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1TMO
Asym. Unit
Info
Asym.Unit (144 KB)
Biol.Unit 1 (139 KB)
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(1)
Title
:
TRIMETHYLAMINE N-OXIDE REDUCTASE FROM SHEWANELLA MASSILIA
Authors
:
M. Czjzek, J. P. Dos Santos, G. Giordano, V. Mejean
Date
:
03 Aug 98 (Deposition) - 30 Mar 99 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Oxidoreductase, Tmao Reductase, Oxotransferase, Molybdoenzyme, Mo-Cofactor, Molybdenum, Bis (Molybdopterin Guanine Dinucleotide)
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Czjzek, J. P. Dos Santos, J. Pommier, G. Giordano, V. Mejean, R. Haser
Crystal Structure Of Oxidized Trimethylamine N-Oxide Reductase From Shewanella Massilia At 2. 5 A Resolution.
J. Mol. Biol. V. 284 435 1998
(for further references see the
PDB file header
)
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Hetero Components
(2, 3)
Info
All Hetero Components
1a: GUANYLATE-O'-PHOSPHORIC ACID MONO-... (2MDa)
1b: GUANYLATE-O'-PHOSPHORIC ACID MONO-... (2MDb)
2a: MOLYBDENUM (IV)OXIDE (2MOa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
2MD
2
Ligand/Ion
GUANYLATE-O'-PHOSPHORIC ACID MONO-(2-AMINO-5,6-DIMERCAPTO-4-OXO-3,5,6,7,8A,9,10,10A-OCTAHYDRO-4H-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-7-YLMETHYL) ESTER
2
2MO
1
Ligand/Ion
MOLYBDENUM (IV)OXIDE
[
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Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: MOS (UNKNOWN)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLY A:117 , TRP A:118 , ALA A:120 , SER A:127 , SER A:149 , ARG A:332 , GLY A:441 , ASN A:442 , ASN A:443 , ASN A:446 , HIS A:447 , VAL A:467 , ASP A:468 , THR A:472 , ALA A:484 , ARG A:490 , ASP A:520 , SER A:649 , HIS A:651 , LEU A:656 , HIS A:657 , SER A:658 , GLN A:659 , ASN A:753 , TYR A:771 , 2MD A:800 , 2MO A:801 , HOH A:869 , HOH A:870
BINDING SITE FOR RESIDUE 2MD A 799
2
AC2
SOFTWARE
SER A:149 , SER A:187 , LYS A:192 , ASN A:193 , VAL A:196 , ILE A:226 , ASP A:227 , THR A:231 , GLN A:247 , ASP A:249 , TRP A:328 , CYS A:329 , ARG A:332 , GLN A:333 , TRP A:646 , GLN A:648 , CYS A:650 , HIS A:651 , PRO A:652 , ARG A:655 , HIS A:657 , 2MD A:799 , 2MO A:801 , HOH A:902
BINDING SITE FOR RESIDUE 2MD A 800
3
AC3
SOFTWARE
TRP A:118 , SER A:149 , 2MD A:799 , 2MD A:800
BINDING SITE FOR RESIDUE 2MO A 801
4
MOS
UNKNOWN
2MD A:799 , 2MD A:800 , 2MO A:801 , SER A:149
MOLYBDENUM COFACTOR BINDING THE MOLYBDENUM ION, ALSO LIGATED BY TWO OXO GROUPS AND OG FROM SER 149.
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: MOLYBDOPTERIN_PROK_2 (A:472-489)
2: MOLYBDOPTERIN_PROK_3 (A:685-712)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
MOLYBDOPTERIN_PROK_2
PS00490
Prokaryotic molybdopterin oxidoreductases signature 2.
TORA_SHEMA
503-520
1
A:472-489
2
MOLYBDOPTERIN_PROK_3
PS00932
Prokaryotic molybdopterin oxidoreductases signature 3.
TORA_SHEMA
716-743
1
A:685-712
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Exons
(0, 0)
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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
(2, 2)
Info
All SCOP Domains
1a: SCOP_d1tmoa1 (A:632-798)
2a: SCOP_d1tmoa2 (A:5-631)
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(
)
(
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)
(
)
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(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Double psi beta-barrel
(111)
Superfamily
:
ADC-like
(88)
Family
:
Formate dehydrogenase/DMSO reductase, C-terminal domain
(41)
Protein domain
:
Trimethylamine N-oxide reductase
(1)
Shewanella massilia [TaxId: 76854]
(1)
1a
d1tmoa1
A:632-798
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Formate dehydrogenase/DMSO reductase, domains 1-3
(53)
Superfamily
:
Formate dehydrogenase/DMSO reductase, domains 1-3
(53)
Family
:
Formate dehydrogenase/DMSO reductase, domains 1-3
(53)
Protein domain
:
Trimethylamine N-oxide reductase
(1)
Shewanella massilia [TaxId: 76854]
(1)
2a
d1tmoa2
A:5-631
[
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]
CATH Domains
(4, 4)
Info
all CATH domains
1a: CATH_1tmoA02 (A:149-372,A:585-610)
2a: CATH_1tmoA01 (A:56-147,A:384-490,A:516-538)
3a: CATH_1tmoA03 (A:7-34,A:491-508,A:539-578)
4a: CATH_1tmoA04 (A:618-790)
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Dimethylsulfoxide Reductase; domain 2
(37)
Homologous Superfamily
:
Dimethylsulfoxide Reductase, domain 2
(37)
Shewanella massilia. Organism_taxid: 76854.
(1)
1a
1tmoA02
A:149-372,A:585-610
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.740, no name defined]
(37)
Shewanella massilia. Organism_taxid: 76854.
(1)
2a
1tmoA01
A:56-147,A:384-490,A:516-538
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Dimethylsulfoxide Reductase; domain 3
(12)
Homologous Superfamily
:
Dimethylsulfoxide Reductase, domain 3
(12)
Shewanella massilia. Organism_taxid: 76854.
(1)
3a
1tmoA03
A:7-34,A:491-508,A:539-578
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Barwin-like endoglucanases
(75)
Homologous Superfamily
:
[code=2.40.40.20, no name defined]
(63)
Shewanella massilia. Organism_taxid: 76854.
(1)
4a
1tmoA04
A:618-790
[
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]
Pfam Domains
(2, 2)
Info
all PFAM domains
1a: PFAM_Molydop_binding_1tmoA01 (A:645-774)
2a: PFAM_Molybdopterin_1tmoA02 (A:56-530)
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)
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)
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)
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)
Clan
:
AcetylDC-like
(37)
Family
:
Molydop_binding
(24)
Shewanella massilia
(1)
1a
Molydop_binding-1tmoA01
A:645-774
Clan
:
no clan defined [family: Molybdopterin]
(24)
Family
:
Molybdopterin
(24)
Shewanella massilia
(1)
2a
Molybdopterin-1tmoA02
A:56-530
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