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Description

Title :   STRUCTURE AND CHARACTERIZATION OF ECTOTHIORHODOSPIRA VACUOLATA CYTOCHROME B558, A PROKARYOTIC HOMOLOGUE OF CYTOCHROME B5

Authors :   V. Kostanjevecki, D. Leys, G. Van Driessche, T. E. Meyer, M. A. Cusanovich, U. Fischer, Y. Guisez, J. Van Beeumen

Date :   31 Aug 99 (Deposition) - 10 Sep 99 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.65

Chains :   Asym./Biol. Unit : A

Keywords :   Helix, Beta-Strand, Electron Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   V. Kostanjevecki, D. Leys, G. Van Driessche, T. E. Meyer, M. A. Cusanovich, U. Fischer, Y. Guisez, J. Van Beeumen
Structure And Characterization Of Ectothiorhodospira Vacuolata Cytochrome B(558), A Prokaryotic Homologue Of Cytochrome B(5).
J. Biol. Chem. V. 274 35614 1999
PubMed-ID: 10585439 | Reference-DOI: 10.1074/JBC.274.50.35614
(for further references see the PDB file header)

Compounds

Molecule 1 - CYTOCHROME B5
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Organism Scientific	:	ECTOTHIORHODOSPIRA SHAPOSHNIKOVII
	Organism Taxid	:	1054

Structural Features

Chains, Units

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (1, 1)

Asymmetric/Biological Unit (1, 1)

No.	Name	Count	Type	Full Name
1	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE

Sites (1, 1)

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TYR A:38 , HIS A:42 , PRO A:43 , MET A:48 , MET A:49 , TRP A:61 , LYS A:64 , TYR A:66 , HIS A:70 , SER A:71 , ALA A:74 , LEU A:78 , GLN A:79 , HOH A:238 , HOH A:277	BINDING SITE FOR RESIDUE HEM A 204

SS Bonds (1, 1)

Asymmetric/Biological Unit

No.	Residues
1	A:24	-	A:53

Cis Peptide Bonds (0, 0)

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

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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

PROSITE Motifs (1, 1)

Asymmetric/Biological Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CYTOCHROME_B5_2	PS50255	Cytochrome b5 family, heme-binding domain profile.	CYB5_ECTSH	8-88	1	A:7-86

Exons (0, 0)

(no "Exon" information available for 1CXY)

Sequences/Alignments

Asymmetric/Biological 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:81
 aligned with CYB5_ECTSH | P82291 from UniProtKB/Swiss-Prot  Length:91

    Alignment length:81
                                    16        26        36        46        56        66        76        86 
            CYB5_ECTSH    7 TLPVFTLEQVAEHHSPDDCWMAIHGKVYDLTPYVPNHPGPAGMMLVWCGQESTEAWETKSYGEPHSSLAARLLQRYLIGTL 87
               SCOP domains d1cxya_ A: Cytochrome b558                                                        SCOP domains
               CATH domains 1cxyA00 A:6-86 Flavocytochrome B2, subunit A, domain 1                            CATH domains
               Pfam domains --------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhh..ee..eeeeee..eeee...hhhhh......hhhhh...hhhhhhhh......hhhhhhhhhhheeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -CYTOCHROME_B5_2  PDB: A:7-86 UniProt: 8-88                                       PROSITE
                 Transcript --------------------------------------------------------------------------------- Transcript
                  1cxy A  6 TLPVFTLEQVAEHHSPDDCWMAIHGKVYDLTPYVPNHPGPAGMMLVWCGQESTEAWETKSYGEPHSSLAARLLQRYLIGTL 86
                                    15        25        35        45        55        65        75        85

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		→ 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/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a+b) (23004)

Fold: Cytochrome b5-like heme/steroid binding domain (64)

Superfamily: Cytochrome b5-like heme/steroid binding domain (64)

Family: Cytochrome b5 (57)

Protein domain: Cytochrome b558 (1)

Ectothiorhodospira vacuolata [TaxId: 1054] (1)

d1cxya_

CATH Domains (1, 1)

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Roll (3276)

Topology: Flavocytochrome B2; Chain A, domain 1 (56)

Homologous Superfamily: Flavocytochrome B2, subunit A, domain 1 (56)

Ectothiorhodospira shaposhnikovii. Organism_taxid: 1054. (1)

1cxyA00

A:6-86

Pfam Domains (0, 0)

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

Gene Ontology (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (CYB5_ECTSH | P82291)

molecular function
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
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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	Cis Peptide Bonds
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	1cxy
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 1)

Sites (1, 1)

SS Bonds (1, 1)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 1)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (1, 1)

Pfam Domains (0, 0)

Gene Ontology (2, 2)

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Related Entries

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Related Entries Specified in the PDB File