1J30 - JenaLib

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Title :   THE CRYSTAL STRUCTURE OF SULERYTHRIN, A RUBRERYTHRIN-LIKE PROTEIN FROM A STRICTLY AEROBIC AND THERMOACIDIPHILIC ARCHAEON

Authors :   S. Fushinobu, H. Shoun, T. Wakagi

Date :   16 Jan 03 (Deposition) - 14 Oct 03 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.70

Chains :   Asym. Unit : A,B
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: A,B  (3x)

Keywords :   Rubrerythrin, Sulerythrin, Sulfolobus Tokodaii Strain 7, Four-Helix Bundle, Domain Swapping, Metal Binding Site Plasticity, Structural Genomics, Electron Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. Fushinobu, H. Shoun, T. Wakagi
The Crystal Structure Of Sulerythrin, A Rubrerythrin-Like Protein From A Strictly Aerobic Archaeon, Sulfolobus Tokodaii Strain 7, Shows Unexpected Domain Swapping
Biochemistry V. 42 11707 2003
PubMed-ID: 14529281 | Reference-DOI: 10.1021/BI034220B
(for further references see the PDB file header)

Molecule 1 - 144AA LONG HYPOTHETICAL RUBRERYTHRIN
	Chains	:	A, B
	Organism Scientific	:	SULFOLOBUS TOKODAII
	Organism Taxid	:	273063
	Strain	:	7
	Synonym	:	SULERYTHRIN, 144AA LONG RUBRERYTHRIN-LIKE PROTEIN

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (3x)	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 6)

No.	Name	Count	Type	Full Name
1	FE	2	Ligand/Ion	FE (III) ION
2	OXY	2	Ligand/Ion	OXYGEN MOLECULE
3	ZN	2	Ligand/Ion	ZINC ION

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	FE	-1	Ligand/Ion	FE (III) ION
2	OXY	2	Ligand/Ion	OXYGEN MOLECULE
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (1, 6)

No.	Name	Count	Type	Full Name
1	FE	-1	Ligand/Ion	FE (III) ION
2	OXY	6	Ligand/Ion	OXYGEN MOLECULE
3	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLU A:20 , GLU A:53 , HIS A:56 , GLU B:126 , OXY B:403	BINDING SITE FOR RESIDUE FE A 401
2	AC2	SOFTWARE	GLU A:53 , GLU B:92 , GLU B:126 , HIS B:129 , OXY B:403	BINDING SITE FOR RESIDUE ZN B 402
3	AC3	SOFTWARE	GLU A:126 , OXY A:406 , GLU B:20 , GLU B:53 , HIS B:56	BINDING SITE FOR RESIDUE FE B 404
4	AC4	SOFTWARE	GLU A:92 , GLU A:126 , HIS A:129 , OXY A:406 , GLU B:53	BINDING SITE FOR RESIDUE ZN A 405
5	AC5	SOFTWARE	GLU A:20 , GLU A:53 , FE A:401 , GLU B:92 , GLU B:95 , GLU B:126 , ZN B:402	BINDING SITE FOR RESIDUE OXY B 403
6	AC6	SOFTWARE	GLU A:92 , GLU A:95 , GLU A:126 , ZN A:405 , GLU B:20 , GLU B:53 , FE B:404	BINDING SITE FOR RESIDUE OXY A 406

(no "SS Bond" information available for 1J30)

(no "Cis Peptide Bond" information available for 1J30)

(no "SAP(SNP)/Variant" information available for 1J30)

(no "PROSITE Motif" information available for 1J30)

(no "Exon" information available for 1J30)

Asymmetric Unit

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	UniProt sequence: complete aligned part

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Chain A from PDB  Type:PROTEIN  Length:141
 aligned with F9VPE5_SULTO | F9VPE5 from UniProtKB/TrEMBL  Length:144

    Alignment length:141
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142 
         F9VPE5_SULTO     3 DLKGTKTAENLKQGFIGESMANRRYLYFAKRADEEGYPEIAGLLRSIAEGETAHAFGHLDFIRQGGLTDPATDKPIGTLEQMIESAIAGETYEWTQMYPGFAKVAREEGFPEVAEWFETLARAEKSHAEKFQNVLKQLKGG 143
               SCOP domains d1j30a_ A: Hypothetical rubrerythrin                                                                                                          SCOP domains
               CATH domains 1j30A00 A:3-143  [code=1.20.1260.10, no name defined]                                                                                         CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1j30 A   3 DLKGTKTAENLKQGFIGESMANRRYLYFAKRADEEGYPEIAGLLRSIAEGETAHAFGHLDFIRQGGLTDPATDKPIGTLEQMIESAIAGETYEWTQMYPGFAKVAREEGFPEVAEWFETLARAEKSHAEKFQNVLKQLKGG 143
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142

Chain B from PDB  Type:PROTEIN  Length:137
 aligned with F9VPE5_SULTO | F9VPE5 from UniProtKB/TrEMBL  Length:144

    Alignment length:137
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       
         F9VPE5_SULTO     3 DLKGTKTAENLKQGFIGESMANRRYLYFAKRADEEGYPEIAGLLRSIAEGETAHAFGHLDFIRQGGLTDPATDKPIGTLEQMIESAIAGETYEWTQMYPGFAKVAREEGFPEVAEWFETLARAEKSHAEKFQNVLKQ 139
               SCOP domains d1j30b_ B: Hypothetical rubrerythrin                                                                                                      SCOP domains
               CATH domains 1j30B00 B:3-139  [code=1.20.1260.10, no name defined]                                                                                     CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1j30 B   3 DLKGTKTAENLKQGFIGESMANRRYLYFAKRADEEGYPEIAGLLRSIAEGETAHAFGHLDFIRQGGLTDPATDKPIGTLEQMIESAIAGETYEWTQMYPGFAKVAREEGFPEVAEWFETLARAEKSHAEKFQNVLKQ 139
                                    12        22        32        42        52        62        72        82        92       102       112       122       132

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	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(

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Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: Ferritin-like (533)

Superfamily: Ferritin-like (489)

Family: Ferritin (232)

Protein domain: Hypothetical rubrerythrin (1)

Sulfolobus tokodaii [TaxId: 111955] (1)

1a	d1j30a_	A:
1b	d1j30b_	B:

Asymmetric Unit

Classes(

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Architectures( (-)

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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)

7 (Sulfolobus tokodaii str) (1)

1a	1j30A00	A:3-143
1b	1j30B00	B:3-139

(no "Pfam Domain" information available for 1J30)

Asymmetric Unit(hide GO term definitions)

Chain A,B (F9VPE5_SULTO | F9VPE5)

molecular function
	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: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.

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