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2OHJ
Biol. Unit 5
Info
Asym.Unit (275 KB)
Biol.Unit 1 (136 KB)
Biol.Unit 2 (136 KB)
Biol.Unit 3 (524 KB)
Biol.Unit 4 (266 KB)
Biol.Unit 5 (265 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF COENZYME F420H2 OXIDASE (FPRA), A DIIRON FLAVOPROTEIN, INACTIVE OXIDIZED STATE
Authors
:
H. Seedorf, E. Warkentin, U. Ermler
Date
:
10 Jan 07 (Deposition) - 22 May 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.26
Chains
:
Asym. Unit : A,B,D,E
Biol. Unit 1: A,B (1x)
Biol. Unit 2: D,E (1x)
Biol. Unit 3: A,B,D,E (2x)
Biol. Unit 4: A,B,D,E (1x)
Biol. Unit 5: A,B,D,E (1x)
Keywords
:
Beta-Lactamase Like Domain, Flavodoxine Like Domain, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Seedorf, C. H. Hagemeier, S. Shima, R. K. Thauer, E. Warkentin, U. Ermler
Structure Of Coenzyme F420H2 Oxidase (Fpra), A Di-Iron Flavoprotein From Methanogenic Archaea Catalyzing The Reduction Of O2 To H2O.
Febs J. V. 274 1588 2007
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
1f: CHLORIDE ION (CLf)
1g: CHLORIDE ION (CLg)
2a: FE (III) ION (FEa)
2b: FE (III) ION (FEb)
2c: FE (III) ION (FEc)
2d: FE (III) ION (FEd)
2e: FE (III) ION (FEe)
2f: FE (III) ION (FEf)
2g: FE (III) ION (FEg)
2h: FE (III) ION (FEh)
2i: FE (III) ION (FEi)
2j: FE (III) ION (FEj)
2k: FE (III) ION (FEk)
2l: FE (III) ION (FEl)
3a: FLAVIN MONONUCLEOTIDE (FMNa)
3b: FLAVIN MONONUCLEOTIDE (FMNb)
3c: FLAVIN MONONUCLEOTIDE (FMNc)
3d: FLAVIN MONONUCLEOTIDE (FMNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
FE
-1
Ligand/Ion
FE (III) ION
3
FMN
2
Ligand/Ion
FLAVIN MONONUCLEOTIDE
[
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Sites
(22, 22)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:88 , ASP A:170 , HIS A:233
BINDING SITE FOR RESIDUE FE A 501
02
AC2
SOFTWARE
HIS A:26 , GLU A:85 , HOH A:792 , HIS B:267
BINDING SITE FOR RESIDUE FE A 502
03
AC3
SOFTWARE
ASP B:87 , HIS B:88 , ASP B:170 , HIS B:233
BINDING SITE FOR RESIDUE FE B 1501
04
AC4
SOFTWARE
HIS A:267 , HIS B:26 , GLU B:85
BINDING SITE FOR RESIDUE FE B 1502
05
AC5
SOFTWARE
HIS D:88 , ASP D:170 , HIS D:233 , HOH D:2799 , HOH D:2831
BINDING SITE FOR RESIDUE FE D 2501
06
AC6
SOFTWARE
HIS D:26 , GLU D:85 , ASP D:87 , HOH D:2828 , HIS E:267
BINDING SITE FOR RESIDUE FE D 2502
07
AC7
SOFTWARE
ASP E:87 , HIS E:88 , ASP E:170 , HIS E:233
BINDING SITE FOR RESIDUE FE E 3501
08
AC8
SOFTWARE
HIS D:267 , HIS E:26 , GLU E:85
BINDING SITE FOR RESIDUE FE E 3502
09
AC9
SOFTWARE
ASP A:320 , HIS B:151 , HOH B:1778 , HOH B:1779
BINDING SITE FOR RESIDUE FE A 511
10
BC1
SOFTWARE
HIS A:151 , HOH A:753 , ASP B:320 , HOH B:1833
BINDING SITE FOR RESIDUE FE B 512
11
BC2
SOFTWARE
GLU B:74 , HIS D:151 , ASP E:320 , HOH E:3761
BINDING SITE FOR RESIDUE FE D 513
12
BC3
SOFTWARE
ASP D:320 , HIS E:151 , HOH E:3762
BINDING SITE FOR RESIDUE FE E 514
13
BC4
SOFTWARE
ARG A:298
BINDING SITE FOR RESIDUE CL A 515
14
BC5
SOFTWARE
TYR A:323 , ARG B:298
BINDING SITE FOR RESIDUE CL A 516
15
BC6
SOFTWARE
ARG D:298 , TYR E:323 , HOH E:3828
BINDING SITE FOR RESIDUE CL D 517
16
BC7
SOFTWARE
HIS D:294 , TYR D:323 , ASN E:24 , ARG E:298
BINDING SITE FOR RESIDUE CL D 518
17
BC8
SOFTWARE
ARG E:122
BINDING SITE FOR RESIDUE CL E 520
18
BC9
SOFTWARE
PRO D:148 , LEU D:149 , LYS D:213 , HOH D:2769
BINDING SITE FOR RESIDUE CL D 521
19
CC1
SOFTWARE
THR A:265 , MET A:266 , HIS A:267 , GLY A:268 , SER A:269 , THR A:270 , PRO A:316 , THR A:317 , ILE A:318 , TYR A:319 , ASP A:320 , SER A:351 , MET A:352 , GLY A:353 , GLY A:354 , ASN A:355 , GLY A:356 , TYR A:381 , HOH A:705 , HOH A:707 , HOH A:777 , HIS B:26 , HIS B:151 , LEU B:202
BINDING SITE FOR RESIDUE FMN A 701
20
CC2
SOFTWARE
HIS A:151 , LEU A:202 , THR B:265 , MET B:266 , HIS B:267 , GLY B:268 , SER B:269 , THR B:270 , PRO B:316 , THR B:317 , ILE B:318 , TYR B:319 , ASP B:320 , SER B:351 , MET B:352 , GLY B:353 , GLY B:354 , ASN B:355 , GLY B:356 , TYR B:381 , HOH B:1712 , HOH B:1745
BINDING SITE FOR RESIDUE FMN B 1701
21
CC3
SOFTWARE
THR D:265 , MET D:266 , HIS D:267 , GLY D:268 , SER D:269 , THR D:270 , PRO D:316 , THR D:317 , ILE D:318 , TYR D:319 , ASP D:320 , SER D:351 , MET D:352 , GLY D:353 , GLY D:354 , ASN D:355 , GLY D:356 , TYR D:381 , HOH D:2714 , HOH D:2738 , HIS E:26 , HIS E:151
BINDING SITE FOR RESIDUE FMN D 2701
22
CC4
SOFTWARE
HIS D:26 , HIS D:151 , THR E:265 , MET E:266 , HIS E:267 , GLY E:268 , SER E:269 , THR E:270 , PRO E:316 , THR E:317 , ILE E:318 , TYR E:319 , ASP E:320 , SER E:351 , MET E:352 , GLY E:353 , GLY E:354 , ASN E:355 , GLY E:356 , TYR E:381 , HOH E:3711 , HOH E:3733
BINDING SITE FOR RESIDUE FMN E 3701
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
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Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(2, 8)
Info
All PROSITE Patterns/Profiles
1: FLAVODOXIN_LIKE (A:259-399,B:259-399,D:259-399,E:25...)
2: FLAVODOXIN (A:261-277,B:261-277,D:261-277,E:26...)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
FLAVODOXIN_LIKE
PS50902
Flavodoxin-like domain profile.
FPRA_METTM
259-399
4
A:259-399
B:259-399
D:259-399
E:259-399
2
FLAVODOXIN
PS00201
Flavodoxin signature.
FPRA_METTM
261-277
4
A:261-277
B:261-277
D:261-277
E:261-277
[
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 8)
Info
All SCOP Domains
1a: SCOP_d2ohja1 (A:1-254)
1b: SCOP_d2ohjb1 (B:1-254)
1c: SCOP_d2ohjd1 (D:1-254)
1d: SCOP_d2ohje1 (E:1-254)
2a: SCOP_d2ohja2 (A:255-403)
2b: SCOP_d2ohjb2 (B:255-403)
2c: SCOP_d2ohjd2 (D:255-403)
2d: SCOP_d2ohje2 (E:255-403)
View:
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Classes
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Families
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Metallo-hydrolase/oxidoreductase
(184)
Superfamily
:
Metallo-hydrolase/oxidoreductase
(184)
Family
:
automated matches
(42)
Protein domain
:
automated matches
(42)
Methanothermobacter thermautotrophicus [TaxId: 145262]
(3)
1a
d2ohja1
A:1-254
1b
d2ohjb1
B:1-254
1c
d2ohjd1
D:1-254
1d
d2ohje1
E:1-254
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Flavodoxin-like
(1057)
Superfamily
:
Flavoproteins
(208)
Family
:
automated matches
(29)
Protein domain
:
automated matches
(29)
Methanothermobacter thermautotrophicus [TaxId: 145262]
(3)
2a
d2ohja2
A:255-403
2b
d2ohjb2
B:255-403
2c
d2ohjd2
D:255-403
2d
d2ohje2
E:255-403
[
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]
CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_2ohjA02 (A:258-401)
1b: CATH_2ohjB02 (B:258-401)
1c: CATH_2ohjD02 (D:258-401)
1d: CATH_2ohjE02 (E:258-401)
2a: CATH_2ohjA01 (A:1-252)
2b: CATH_2ohjB01 (B:1-252)
2c: CATH_2ohjD01 (D:1-252)
2d: CATH_2ohjE01 (E:1-252)
View:
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Classes
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Architectures
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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
:
[code=3.40.50.360, no name defined]
(150)
Methanothermobacter thermautotrophicus. Organism_taxid: 145262. Strain: dszm2133.
(2)
1a
2ohjA02
A:258-401
1b
2ohjB02
B:258-401
1c
2ohjD02
D:258-401
1d
2ohjE02
E:258-401
Architecture
:
4-Layer Sandwich
(459)
Topology
:
Metallo-beta-lactamase; Chain A
(92)
Homologous Superfamily
:
Metallo-beta-lactamase, chain A
(92)
Methanothermobacter thermautotrophicus. Organism_taxid: 145262. Strain: dszm2133.
(2)
2a
2ohjA01
A:1-252
2b
2ohjB01
B:1-252
2c
2ohjD01
D:1-252
2d
2ohjE01
E:1-252
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Atom Selection
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Protein & NOT Site
Protein & NOT PROSITE
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Chain D
Chain E
Asymmetric Unit 1
Asymmetric Unit 2
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