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2OQE
Biol. Unit 1
Info
Asym.Unit (720 KB)
Biol.Unit 1 (244 KB)
Biol.Unit 2 (242 KB)
Biol.Unit 3 (244 KB)
Biol.Unit 4 (479 KB)
Biol.Unit 5 (710 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HANSENULA POLYMORPHA AMINE OXIDASE IN COMPLEX WITH XE TO 1.6 ANGSTROMS
Authors
:
B. J. Johnson, C. M. Wilmot
Date
:
31 Jan 07 (Deposition) - 10 Apr 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Biol. Unit 4: A,B,E,F (1x)
Biol. Unit 5: A,B,C,D,E,F (1x)
Keywords
:
Protein-Derived Cofactor, Tpq, Xe, Xenon Complex, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. J. Johnson, J. Cohen, R. W. Welford, A. R. Pearson, K. Schulten, J. P. Klinman, C. M. Wilmot
Exploring Molecular Oxygen Pathways In Hansenula Polymorpha Copper-Containing Amine Oxidase
J. Biol. Chem. V. 282 17767 2007
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Hetero Components
(3, 24)
Info
All Hetero Components
1a: COPPER (II) ION (CUa)
1b: COPPER (II) ION (CUb)
1c: COPPER (II) ION (CUc)
1d: COPPER (II) ION (CUd)
1e: COPPER (II) ION (CUe)
1f: COPPER (II) ION (CUf)
2a: GLYCEROL (GOLa)
2aa: GLYCEROL (GOLaa)
2ab: GLYCEROL (GOLab)
2ac: GLYCEROL (GOLac)
2ad: GLYCEROL (GOLad)
2ae: GLYCEROL (GOLae)
2af: GLYCEROL (GOLaf)
2ag: GLYCEROL (GOLag)
2ah: GLYCEROL (GOLah)
2ai: GLYCEROL (GOLai)
2aj: GLYCEROL (GOLaj)
2ak: GLYCEROL (GOLak)
2al: GLYCEROL (GOLal)
2am: GLYCEROL (GOLam)
2an: GLYCEROL (GOLan)
2ao: GLYCEROL (GOLao)
2ap: GLYCEROL (GOLap)
2aq: GLYCEROL (GOLaq)
2ar: GLYCEROL (GOLar)
2as: GLYCEROL (GOLas)
2at: GLYCEROL (GOLat)
2au: GLYCEROL (GOLau)
2av: GLYCEROL (GOLav)
2aw: GLYCEROL (GOLaw)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
2g: GLYCEROL (GOLg)
2h: GLYCEROL (GOLh)
2i: GLYCEROL (GOLi)
2j: GLYCEROL (GOLj)
2k: GLYCEROL (GOLk)
2l: GLYCEROL (GOLl)
2m: GLYCEROL (GOLm)
2n: GLYCEROL (GOLn)
2o: GLYCEROL (GOLo)
2p: GLYCEROL (GOLp)
2q: GLYCEROL (GOLq)
2r: GLYCEROL (GOLr)
2s: GLYCEROL (GOLs)
2t: GLYCEROL (GOLt)
2u: GLYCEROL (GOLu)
2v: GLYCEROL (GOLv)
2w: GLYCEROL (GOLw)
2x: GLYCEROL (GOLx)
2y: GLYCEROL (GOLy)
2z: GLYCEROL (GOLz)
3a: METHIONINE SULFOXIDE (SMEa)
3b: METHIONINE SULFOXIDE (SMEb)
4a: 5-(2-CARBOXY-2-AMINOETHYL)-2-HYDRO... (TPQa)
4b: 5-(2-CARBOXY-2-AMINOETHYL)-2-HYDRO... (TPQb)
4c: 5-(2-CARBOXY-2-AMINOETHYL)-2-HYDRO... (TPQc)
4d: 5-(2-CARBOXY-2-AMINOETHYL)-2-HYDRO... (TPQd)
4e: 5-(2-CARBOXY-2-AMINOETHYL)-2-HYDRO... (TPQe)
4f: 5-(2-CARBOXY-2-AMINOETHYL)-2-HYDRO... (TPQf)
5a: XENON (XEa)
5b: XENON (XEb)
5c: XENON (XEc)
5d: XENON (XEd)
5e: XENON (XEe)
5f: XENON (XEf)
5g: XENON (XEg)
5h: XENON (XEh)
5i: XENON (XEi)
5j: XENON (XEj)
5k: XENON (XEk)
5l: XENON (XEl)
5m: XENON (XEm)
5n: XENON (XEn)
5o: XENON (XEo)
5p: XENON (XEp)
5q: XENON (XEq)
5r: XENON (XEr)
5s: XENON (XEs)
5t: XENON (XEt)
5u: XENON (XEu)
5v: XENON (XEv)
5w: XENON (XEw)
5x: XENON (XEx)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CU
-1
Ligand/Ion
COPPER (II) ION
2
GOL
20
Ligand/Ion
GLYCEROL
3
SME
2
Mod. Amino Acid
METHIONINE SULFOXIDE
4
TPQ
2
Mod. Amino Acid
5-(2-CARBOXY-2-AMINOETHYL)-2-HYDROXY-1,4-BENZOQUINONE
5
XE
-1
Ligand/Ion
XENON
[
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Sites
(0, 0)
Info
All Sites
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Sorry, no Info available
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: COPPER_AMINE_OXID_1 (A:394-407,B:394-407)
2: COPPER_AMINE_OXID_2 (A:619-632,B:619-632)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
COPPER_AMINE_OXID_1
PS01164
Copper amine oxidase topaquinone signature.
AMO_PICAN
394-407
2
A:394-407
B:394-407
-
-
-
-
2
COPPER_AMINE_OXID_2
PS01165
Copper amine oxidase copper-binding site signature.
AMO_PICAN
619-632
2
A:619-632
B:619-632
-
-
-
-
[
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Exons
(0, 0)
Info
All Exons
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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, 18)
Info
All SCOP Domains
1a: SCOP_d2oqea1 (A:237-672)
1b: SCOP_d2oqeb1 (B:237-672)
1c: SCOP_d2oqec1 (C:237-672)
1d: SCOP_d2oqed1 (D:237-672)
1e: SCOP_d2oqee1 (E:237-672)
1f: SCOP_d2oqef1 (F:237-672)
2a: SCOP_d2oqea2 (A:18-115)
2b: SCOP_d2oqea3 (A:116-236)
2c: SCOP_d2oqef2 (F:18-115)
2d: SCOP_d2oqef3 (F:116-236)
2e: SCOP_d2oqeb2 (B:18-115)
2f: SCOP_d2oqeb3 (B:116-236)
2g: SCOP_d2oqec2 (C:18-115)
2h: SCOP_d2oqec3 (C:116-236)
2i: SCOP_d2oqed2 (D:18-115)
2j: SCOP_d2oqed3 (D:116-236)
2k: SCOP_d2oqee2 (E:18-115)
2l: SCOP_d2oqee3 (E:116-236)
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)
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)
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Supersandwich
(271)
Superfamily
:
Amine oxidase catalytic domain
(65)
Family
:
Amine oxidase catalytic domain
(65)
Protein domain
:
Copper amine oxidase, domain 3
(62)
Yeast (Hansenula polymorpha) [TaxId: 4905]
(4)
1a
d2oqea1
A:237-672
1b
d2oqeb1
B:237-672
1c
d2oqec1
C:237-672
1d
d2oqed1
D:237-672
1e
d2oqee1
E:237-672
1f
d2oqef1
F:237-672
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Cystatin-like
(403)
Superfamily
:
Amine oxidase N-terminal region
(65)
Family
:
Amine oxidase N-terminal region
(65)
Protein domain
:
Copper amine oxidase, domains 1 and 2
(62)
Yeast (Hansenula polymorpha) [TaxId: 4905]
(4)
2a
d2oqea2
A:18-115
2b
d2oqea3
A:116-236
2c
d2oqef2
F:18-115
2d
d2oqef3
F:116-236
2e
d2oqeb2
B:18-115
2f
d2oqeb3
B:116-236
2g
d2oqec2
C:18-115
2h
d2oqec3
C:116-236
2i
d2oqed2
D:18-115
2j
d2oqed3
D:116-236
2k
d2oqee2
E:18-115
2l
d2oqee3
E:116-236
[
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CATH Domains
(2, 18)
Info
all CATH domains
1a: CATH_2oqeB01 (B:16-117)
1b: CATH_2oqeE01 (E:16-117)
1c: CATH_2oqeA02 (A:123-231)
1d: CATH_2oqeB02 (B:123-231)
1e: CATH_2oqeC02 (C:123-231)
1f: CATH_2oqeD02 (D:123-231)
1g: CATH_2oqeE02 (E:123-231)
1h: CATH_2oqeF02 (F:123-231)
1i: CATH_2oqeA01 (A:17-117)
1j: CATH_2oqeC01 (C:17-117)
1k: CATH_2oqeD01 (D:17-117)
1l: CATH_2oqeF01 (F:17-117)
2a: CATH_2oqeA03 (A:232-670)
2b: CATH_2oqeB03 (B:232-670)
2c: CATH_2oqeC03 (C:232-670)
2d: CATH_2oqeD03 (D:232-670)
2e: CATH_2oqeE03 (E:232-670)
2f: CATH_2oqeF03 (F:232-670)
View:
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)
Homologous Superfamilies
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)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Roll
(3276)
Topology
:
Nuclear Transport Factor 2; Chain: A,
(517)
Homologous Superfamily
:
[code=3.10.450.40, no name defined]
(77)
Pichia angusta. Organism_taxid: 4905.
(2)
1a
2oqeB01
B:16-117
1b
2oqeE01
E:16-117
1c
2oqeA02
A:123-231
1d
2oqeB02
B:123-231
1e
2oqeC02
C:123-231
1f
2oqeD02
D:123-231
1g
2oqeE02
E:123-231
1h
2oqeF02
F:123-231
1i
2oqeA01
A:17-117
1j
2oqeC01
C:17-117
1k
2oqeD01
D:17-117
1l
2oqeF01
F:17-117
Class
:
Mainly Beta
(13760)
Architecture
:
Distorted Sandwich
(506)
Topology
:
Beta-galactosidase; Chain A, domain 5
(250)
Homologous Superfamily
:
Copper amine oxidase, Domain 3
(74)
Pichia angusta. Organism_taxid: 4905.
(2)
2a
2oqeA03
A:232-670
2b
2oqeB03
B:232-670
2c
2oqeC03
C:232-670
2d
2oqeD03
D:232-670
2e
2oqeE03
E:232-670
2f
2oqeF03
F:232-670
[
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Pfam Domains
(3, 18)
Info
all PFAM domains
1a: PFAM_Cu_amine_oxidN2_2oqeF01 (F:23-109)
1b: PFAM_Cu_amine_oxidN2_2oqeF02 (F:23-109)
1c: PFAM_Cu_amine_oxidN2_2oqeF03 (F:23-109)
1d: PFAM_Cu_amine_oxidN2_2oqeF04 (F:23-109)
1e: PFAM_Cu_amine_oxidN2_2oqeF05 (F:23-109)
1f: PFAM_Cu_amine_oxidN2_2oqeF06 (F:23-109)
2a: PFAM_Cu_amine_oxidN3_2oqeF07 (F:114-216)
2b: PFAM_Cu_amine_oxidN3_2oqeF08 (F:114-216)
2c: PFAM_Cu_amine_oxidN3_2oqeF09 (F:114-216)
2d: PFAM_Cu_amine_oxidN3_2oqeF10 (F:114-216)
2e: PFAM_Cu_amine_oxidN3_2oqeF11 (F:114-216)
2f: PFAM_Cu_amine_oxidN3_2oqeF12 (F:114-216)
3a: PFAM_Cu_amine_oxid_2oqeF13 (F:241-662)
3b: PFAM_Cu_amine_oxid_2oqeF14 (F:241-662)
3c: PFAM_Cu_amine_oxid_2oqeF15 (F:241-662)
3d: PFAM_Cu_amine_oxid_2oqeF16 (F:241-662)
3e: PFAM_Cu_amine_oxid_2oqeF17 (F:241-662)
3f: PFAM_Cu_amine_oxid_2oqeF18 (F:241-662)
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Clans
(
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(
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Families
(
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(
)
Organisms
(
)
(
)
Clan
:
CuAO_N2_N3
(40)
Family
:
Cu_amine_oxidN2
(27)
Pichia angusta (Yeast) (Hansenula polymorpha)
(5)
1a
Cu_amine_oxidN2-2oqeF01
F:23-109
1b
Cu_amine_oxidN2-2oqeF02
F:23-109
1c
Cu_amine_oxidN2-2oqeF03
F:23-109
1d
Cu_amine_oxidN2-2oqeF04
F:23-109
1e
Cu_amine_oxidN2-2oqeF05
F:23-109
1f
Cu_amine_oxidN2-2oqeF06
F:23-109
Family
:
Cu_amine_oxidN3
(37)
Pichia angusta (Yeast) (Hansenula polymorpha)
(5)
2a
Cu_amine_oxidN3-2oqeF07
F:114-216
2b
Cu_amine_oxidN3-2oqeF08
F:114-216
2c
Cu_amine_oxidN3-2oqeF09
F:114-216
2d
Cu_amine_oxidN3-2oqeF10
F:114-216
2e
Cu_amine_oxidN3-2oqeF11
F:114-216
2f
Cu_amine_oxidN3-2oqeF12
F:114-216
Clan
:
no clan defined [family: Cu_amine_oxid]
(40)
Family
:
Cu_amine_oxid
(40)
Pichia angusta (Yeast) (Hansenula polymorpha)
(5)
3a
Cu_amine_oxid-2oqeF13
F:241-662
3b
Cu_amine_oxid-2oqeF14
F:241-662
3c
Cu_amine_oxid-2oqeF15
F:241-662
3d
Cu_amine_oxid-2oqeF16
F:241-662
3e
Cu_amine_oxid-2oqeF17
F:241-662
3f
Cu_amine_oxid-2oqeF18
F:241-662
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