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1T6U
Biol. Unit 1
Info
Asym.Unit (539 KB)
Biol.Unit 1 (268 KB)
Biol.Unit 2 (268 KB)
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(1)
Title
:
NICKEL SUPEROXIDE DISMUTASE (NISOD) NATIVE 1.30 A STRUCTURE
Authors
:
D. P. Barondeau, C. J. Kassmann, C. K. Bruns, J. A. Tainer, E. D. Getzoff
Date
:
07 May 04 (Deposition) - 13 Jul 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.30
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C,D,E,F (1x)
Biol. Unit 2: G,H,I,J,K,L (1x)
Keywords
:
Nickel, 4-Helix Bundle, Hexamer, Superoxide Dismutase, Nisod, Sod, High Resolution, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. P. Barondeau, C. J. Kassmann, C. K. Bruns, J. A. Tainer, E. D. Getzoff
Nickel Superoxide Dismutase Structure And Mechanism.
Biochemistry V. 43 8038 2004
(for further references see the
PDB file header
)
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Hetero Components
(0, 0)
Info
All Hetero Components
1a: NICKEL (II) ION (NIa)
1b: NICKEL (II) ION (NIb)
1c: NICKEL (II) ION (NIc)
1d: NICKEL (II) ION (NId)
1e: NICKEL (II) ION (NIe)
1f: NICKEL (II) ION (NIf)
1g: NICKEL (II) ION (NIg)
1h: NICKEL (II) ION (NIh)
1i: NICKEL (II) ION (NIi)
1j: NICKEL (II) ION (NIj)
1k: NICKEL (II) ION (NIk)
1l: NICKEL (II) ION (NIl)
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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:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:1 , CYS A:2 , CYS A:6
BINDING SITE FOR RESIDUE NI A 201
2
AC2
SOFTWARE
HIS B:1 , CYS B:2 , ASP B:3 , CYS B:6
BINDING SITE FOR RESIDUE NI B 202
3
AC3
SOFTWARE
HIS C:1 , CYS C:2 , CYS C:6
BINDING SITE FOR RESIDUE NI C 203
4
AC4
SOFTWARE
HIS D:1 , CYS D:2 , ASP D:3 , CYS D:6
BINDING SITE FOR RESIDUE NI D 204
5
AC5
SOFTWARE
HIS E:1 , CYS E:2 , CYS E:6
BINDING SITE FOR RESIDUE NI E 205
6
AC6
SOFTWARE
HIS F:1 , CYS F:2 , CYS F:6
BINDING SITE FOR RESIDUE NI F 206
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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
(, 0)
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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
(1, 12)
Info
All SCOP Domains
1a: SCOP_d1t6ua_ (A:)
1b: SCOP_d1t6ub_ (B:)
1c: SCOP_d1t6uk_ (K:)
1d: SCOP_d1t6ul_ (L:)
1e: SCOP_d1t6uc_ (C:)
1f: SCOP_d1t6ud_ (D:)
1g: SCOP_d1t6ue_ (E:)
1h: SCOP_d1t6uf_ (F:)
1i: SCOP_d1t6ug_ (G:)
1j: SCOP_d1t6uh_ (H:)
1k: SCOP_d1t6ui_ (I:)
1l: SCOP_d1t6uj_ (J:)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Four-helical up-and-down bundle
(308)
Superfamily
:
Nickel-containing superoxide dismutase, NiSOD
(11)
Family
:
Nickel-containing superoxide dismutase, NiSOD
(11)
Protein domain
:
Nickel-containing superoxide dismutase, NiSOD
(8)
Streptomyces coelicolor [TaxId: 1902]
(3)
1a
d1t6ua_
A:
1b
d1t6ub_
B:
1c
d1t6uk_
K:
1d
d1t6ul_
L:
1e
d1t6uc_
C:
1f
d1t6ud_
D:
1g
d1t6ue_
E:
1h
d1t6uf_
F:
1i
d1t6ug_
G:
1j
d1t6uh_
H:
1k
d1t6ui_
I:
1l
d1t6uj_
J:
[
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CATH Domains
(1, 12)
Info
all CATH domains
1a: CATH_1t6uD00 (D:1-116)
1b: CATH_1t6uE00 (E:1-116)
1c: CATH_1t6uJ00 (J:1-117)
1d: CATH_1t6uF00 (F:1-115)
1e: CATH_1t6uH00 (H:1-116)
1f: CATH_1t6uK00 (K:1-116)
1g: CATH_1t6uL00 (L:1-116)
1h: CATH_1t6uA00 (A:1-117)
1i: CATH_1t6uB00 (B:1-117)
1j: CATH_1t6uC00 (C:1-117)
1k: CATH_1t6uG00 (G:1-117)
1l: CATH_1t6uI00 (I:1-117)
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(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Four Helix Bundle (Hemerythrin (Met), subunit A)
(300)
Homologous Superfamily
:
Nickel-containing superoxide dismutase, NiSOD
(11)
Streptomyces coelicolor. Organism_taxid: 1902.
(6)
1a
1t6uD00
D:1-116
1b
1t6uE00
E:1-116
1c
1t6uJ00
J:1-117
1d
1t6uF00
F:1-115
1e
1t6uH00
H:1-116
1f
1t6uK00
K:1-116
1g
1t6uL00
L:1-116
1h
1t6uA00
A:1-117
1i
1t6uB00
B:1-117
1j
1t6uC00
C:1-117
1k
1t6uG00
G:1-117
1l
1t6uI00
I:1-117
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Pfam Domains
(1, 12)
Info
all PFAM domains
1a: PFAM_Sod_Ni_1t6uL01 (L:1-115)
1b: PFAM_Sod_Ni_1t6uL02 (L:1-115)
1c: PFAM_Sod_Ni_1t6uL03 (L:1-115)
1d: PFAM_Sod_Ni_1t6uL04 (L:1-115)
1e: PFAM_Sod_Ni_1t6uL05 (L:1-115)
1f: PFAM_Sod_Ni_1t6uL06 (L:1-115)
1g: PFAM_Sod_Ni_1t6uL07 (L:1-115)
1h: PFAM_Sod_Ni_1t6uL08 (L:1-115)
1i: PFAM_Sod_Ni_1t6uL09 (L:1-115)
1j: PFAM_Sod_Ni_1t6uL10 (L:1-115)
1k: PFAM_Sod_Ni_1t6uL11 (L:1-115)
1l: PFAM_Sod_Ni_1t6uL12 (L:1-115)
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Clans
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(
)
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(
)
(
)
Clan
:
no clan defined [family: Sod_Ni]
(8)
Family
:
Sod_Ni
(8)
Streptomyces coelicolor
(3)
1a
Sod_Ni-1t6uL01
L:1-115
1b
Sod_Ni-1t6uL02
L:1-115
1c
Sod_Ni-1t6uL03
L:1-115
1d
Sod_Ni-1t6uL04
L:1-115
1e
Sod_Ni-1t6uL05
L:1-115
1f
Sod_Ni-1t6uL06
L:1-115
1g
Sod_Ni-1t6uL07
L:1-115
1h
Sod_Ni-1t6uL08
L:1-115
1i
Sod_Ni-1t6uL09
L:1-115
1j
Sod_Ni-1t6uL10
L:1-115
1k
Sod_Ni-1t6uL11
L:1-115
1l
Sod_Ni-1t6uL12
L:1-115
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (539 KB)
Header - Asym.Unit
Biol.Unit 1 (268 KB)
Header - Biol.Unit 1
Biol.Unit 2 (268 KB)
Header - Biol.Unit 2
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