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2FKZ
Asym. Unit
Info
Asym.Unit (236 KB)
Biol.Unit 1 (669 KB)
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(1)
Title
:
REDUCED (ALL FERROUS) FORM OF THE AZOTOBACTER VINELANDII BACTERIOFERRITIN
Authors
:
L. Swartz, M. Kunchinskas, H. Li, T. L. Poulos, W. N. Lanzilotta
Date
:
05 Jan 06 (Deposition) - 04 Apr 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D,E,F,G,H (3x)
Keywords
:
Ferritin, Bacterioferritin, Ferroxidase, Diiron Site, Iron Transport, Metal Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. Swartz, M. Kuchinskas, H. Li, T. L. Poulos, W. N. Lanzilotta
Redox-Dependent Structural Changes In The Azotobacter Vinelandii Bacterioferritin: New Insights Into The Ferroxidase And Iron Transport Mechanism(, ).
Biochemistry V. 45 4421 2006
[
close entry info
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Hetero Components
(3, 35)
Info
All Hetero Components
1a: FE (II) ION (FE2a)
1b: FE (II) ION (FE2b)
1c: FE (II) ION (FE2c)
1d: FE (II) ION (FE2d)
1e: FE (II) ION (FE2e)
1f: FE (II) ION (FE2f)
1g: FE (II) ION (FE2g)
1h: FE (II) ION (FE2h)
1i: FE (II) ION (FE2i)
1j: FE (II) ION (FE2j)
1k: FE (II) ION (FE2k)
1l: FE (II) ION (FE2l)
1m: FE (II) ION (FE2m)
1n: FE (II) ION (FE2n)
1o: FE (II) ION (FE2o)
1p: FE (II) ION (FE2p)
1q: FE (II) ION (FE2q)
1r: FE (II) ION (FE2r)
2a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
2b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
2c: PROTOPORPHYRIN IX CONTAINING FE (HEMc)
2d: PROTOPORPHYRIN IX CONTAINING FE (HEMd)
3a: MAGNESIUM ION (MGa)
3b: MAGNESIUM ION (MGb)
3c: MAGNESIUM ION (MGc)
3d: MAGNESIUM ION (MGd)
3e: MAGNESIUM ION (MGe)
3f: MAGNESIUM ION (MGf)
3g: MAGNESIUM ION (MGg)
3h: MAGNESIUM ION (MGh)
3i: MAGNESIUM ION (MGi)
3j: MAGNESIUM ION (MGj)
3k: MAGNESIUM ION (MGk)
3l: MAGNESIUM ION (MGl)
3m: MAGNESIUM ION (MGm)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FE2
18
Ligand/Ion
FE (II) ION
2
HEM
4
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
3
MG
13
Ligand/Ion
MAGNESIUM ION
[
close Hetero Component info
]
Sites
(35, 35)
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)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:18 , GLU A:51 , HIS A:54 , GLU A:127
BINDING SITE FOR RESIDUE FE2 A 1600
02
AC2
SOFTWARE
GLU A:51 , GLU A:94 , GLU A:127 , HOH A:1772
BINDING SITE FOR RESIDUE FE2 A 1601
03
AC3
SOFTWARE
HOH A:1754 , HOH A:1771
BINDING SITE FOR RESIDUE MG A 1701
04
AC4
SOFTWARE
GLU A:118 , GLU E:118 , GLU E:121 , HOH E:3072 , GLU G:118 , HOH G:1812
BINDING SITE FOR RESIDUE MG A 1702
05
AC5
SOFTWARE
GLU B:18 , GLU B:51 , HIS B:54 , GLU B:127
BINDING SITE FOR RESIDUE FE2 B 1600
06
AC6
SOFTWARE
GLU B:51 , GLU B:94 , GLU B:127 , HOH B:3066
BINDING SITE FOR RESIDUE FE2 B 1601
07
AC7
SOFTWARE
ASN B:148 , GLN B:151 , ASN C:148 , GLN C:151 , ASN D:148 , GLN D:151 , ASN E:148 , GLN E:151
BINDING SITE FOR RESIDUE FE2 B 1602
08
AC8
SOFTWARE
GLU C:18 , GLU C:51 , HIS C:54 , GLU C:127
BINDING SITE FOR RESIDUE FE2 C 1600
09
AC9
SOFTWARE
GLU C:51 , GLU C:94 , GLU C:127 , HOH C:1735 , HOH C:1793
BINDING SITE FOR RESIDUE FE2 C 1601
10
BC1
SOFTWARE
GLU B:118 , GLU B:121 , GLU C:118 , GLU C:121 , GLU F:118 , GLU F:121
BINDING SITE FOR RESIDUE MG C 1701
11
BC2
SOFTWARE
GLU D:18 , GLU D:51 , HIS D:54 , GLU D:127
BINDING SITE FOR RESIDUE FE2 D 1600
12
BC3
SOFTWARE
GLU D:51 , GLU D:94 , GLU D:127
BINDING SITE FOR RESIDUE FE2 D 1601
13
BC4
SOFTWARE
GLU D:118 , GLU D:121 , HOH D:3120
BINDING SITE FOR RESIDUE MG D 1701
14
BC5
SOFTWARE
GLU E:18 , GLU E:51 , HIS E:54 , GLU E:127
BINDING SITE FOR RESIDUE FE2 E 1600
15
BC6
SOFTWARE
GLU E:51 , GLU E:94 , GLU E:127 , HIS E:130
BINDING SITE FOR RESIDUE FE2 E 1601
16
BC7
SOFTWARE
GLU G:18 , GLU G:51 , HIS G:54 , GLU G:127
BINDING SITE FOR RESIDUE FE2 G 1600
17
BC8
SOFTWARE
GLU G:51 , GLU G:94 , GLU G:127 , HIS G:130
BINDING SITE FOR RESIDUE FE2 G 1601
18
BC9
SOFTWARE
ASN A:148 , GLN A:151 , ASN F:148 , GLN F:151 , ASN G:148 , GLN G:151 , ASN H:148 , GLN H:151
BINDING SITE FOR RESIDUE FE2 G 1602
19
CC1
SOFTWARE
GLU D:85 , HOH D:3017 , GLU H:85 , HOH H:3044 , HOH H:3047 , HOH H:3087
BINDING SITE FOR RESIDUE MG G 1701
20
CC2
SOFTWARE
GLU C:85 , HOH C:1801 , HOH C:1802 , GLU G:85 , HOH G:1794 , HOH G:1795
BINDING SITE FOR RESIDUE MG G 1702
21
CC3
SOFTWARE
GLU F:18 , GLU F:51 , HIS F:54 , GLU F:127
BINDING SITE FOR RESIDUE FE2 F 1600
22
CC4
SOFTWARE
GLU F:51 , GLU F:94 , GLU F:127 , HIS F:130
BINDING SITE FOR RESIDUE FE2 F 1601
23
CC5
SOFTWARE
GLU H:18 , GLU H:51 , HIS H:54 , GLU H:127
BINDING SITE FOR RESIDUE FE2 H 1600
24
CC6
SOFTWARE
GLU H:51 , GLU H:94 , GLU H:127 , HIS H:130 , HOH H:3115 , HOH H:3116
BINDING SITE FOR RESIDUE FE2 H 1601
25
CC7
SOFTWARE
HOH A:1777 , HOH A:1778 , HOH A:1779 , HOH B:3077 , HOH F:1780 , HOH F:1781
BINDING SITE FOR RESIDUE MG F 1701
26
CC8
SOFTWARE
HOH B:3078 , HOH B:3079 , HOH C:1823 , ASP D:34 , HOH D:3133 , HOH D:3134 , HOH D:3135
BINDING SITE FOR RESIDUE MG B 1702
27
CC9
SOFTWARE
HOH C:1824 , HOH C:1825 , HOH C:1826 , HOH E:3081 , HOH E:3082 , HOH F:1782
BINDING SITE FOR RESIDUE MG C 1703
28
DC1
SOFTWARE
HOH C:1827 , HOH C:1828 , HOH C:1829 , HOH D:3136 , HOH D:3137 , HOH D:3138
BINDING SITE FOR RESIDUE MG D 1704
29
DC2
SOFTWARE
HOH E:3083 , HOH E:3084 , HOH E:3085 , HOH E:3086 , HOH E:3087 , HOH E:3088
BINDING SITE FOR RESIDUE MG E 1705
30
DC3
SOFTWARE
HOH G:1825 , HOH G:1826 , HOH G:1827 , HOH G:1828 , HOH H:3120 , HOH H:3121
BINDING SITE FOR RESIDUE MG H 1706
31
DC4
SOFTWARE
HOH E:3089 , HOH F:1783 , HOH F:1784 , HOH G:1829 , HOH G:1830 , HOH G:1831
BINDING SITE FOR RESIDUE MG G 1707
32
DC5
SOFTWARE
LEU A:19 , ASN A:23 , PHE A:26 , TYR A:45 , ILE A:49 , MET A:52 , LYS A:53 , HOH A:1722 , HOH A:1773 , LEU B:19 , ILE B:22 , ASN B:23 , PHE B:26 , TYR B:45 , ILE B:49 , MET B:52 , LYS B:53
BINDING SITE FOR RESIDUE HEM B 3001
33
DC6
SOFTWARE
ILE C:22 , ASN C:23 , PHE C:26 , TYR C:45 , MET C:52 , LYS C:53 , ALA C:55 , ILE C:59 , LEU D:19 , ASN D:23 , PHE D:26 , TYR D:45 , ILE D:49 , MET D:52 , LYS D:53 , HOH D:3074 , HOH D:3124
BINDING SITE FOR RESIDUE HEM D 3002
34
DC7
SOFTWARE
LEU E:19 , ILE E:22 , ASN E:23 , PHE E:26 , TYR E:45 , MET E:52 , LYS E:53 , ILE E:59 , LEU F:19 , ILE F:22 , ASN F:23 , PHE F:26 , TYR F:45 , MET F:52 , LYS F:53
BINDING SITE FOR RESIDUE HEM E 3003
35
DC8
SOFTWARE
LEU G:19 , ASN G:23 , PHE G:26 , TYR G:45 , ILE G:49 , MET G:52 , ILE H:22 , ASN H:23 , PHE H:26 , TYR H:45 , MET H:52 , LYS H:53 , ALA H:55 , ILE H:59 , HOH H:3073 , HOH H:3076
BINDING SITE FOR RESIDUE HEM H 3004
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 16)
Info
All PROSITE Patterns/Profiles
1: BACTERIOFERRITIN (A:1-19,B:1-19,C:1-19,D:1-19,E:1-19...)
2: FERRITIN_LIKE (A:1-145,B:1-145,C:1-145,D:1-145,E:...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
BACTERIOFERRITIN
PS00549
Bacterioferritin signature.
BFR_AZOVI
1-19
8
A:1-19
B:1-19
C:1-19
D:1-19
E:1-19
F:1-19
G:1-19
H:1-19
2
FERRITIN_LIKE
PS50905
Ferritin-like diiron domain profile.
BFR_AZOVI
1-145
8
A:1-145
B:1-145
C:1-145
D:1-145
E:1-145
F:1-145
G:1-145
H:1-145
[
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]
Exons
(0, 0)
Info
All Exons
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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.
SCOP Domains
(1, 8)
Info
All SCOP Domains
1a: SCOP_d2fkza_ (A:)
1b: SCOP_d2fkzb_ (B:)
1c: SCOP_d2fkzc_ (C:)
1d: SCOP_d2fkzd_ (D:)
1e: SCOP_d2fkze_ (E:)
1f: SCOP_d2fkzf_ (F:)
1g: SCOP_d2fkzg_ (G:)
1h: SCOP_d2fkzh_ (H:)
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(
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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
:
automated matches
(70)
Azotobacter vinelandii [TaxId: 354]
(3)
1a
d2fkza_
A:
1b
d2fkzb_
B:
1c
d2fkzc_
C:
1d
d2fkzd_
D:
1e
d2fkze_
E:
1f
d2fkzf_
F:
1g
d2fkzg_
G:
1h
d2fkzh_
H:
[
close SCOP info
]
CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_2fkzA00 (A:1-155)
1b: CATH_2fkzB00 (B:1-155)
1c: CATH_2fkzC00 (C:1-155)
1d: CATH_2fkzD00 (D:1-155)
1e: CATH_2fkzE00 (E:1-155)
1f: CATH_2fkzF00 (F:1-155)
1g: CATH_2fkzG00 (G:1-155)
1h: CATH_2fkzH00 (H:1-155)
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Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Ferritin;
(180)
Homologous Superfamily
:
[code=1.20.1260.10, no name defined]
(180)
Azotobacter vinelandii. Organism_taxid: 354. Strain: uw3
(2)
1a
2fkzA00
A:1-155
1b
2fkzB00
B:1-155
1c
2fkzC00
C:1-155
1d
2fkzD00
D:1-155
1e
2fkzE00
E:1-155
1f
2fkzF00
F:1-155
1g
2fkzG00
G:1-155
1h
2fkzH00
H:1-155
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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