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3QJV
Asym. Unit
Info
Asym.Unit (263 KB)
Biol.Unit 1 (255 KB)
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(1)
Title
:
THE STRUCTURE OF AND PHOTOLYTIC INDUCED CHANGES OF CARBON MONOXIDE BINDING TO THE CYTOCHROME BA3-OXIDASE FROM THERMUS THERMOPHILUS
Authors
:
B. Liu, Y. Zhang, J. T. Sage, T. Doukov, Y. Chen, C. D. Stout, J. A Fee
Date
:
30 Jan 11 (Deposition) - 25 Jan 12 (Release) - 04 Apr 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Keywords
:
Cytochrome Ba3 Oxidase, Carbon Monoxide, Co Photodissociation, Oxidoreductase
(Keyword Search:
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)
Reference
:
B. Liu, Y. Zhang, J. T. Sage, S. M. Soltis, T. Doukov, Y. Chen, C. D. Stout J. A. Fee
Structural Changes That Occur Upon Photolysis Of The Fe(Ii)(A3)-Co Complex In The Cytochrome Ba(3)-Oxidase Of Thermus Thermophilus: A Combined X-Ray Crystallographic And Infrared Spectral Study Demonstrates Co Binding To Cu(B).
Biochim. Biophys. Acta V. 1817 658 2012
(for further references see the
PDB file header
)
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Hetero Components
(5, 5)
Info
All Hetero Components
1a: CARBON MONOXIDE (CMOa)
2a: COPPER (I) ION (CU1a)
3a: DINUCLEAR COPPER ION (CUAa)
4a: HEME-AS (HASa)
5a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
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No.
Name
Count
Type
Full Name
1
CMO
1
Ligand/Ion
CARBON MONOXIDE
2
CU1
1
Ligand/Ion
COPPER (I) ION
3
CUA
1
Ligand/Ion
DINUCLEAR COPPER ION
4
HAS
1
Ligand/Ion
HEME-AS
5
HEM
1
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
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Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:233 , HIS A:282 , HIS A:283 , CMO A:563
BINDING SITE FOR RESIDUE CU1 A 803
2
AC2
SOFTWARE
LEU A:32 , SER A:36 , GLY A:39 , PRO A:40 , GLN A:42 , ALA A:43 , TYR A:46 , TYR A:65 , LEU A:69 , HIS A:72 , ASN A:76 , ALA A:77 , LEU A:132 , TYR A:133 , PHE A:385 , HIS A:386 , ALA A:390 , THR A:394 , MET A:435 , ARG A:449 , ARG A:450 , ALA A:451 , LEU A:477
BINDING SITE FOR RESIDUE HEM A 800
3
AC3
SOFTWARE
TYR A:133 , TRP A:229 , VAL A:236 , TYR A:237 , TRP A:239 , HIS A:282 , SER A:309 , LEU A:353 , PHE A:356 , GLY A:360 , GLY A:363 , ASN A:366 , ALA A:367 , ASP A:372 , HIS A:376 , HIS A:384 , PHE A:385 , GLN A:388 , VAL A:389 , ARG A:449 , CMO A:563 , LEU C:15
BINDING SITE FOR RESIDUE HAS A 801
4
AC4
SOFTWARE
HIS B:114 , CYS B:149 , GLN B:151 , CYS B:153 , HIS B:157 , MET B:160
BINDING SITE FOR RESIDUE CUA B 802
5
AC5
SOFTWARE
HIS A:233 , HIS A:282 , HIS A:283 , HAS A:801 , CU1 A:803
BINDING SITE FOR RESIDUE CMO A 563
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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
(3, 3)
Info
All PROSITE Patterns/Profiles
1: COX2_CUA (B:66-168)
2: COX2 (B:112-160)
3: COX1_CUB (A:229-283)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
COX2_CUA
PS50857
Cytochrome oxidase subunit II copper A binding domain profile.
COX2_THET8
66-168
1
B:66-168
2
COX2
PS00078
CO II and nitrous oxide reductase dinuclear copper centers signature.
COX2_THET8
112-160
1
B:112-160
3
COX1_CUB
PS00077
Heme-copper oxidase catalytic subunit, copper B binding region signature.
COX1_THET8
229-283
1
A:229-283
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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
(4, 4)
Info
All SCOP Domains
1a: SCOP_d3qjvb2 (B:41-168)
2a: SCOP_d3qjva_ (A:)
3a: SCOP_d3qjvc_ (C:)
4a: SCOP_d3qjvb1 (B:3-40)
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Class
:
All beta proteins
(24004)
Fold
:
Cupredoxin-like
(545)
Superfamily
:
Cupredoxins
(543)
Family
:
Periplasmic domain of cytochrome c oxidase subunit II
(70)
Protein domain
:
Cytochrome c oxidase
(62)
Thermus thermophilus, ba3 type [TaxId: 274]
(28)
1a
d3qjvb2
B:41-168
Class
:
Membrane and cell surface proteins and peptides
(2046)
Fold
:
Cytochrome c oxidase subunit I-like
(65)
Superfamily
:
Cytochrome c oxidase subunit I-like
(65)
Family
:
Cytochrome c oxidase subunit I-like
(65)
Protein domain
:
Bacterial ba3 type cytochrome c oxidase subunit I
(24)
Thermus thermophilus [TaxId: 274]
(24)
2a
d3qjva_
A:
Fold
:
Single transmembrane helix
(568)
Superfamily
:
Bacterial ba3 type cytochrome c oxidase subunit IIa
(23)
Family
:
Bacterial ba3 type cytochrome c oxidase subunit IIa
(23)
Protein domain
:
Bacterial ba3 type cytochrome c oxidase subunit IIa
(23)
Thermus thermophilus [TaxId: 274]
(23)
3a
d3qjvc_
C:
Fold
:
Transmembrane helix hairpin
(84)
Superfamily
:
Cytochrome c oxidase subunit II-like, transmembrane region
(66)
Family
:
Cytochrome c oxidase subunit II-like, transmembrane region
(57)
Protein domain
:
Bacterial ba3 type cytochrome c oxidase subunit II
(18)
Thermus thermophilus [TaxId: 274]
(18)
4a
d3qjvb1
B:3-40
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CATH Domains
(0, 0)
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Pfam Domains
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Asym.Unit (263 KB)
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