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2Z5Q
Biol. Unit 1
Info
Asym.Unit (42 KB)
Biol.Unit 1 (769 KB)
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(1)
Title
:
APO-FR WITH INTERMEDIATE CONTENT OF PD ION
Authors
:
T. Ueno, K. Hirata, M. Abe, M. Suzuki, S. Abe, N. Shimizu, M. Yamamoto, M. Y. Watanabe
Date
:
16 Jul 07 (Deposition) - 29 Jul 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A
Biol. Unit 1: A (24x)
Keywords
:
Iron Storage, Light Chain Apoferritin, Metal Binding Protein
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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)
Reference
:
T. Ueno, M. Abe, K. Hirata, S. Abe, M. Suzuki, N. Shimizu, M. Yamamoto, M. Takata, Y. Watanabe
Process Of Accumulation Of Metal Ions On The Interior Surface Of Apo-Ferritin: Crystal Structures Of A Series Of Apo-Ferritins Containing Variable Quantities Of Pd(Ii) Ions
J. Am. Chem. Soc. V. 131 5094 2009
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Hetero Components
(1, 48)
Info
All Hetero Components
1a: CADMIUM ION (CDa)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
3a: PALLADIUM ION (PDa)
3b: PALLADIUM ION (PDb)
3c: PALLADIUM ION (PDc)
3d: PALLADIUM ION (PDd)
3e: PALLADIUM ION (PDe)
3f: PALLADIUM ION (PDf)
3g: PALLADIUM ION (PDg)
3h: PALLADIUM ION (PDh)
3i: PALLADIUM ION (PDi)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CD
-1
Ligand/Ion
CADMIUM ION
2
GOL
48
Ligand/Ion
GLYCEROL
3
PD
-1
Ligand/Ion
PALLADIUM ION
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Sites
(11, 11)
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)
View:
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:45 , HIS A:49 , HIS A:173
BINDING SITE FOR RESIDUE PD A 201
02
AC2
SOFTWARE
ASP A:38 , GLU A:45 , CYS A:48 , ARG A:52
BINDING SITE FOR RESIDUE PD A 202
03
AC3
SOFTWARE
GLU A:45 , HIS A:49 , ARG A:52
BINDING SITE FOR RESIDUE PD A 203
04
AC4
SOFTWARE
HIS A:114 , CYS A:126
BINDING SITE FOR RESIDUE PD A 204
05
AC5
SOFTWARE
SER A:2 , GLN A:3 , ASP A:40 , ARG A:75
BINDING SITE FOR RESIDUE PD A 206
06
AC6
SOFTWARE
SER A:118 , CYS A:126
BINDING SITE FOR RESIDUE PD A 207
07
AC7
SOFTWARE
CYS A:126
BINDING SITE FOR RESIDUE PD A 208
08
AC8
SOFTWARE
GLU A:45 , CYS A:48 , HIS A:49 , ARG A:52
BINDING SITE FOR RESIDUE PD A 209
09
AC9
SOFTWARE
ASP A:80 , HOH A:1113
BINDING SITE FOR RESIDUE CD A 210
10
BC1
SOFTWARE
THR A:10 , GLU A:11 , ALA A:14 , HOH A:1038
BINDING SITE FOR RESIDUE GOL A 301
11
BC2
SOFTWARE
GLN A:79 , ASP A:80 , GLN A:82 , HOH A:1024 , HOH A:1116
BINDING SITE FOR RESIDUE GOL A 302
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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
(3, 72)
Info
All PROSITE Patterns/Profiles
1: FERRITIN_LIKE (A:6-155)
2: FERRITIN_1 (A:57-75)
3: FERRITIN_2 (A:122-142)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
FERRITIN_LIKE
PS50905
Ferritin-like diiron domain profile.
FRIL_HORSE
7-156
24
A:6-155
2
FERRITIN_1
PS00540
Ferritin iron-binding regions signature 1.
FRIL_HORSE
58-76
24
A:57-75
3
FERRITIN_2
PS00204
Ferritin iron-binding regions signature 2.
FRIL_HORSE
123-143
24
A:122-142
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Exons
(0, 0)
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All Exons
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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, 1)
Info
All SCOP Domains
1a: SCOP_d2z5qa_ (A:)
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Protein Domains
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Organisms
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Class
:
All alpha proteins
(14657)
Fold
:
Ferritin-like
(533)
Superfamily
:
Ferritin-like
(489)
Family
:
Ferritin
(232)
Protein domain
:
(Apo)ferritin
(68)
Horse (Equus caballus), L chain [TaxId: 9796]
(46)
1a
d2z5qa_
A:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_2z5qA00 (A:2-174)
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Organisms
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(
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Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Ferritin;
(180)
Homologous Superfamily
:
[code=1.20.1260.10, no name defined]
(180)
Horse (Equus caballus)
(31)
1a
2z5qA00
A:2-174
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Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_Ferritin_2z5qA01 (A:13-154)
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Clans
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Clan
:
Ferritin
(185)
Family
:
Ferritin
(83)
Equus caballus (Horse)
(23)
1a
Ferritin-2z5qA01
A:13-154
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Chain A
Asymmetric Unit 1
Asymmetric Unit 2
Asymmetric Unit 3
Asymmetric Unit 4
Asymmetric Unit 5
Asymmetric Unit 6
Asymmetric Unit 7
Asymmetric Unit 8
Asymmetric Unit 9
Asymmetric Unit 10
Asymmetric Unit 11
Asymmetric Unit 12
Asymmetric Unit 13
Asymmetric Unit 14
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Asymmetric Unit 21
Asymmetric Unit 22
Asymmetric Unit 23
Asymmetric Unit 24
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Asym.Unit (42 KB)
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