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Description

Title :   CRYSTAL STRUCTURE OF COG1633: UNCHARACTERIZED CONSERVED PROTEIN (ZP_00055496.1) FROM MAGNETOSPIRILLUM MAGNETOTACTICUM MS-1 AT 2.00 A RESOLUTION

Authors :   Joint Center For Structural Genomics (Jcsg)

Date :   09 Jan 07 (Deposition) - 23 Jan 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

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

Keywords :   Rubrerythrin, Zp_00055496. 1, Cog1633: Uncharacterized Conserved Protein, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Cog1633: Uncharacterized Conserved Protein (Zp_00055496. 1) From Magnetospirillum Magnetotacticum Ms-1 At 2. 00 A Resolution
To Be Published
PubMed: search

Compounds

Molecule 1
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	SPEEDET
	Expression System Strain	:	HK100
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	ZP_00055496.1
	Organism Scientific	:	MAGNETOSPIRILLUM MAGNETOTACTICUM
	Organism Taxid	:	272627
	Strain	:	MS-1
	Synonym	:	RUBRERYTHRIN

Structural Features

Chains, Units

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

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (4, 10)

Asymmetric Unit (4, 10)

No.	Name	Count	Type	Full Name
1	IMD	1	Ligand/Ion	IMIDAZOLE
2	MSE	6	Mod. Amino Acid	SELENOMETHIONINE
3	PGE	2	Ligand/Ion	TRIETHYLENE GLYCOL
4	ZN	1	Ligand/Ion	ZINC ION

Biological Unit 1 (3, 18)

No.	Name	Count	Type	Full Name
1	IMD	2	Ligand/Ion	IMIDAZOLE
2	MSE	12	Mod. Amino Acid	SELENOMETHIONINE
3	PGE	4	Ligand/Ion	TRIETHYLENE GLYCOL
4	ZN	-1	Ligand/Ion	ZINC ION

Sites (4, 4)

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	MSE A:45 , GLU A:104 , GLU A:134 , HIS A:137 , IMD A:301	BINDING SITE FOR RESIDUE ZN A 300
2	AC2	SOFTWARE	GLU A:16 , ALA A:19 , TYR A:23 , MSE A:45 , PHE A:48 , SER A:49 , GLU A:104 , GLU A:134 , HIS A:137 , ZN A:300	BINDING SITE FOR RESIDUE IMD A 301
3	AC3	SOFTWARE	LYS A:112 , ALA A:131	BINDING SITE FOR RESIDUE PGE A 302
4	AC4	SOFTWARE	ILE A:105 , ALA A:135 , VAL A:138 , VAL A:139	BINDING SITE FOR RESIDUE PGE A 303

SS Bonds (0, 0)

(no "SS Bond" information available for 2OH3)

Cis Peptide Bonds (1, 1)

Asymmetric Unit

No.	Residues
1	Val A:81	-	Gly A:82

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

(no "SAP(SNP)/Variant" information available for 2OH3)

PROSITE Motifs (0, 0)

(no "PROSITE Motif" information available for 2OH3)

Exons (0, 0)

(no "Exon" information available for 2OH3)

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:149
 aligned with Q2VZ87_MAGSA | Q2VZ87 from UniProtKB/TrEMBL  Length:166

    Alignment length:152
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152  
         Q2VZ87_MAGSA     3 YTLAEFLAHAIALENEAAERYVELADMMEAHNNLETAVVFRDMARFSTLHGDEIKQRARALELPKLMSWQYRWKTPPEVGDENDIHYLMTPYHALRYARDNEIRGMEYYKDAAANSADAEVKRLGADFAAEEAEHVVALDKWIEKTPRPSIT 154
               SCOP domains d2oh3a1 A:3-154 Uncharacterized protein AMB4284 homologue                                                                                                SCOP domains
               CATH domains 2oh3A01 A:3-149  [code=1.20.1260.10, no name defined]                                                                                              ----- CATH domains
               Pfam domains ----Rubrerythrin-2oh3A01 A:7-145                                                                                                               --------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhh...........---hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2oh3 A   3 YTLAEFLAHAIALETEAAERYVELADmmEAHNNLDTATVFRDmARFSTLHGDEIKQRSRALELPKLmSWQYRWKTPPEVGDE---HYLmTPYHALRYARDNEIRGmEYYKEAAANSADPEVKRLGADFAAEEAEHVVALDKWIEKTPRPSIT 154
                                    12        22      ||32        42  |     52        62      | 72        82 |   |  92       102     | 112       122       132       142       152  
                                                     29-MSE          45-MSE                  69-MSE         84  88  |              108-MSE                                          
                                                      30-MSE                                                       91-MSE

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)

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: Ferritin-like (533)

Superfamily: Ferritin-like (489)

Family: AMB4284-like (1)

Protein domain: Uncharacterized protein AMB4284 homologue (1)

Magnetospirillum magnetotacticum ms-1 [TaxId: 272627] (1)

d2oh3a1

A:3-154

CATH Domains (1, 1)

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

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)

Magnetospirillum magnetotacticum ms-1. Organism_taxid: 272627. Strain:ms-1. (1)

2oh3A01

A:3-149

Pfam Domains (1, 1)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Ferritin (185)

Family: Rubrerythrin (18)

Magnetospirillum magneticum (strain AMB-1 / ATCC 700264) (1)

Rubrerythrin-2oh3A01

A:7-145

Gene Ontology (3, 3)

Asymmetric Unit(hide GO term definitions)

Chain A (Q2VZ87_MAGSA | Q2VZ87)

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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		Val A:81 - Gly A:82	[ RasMol ]

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 10)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

Sequences/Alignments

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File