P. Trickey, J. Basran, L. -Y. Lian, Z. -W. Chen, J. D. Barton, M. J. Sutcli N. S. Scrutton, F. S. Mathews
Date
:
03 Dec 99 (Deposition) - 22 Dec 99 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Iron-Sulfur Flavoprotein, Electron Transfer, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. Trickey, J. Basran, L. Y. Lian, Z. Chen, J. D. Barton, M. J. Sutcliffe N. S. Scrutton, F. S. Mathews
Structural And Biochemical Characterization Of Recombinant Wild Type And A C30A Mutant Of Trimethylamine Dehydrogenase From Methylophilus Methylotrophus (Sp. W(3)A(1)).
Biochemistry V. 39 7678 2000
(for further references see the
PDB file header
)
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Hetero Components
(3, 6)
Info
All Hetero Components
1a: ADENOSINE-5'-DIPHOSPHATE (ADPa)
1b: ADENOSINE-5'-DIPHOSPHATE (ADPb)
2a: FLAVIN MONONUCLEOTIDE (FMNa)
2b: FLAVIN MONONUCLEOTIDE (FMNb)
3a: IRON/SULFUR CLUSTER (SF4a)
3b: IRON/SULFUR CLUSTER (SF4b)
View:
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Label:
No.
Name
Count
Type
Full Name
1
ADP
2
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE
2
FMN
2
Ligand/Ion
FLAVIN MONONUCLEOTIDE
3
SF4
2
Ligand/Ion
IRON/SULFUR CLUSTER
[
close Hetero Component info
]
Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
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 A 801
2
AC2
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:810 , HOH A:841
BINDING SITE FOR RESIDUE FMN A 802
3
AC3
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:806 , HOH A:849 , HOH A:862 , HOH A:932 , HOH A:955 , HOH A:1055
BINDING SITE FOR RESIDUE ADP A 803
4
AC4
SOFTWARE
ARG B:322 , ILE B:325 , CYS B:345 , ILE B:346 , GLY B:347 , CYS B:348 , ASN B:349 , CYS B:351 , CYS B:364 , THR B:365
BINDING SITE FOR RESIDUE SF4 B 1801
5
AC5
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:1810 , HOH B:1897
BINDING SITE FOR RESIDUE FMN B 1802
6
AC6
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 , MET B:470 , ALA B:486 , THR B:487 , GLY B:488 , ASP B:674 , HOH B:1805 , HOH B:1811 , HOH B:1850 , HOH B:2000 , HOH B:2090
BINDING SITE FOR RESIDUE ADP B 1803
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(3, 6)
Info
All SCOP Domains
1a: SCOP_d1djna2 (A:490-645)
1b: SCOP_d1djnb2 (B:490-645)
2a: SCOP_d1djna3 (A:341-489,A:646-729)
2b: SCOP_d1djnb3 (B:341-489,B:646-729)
3a: SCOP_d1djna1 (A:1-340)
3b: SCOP_d1djnb1 (B:1-340)
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)
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)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
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)
1a
d1djna2
A:490-645
1b
d1djnb2
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)
2a
d1djna3
A:341-489,A:646-729
2b
d1djnb3
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)
3a
d1djna1
A:1-340
3b
d1djnb1
B:1-340
[
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]
CATH Domains
(3, 6)
Info
all CATH domains
1a: CATH_1djnA02 (A:385-491,A:644-704)
1b: CATH_1djnB02 (B:385-491,B:644-704)
2a: CATH_1djnA03 (A:492-643)
2b: CATH_1djnB03 (B:492-643)
3a: CATH_1djnA01 (A:1-384)
3b: CATH_1djnB01 (B:1-384)
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)
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 w3a1. Organism_taxid: 2327. Strain: w3a1.
(2)
1a
1djnA02
A:385-491,A:644-704
1b
1djnB02
B:385-491,B:644-704
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 w3a1. Organism_taxid: 2327. Strain: w3a1.
(2)
2a
1djnA03
A:492-643
2b
1djnB03
B:492-643
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Aldolase class I
(887)
Methylophilus methylotrophus w3a1. Organism_taxid: 2327. Strain: w3a1.
(2)
3a
1djnA01
A:1-384
3b
1djnB01
B:1-384
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Asymmetric Unit 1
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Asym.Unit (252 KB)
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