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Asym./Biol. Unit

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Asym./Biol. Unit - sites (Jmol Viewer)

Description

Title :   REDUCED NATIVE PSEUDOAZURIN FROM A. FAECALIS

Authors :   E. T. Adman, C. A. P. Libeu

Date :   20 Feb 97 (Deposition) - 20 Aug 97 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.73

Chains :   Asym./Biol. Unit : A

Keywords :   Electron Transfer, Cuproprotein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. A. Libeu, M. Kukimoto, M. Nishiyama, S. Horinouchi, E. T. Adman
Site-Directed Mutants Of Pseudoazurin: Explanation Of Increased Redox Potentials From X-Ray Structures And From Calculation Of Redox Potential Differences.
Biochemistry V. 36 13160 1997
PubMed-ID: 9341204 | Reference-DOI: 10.1021/BI9704111
(for further references see the PDB file header)

Compounds

Molecule 1 - PSEUDOAZURIN
	Cellular Location	:	PERIPLASM
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	TG1
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	POTENTIAL
	Organism Scientific	:	ALCALIGENES FAECALIS
	Organism Taxid	:	511
	Strain	:	S-6

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	CU	1	Ligand/Ion	COPPER (II) ION

Sites (2, 2)

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:40 , CYS A:78 , HIS A:81 , MET A:86	BINDING SITE FOR RESIDUE CU A 124
2	CU	UNKNOWN	HIS A:40 , CYS A:78 , HIS A:81 , MET A:86	ACTIVE SITE FOR ELECTRON TRANSFER.

SS Bonds (0, 0)

(no "SS Bond" information available for 3PAZ)

Cis Peptide Bonds (1, 1)

Asymmetric/Biological Unit

No.	Residues
1	Glu A:19	-	Pro A:20

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

(no "SAP(SNP)/Variant" information available for 3PAZ)

PROSITE Motifs (1, 1)

Asymmetric/Biological Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	COPPER_BLUE	PS00196	Type-1 copper (blue) proteins signature.	AZUP_ALCFA	95-109	1	A:72-86

Exons (0, 0)

(no "Exon" information available for 3PAZ)

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
	(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:123
 aligned with AZUP_ALCFA | P04377 from UniProtKB/Swiss-Prot  Length:146

    Alignment length:123
                                    33        43        53        63        73        83        93       103       113       123       133       143   
           AZUP_ALCFA    24 ENIEVHMLNKGAEGAMVFEPAYIKANPGDTVTFIPVDKGHNVESIKDMIPEGAEKFKSKINENYVLTVTQPGAYLVKCTPHYAMGMIALIAVGDSPANLDQIVSAKKPKIVQERLEKVIASAK 146
               SCOP domains d3paza_ A: Pseudoazurin                                                                                                     SCOP domains
               CATH domains 3pazA00 A:1-123 Cupredoxins -  blue copper proteins                                                                         CATH domains
               Pfam domains ----Copper-bind-3pazA01 A:5-93                                                               ------------------------------ Pfam domains
         Sec.struct. author .eeeeeee........eee..eeee....eeeeee............................eeee....eeeeee....hhh..eeeeee......hhhhh.....hhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------COPPER_BLUE    ------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 3paz A   1 ENIEVHMLNKGAEGAMVFEPAYIKANPGDTVTFIPVDKGHNVESIKDMIPEGAEKFKSKINENYVLTVTQPGAYLVKCTPHYAMGMIALIAVGDSPANLDQIVSAKKPKIVQERLEKVIASAK 123
                                    10        20        30        40        50        60        70        80        90       100       110       120

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/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: Cupredoxin-like (545)

Superfamily: Cupredoxins (543)

Family: Plastocyanin/azurin-like (241)

Protein domain: Pseudoazurin (20)

Alcaligenes faecalis, strain s-6 [TaxId: 511] (13)

d3paza_

CATH Domains (1, 1)

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Beta (13760)

Architecture: Sandwich (5577)

Topology: Immunoglobulin-like (3897)

Homologous Superfamily: Cupredoxins - blue copper proteins (420)

Alcaligenes faecalis. Organism_taxid: 511. Strain: s-6. (24)

3pazA00

A:1-123

Pfam Domains (1, 1)

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: CU_oxidase (192)

Family: Copper-bind (82)

Alcaligenes faecalis (7)

Copper-bind-3pazA01

A:5-93

Gene Ontology (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (AZUP_ALCFA | P04377)

molecular function
	GO:0005507	copper ion binding	Interacting selectively and non-covalently with copper (Cu) ions.
	GO:0009055	electron carrier activity	Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
	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.
cellular component
	GO:0042597	periplasmic space	The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

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	Cis Peptide Bonds
		Glu A:19 - Pro A:20	[ RasMol ]

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
	AZUP_ALCFA \| P04377	:	1paz 1py0 1pza 1pzb 1pzc 2p80 3nyk 4paz 4rh4 5paz 5x31 6paz 7paz 8paz

Related Entries Specified in the PDB File

4paz 5paz 6paz 7paz 8paz