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1YAI
Asym. Unit
Info
Asym.Unit (80 KB)
Biol.Unit 1 (51 KB)
Biol.Unit 2 (51 KB)
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(1)
Title
:
X-RAY STRUCTURE OF A BACTERIAL COPPER,ZINC SUPEROXIDE DISMUTASE
Authors
:
Y. Bourne, S. M. Redford, T. P. Lo, J. A. Tainer, E. D. Getzoff
Date
:
03 Feb 96 (Deposition) - 20 Aug 97 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A (2x)
Biol. Unit 2: B,C (1x)
Keywords
:
Oxidoreductase, Beta-Barrel, Metalloenzyme, Macromolecular Assembly
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. Bourne, S. M. Redford, H. M. Steinman, J. R. Lepock, J. A. Tainer, E. D. Getzoff
Novel Dimeric Interface And Electrostatic Recognition In Bacterial Cu, Zn Superoxide Dismutase.
Proc. Natl. Acad. Sci. Usa V. 93 12774 1996
(for further references see the
PDB file header
)
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Hetero Components
(2, 6)
Info
All Hetero Components
1a: COPPER (II) ION (CUa)
1b: COPPER (II) ION (CUb)
1c: COPPER (II) ION (CUc)
2a: ZINC ION (ZNa)
2b: ZINC ION (ZNb)
2c: ZINC ION (ZNc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CU
3
Ligand/Ion
COPPER (II) ION
2
ZN
3
Ligand/Ion
ZINC ION
[
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]
Sites
(12, 12)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: CU1 (UNKNOWN)
08: CU2 (UNKNOWN)
09: CU3 (UNKNOWN)
10: ZN1 (UNKNOWN)
11: ZN2 (UNKNOWN)
12: ZN3 (UNKNOWN)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:45 , HIS A:47 , HIS A:70 , HIS A:125 , HOH A:154
BINDING SITE FOR RESIDUE CU A 152
02
AC2
SOFTWARE
HIS A:70 , HIS A:79 , HIS A:88 , ASP A:91
BINDING SITE FOR RESIDUE ZN A 153
03
AC3
SOFTWARE
HIS B:45 , HIS B:47 , HIS B:70 , HIS B:125
BINDING SITE FOR RESIDUE CU B 152
04
AC4
SOFTWARE
HIS B:70 , HIS B:79 , HIS B:88 , ASP B:91
BINDING SITE FOR RESIDUE ZN B 153
05
AC5
SOFTWARE
HIS C:45 , HIS C:47 , HIS C:70 , HIS C:125 , HOH C:154
BINDING SITE FOR RESIDUE CU C 152
06
AC6
SOFTWARE
HIS C:70 , HIS C:79 , HIS C:88 , ASP C:91
BINDING SITE FOR RESIDUE ZN C 153
07
CU1
UNKNOWN
HIS A:45 , HIS A:47 , HIS A:70 , HIS A:125
COPPER BINDING SITE.
08
CU2
UNKNOWN
HIS B:45 , HIS B:47 , HIS B:70 , HIS B:125
COPPER BINDING SITE.
09
CU3
UNKNOWN
HIS C:45 , HIS C:47 , HIS C:70 , HIS C:125
COPPER BINDING SITE.
10
ZN1
UNKNOWN
HIS A:70 , HIS A:79 , HIS A:88 , ASP A:91
ZINC BINDING SITE.
11
ZN2
UNKNOWN
HIS B:70 , HIS B:79 , HIS B:88 , ASP B:91
ZINC BINDING SITE.
12
ZN3
UNKNOWN
HIS C:70 , HIS C:79 , HIS C:88 , ASP C:91
ZINC BINDING SITE.
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 6)
Info
All PROSITE Patterns/Profiles
1: SOD_CU_ZN_1 (A:43-53,B:43-53,C:43-53)
2: SOD_CU_ZN_2 (A:139-150,B:139-150,C:139-150)
;
View:
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SOD_CU_ZN_1
PS00087
Copper/Zinc superoxide dismutase signature 1.
SODC_PHOLE
65-75
3
A:43-53
B:43-53
C:43-53
2
SOD_CU_ZN_2
PS00332
Copper/Zinc superoxide dismutase signature 2.
SODC_PHOLE
161-172
3
A:139-150
B:139-150
C:139-150
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Exons
(0, 0)
Info
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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
(1, 3)
Info
All SCOP Domains
1a: SCOP_d1yaia_ (A:)
1b: SCOP_d1yaib_ (B:)
1c: SCOP_d1yaic_ (C:)
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Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Cu,Zn superoxide dismutase-like
(165)
Family
:
Cu,Zn superoxide dismutase-like
(158)
Protein domain
:
Cu,Zn superoxide dismutase, SOD
(134)
Photobacterium leiognathi [TaxId: 553611]
(9)
1a
d1yaia_
A:
1b
d1yaib_
B:
1c
d1yaic_
C:
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CATH Domains
(1, 3)
Info
all CATH domains
1a: CATH_1yaiA00 (A:1-151)
1b: CATH_1yaiB00 (B:1-151)
1c: CATH_1yaiC00 (C:2-151)
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Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
[code=2.60.40.200, no name defined]
(125)
Photobacterium leiognathi. Organism_taxid: 658. Strain: mc1061.
(1)
1a
1yaiA00
A:1-151
1b
1yaiB00
B:1-151
1c
1yaiC00
C:2-151
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Pfam Domains
(1, 3)
Info
all PFAM domains
1a: PFAM_Sod_Cu_1yaiC01 (C:2-150)
1b: PFAM_Sod_Cu_1yaiC02 (C:2-150)
1c: PFAM_Sod_Cu_1yaiC03 (C:2-150)
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Clan
:
no clan defined [family: Sod_Cu]
(71)
Family
:
Sod_Cu
(71)
Photobacterium leiognathi
(3)
1a
Sod_Cu-1yaiC01
C:2-150
1b
Sod_Cu-1yaiC02
C:2-150
1c
Sod_Cu-1yaiC03
C:2-150
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