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1FFT
Asym. Unit
Info
Asym.Unit (291 KB)
Biol.Unit 1 (142 KB)
Biol.Unit 2 (143 KB)
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(1)
Title
:
THE STRUCTURE OF UBIQUINOL OXIDASE FROM ESCHERICHIA COLI
Authors
:
J. Abramson, S. Riistama, G. Larsson, A. Jasaitis, M. Svensson-Ek, A. P S. Iwata, M. Wikstrom
Date
:
26 Jul 00 (Deposition) - 18 Oct 00 (Release) - 28 Sep 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.50
Chains
:
Asym. Unit : A,B,C,D,F,G,H,I
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: F,G,H,I (1x)
Keywords
:
Electron Transport, Cytochrome Oxidase, Membrane Protein, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Abramson, S. Riistama, G. Larsson, A. Jasaitis, M. Svensson-Ek, L. Laakkonen, A. Puustinen, S. Iwata, M. Wikstrom
The Structure Of The Ubiquinol Oxidase From Escherichia Col And Its Ubiquinone Binding Site.
Nat. Struct. Biol. V. 7 910 2000
(for further references see the
PDB file header
)
[
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]
Hetero Components
(4, 224)
Info
All Hetero Components
1a: COPPER (II) ION (CUa)
1b: COPPER (II) ION (CUb)
2a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
2b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
3a: HEME O (HEOa)
3b: HEME O (HEOb)
4a: (UNKa)
4aa: (UNKaa)
4ab: (UNKab)
4ac: (UNKac)
4ad: (UNKad)
4ae: (UNKae)
4af: (UNKaf)
4ag: (UNKag)
4ah: (UNKah)
4ai: (UNKai)
4aj: (UNKaj)
4ak: (UNKak)
4al: (UNKal)
4am: (UNKam)
4an: (UNKan)
4ao: (UNKao)
4ap: (UNKap)
4aq: (UNKaq)
4ar: (UNKar)
4as: (UNKas)
4at: (UNKat)
4au: (UNKau)
4av: (UNKav)
4aw: (UNKaw)
4ax: (UNKax)
4ay: (UNKay)
4az: (UNKaz)
4b: (UNKb)
4ba: (UNKba)
4bb: (UNKbb)
4bc: (UNKbc)
4bd: (UNKbd)
4be: (UNKbe)
4bf: (UNKbf)
4bg: (UNKbg)
4bh: (UNKbh)
4bi: (UNKbi)
4bj: (UNKbj)
4bk: (UNKbk)
4bl: (UNKbl)
4bm: (UNKbm)
4bn: (UNKbn)
4bo: (UNKbo)
4bp: (UNKbp)
4bq: (UNKbq)
4br: (UNKbr)
4bs: (UNKbs)
4bt: (UNKbt)
4bu: (UNKbu)
4bv: (UNKbv)
4bw: (UNKbw)
4bx: (UNKbx)
4by: (UNKby)
4bz: (UNKbz)
4c: (UNKc)
4ca: (UNKca)
4cb: (UNKcb)
4cc: (UNKcc)
4cd: (UNKcd)
4ce: (UNKce)
4cf: (UNKcf)
4cg: (UNKcg)
4ch: (UNKch)
4ci: (UNKci)
4cj: (UNKcj)
4ck: (UNKck)
4cl: (UNKcl)
4cm: (UNKcm)
4cn: (UNKcn)
4co: (UNKco)
4cp: (UNKcp)
4cq: (UNKcq)
4cr: (UNKcr)
4cs: (UNKcs)
4ct: (UNKct)
4cu: (UNKcu)
4cv: (UNKcv)
4cw: (UNKcw)
4cx: (UNKcx)
4cy: (UNKcy)
4cz: (UNKcz)
4d: (UNKd)
4da: (UNKda)
4db: (UNKdb)
4dc: (UNKdc)
4dd: (UNKdd)
4de: (UNKde)
4df: (UNKdf)
4dg: (UNKdg)
4dh: (UNKdh)
4di: (UNKdi)
4dj: (UNKdj)
4dk: (UNKdk)
4dl: (UNKdl)
4dm: (UNKdm)
4dn: (UNKdn)
4do: (UNKdo)
4dp: (UNKdp)
4dq: (UNKdq)
4dr: (UNKdr)
4ds: (UNKds)
4dt: (UNKdt)
4du: (UNKdu)
4dv: (UNKdv)
4dw: (UNKdw)
4dx: (UNKdx)
4dy: (UNKdy)
4dz: (UNKdz)
4e: (UNKe)
4ea: (UNKea)
4eb: (UNKeb)
4ec: (UNKec)
4ed: (UNKed)
4ee: (UNKee)
4ef: (UNKef)
4eg: (UNKeg)
4eh: (UNKeh)
4ei: (UNKei)
4ej: (UNKej)
4ek: (UNKek)
4el: (UNKel)
4em: (UNKem)
4en: (UNKen)
4eo: (UNKeo)
4ep: (UNKep)
4eq: (UNKeq)
4er: (UNKer)
4es: (UNKes)
4et: (UNKet)
4eu: (UNKeu)
4ev: (UNKev)
4ew: (UNKew)
4ex: (UNKex)
4ey: (UNKey)
4ez: (UNKez)
4f: (UNKf)
4fa: (UNKfa)
4fb: (UNKfb)
4fc: (UNKfc)
4fd: (UNKfd)
4fe: (UNKfe)
4ff: (UNKff)
4fg: (UNKfg)
4fh: (UNKfh)
4fi: (UNKfi)
4fj: (UNKfj)
4fk: (UNKfk)
4fl: (UNKfl)
4fm: (UNKfm)
4fn: (UNKfn)
4fo: (UNKfo)
4fp: (UNKfp)
4fq: (UNKfq)
4fr: (UNKfr)
4fs: (UNKfs)
4ft: (UNKft)
4fu: (UNKfu)
4fv: (UNKfv)
4fw: (UNKfw)
4fx: (UNKfx)
4fy: (UNKfy)
4fz: (UNKfz)
4g: (UNKg)
4ga: (UNKga)
4gb: (UNKgb)
4gc: (UNKgc)
4gd: (UNKgd)
4ge: (UNKge)
4gf: (UNKgf)
4gg: (UNKgg)
4gh: (UNKgh)
4gi: (UNKgi)
4gj: (UNKgj)
4gk: (UNKgk)
4gl: (UNKgl)
4gm: (UNKgm)
4gn: (UNKgn)
4go: (UNKgo)
4gp: (UNKgp)
4gq: (UNKgq)
4gr: (UNKgr)
4gs: (UNKgs)
4gt: (UNKgt)
4gu: (UNKgu)
4gv: (UNKgv)
4gw: (UNKgw)
4gx: (UNKgx)
4gy: (UNKgy)
4gz: (UNKgz)
4h: (UNKh)
4ha: (UNKha)
4hb: (UNKhb)
4hc: (UNKhc)
4hd: (UNKhd)
4he: (UNKhe)
4hf: (UNKhf)
4hg: (UNKhg)
4hh: (UNKhh)
4hi: (UNKhi)
4hj: (UNKhj)
4i: (UNKi)
4j: (UNKj)
4k: (UNKk)
4l: (UNKl)
4m: (UNKm)
4n: (UNKn)
4o: (UNKo)
4p: (UNKp)
4q: (UNKq)
4r: (UNKr)
4s: (UNKs)
4t: (UNKt)
4u: (UNKu)
4v: (UNKv)
4w: (UNKw)
4x: (UNKx)
4y: (UNKy)
4z: (UNKz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CU
2
Ligand/Ion
COPPER (II) ION
2
HEM
2
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
3
HEO
2
Ligand/Ion
HEME O
4
UNK
218
Mod. Amino Acid
[
close Hetero Component info
]
Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:284 , HIS A:333 , HIS A:334
BINDING SITE FOR RESIDUE CU A 1003
2
AC2
SOFTWARE
HIS F:284 , HIS F:333 , HIS F:334
BINDING SITE FOR RESIDUE CU F 1003
3
AC3
SOFTWARE
PHE A:73 , ARG A:80 , TYR A:99 , PHE A:103 , THR A:104 , HIS A:106 , GLY A:107 , MET A:110 , ILE A:111 , GLY A:169 , TRP A:170 , ILE A:417 , HIS A:421 , ILE A:424 , ILE A:425 , VAL A:429 , PHE A:468 , ARG A:481 , ARG A:482
BINDING SITE FOR RESIDUE HEM A 1001
4
AC4
SOFTWARE
TRP A:280 , VAL A:287 , HIS A:333 , HIS A:334 , ALA A:356 , THR A:359 , GLY A:360 , GLY A:395 , GLY A:398 , VAL A:399 , LEU A:401 , HIS A:411 , ASN A:412 , LEU A:416 , HIS A:419 , PHE A:420 , VAL A:423 , ILE A:424 , ARG A:481 , ILE B:56 , PRO B:96 , ILE B:99 , ILE B:100
BINDING SITE FOR RESIDUE HEO A 1002
5
AC5
SOFTWARE
PHE F:73 , ARG F:80 , TYR F:99 , PHE F:103 , THR F:104 , HIS F:106 , GLY F:107 , MET F:110 , ILE F:111 , GLY F:169 , TRP F:170 , ILE F:417 , HIS F:421 , ILE F:424 , ILE F:425 , VAL F:429 , PHE F:468 , ARG F:481 , ARG F:482
BINDING SITE FOR RESIDUE HEM F 1001
6
AC6
SOFTWARE
TRP F:170 , TRP F:280 , VAL F:287 , HIS F:333 , HIS F:334 , ALA F:356 , THR F:359 , GLY F:360 , GLY F:395 , GLY F:398 , VAL F:399 , LEU F:401 , HIS F:411 , ASN F:412 , LEU F:416 , HIS F:419 , PHE F:420 , VAL F:423 , ILE F:424 , ARG F:481 , ILE G:56 , PRO G:96 , ILE G:99 , ILE G:100
BINDING SITE FOR RESIDUE HEO F 1002
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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]
PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: COX2_CUA (B:124-237,G:124-237)
2: COX1_CUB (A:280-334,F:280-334)
;
View:
Select:
Label:
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.
CYOA_ECOLI
124-237
2
B:124-237
G:124-237
2
COX1_CUB
PS00077
Heme-copper oxidase catalytic subunit, copper B binding region signature.
CYOB_ECOLI
280-334
2
A:280-334
F:280-334
[
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]
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.
SCOP Domains
(4, 8)
Info
All SCOP Domains
1a: SCOP_d1fftb1 (B:118-283)
1b: SCOP_d1fftg1 (G:118-283)
2a: SCOP_d1ffta_ (A:)
2b: SCOP_d1fftf_ (F:)
3a: SCOP_d1fftc_ (C:)
3b: SCOP_d1ffth_ (H:)
4a: SCOP_d1fftb2 (B:27-117)
4b: SCOP_d1fftg2 (G:27-117)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Cupredoxin-like
(545)
Superfamily
:
Cupredoxins
(543)
Family
:
Periplasmic domain of cytochrome c oxidase subunit II
(70)
Protein domain
:
Quinol oxidase (CyoA)
(3)
Escherichia coli [TaxId: 562]
(3)
1a
d1fftb1
B:118-283
1b
d1fftg1
G:118-283
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
:
Cytochrome O ubiquinol oxidase, subunit I
(1)
Escherichia coli [TaxId: 562]
(1)
2a
d1ffta_
A:
2b
d1fftf_
F:
Fold
:
Cytochrome c oxidase subunit III-like
(29)
Superfamily
:
Cytochrome c oxidase subunit III-like
(29)
Family
:
Cytochrome c oxidase subunit III-like
(29)
Protein domain
:
Cytochrome O ubiquinol oxidase, subunit III
(1)
Escherichia coli [TaxId: 562]
(1)
3a
d1fftc_
C:
3b
d1ffth_
H:
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
:
Cytochrome O ubiquinol oxidase, subunit II
(1)
Escherichia coli [TaxId: 562]
(1)
4a
d1fftb2
B:27-117
4b
d1fftg2
G:27-117
[
close SCOP info
]
CATH Domains
(4, 8)
Info
all CATH domains
1a: CATH_1fftB01 (B:27-113)
1b: CATH_1fftG01 (G:27-113)
2a: CATH_1fftA00 (A:52-552)
2b: CATH_1fftF00 (F:52-552)
3a: CATH_1fftC00 (C:19-203)
3b: CATH_1fftH00 (H:19-203)
4a: CATH_1fftB02 (B:121-283)
4b: CATH_1fftG02 (G:121-283)
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Architectures
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)
Topologies
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Helix Hairpins
(718)
Homologous Superfamily
:
[code=1.10.287.90, no name defined]
(33)
Escherichia coli. Organism_taxid: 562.
(1)
1a
1fftB01
B:27-113
1b
1fftG01
G:27-113
Architecture
:
Up-down Bundle
(3216)
Topology
:
Cytochrome C Oxidase; Chain A
(41)
Homologous Superfamily
:
Cytochrome C Oxidase, chain A
(41)
Escherichia coli. Organism_taxid: 562.
(1)
2a
1fftA00
A:52-552
2b
1fftF00
F:52-552
Topology
:
Four Helix Bundle (Hemerythrin (Met), subunit A)
(300)
Homologous Superfamily
:
[code=1.20.120.80, no name defined]
(26)
Escherichia coli. Organism_taxid: 562.
(1)
3a
1fftC00
C:19-203
3b
1fftH00
H:19-203
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Cupredoxins - blue copper proteins
(420)
Escherichia coli. Organism_taxid: 562.
(4)
4a
1fftB02
B:121-283
4b
1fftG02
G:121-283
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Sorry, no Info available
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