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1P7G
Biol. Unit 2
Info
Asym.Unit (888 KB)
Biol.Unit 1 (153 KB)
Biol.Unit 2 (153 KB)
Biol.Unit 3 (153 KB)
Biol.Unit 4 (154 KB)
Biol.Unit 5 (154 KB)
Biol.Unit 6 (154 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF SUPEROXIDE DISMUTASE FROM PYROBACULUM AEROPHILUM
Authors
:
S. Lee, M. R. Sawaya, D. Eisenberg
Date
:
01 May 03 (Deposition) - 02 Dec 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Biol. Unit 3: I,J,K,L (1x)
Biol. Unit 4: M,N,O,P (1x)
Biol. Unit 5: Q,R,S,T (1x)
Biol. Unit 6: U,V,W,X (1x)
Keywords
:
Alpha-Beta, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Lee, M. R. Sawaya, D. Eisenberg
Structure Of Superoxide Dismutase From Pyrobaculum Aerophilum Presents A Challenging Case In Molecular Replacement With Multiple Molecules, Pseudo-Symmetry And Twinning.
Acta Crystallogr. , Sect. D V. 59 2191 2003
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(3, 17)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
1d: ACETATE ION (ACTd)
1e: ACETATE ION (ACTe)
1f: ACETATE ION (ACTf)
1g: ACETATE ION (ACTg)
1h: ACETATE ION (ACTh)
1i: ACETATE ION (ACTi)
1j: ACETATE ION (ACTj)
1k: ACETATE ION (ACTk)
1l: ACETATE ION (ACTl)
1m: ACETATE ION (ACTm)
1n: ACETATE ION (ACTn)
1o: ACETATE ION (ACTo)
1p: ACETATE ION (ACTp)
1q: ACETATE ION (ACTq)
1r: ACETATE ION (ACTr)
1s: ACETATE ION (ACTs)
2a: BETA-MERCAPTOETHANOL (BMEa)
2b: BETA-MERCAPTOETHANOL (BMEb)
2c: BETA-MERCAPTOETHANOL (BMEc)
2d: BETA-MERCAPTOETHANOL (BMEd)
2e: BETA-MERCAPTOETHANOL (BMEe)
2f: BETA-MERCAPTOETHANOL (BMEf)
2g: BETA-MERCAPTOETHANOL (BMEg)
2h: BETA-MERCAPTOETHANOL (BMEh)
2i: BETA-MERCAPTOETHANOL (BMEi)
2j: BETA-MERCAPTOETHANOL (BMEj)
2k: BETA-MERCAPTOETHANOL (BMEk)
2l: BETA-MERCAPTOETHANOL (BMEl)
3a: SELENOMETHIONINE (MSEa)
3aa: SELENOMETHIONINE (MSEaa)
3ab: SELENOMETHIONINE (MSEab)
3ac: SELENOMETHIONINE (MSEac)
3ad: SELENOMETHIONINE (MSEad)
3ae: SELENOMETHIONINE (MSEae)
3af: SELENOMETHIONINE (MSEaf)
3ag: SELENOMETHIONINE (MSEag)
3ah: SELENOMETHIONINE (MSEah)
3ai: SELENOMETHIONINE (MSEai)
3aj: SELENOMETHIONINE (MSEaj)
3ak: SELENOMETHIONINE (MSEak)
3al: SELENOMETHIONINE (MSEal)
3am: SELENOMETHIONINE (MSEam)
3an: SELENOMETHIONINE (MSEan)
3ao: SELENOMETHIONINE (MSEao)
3ap: SELENOMETHIONINE (MSEap)
3aq: SELENOMETHIONINE (MSEaq)
3ar: SELENOMETHIONINE (MSEar)
3as: SELENOMETHIONINE (MSEas)
3at: SELENOMETHIONINE (MSEat)
3au: SELENOMETHIONINE (MSEau)
3av: SELENOMETHIONINE (MSEav)
3aw: SELENOMETHIONINE (MSEaw)
3ax: SELENOMETHIONINE (MSEax)
3ay: SELENOMETHIONINE (MSEay)
3az: SELENOMETHIONINE (MSEaz)
3b: SELENOMETHIONINE (MSEb)
3ba: SELENOMETHIONINE (MSEba)
3bb: SELENOMETHIONINE (MSEbb)
3bc: SELENOMETHIONINE (MSEbc)
3bd: SELENOMETHIONINE (MSEbd)
3be: SELENOMETHIONINE (MSEbe)
3bf: SELENOMETHIONINE (MSEbf)
3bg: SELENOMETHIONINE (MSEbg)
3bh: SELENOMETHIONINE (MSEbh)
3bi: SELENOMETHIONINE (MSEbi)
3bj: SELENOMETHIONINE (MSEbj)
3bk: SELENOMETHIONINE (MSEbk)
3bl: SELENOMETHIONINE (MSEbl)
3bm: SELENOMETHIONINE (MSEbm)
3bn: SELENOMETHIONINE (MSEbn)
3bo: SELENOMETHIONINE (MSEbo)
3bp: SELENOMETHIONINE (MSEbp)
3bq: SELENOMETHIONINE (MSEbq)
3br: SELENOMETHIONINE (MSEbr)
3bs: SELENOMETHIONINE (MSEbs)
3bt: SELENOMETHIONINE (MSEbt)
3c: SELENOMETHIONINE (MSEc)
3d: SELENOMETHIONINE (MSEd)
3e: SELENOMETHIONINE (MSEe)
3f: SELENOMETHIONINE (MSEf)
3g: SELENOMETHIONINE (MSEg)
3h: SELENOMETHIONINE (MSEh)
3i: SELENOMETHIONINE (MSEi)
3j: SELENOMETHIONINE (MSEj)
3k: SELENOMETHIONINE (MSEk)
3l: SELENOMETHIONINE (MSEl)
3m: SELENOMETHIONINE (MSEm)
3n: SELENOMETHIONINE (MSEn)
3o: SELENOMETHIONINE (MSEo)
3p: SELENOMETHIONINE (MSEp)
3q: SELENOMETHIONINE (MSEq)
3r: SELENOMETHIONINE (MSEr)
3s: SELENOMETHIONINE (MSEs)
3t: SELENOMETHIONINE (MSEt)
3u: SELENOMETHIONINE (MSEu)
3v: SELENOMETHIONINE (MSEv)
3w: SELENOMETHIONINE (MSEw)
3x: SELENOMETHIONINE (MSEx)
3y: SELENOMETHIONINE (MSEy)
3z: SELENOMETHIONINE (MSEz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
3
Ligand/Ion
ACETATE ION
2
BME
2
Ligand/Ion
BETA-MERCAPTOETHANOL
3
MSE
12
Mod. Amino Acid
SELENOMETHIONINE
[
close Hetero Component info
]
Sites
(5, 5)
Info
All Sites
1: AC3 (SOFTWARE)
2: AC4 (SOFTWARE)
3: AC5 (SOFTWARE)
4: CC4 (SOFTWARE)
5: CC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC3
SOFTWARE
ARG E:209 , LEU E:220 , LYS E:221 , HOH E:1169 , HOH E:2727
BINDING SITE FOR RESIDUE ACT E 305
2
AC4
SOFTWARE
SER F:91 , ARG F:209 , LEU F:220 , LYS F:221 , LEU F:222
BINDING SITE FOR RESIDUE ACT F 306
3
AC5
SOFTWARE
SER H:91 , ARG H:209 , LEU H:220 , LYS H:221
BINDING SITE FOR RESIDUE ACT H 308
4
CC4
SOFTWARE
ALA E:75 , ASP E:79 , ASP F:72 , ARG F:74 , ALA F:75 , ARG F:78
BINDING SITE FOR RESIDUE BME F 406
5
CC5
SOFTWARE
ALA G:75 , ARG G:78 , ASP G:79 , ASP H:72 , ARG H:74 , ALA H:75 , ARG H:78
BINDING SITE FOR RESIDUE BME H 408
[
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
(1, 4)
Info
All PROSITE Patterns/Profiles
1: SOD_MN (E:176-183,F:176-183,G:176-183,H:17...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SOD_MN
PS00088
Manganese and iron superoxide dismutases signature.
SODF_PYRAE
165-172
4
-
-
-
-
E:176-183
F:176-183
G:176-183
H:176-183
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
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
(2, 48)
Info
All SCOP Domains
1a: SCOP_d1p7ga1 (A:12-103)
1b: SCOP_d1p7gb1 (B:12-103)
1c: SCOP_d1p7gk1 (K:12-103)
1d: SCOP_d1p7gl1 (L:12-103)
1e: SCOP_d1p7gm1 (M:12-103)
1f: SCOP_d1p7gn1 (N:12-103)
1g: SCOP_d1p7go1 (O:12-103)
1h: SCOP_d1p7gp1 (P:12-103)
1i: SCOP_d1p7gq1 (Q:12-103)
1j: SCOP_d1p7gr1 (R:12-103)
1k: SCOP_d1p7gs1 (S:12-103)
1l: SCOP_d1p7gt1 (T:12-103)
1m: SCOP_d1p7gc1 (C:12-103)
1n: SCOP_d1p7gu1 (U:12-103)
1o: SCOP_d1p7gv1 (V:12-103)
1p: SCOP_d1p7gw1 (W:12-103)
1q: SCOP_d1p7gx1 (X:12-103)
1r: SCOP_d1p7gd1 (D:12-103)
1s: SCOP_d1p7ge1 (E:12-103)
1t: SCOP_d1p7gf1 (F:12-103)
1u: SCOP_d1p7gg1 (G:12-103)
1v: SCOP_d1p7gh1 (H:12-103)
1w: SCOP_d1p7gi1 (I:12-103)
1x: SCOP_d1p7gj1 (J:12-103)
2a: SCOP_d1p7ga2 (A:104-222)
2b: SCOP_d1p7gb2 (B:104-222)
2c: SCOP_d1p7gk2 (K:104-222)
2d: SCOP_d1p7gl2 (L:104-222)
2e: SCOP_d1p7gm2 (M:104-222)
2f: SCOP_d1p7gn2 (N:104-222)
2g: SCOP_d1p7go2 (O:104-222)
2h: SCOP_d1p7gp2 (P:104-222)
2i: SCOP_d1p7gq2 (Q:104-222)
2j: SCOP_d1p7gr2 (R:104-222)
2k: SCOP_d1p7gs2 (S:104-222)
2l: SCOP_d1p7gt2 (T:104-222)
2m: SCOP_d1p7gc2 (C:104-222)
2n: SCOP_d1p7gu2 (U:104-222)
2o: SCOP_d1p7gv2 (V:104-222)
2p: SCOP_d1p7gw2 (W:104-222)
2q: SCOP_d1p7gx2 (X:104-222)
2r: SCOP_d1p7gd2 (D:104-222)
2s: SCOP_d1p7ge2 (E:104-222)
2t: SCOP_d1p7gf2 (F:104-222)
2u: SCOP_d1p7gg2 (G:104-222)
2v: SCOP_d1p7gh2 (H:104-221)
2w: SCOP_d1p7gi2 (I:104-222)
2x: SCOP_d1p7gj2 (J:104-222)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Long alpha-hairpin
(315)
Superfamily
:
Fe,Mn superoxide dismutase (SOD), N-terminal domain
(122)
Family
:
Fe,Mn superoxide dismutase (SOD), N-terminal domain
(80)
Protein domain
:
Fe superoxide dismutase (FeSOD)
(21)
Pyrobaculum aerophilum [TaxId: 13773]
(2)
1a
d1p7ga1
A:12-103
1b
d1p7gb1
B:12-103
1c
d1p7gk1
K:12-103
1d
d1p7gl1
L:12-103
1e
d1p7gm1
M:12-103
1f
d1p7gn1
N:12-103
1g
d1p7go1
O:12-103
1h
d1p7gp1
P:12-103
1i
d1p7gq1
Q:12-103
1j
d1p7gr1
R:12-103
1k
d1p7gs1
S:12-103
1l
d1p7gt1
T:12-103
1m
d1p7gc1
C:12-103
1n
d1p7gu1
U:12-103
1o
d1p7gv1
V:12-103
1p
d1p7gw1
W:12-103
1q
d1p7gx1
X:12-103
1r
d1p7gd1
D:12-103
1s
d1p7ge1
E:12-103
1t
d1p7gf1
F:12-103
1u
d1p7gg1
G:12-103
1v
d1p7gh1
H:12-103
1w
d1p7gi1
I:12-103
1x
d1p7gj1
J:12-103
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Fe,Mn superoxide dismutase (SOD), C-terminal domain
(122)
Superfamily
:
Fe,Mn superoxide dismutase (SOD), C-terminal domain
(122)
Family
:
Fe,Mn superoxide dismutase (SOD), C-terminal domain
(82)
Protein domain
:
Fe superoxide dismutase (FeSOD)
(21)
Pyrobaculum aerophilum [TaxId: 13773]
(2)
2a
d1p7ga2
A:104-222
2b
d1p7gb2
B:104-222
2c
d1p7gk2
K:104-222
2d
d1p7gl2
L:104-222
2e
d1p7gm2
M:104-222
2f
d1p7gn2
N:104-222
2g
d1p7go2
O:104-222
2h
d1p7gp2
P:104-222
2i
d1p7gq2
Q:104-222
2j
d1p7gr2
R:104-222
2k
d1p7gs2
S:104-222
2l
d1p7gt2
T:104-222
2m
d1p7gc2
C:104-222
2n
d1p7gu2
U:104-222
2o
d1p7gv2
V:104-222
2p
d1p7gw2
W:104-222
2q
d1p7gx2
X:104-222
2r
d1p7gd2
D:104-222
2s
d1p7ge2
E:104-222
2t
d1p7gf2
F:104-222
2u
d1p7gg2
G:104-222
2v
d1p7gh2
H:104-221
2w
d1p7gi2
I:104-222
2x
d1p7gj2
J:104-222
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(2, 48)
Info
all PFAM domains
1a: PFAM_Sod_Fe_C_1p7gX01 (X:105-210)
1b: PFAM_Sod_Fe_C_1p7gX02 (X:105-210)
1c: PFAM_Sod_Fe_C_1p7gX03 (X:105-210)
1d: PFAM_Sod_Fe_C_1p7gX04 (X:105-210)
1e: PFAM_Sod_Fe_C_1p7gX05 (X:105-210)
1f: PFAM_Sod_Fe_C_1p7gX06 (X:105-210)
1g: PFAM_Sod_Fe_C_1p7gX07 (X:105-210)
1h: PFAM_Sod_Fe_C_1p7gX08 (X:105-210)
1i: PFAM_Sod_Fe_C_1p7gX09 (X:105-210)
1j: PFAM_Sod_Fe_C_1p7gX10 (X:105-210)
1k: PFAM_Sod_Fe_C_1p7gX11 (X:105-210)
1l: PFAM_Sod_Fe_C_1p7gX12 (X:105-210)
1m: PFAM_Sod_Fe_C_1p7gX13 (X:105-210)
1n: PFAM_Sod_Fe_C_1p7gX14 (X:105-210)
1o: PFAM_Sod_Fe_C_1p7gX15 (X:105-210)
1p: PFAM_Sod_Fe_C_1p7gX16 (X:105-210)
1q: PFAM_Sod_Fe_C_1p7gX17 (X:105-210)
1r: PFAM_Sod_Fe_C_1p7gX18 (X:105-210)
1s: PFAM_Sod_Fe_C_1p7gX19 (X:105-210)
1t: PFAM_Sod_Fe_C_1p7gX20 (X:105-210)
1u: PFAM_Sod_Fe_C_1p7gX21 (X:105-210)
1v: PFAM_Sod_Fe_C_1p7gX22 (X:105-210)
1w: PFAM_Sod_Fe_C_1p7gX23 (X:105-210)
1x: PFAM_Sod_Fe_C_1p7gX24 (X:105-210)
2a: PFAM_Sod_Fe_N_1p7gX25 (X:17-98)
2b: PFAM_Sod_Fe_N_1p7gX26 (X:17-98)
2c: PFAM_Sod_Fe_N_1p7gX27 (X:17-98)
2d: PFAM_Sod_Fe_N_1p7gX28 (X:17-98)
2e: PFAM_Sod_Fe_N_1p7gX29 (X:17-98)
2f: PFAM_Sod_Fe_N_1p7gX30 (X:17-98)
2g: PFAM_Sod_Fe_N_1p7gX31 (X:17-98)
2h: PFAM_Sod_Fe_N_1p7gX32 (X:17-98)
2i: PFAM_Sod_Fe_N_1p7gX33 (X:17-98)
2j: PFAM_Sod_Fe_N_1p7gX34 (X:17-98)
2k: PFAM_Sod_Fe_N_1p7gX35 (X:17-98)
2l: PFAM_Sod_Fe_N_1p7gX36 (X:17-98)
2m: PFAM_Sod_Fe_N_1p7gX37 (X:17-98)
2n: PFAM_Sod_Fe_N_1p7gX38 (X:17-98)
2o: PFAM_Sod_Fe_N_1p7gX39 (X:17-98)
2p: PFAM_Sod_Fe_N_1p7gX40 (X:17-98)
2q: PFAM_Sod_Fe_N_1p7gX41 (X:17-98)
2r: PFAM_Sod_Fe_N_1p7gX42 (X:17-98)
2s: PFAM_Sod_Fe_N_1p7gX43 (X:17-98)
2t: PFAM_Sod_Fe_N_1p7gX44 (X:17-98)
2u: PFAM_Sod_Fe_N_1p7gX45 (X:17-98)
2v: PFAM_Sod_Fe_N_1p7gX46 (X:17-98)
2w: PFAM_Sod_Fe_N_1p7gX47 (X:17-98)
2x: PFAM_Sod_Fe_N_1p7gX48 (X:17-98)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Sod_Fe_C]
(46)
Family
:
Sod_Fe_C
(46)
Pyrobaculum aerophilum (strain ATCC 51768 / IM2 / DSM 7523 / JCM 9630 / NBRC 100827)
(1)
1a
Sod_Fe_C-1p7gX01
X:105-210
1b
Sod_Fe_C-1p7gX02
X:105-210
1c
Sod_Fe_C-1p7gX03
X:105-210
1d
Sod_Fe_C-1p7gX04
X:105-210
1e
Sod_Fe_C-1p7gX05
X:105-210
1f
Sod_Fe_C-1p7gX06
X:105-210
1g
Sod_Fe_C-1p7gX07
X:105-210
1h
Sod_Fe_C-1p7gX08
X:105-210
1i
Sod_Fe_C-1p7gX09
X:105-210
1j
Sod_Fe_C-1p7gX10
X:105-210
1k
Sod_Fe_C-1p7gX11
X:105-210
1l
Sod_Fe_C-1p7gX12
X:105-210
1m
Sod_Fe_C-1p7gX13
X:105-210
1n
Sod_Fe_C-1p7gX14
X:105-210
1o
Sod_Fe_C-1p7gX15
X:105-210
1p
Sod_Fe_C-1p7gX16
X:105-210
1q
Sod_Fe_C-1p7gX17
X:105-210
1r
Sod_Fe_C-1p7gX18
X:105-210
1s
Sod_Fe_C-1p7gX19
X:105-210
1t
Sod_Fe_C-1p7gX20
X:105-210
1u
Sod_Fe_C-1p7gX21
X:105-210
1v
Sod_Fe_C-1p7gX22
X:105-210
1w
Sod_Fe_C-1p7gX23
X:105-210
1x
Sod_Fe_C-1p7gX24
X:105-210
Clan
:
no clan defined [family: Sod_Fe_N]
(46)
Family
:
Sod_Fe_N
(46)
Pyrobaculum aerophilum (strain ATCC 51768 / IM2 / DSM 7523 / JCM 9630 / NBRC 100827)
(1)
2a
Sod_Fe_N-1p7gX25
X:17-98
2b
Sod_Fe_N-1p7gX26
X:17-98
2c
Sod_Fe_N-1p7gX27
X:17-98
2d
Sod_Fe_N-1p7gX28
X:17-98
2e
Sod_Fe_N-1p7gX29
X:17-98
2f
Sod_Fe_N-1p7gX30
X:17-98
2g
Sod_Fe_N-1p7gX31
X:17-98
2h
Sod_Fe_N-1p7gX32
X:17-98
2i
Sod_Fe_N-1p7gX33
X:17-98
2j
Sod_Fe_N-1p7gX34
X:17-98
2k
Sod_Fe_N-1p7gX35
X:17-98
2l
Sod_Fe_N-1p7gX36
X:17-98
2m
Sod_Fe_N-1p7gX37
X:17-98
2n
Sod_Fe_N-1p7gX38
X:17-98
2o
Sod_Fe_N-1p7gX39
X:17-98
2p
Sod_Fe_N-1p7gX40
X:17-98
2q
Sod_Fe_N-1p7gX41
X:17-98
2r
Sod_Fe_N-1p7gX42
X:17-98
2s
Sod_Fe_N-1p7gX43
X:17-98
2t
Sod_Fe_N-1p7gX44
X:17-98
2u
Sod_Fe_N-1p7gX45
X:17-98
2v
Sod_Fe_N-1p7gX46
X:17-98
2w
Sod_Fe_N-1p7gX47
X:17-98
2x
Sod_Fe_N-1p7gX48
X:17-98
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