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1TJO
Biol. Unit 1
Info
Asym.Unit (135 KB)
Biol.Unit 1 (374 KB)
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(1)
Title
:
IRON-OXO CLUSTERS BIOMINERALIZING ON PROTEIN SURFACES. STRUCTURAL ANALYSIS OF H.SALINARUM DPSA IN ITS LOW AND HIGH IRON STATES
Authors
:
K. Zeth, S. Offermann, L. O. Essen, D. Oesterhelt
Date
:
07 Jun 04 (Deposition) - 19 Oct 04 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (3x)
Keywords
:
Dpsa, Ferritin, Low-Iron, Metal Binding Protein
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
K. Zeth, S. Offermann, L. O. Essen, D. Oesterhelt
Iron-Oxo Clusters Biomineralizing On Protein Surfaces: Structural Analysis Of Halobacterium Salinarum Dpsa In Its Low- And High-Iron States.
Proc. Natl. Acad. Sci. Usa V. 101 13780 2004
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Hetero Components
(1, 6)
Info
All Hetero Components
1a: FE (III) ION (FEa)
1b: FE (III) ION (FEb)
1c: FE (III) ION (FEc)
1d: FE (III) ION (FEd)
1e: FE (III) ION (FEe)
1f: FE (III) ION (FEf)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FE
-1
Ligand/Ion
FE (III) ION
2
MG
-1
Ligand/Ion
MAGNESIUM ION
3
NA
-1
Ligand/Ion
SODIUM ION
4
SO4
6
Ligand/Ion
SULFATE ION
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Sites
(14, 14)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:150 , ARG A:153 , HIS C:150 , ARG C:153 , HIS D:150 , ARG D:153
BINDING SITE FOR RESIDUE SO4 A 1201
02
AC2
SOFTWARE
HIS B:150 , ARG B:153
BINDING SITE FOR RESIDUE SO4 B 1202
03
AC3
SOFTWARE
HIS A:52 , ASP B:79 , GLU B:83 , HOH B:1421 , HOH B:1589
BINDING SITE FOR RESIDUE FE B 1301
04
AC4
SOFTWARE
ASP A:79 , GLU A:83 , HOH A:1477 , HOH A:1547 , HIS B:52
BINDING SITE FOR RESIDUE FE A 1302
05
AC5
SOFTWARE
HIS C:52 , HOH C:1628 , ASP D:79 , GLU D:83 , HOH D:1648
BINDING SITE FOR RESIDUE FE D 1303
06
AC6
SOFTWARE
ASP C:79 , GLU C:83 , HOH C:1540 , HOH C:1645 , HIS D:52
BINDING SITE FOR RESIDUE FE C 1304
07
AC7
SOFTWARE
GLU B:154 , HOH B:1479 , HOH B:1610
BINDING SITE FOR RESIDUE FE B 1305
08
AC8
SOFTWARE
GLU A:154 , HOH A:1546 , HOH A:1569 , GLU C:154 , HOH C:1642 , HOH C:1678 , HOH C:1706 , GLU D:154 , HOH D:1649
BINDING SITE FOR RESIDUE FE A 1306
09
AC9
SOFTWARE
GLN A:86 , GLU B:56 , HIS D:168 , HOH D:1566 , HOH D:1647 , HOH D:1669
BINDING SITE FOR RESIDUE MG D 1401
10
BC1
SOFTWARE
HIS A:168 , GLN C:86 , HOH C:1644 , GLU D:56 , HOH D:1624 , HOH D:1670
BINDING SITE FOR RESIDUE MG A 1402
11
BC2
SOFTWARE
GLU A:56 , GLN B:86 , HIS B:168 , HOH B:1523 , HOH B:1572 , HOH B:1592
BINDING SITE FOR RESIDUE MG B 1403
12
BC3
SOFTWARE
GLU C:56 , HIS C:168 , HOH C:1606 , HOH C:1643 , HOH C:1654 , GLN D:86
BINDING SITE FOR RESIDUE MG C 1404
13
BC4
SOFTWARE
GLU A:59 , GLU B:59 , GLU D:59
BINDING SITE FOR RESIDUE NA D 1501
14
BC5
SOFTWARE
GLU C:59
BINDING SITE FOR RESIDUE NA C 1502
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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PROSITE Patterns/Profiles
(, 0)
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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, 4)
Info
All SCOP Domains
1a: SCOP_d1tjoa_ (A:)
1b: SCOP_d1tjob_ (B:)
1c: SCOP_d1tjoc_ (C:)
1d: SCOP_d1tjod_ (D:)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Ferritin-like
(533)
Superfamily
:
Ferritin-like
(489)
Family
:
Ferritin
(232)
Protein domain
:
Dodecameric ferritin homolog
(44)
Halobacterium salinarum [TaxId: 2242]
(5)
1a
d1tjoa_
A:
1b
d1tjob_
B:
1c
d1tjoc_
C:
1d
d1tjod_
D:
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1tjoB00 (B:7-181)
1b: CATH_1tjoC00 (C:7-181)
1c: CATH_1tjoD00 (D:7-181)
1d: CATH_1tjoA00 (A:2-181)
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Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Ferritin;
(180)
Homologous Superfamily
:
[code=1.20.1260.10, no name defined]
(180)
Halobacterium salinarum. Organism_taxid: 2242. Strain: wildtype strain- tom
(1)
1a
1tjoB00
B:7-181
1b
1tjoC00
C:7-181
1c
1tjoD00
D:7-181
1d
1tjoA00
A:2-181
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_Ferritin_1tjoD01 (D:31-176)
1b: PFAM_Ferritin_1tjoD02 (D:31-176)
1c: PFAM_Ferritin_1tjoD03 (D:31-176)
1d: PFAM_Ferritin_1tjoD04 (D:31-176)
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Clans
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Organisms
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)
Clan
:
Ferritin
(185)
Family
:
Ferritin
(83)
Halobacterium salinarium (strain ATCC 700922 / JCM 11081 / NRC-1) (Halobacterium halobium)
(5)
1a
Ferritin-1tjoD01
D:31-176
1b
Ferritin-1tjoD02
D:31-176
1c
Ferritin-1tjoD03
D:31-176
1d
Ferritin-1tjoD04
D:31-176
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Chain D
Asymmetric Unit 1
Asymmetric Unit 2
Asymmetric Unit 3
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select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
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Asym.Unit (135 KB)
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