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3MK7
Biol. Unit 4
Info
Asym.Unit (1.4 MB)
Biol.Unit 1 (345 KB)
Biol.Unit 2 (356 KB)
Biol.Unit 3 (346 KB)
Biol.Unit 4 (353 KB)
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(1)
Title
:
THE STRUCTURE OF CBB3 CYTOCHROME OXIDASE
Authors
:
S. Buschmann, E. Warkentin, H. Michel, U. Ermler
Date
:
14 Apr 10 (Deposition) - 04 Aug 10 (Release) - 04 Aug 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.20
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,K,L,M,U,X,Y,Z
Biol. Unit 1: A,B,C,U (1x)
Biol. Unit 2: D,E,F,X (1x)
Biol. Unit 3: G,H,I,Y (1x)
Biol. Unit 4: K,L,M,Z (1x)
Keywords
:
Tm Helices, Oxidoreductase
(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
[
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)
8a: (UNKa)
8aa: (UNKaa)
8ab: (UNKab)
8ac: (UNKac)
8ad: (UNKad)
8ae: (UNKae)
8af: (UNKaf)
8ag: (UNKag)
8ah: (UNKah)
8ai: (UNKai)
8aj: (UNKaj)
8ak: (UNKak)
8al: (UNKal)
8am: (UNKam)
8an: (UNKan)
8ao: (UNKao)
8ap: (UNKap)
8aq: (UNKaq)
8ar: (UNKar)
8as: (UNKas)
8at: (UNKat)
8au: (UNKau)
8av: (UNKav)
8aw: (UNKaw)
8ax: (UNKax)
8ay: (UNKay)
8az: (UNKaz)
8b: (UNKb)
8ba: (UNKba)
8bb: (UNKbb)
8bc: (UNKbc)
8bd: (UNKbd)
8be: (UNKbe)
8bf: (UNKbf)
8bg: (UNKbg)
8bh: (UNKbh)
8bi: (UNKbi)
8bj: (UNKbj)
8bk: (UNKbk)
8bl: (UNKbl)
8bm: (UNKbm)
8bn: (UNKbn)
8bo: (UNKbo)
8bp: (UNKbp)
8bq: (UNKbq)
8br: (UNKbr)
8bs: (UNKbs)
8bt: (UNKbt)
8bu: (UNKbu)
8bv: (UNKbv)
8bw: (UNKbw)
8bx: (UNKbx)
8by: (UNKby)
8bz: (UNKbz)
8c: (UNKc)
8ca: (UNKca)
8cb: (UNKcb)
8cc: (UNKcc)
8cd: (UNKcd)
8ce: (UNKce)
8cf: (UNKcf)
8cg: (UNKcg)
8ch: (UNKch)
8ci: (UNKci)
8cj: (UNKcj)
8ck: (UNKck)
8cl: (UNKcl)
8cm: (UNKcm)
8cn: (UNKcn)
8co: (UNKco)
8cp: (UNKcp)
8cq: (UNKcq)
8cr: (UNKcr)
8cs: (UNKcs)
8ct: (UNKct)
8cu: (UNKcu)
8cv: (UNKcv)
8cw: (UNKcw)
8cx: (UNKcx)
8cy: (UNKcy)
8cz: (UNKcz)
8d: (UNKd)
8da: (UNKda)
8db: (UNKdb)
8dc: (UNKdc)
8dd: (UNKdd)
8de: (UNKde)
8df: (UNKdf)
8dg: (UNKdg)
8dh: (UNKdh)
8di: (UNKdi)
8dj: (UNKdj)
8dk: (UNKdk)
8dl: (UNKdl)
8dm: (UNKdm)
8dn: (UNKdn)
8do: (UNKdo)
8dp: (UNKdp)
8e: (UNKe)
8f: (UNKf)
8g: (UNKg)
8h: (UNKh)
8i: (UNKi)
8j: (UNKj)
8k: (UNKk)
8l: (UNKl)
8m: (UNKm)
8n: (UNKn)
8o: (UNKo)
8p: (UNKp)
8q: (UNKq)
8r: (UNKr)
8s: (UNKs)
8t: (UNKt)
8u: (UNKu)
8v: (UNKv)
8w: (UNKw)
8x: (UNKx)
8y: (UNKy)
8z: (UNKz)
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
8
UNK
-1
Mod. Amino Acid
[
close Hetero Component info
]
Sites
(12, 12)
Info
All Sites
01: BC2 (SOFTWARE)
02: DC7 (SOFTWARE)
03: DC8 (SOFTWARE)
04: DC9 (SOFTWARE)
05: EC1 (SOFTWARE)
06: EC2 (SOFTWARE)
07: EC3 (SOFTWARE)
08: EC4 (SOFTWARE)
09: EC5 (SOFTWARE)
10: EC6 (SOFTWARE)
11: EC7 (SOFTWARE)
12: EC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
BC2
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 323
02
DC7
SOFTWARE
GLU K:122 , TYR K:123 , TRP K:203 , VAL K:210 , LEU K:214 , TYR K:251 , HIS K:257 , SER K:283 , SER K:320 , THR K:321 , GLY K:324 , PRO K:325 , MET K:327 , ALA K:328 , ASN K:333 , HIS K:337 , THR K:342 , HIS K:345 , VAL K:346 , GLY K:349 , HEM K:502 , CA K:504 , PEO K:508 , SER L:102
BINDING SITE FOR RESIDUE HEM K 501
03
DC8
SOFTWARE
MET K:29 , GLY K:32 , VAL K:33 , ILE K:35 , ALA K:36 , ARG K:57 , HIS K:60 , THR K:61 , VAL K:64 , ILE K:65 , GLU K:122 , TYR K:123 , ASP K:340 , THR K:342 , ILE K:343 , VAL K:346 , HIS K:347 , ALA K:350 , LEU K:351 , TYR K:395 , ARG K:437 , GLY K:441 , PHE K:444 , HEM K:501 , CA K:504 , LYS L:103
BINDING SITE FOR RESIDUE HEM K 502
04
DC9
SOFTWARE
HIS K:207 , HIS K:257 , HIS K:258 , PEO K:508
BINDING SITE FOR RESIDUE CU K 503
05
EC1
SOFTWARE
ARG K:57 , GLU K:122 , HEM K:501 , HEM K:502 , SER L:102
BINDING SITE FOR RESIDUE CA K 504
06
EC2
SOFTWARE
ALA K:124 , LEU K:126 , ASP K:131 , ASN K:179
BINDING SITE FOR RESIDUE CA K 505
07
EC3
SOFTWARE
MET K:273 , ILE K:329 , LYS K:330 , THR K:331 , TYR M:72
BINDING SITE FOR RESIDUE PO4 K 506
08
EC4
SOFTWARE
HIS K:207 , VAL K:210 , HIS K:258 , HEM K:501 , CU K:503
BINDING SITE FOR RESIDUE PEO K 508
09
EC5
SOFTWARE
GLU L:63 , CYS L:65 , CYS L:68 , HIS L:69 , THR L:105 , GLY L:106 , PRO L:107 , LEU L:109 , VAL L:112 , TYR L:116 , HIS L:121 , HIS L:124 , LEU L:125 , VAL L:132 , SER L:135 , LYS L:136 , MET L:137 , PRO L:138 , TYR L:140 , MET L:188
BINDING SITE FOR RESIDUE HEC L 211
10
EC6
SOFTWARE
ARG M:166 , ILE M:183 , ALA M:184 , ALA M:185 , MET M:186 , TRP M:189 , THR M:232 , CYS M:233 , CYS M:236 , HIS M:237 , LEU M:247 , GLY M:248 , ALA M:249 , PRO M:250 , TRP M:258 , ILE M:259 , TYR M:260 , LEU M:267 , THR M:270 , ILE M:271 , ARG M:275 , GLY M:277 , HEC M:322
BINDING SITE FOR RESIDUE HEC M 321
11
EC7
SOFTWARE
TYR L:116 , SER L:117 , TYR M:142 , CYS M:143 , CYS M:146 , HIS M:147 , GLY M:156 , PHE M:157 , PRO M:158 , LEU M:160 , TRP M:165 , ARG M:166 , TRP M:167 , ILE M:178 , ALA M:184 , GLY M:277 , GLN M:278 , MET M:279 , PRO M:280 , GLN M:282 , HEC M:321
BINDING SITE FOR RESIDUE HEC M 322
12
EC8
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 323
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 3)
Info
All PROSITE Patterns/Profiles
1: CYTC (M:220-302)
2: COX1_CUB (K:203-258)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CYTC
PS51007
Cytochrome c family profile.
CCOP1_PSEST
130-209
220-302
2
-
-
-
M:130-209
-
-
-
M:220-302
2
COX1_CUB
PS00077
Heme-copper oxidase catalytic subunit, copper B binding region signature.
CCON1_PSEST
203-258
1
-
-
-
K:203-258
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
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Label:
All Exon Boundaries
View:
Label:
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)
Info
All SCOP Domains
View:
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Label:
Sorry, no Info available
[
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CATH Domains
(0, 0)
Info
all CATH domains
View:
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Label:
Sorry, no Info available
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain K
Chain L
Chain M
Chain Z
Asymmetric Unit 1
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Asym.Unit (1.4 MB)
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Biol.Unit 1 (345 KB)
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Biol.Unit 3 (346 KB)
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