2Z5R - JenaLib

Title :   APO-FR WITH HIGH CONTENT OF PD IONS

Authors :   T. Ueno, K. Hirata, M. Abe, M. Suzuki, S. Abe, N. Shimizu, M. Yamamoto, M. Takata, Y. Watanabe

Date :   16 Jul 07 (Deposition) - 29 Jul 08 (Release) - 21 Apr 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

Chains :   Asym. Unit : A
Biol. Unit 1: A  (24x)

Keywords :   Iron Storage, Light Chain Apoferritin, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

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
PubMed-ID: 19317403 | Reference-DOI: 10.1021/JA806688S
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 12)

Sites (9, 9)

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:2 , GLN A:3 , ILE A:4 , ASP A:40	BINDING SITE FOR RESIDUE PD A 201
2	AC2	SOFTWARE	GLU A:45 , HIS A:49 , HOH A:1040	BINDING SITE FOR RESIDUE PD A 202
3	AC3	SOFTWARE	CYS A:48	BINDING SITE FOR RESIDUE PD A 204
4	AC4	SOFTWARE	HIS A:114 , CYS A:126	BINDING SITE FOR RESIDUE PD A 205
5	AC5	SOFTWARE	GLU A:45 , CYS A:48 , HIS A:49	BINDING SITE FOR RESIDUE PD A 206
6	AC6	SOFTWARE	GLU A:45 , HIS A:49	BINDING SITE FOR RESIDUE PD A 207
7	AC8	SOFTWARE	ARG A:64 , GLU A:136	BINDING SITE FOR RESIDUE PD A 210
8	AC9	SOFTWARE	ASP A:80	BINDING SITE FOR RESIDUE CD A 211
9	BC1	SOFTWARE	GLU A:57 , GLU A:60	BINDING SITE FOR RESIDUE CD A 212

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (3, 3)

Asymmetric Unit (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FERRITIN_LIKE	PS50905	Ferritin-like diiron domain profile.	FRIL_HORSE	7-156	1	A:6-155
2	FERRITIN_1	PS00540	Ferritin iron-binding regions signature 1.	FRIL_HORSE	58-76	1	A:57-75
3	FERRITIN_2	PS00204	Ferritin iron-binding regions signature 2.	FRIL_HORSE	123-143	1	A:122-142

Biological Unit 1 (3, 72)

	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

Exons (0, 0)

Sequences/Alignments

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
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Chain A from PDB  Type:PROTEIN  Length:172
 aligned with FRIL_HORSE | P02791 from UniProtKB/Swiss-Prot  Length:175

    Alignment length:172
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172  
           FRIL_HORSE     3 SQIRQNYSTEVEAAVNRLVNLYLRASYTYLSLGFYFDRDDVALEGVCHFFRELAEEKREGAERLLKMQNQRGGRALFQDLQKPSQDEWGTTLDAMKAAIVLEKSLNQALLDLHALGSAQADPHLCDFLESHFLDEEVKLIKKMGDHLTNIQRLVGSQAGLGEYLFERLTLKH 174
               SCOP domains d2z5ra_ A: (Apo)ferritin                                                                                                                                                     SCOP domains
               CATH domains 2z5rA00 A:2-173  [code=1.20.1260.10, no name defined]                                                                                                                        CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----FERRITIN_LIKE  PDB: A:6-155 UniProt: 7-156                                                                                                            ------------------ PROSITE (1)
                PROSITE (2) -------------------------------------------------------FERRITIN_1         ----------------------------------------------FERRITIN_2           ------------------------------- PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2z5r A   2 SQIRQNYSTEVEAAVNRLVNLYLRASYTYLSLGFYFDRDDVALEGVCHFFRELAEEKREGAERLLKMQNQRGGRALFQDLQKPSQDEWGTTLDAMKAAIVLEKSLNQALLDLHALGSAQADPHLCDFLESHFLDEEVKLIKKMGDHLTNIQRLVGSQAGLGEYLFERLTLKH 173
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171

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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (1, 1)

Pfam Domains (0, 0)

Gene Ontology (6, 6)

Asymmetric Unit(hide GO term definitions)

Chain A (FRIL_HORSE | P02791)

molecular function
	GO:0008199	ferric iron binding	Interacting selectively and non-covalently with ferric iron, Fe(III).
	GO:0005506	iron ion binding	Interacting selectively and non-covalently with iron (Fe) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0006879	cellular iron ion homeostasis	Any process involved in the maintenance of an internal steady state of iron ions at the level of a cell.
	GO:0006826	iron ion transport	The directed movement of iron (Fe) ions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
cellular component
	GO:0008043	intracellular ferritin complex	A ferritin complex located in the cell. Intracellular ferritin complexes contain 24 subunits, in a mixture of L (light) chains and H (heavy) chains.

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		Gly A:156 - Ser A:157	[ RasMol ]
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