2CIH - JenaLib

Title :   RECOMBINANT HUMAN H FERRITIN, K86Q AND E27D MUTANT, SOAKED WITH ZN

Authors :   L. Toussaint, R. R. Crichton, J. P. Declercq

Date :   21 Mar 06 (Deposition) - 13 Dec 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.50

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

Keywords :   Apoferritin, Ferroxidase, Di-Iron Non-Heme Protein, Iron Storage, Iron, Metal-Binding, Oxidoreductase, Phosphorylation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   L. Toussaint, L. Bertrand, L. Hue, R. R. Crichton, J. P. Declercq
High-Resolution X-Ray Structures Of Human Apoferritin H-Chain Mutants Correlated With Their Activity And Metal-Binding Sites.
J. Mol. Biol. V. 365 440 2007
PubMed-ID: 17070541 | Reference-DOI: 10.1016/J.JMB.2006.10.010

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 10)

Sites (10, 10)

Asymmetric Unit (10, 10)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASP A:84 , GLN A:86 , HOH A:2318	BINDING SITE FOR RESIDUE ZN A 210
02	AC2	SOFTWARE	ASP A:131 , HOH A:2259 , HOH A:2319 , HOH A:2320	BINDING SITE FOR RESIDUE ZN A 211
03	AC3	SOFTWARE	ASP A:27 , GLU A:62 , HIS A:65 , ZN A:213 , HOH A:2321	BINDING SITE FOR RESIDUE ZN A 212
04	AC4	SOFTWARE	GLU A:62 , GLU A:107 , ZN A:212 , HOH A:2322	BINDING SITE FOR RESIDUE ZN A 213
05	AC5	SOFTWARE	HIS A:173 , HOH A:2323	BINDING SITE FOR RESIDUE ZN A 214
06	AC6	SOFTWARE	HIS A:60 , GLU A:64 , GLU A:67 , HOH A:2324	BINDING SITE FOR RESIDUE ZN A 215
07	AC7	SOFTWARE	HIS A:118 , CYS A:130 , GLU A:134 , ZN A:220 , HOH A:2325	BINDING SITE FOR RESIDUE ZN A 216
08	AC8	SOFTWARE	HIS A:57 , GLU A:61 , HOH A:2155 , HOH A:2326	BINDING SITE FOR RESIDUE ZN A 217
09	AC9	SOFTWARE	CYS A:130 , GLU A:134 , ZN A:216 , HOH A:2259 , HOH A:2327 , HOH A:2328 , HOH A:2329	BINDING SITE FOR RESIDUE ZN A 220
10	BC1	SOFTWARE	LEU A:28 , SER A:31 , TYR A:32 , ARG A:63 , ILE A:85	BINDING SITE FOR RESIDUE GOL A 300

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

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.	FRIH_HUMAN	11-160	1	A:10-159
2	FERRITIN_1	PS00540	Ferritin iron-binding regions signature 1.	FRIH_HUMAN	62-80	1	A:61-79
3	FERRITIN_2	PS00204	Ferritin iron-binding regions signature 2.	FRIH_HUMAN	127-147	1	A:126-146

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.	FRIH_HUMAN	11-160	24	A:10-159
2	FERRITIN_1	PS00540	Ferritin iron-binding regions signature 1.	FRIH_HUMAN	62-80	24	A:61-79
3	FERRITIN_2	PS00204	Ferritin iron-binding regions signature 2.	FRIH_HUMAN	127-147	24	A:126-146

Exons (4, 4)

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
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:172
 aligned with FRIH_HUMAN | P02794 from UniProtKB/Swiss-Prot  Length:183

    Alignment length:172
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175  
           FRIH_HUMAN     6 TSQVRQNYHQDSEAAINRQINLELYASYVYLSMSYYFDRDDVALKNFAKYFLHQSHEEREHAEKLMKLQNQRGGRIFLQDIKKPDCDDWESGLNAMECALHLEKNVNQSLLELHKLATDKNDPHLCDFIETHYLNEQVKAIKELGDHVTNLRKMGAPESGLAEYLFDKHTLG 177
               SCOP domains d2ciha_ A: automated matches                                                                                                                                                 SCOP domains
               CATH domains 2cihA00 A:5-176  [code=1.20.1260.10, no name defined]                                                                                                                        CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -----FERRITIN_LIKE  PDB: A:10-159 UniProt: 11-160                                                                                                          ----------------- PROSITE (1)
                PROSITE (2) --------------------------------------------------------FERRITIN_1         ----------------------------------------------FERRITIN_2           ------------------------------ PROSITE (2)
               Transcript 1 Exon 1.1a  PDB: A:5-37           Exon 1.3b  PDB: A:38-86 UniProt: 39-87           Exon 1.3e  PDB: A:87-128 UniProt: 88-129  Exon 1.3l  PDB: A:129-176 UniProt: 130-183       Transcript 1
                 2cih A   5 TSQVRQNYHQDSEAAINRQINLDLYASYVYLSMSYYFDRDDVALKNFAKYFLHQSHEEREHAEKLMKLQNQRGGRIFLQDIQKPDCDDWESGLNAMECALHLEKNVNQSLLELHKLATDKNDPHLCDFIETHYLNEQVKAIKELGDHVTNLRKMGAPESGLAEYLFDKHTLG 176
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174

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 (0, 0)

Gene Ontology (17, 17)

Asymmetric Unit(hide GO term definitions)

Chain A (FRIH_HUMAN | P02794)

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: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.
	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.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
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:0006955	immune response	Any immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat.
	GO:0006880	intracellular sequestering of iron ion	The process of binding or confining iron ions in an intracellular area such that they are separated from other components of a biological system.
	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:0008285	negative regulation of cell proliferation	Any process that stops, prevents or reduces the rate or extent of cell proliferation.
	GO:0048147	negative regulation of fibroblast proliferation	Any process that stops, prevents, or reduces the frequency, rate or extent of multiplication or reproduction of fibroblast cells.
	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.
cellular component
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
	GO:0070062	extracellular exosome	A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
	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.
	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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