2FHA - JenaLib

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Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Title :   HUMAN H CHAIN FERRITIN

Authors :   P. D. Hempstead, P. J. Artymiuk, P. M. Harrison

Date :   03 Mar 97 (Deposition) - 04 Sep 97 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

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

Keywords :   Iron Storage (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. D. Hempstead, S. J. Yewdall, A. R. Fernie, D. M. Lawson, P. J. Artymiuk, D. W. Rice, G. C. Ford, P. M. Harrison
Comparison Of The Three-Dimensional Structures Of Recombinant Human H And Horse L Ferritins At High Resolution.
J. Mol. Biol. V. 268 424 1997
PubMed-ID: 9159481 | Reference-DOI: 10.1006/JMBI.1997.0970
(for further references see the PDB file header)

Molecule 1 - FERRITIN
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Mutation	:	YES
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Other Details	:	SEE D.M.LAWSON,P.J.ARTYMIUK,S.J.YEWDALL, J.M.A.SMITH, J.C.LIVINGSTONE,A.TREFFRY,A.LUZZAGO,S.LEVI, P.AROSIO,G.CESARINI, C.D.THOMAS,W.V.SHAW,P.M.HARRISON, NATURE 1991, 349, P541

		1
Asymmetric Unit	:	A
Biological Unit 1 (24x)	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 2)

No.	Name	Count	Type	Full Name
1	CA	2	Ligand/Ion	CALCIUM ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:84 , GLN A:86	BINDING SITE FOR RESIDUE CA A 210
2	AC2	SOFTWARE	ASP A:131 , GLU A:134	BINDING SITE FOR RESIDUE CA A 211
3	FOX	UNKNOWN	GLU A:27 , TYR A:34 , GLU A:61 , GLU A:62 , HIS A:65 , GLU A:107 , TYR A:137 , GLN A:141	THESE RESIDUES FORM THE CATALYTIC FERROXIDASE CENTER WHICH CATALYZES THE CONVERSION OF FE2+ TO FE3+ AS THE FIRST STAGE OF IRON STORAGE IN THE FERRITINS.

(no "SS Bond" information available for 2FHA)

Asymmetric Unit

No.	Residues
1	Ala A:160	-	Pro A:161

(no "SAP(SNP)/Variant" information available for 2FHA)

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

Asymmetric Unit (4, 4)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1a	ENST00000273550	1a	ENSE00001408170	chr11:61735132-61734784	349	FRIH_HUMAN	1-38	38	1	A:5-37	33
1.3b	ENST00000273550	3b	ENSE00001119153	chr11:61732987-61732841	147	FRIH_HUMAN	39-87	49	1	A:38-86	49
1.3e	ENST00000273550	3e	ENSE00001119152	chr11:61732584-61732459	126	FRIH_HUMAN	88-129	42	1	A:87-128	42
1.3l	ENST00000273550	3l	ENSE00001430448	chr11:61732363-61731757	607	FRIH_HUMAN	130-183	54	1	A:129-176	48

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: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 d2fhaa_ A: (Apo)ferritin                                                                                                                                                     SCOP domains
               CATH domains 2fhaA00 A:5-176  [code=1.20.1260.10, no name defined]                                                                                                                        CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhh...................hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh... 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
                 2fha A   5 TSQVRQNYHQDSEAAINRQINLELYASYVYLSMSYYFDRDDVALKNFAKYFLHQSHEEREHAEKLMKLQNQRGGRIFLQDIQKPDCDDWESGLNAMECALHLEKNVNQSLLELHKLATDKNDPHLCDFIETHYLNEQVKAIKELGDHVTNLRKMGAPESGLAEYLFDKHTLG 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 '\|'

Asymmetric Unit

Classes(

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Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: Ferritin-like (533)

Superfamily: Ferritin-like (489)

Family: Ferritin (232)

Protein domain: (Apo)ferritin (68)

Human (Homo sapiens), H chain [TaxId: 9606] (2)

d2fhaa_

Asymmetric Unit

Classes(

)

Architectures( (-)

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Topologies( (-)

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Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Up-down Bundle (3216)

Topology: Ferritin; (180)

Homologous Superfamily: [code=1.20.1260.10, no name defined] (180)

Human (Homo sapiens) (16)

2fhaA00

A:5-176

(no "Pfam Domain" information available for 2FHA)

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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	2fha
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Description

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