1R03 - JenaLib

Title :   CRYSTAL STRUCTURE OF A HUMAN MITOCHONDRIAL FERRITIN

Authors :   B. Corsi, P. Santambrogio, P. Arosio, S. Levi, B. Langlois D'Estainto T. Granier, B. Gallois, J. M. Chevallier, G. Precigoux

Date :   19 Sep 03 (Deposition) - 29 Jun 04 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.70

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

Keywords :   Iron Storage; Ferritin; X-Ray Crystallography, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   B. Langlois D'Estaintot, P. Santambrogio, T. Granier, B. Gallois, J. M. Chevallier, G. Precigoux, S. Levi, P. Arosio
Crystal Structure And Biochemical Properties Of The Human Mitochondrial Ferritin And Its Mutant Ser144Ala
J. Mol. Biol. V. 340 277 2004
PubMed-ID: 15201052 | Reference-DOI: 10.1016/J.JMB.2004.04.036
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 5)

Sites (5, 5)

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLU A:27 , GLU A:62 , HIS A:65 , HOH A:636 , HOH A:637	BINDING SITE FOR RESIDUE MG A 301
2	AC2	SOFTWARE	HIS A:173 , HOH A:516 , HOH A:638	BINDING SITE FOR RESIDUE MG A 302
3	AC3	SOFTWARE	HOH A:639 , HOH A:640 , HOH A:641 , HOH A:642 , HOH A:643 , HOH A:644	BINDING SITE FOR RESIDUE MG A 305
4	AC4	SOFTWARE	HOH A:645 , HOH A:646 , HOH A:647 , HOH A:648 , HOH A:649 , HOH A:650	BINDING SITE FOR RESIDUE MG A 306
5	AC5	SOFTWARE	ASP A:131 , GLU A:134 , HOH A:651 , HOH A:652 , HOH A:653 , HOH A:654	BINDING SITE FOR RESIDUE MG A 310

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 2)

Asymmetric Unit (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FERRITIN_LIKE	PS50905	Ferritin-like diiron domain profile.	FTMT_HUMAN	70-219	1	A:10-159
2	FERRITIN_2	PS00204	Ferritin iron-binding regions signature 2.	FTMT_HUMAN	186-206	1	A:126-146

Biological Unit 1 (2, 48)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FERRITIN_LIKE	PS50905	Ferritin-like diiron domain profile.	FTMT_HUMAN	70-219	24	A:10-159
2	FERRITIN_2	PS00204	Ferritin iron-binding regions signature 2.	FTMT_HUMAN	186-206	24	A:126-146

Exons (1, 1)

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)
	SAPs(SNPs)	PROSITE motifs	Exons
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Chain A from PDB  Type:PROTEIN  Length:171
 aligned with FTMT_HUMAN | Q8N4E7 from UniProtKB/Swiss-Prot  Length:242

    Alignment length:171
                                    75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235 
           FTMT_HUMAN    66 SRVRQNFHPDSEAAINRQINLELYASYVYLSMAYYFSRDDVALNNFSRYFLHQSREETEHAEKLMRLQNQRGGRIRLQDIKKPEQDDWESGLHAMECALLLEKNVNQSLLELHALASDKGDPHLCDFLETYYLNEQVKSIKELGDHVHNLVKMGAPDAGLAEYLFDTHTLG 236
               SCOP domains d1r03a_ A: (Apo)ferritin                                                                                                                                                    SCOP domains
               CATH domains 1r03A00 A:6-176  [code=1.20.1260.10, no name defined]                                                                                                                       CATH domains
               Pfam domains -----------Ferritin-1r03A01 A:17-158                                                                                                                     ------------------ Pfam domains
         Sec.struct. author .......hhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.................hhhhhhhhhhhhhhhhh.hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----FERRITIN_LIKE  PDB: A:10-159 UniProt: 70-219                                                                                                          ----------------- PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------------------------------------------------------FERRITIN_2           ------------------------------ PROSITE (2)
               Transcript 1 Exon 1.1  PDB: A:6-176 UniProt: 1-245 [INCOMPLETE]                                                                                                                          Transcript 1
                 1r03 A   6 SRVRQNFHPDSEAAINRQINLELYASYVYLSMAYYFSRDDVALNNFSRYFLHQSREETEHAEKLMRLQNQRGGRIRLQDIKKPEQDDWESGLHAMECALLLEKNVNQSLLELHALASDKGDPHLCDFLETYYLNEQVKSIKELGDHVHNLVKMGAPDAGLAEYLFDTHTLG 176
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	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 (1, 1)

Gene Ontology (13, 13)

Asymmetric Unit(hide GO term definitions)

Chain A (FTMT_HUMAN | Q8N4E7)

molecular function
	GO:0008199	ferric iron binding	Interacting selectively and non-covalently with ferric iron, Fe(III).
	GO:0004322	ferroxidase activity	Catalysis of the reaction: 4 Fe2+ + 4 H+ + O2 = 4 Fe3+ + 2 H2O.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0016491	oxidoreductase activity	Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
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.
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
	GO:1904234	positive regulation of aconitate hydratase activity	Any process that activates or increases the frequency, rate or extent of aconitate hydratase activity.
	GO:0008284	positive regulation of cell proliferation	Any process that activates or increases the rate or extent of cell proliferation.
	GO:0051349	positive regulation of lyase activity	Any process that activates or increases the frequency, rate or extent of lyase activity, the catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond.
	GO:1904231	positive regulation of succinate dehydrogenase activity	Any process that activates or increases the frequency, rate or extent of succinate dehydrogenase activity.
cellular component
	GO:0005739	mitochondrion	A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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