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5DJQ
Biol. Unit 1
Info
Asym.Unit (1.4 MB)
Biol.Unit 1 (346 KB)
Biol.Unit 2 (355 KB)
Biol.Unit 3 (348 KB)
Biol.Unit 4 (351 KB)
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(1)
Title
:
THE STRUCTURE OF CBB3 CYTOCHROME OXIDASE.
Authors
:
S. Buschmann, E. Warkentin, H. Xie, M. Kohlstaedt, J. D. Langer, U. Erml H. Michel
Date
:
02 Sep 15 (Deposition) - 13 Jan 16 (Release) - 27 Jul 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.20
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,K,L,M,N,O,P,Q
Biol. Unit 1: A,B,C,N (1x)
Biol. Unit 2: D,E,F,O (1x)
Biol. Unit 3: G,H,I,P (1x)
Biol. Unit 4: K,L,M,Q (1x)
Keywords
:
Oxidoreductase, Cbb3-Cytochrome C Oxidase, Pseudomonas_stutzeri
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Buschmann, E. Warkentin, H. Xie, J. D. Langer, U. Ermler, H. Michel
The Structure Of Cbb3 Cytochrome Oxidase Provides Insights Into Proton Pumping.
Science V. 329 327 2010
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(5, 8)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
2a: COPPER (II) ION (CUa)
2b: COPPER (II) ION (CUb)
2c: COPPER (II) ION (CUc)
2d: COPPER (II) ION (CUd)
3a: HEXACYANOFERRATE(3-) (FC6a)
3b: HEXACYANOFERRATE(3-) (FC6b)
3c: HEXACYANOFERRATE(3-) (FC6c)
3d: HEXACYANOFERRATE(3-) (FC6d)
4a: HEME C (HECa)
4b: HEME C (HECb)
4c: HEME C (HECc)
4d: HEME C (HECd)
4e: HEME C (HECe)
4f: HEME C (HECf)
4g: HEME C (HECg)
4h: HEME C (HECh)
4i: HEME C (HECi)
4j: HEME C (HECj)
4k: HEME C (HECk)
4l: HEME C (HECl)
5a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
5b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
5c: PROTOPORPHYRIN IX CONTAINING FE (HEMc)
5d: PROTOPORPHYRIN IX CONTAINING FE (HEMd)
5e: PROTOPORPHYRIN IX CONTAINING FE (HEMe)
5f: PROTOPORPHYRIN IX CONTAINING FE (HEMf)
5g: PROTOPORPHYRIN IX CONTAINING FE (HEMg)
5h: PROTOPORPHYRIN IX CONTAINING FE (HEMh)
6a: HYDROGEN PEROXIDE (PEOa)
6b: HYDROGEN PEROXIDE (PEOb)
6c: HYDROGEN PEROXIDE (PEOc)
6d: HYDROGEN PEROXIDE (PEOd)
7a: PHOSPHATE ION (PO4a)
7b: PHOSPHATE ION (PO4b)
7c: PHOSPHATE ION (PO4c)
7d: PHOSPHATE ION (PO4d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
-1
Ligand/Ion
CALCIUM ION
2
CU
-1
Ligand/Ion
COPPER (II) ION
3
FC6
1
Ligand/Ion
HEXACYANOFERRATE(3-)
4
HEC
3
Ligand/Ion
HEME C
5
HEM
2
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
6
PEO
1
Ligand/Ion
HYDROGEN PEROXIDE
7
PO4
1
Ligand/Ion
PHOSPHATE ION
[
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]
Sites
(14, 14)
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: AD1 (SOFTWARE)
11: AD2 (SOFTWARE)
12: AF8 (SOFTWARE)
13: AG8 (SOFTWARE)
14: AG9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:122 , TYR A:123 , TRP A:203 , VAL A:210 , TYR A:251 , HIS A:257 , HIS A:258 , LEU A:279 , SER A:283 , GLY A:324 , PRO A:325 , MET A:327 , ALA A:328 , ASN A:333 , HIS A:337 , HIS A:345 , VAL A:346 , GLY A:349 , HEM A:502 , PEO A:505 , CA A:507 , SER B:102
binding site for residue HEM A 501
02
AC2
SOFTWARE
MET A:29 , GLY A:32 , VAL A:33 , ALA A:36 , ARG A:57 , HIS A:60 , VAL A:64 , ILE A:65 , GLU A:122 , TYR A:123 , ASP A:340 , ILE A:343 , VAL A:346 , HIS A:347 , ALA A:350 , LEU A:351 , TYR A:395 , ARG A:437 , GLY A:441 , PHE A:444 , HEM A:501 , CA A:507 , LYS B:103
binding site for residue HEM A 502
03
AC3
SOFTWARE
HIS A:207 , HIS A:257 , HIS A:258 , PEO A:505
binding site for residue CU A 503
04
AC4
SOFTWARE
ALA A:124 , LEU A:126 , ASP A:131 , ASN A:179
binding site for residue CA A 504
05
AC5
SOFTWARE
HIS A:207 , VAL A:210 , HIS A:258 , HEM A:501 , CU A:503
binding site for residue PEO A 505
06
AC6
SOFTWARE
MET A:273 , ILE A:329 , LYS A:330 , THR A:331 , TYR C:72
binding site for residue PO4 A 506
07
AC7
SOFTWARE
ARG A:57 , GLU A:122 , HEM A:501 , HEM A:502 , SER B:102
binding site for residue CA A 507
08
AC8
SOFTWARE
PHE A:53 , LEU A:427 , GLU B:63 , CYS B:65 , CYS B:68 , HIS B:69 , THR B:105 , GLY B:106 , PRO B:107 , LEU B:109 , TYR B:116 , HIS B:121 , HIS B:124 , LEU B:125 , VAL B:132 , SER B:135 , LYS B:136 , MET B:137 , PRO B:138 , TYR B:140 , MET B:188
binding site for residue HEC B 301
09
AC9
SOFTWARE
ARG C:166 , ALA C:184 , ALA C:185 , MET C:186 , PRO C:187 , TRP C:189 , THR C:232 , CYS C:233 , CYS C:236 , HIS C:237 , LEU C:247 , GLY C:248 , PRO C:250 , TRP C:258 , ILE C:259 , TYR C:260 , LEU C:267 , THR C:270 , ILE C:271 , GLY C:277 , HEC C:402 , ILE I:183
binding site for residue HEC C 401
10
AD1
SOFTWARE
TYR B:116 , TYR C:142 , CYS C:143 , CYS C:146 , HIS C:147 , GLY C:156 , PHE C:157 , PRO C:158 , LEU C:160 , TRP C:165 , ARG C:166 , TRP C:167 , ILE C:174 , SER C:177 , ILE C:178 , ALA C:184 , GLY C:277 , GLN C:278 , MET C:279 , PRO C:280 , GLN C:282 , HEC C:401
binding site for residue HEC C 402
11
AD2
SOFTWARE
GLY C:265 , GLN C:266 , GLN C:269 , ARG C:275 , ARG M:206 , PRO M:215 , SER M:263 , LEU M:264
binding site for residue FC6 C 403
12
AF8
SOFTWARE
ARG C:206 , PRO C:215 , SER C:263 , LEU C:264 , GLY M:265 , GLN M:266 , GLN M:269 , ARG M:275
binding site for residue FC6 M 401
13
AG8
SOFTWARE
ILE C:183 , ARG I:166 , ALA I:184 , ALA I:185 , MET I:186 , PRO I:187 , TRP I:189 , TYR I:229 , THR I:232 , ALA I:234 , VAL I:235 , CYS I:236 , HIS I:237 , LEU I:247 , GLY I:248 , PRO I:250 , LEU I:252 , TRP I:258 , ILE I:259 , TYR I:260 , GLY I:261 , LEU I:267 , THR I:270 , ILE I:271 , GLY I:277 , HEC I:403
binding site for Di-peptide HEC I 402 and CYS I 233
14
AG9
SOFTWARE
ILE C:183 , ARG I:166 , ALA I:184 , ALA I:185 , MET I:186 , PRO I:187 , TRP I:189 , THR I:232 , CYS I:233 , ALA I:234 , VAL I:235 , HIS I:237 , GLY I:238 , MET I:244 , LEU I:247 , GLY I:248 , ALA I:249 , PRO I:250 , LEU I:252 , TRP I:258 , ILE I:259 , TYR I:260 , GLY I:261 , LEU I:267 , THR I:270 , ILE I:271 , GLY I:277 , HEC I:403
binding site for Di-peptide HEC I 402 and CYS I 236
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
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CATH Domains
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Pfam Domains
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (1.4 MB)
Header - Asym.Unit
Biol.Unit 1 (346 KB)
Header - Biol.Unit 1
Biol.Unit 2 (355 KB)
Header - Biol.Unit 2
Biol.Unit 3 (348 KB)
Header - Biol.Unit 3
Biol.Unit 4 (351 KB)
Header - Biol.Unit 4
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