2P7K - JenaLib

Asym./Biol. Unit (Jmol Viewer)

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

Title :   CRYSTAL STRUCTURE OF GENOMICALLY ENCODED FOSFOMYCIN RESISTANCE PROTEIN, FOSX, FROM LISTERIA MONOCYTOGENES (HEXAGONAL FORM)

Authors :   K. L. Fillgrove, S. Pakhomova, M. Schaab, M. E. Newcomer, R. N. Armstron

Date :   20 Mar 07 (Deposition) - 17 Jul 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.30

Chains :   Asym./Biol. Unit : A,B

Keywords :   Fosfomycin Resistance Protein, Mn Binding, Antibiotic Resistance, Metal Binding Protein, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   K. L. Fillgrove, S. Pakhomova, M. R. Schaab, M. E. Newcomer, R. N. Armstrong
Structure And Mechanism Of The Genomically Encoded Fosfomycin Resistance Protein, Fosx, From Listeria Monocytogenes.
Biochemistry V. 46 8110 2007
PubMed-ID: 17567049 | Reference-DOI: 10.1021/BI700625P

Molecule 1 - GLYOXALASE FAMILY PROTEIN
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET20B(+)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	LISTERIA MONOCYTOGENES
	Organism Taxid	:	169963
	Strain	:	EGD-E

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 2)

No.	Name	Count	Type	Full Name
1	CIT	2	Ligand/Ion	CITRIC ACID

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:7 , THR A:9 , GLU A:44 , PHE A:46 , TYR B:67 , HIS B:69 , ARG B:99 , TYR B:108 , GLU B:118 , ARG B:127	BINDING SITE FOR RESIDUE CIT B 134
2	AC2	SOFTWARE	TYR A:67 , HIS A:69 , GLU A:118 , ARG A:127 , HIS B:7 , THR B:9 , GLU B:44 , PHE B:46	BINDING SITE FOR RESIDUE CIT A 134

(no "SS Bond" information available for 2P7K)

(no "Cis Peptide Bond" information available for 2P7K)

(no "SAP(SNP)/Variant" information available for 2P7K)

Asymmetric/Biological Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	VOC	PS51819	Vicinal oxygen chelate (VOC) domain profile.	FOSX_LISMO	4-122	2	A:4-122 B:4-122

(no "Exon" information available for 2P7K)

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:121
 aligned with FOSX_LISMO | Q8Y6I2 from UniProtKB/Swiss-Prot  Length:133

    Alignment length:128
                                    10        20        30        40        50        60        70        80        90       100       110       120        
           FOSX_LISMO     1 MISGLSHITLIVKDLNKTTTFLREIFNAEEIYSSGDQTFSLSKEKFFLIAGLWICIMEGDSLQEQTYNHIAFRIQSEEVDEYIERIKSLGVEIKPERPRVEGEGRSIYFYDFDNHLFELHAGTLEERL 128
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2p7kA00 A:1-128 2,3-Dihydroxybiph       enyl 1,2-Dioxygenase, domain 1                                                           CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeee.hhhhhhhhhhhhh..ee...-------...eeeee....eeeeee..........eeeee...hhhhhhhhhhhh................eeeeee.....eeeeee....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---VOC  PDB: A:4-122 UniProt: 4-122                                                                                       ------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2p7k A   1 MISGLSHITLIVKDLNKTTAFLQNIFNAEEIYS-------LSKEKFFLIAGLWICIMEGDSLQERTYNHIAFQIQSEEVDEYTERIKALGVEMKPERPRVQGEGRSIYFYDFDNHLFELHAGTLEERL 128
                                    10        20        30  |      -|       50        60        70        80        90       100       110       120        
                                                           33      41

Chain B from PDB  Type:PROTEIN  Length:121
 aligned with FOSX_LISMO | Q8Y6I2 from UniProtKB/Swiss-Prot  Length:133

    Alignment length:128
                                    10        20        30        40        50        60        70        80        90       100       110       120        
           FOSX_LISMO     1 MISGLSHITLIVKDLNKTTTFLREIFNAEEIYSSGDQTFSLSKEKFFLIAGLWICIMEGDSLQEQTYNHIAFRIQSEEVDEYIERIKSLGVEIKPERPRVEGEGRSIYFYDFDNHLFELHAGTLEERL 128
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2p7kB00 B:1-128 2,3-Dihydroxybiph       enyl 1,2-Dioxygenase, domain 1                                                           CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeee.hhhhhhhhhhhhh..ee...-------...eeeee....eeeeee..........eeeee...hhhhhhhhhhhh................eeeeee.....eeeeee....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---VOC  PDB: B:4-122 UniProt: 4-122                                                                                       ------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2p7k B   1 MISGLSHITLIVKDLNKTTAFLQNIFNAEEIYS-------LSKEKFFLIAGLWICIMEGDSLQERTYNHIAFQIQSEEVDEYTERIKALGVEMKPERPRVQGEGRSIYFYDFDNHLFELHAGTLEERL 128
                                    10        20        30  |      -|       50        60        70        80        90       100       110       120        
                                                           33      41

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 '\|'

(no "SCOP Domain" information available for 2P7K)

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Roll (3276)

Topology: 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 (113)

Homologous Superfamily: 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 (106)

Listeria monocytogenes egd-e. Organism_taxid: 169963. Strain: egd-e. (6)

1a	2p7kA00	A:1-128
1b	2p7kB00	B:1-128

(no "Pfam Domain" information available for 2P7K)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (FOSX_LISMO | Q8Y6I2)

molecular function
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0046677	response to antibiotic	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antibiotic stimulus. An antibiotic is a chemical substance produced by a microorganism which has the capacity to inhibit the growth of or to kill other microorganisms.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Asymmetric/Biological Unit
	Complete Structure
		Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
		WebMol \| AstexViewer[tm]@PDBe (Java Applets, require no local installation except for Java; loading may be slow)
		STRAP (Java WebStart application, automatic local installation, requires Java; full application with system access!)
		RasMol (require local installation)
		Molscript (VRML) (requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)

	Ligands, Modified Residues, Ions
		CIT	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2p7k)

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym./Biol. Unit PNG format \| Asym./Biol. Unit - sites PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

Access by PDB/NDB ID
	2p7k
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
		Structural Genomics	:	GeneCensus
		Structural Neighbours	:	CE \| VAST
		Structure Classification	:	CATH \| Dali \| SCOP
		Validation and Original Data	:	BMRB Data View \| BMRB Restraints Grid \| EDS \| PROCHECK \| RECOORD \| WHAT_CHECK

Access by UniProt ID/Accession number
	FOSX_LISMO \| Q8Y6I2
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

Access by Enzyme Classificator (EC Number)
	(no 'Enzyme Classificator' available)
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

Access by Disease Identifier (MIM ID)
	(no 'MIM ID' available)
		Disease Information	:	OMIM

Access by GenAge ID
	(no 'GenAge ID' available)
		Age Related Information	:	GenAge

Access by PDB/NDB ID
		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
		Ligand-protein Contacts	:	LPC
		Protein Cavities	:	castP
		Sequence and Secondary Structure	:	PDBCartoon
		Structure Alignment	:	STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
		Structure and Sequence Browser	:	STING

Access by UniProt ID/Accession number
	FOSX_LISMO \| Q8Y6I2
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	FOSX_LISMO \| Q8Y6I2	:	2p7l 2p7m 2p7o 2p7p

2p7l	CRYSTAL STRUCTURE OF GENOMICALLY ENCODED FOSFOMYCIN RESISTANCE PROTEIN, FOSX, FROM LISTERIA MONOCYTOGENES (MONOCLINIC FORM GROWN AT PH 5.75)
2p7m	CRYSTAL STRUCTURE OF GENOMICALLY ENCODED FOSFOMYCIN RESISTANCE PROTEIN, FOSX, FROM LISTERIA MONOCYTOGENES (MONOCLINIC FORM GROWN AT PH 6.5)
2p7o	CRYSTAL STRUCTURE OF GENOMICALLY ENCODED FOSFOMYCIN RESISTANCE PROTEIN, FOSX, FROM LISTERIA MONOCYTOGENES (TETRAGONAL FORM)
2p7p	CRYSTAL STRUCTURE OF GENOMICALLY ENCODED FOSFOMYCIN RESISTANCE PROTEIN, FOSX, FROM LISTERIA MONOCYTOGENES COMPLEXED WITH MN(II) AND SULFATE ION
2p7q	CRYSTAL STRUCTURE OF E126Q MUTANT OF GENOMICALLY ENCODED FOSFOMYCIN RESISTANCE PROTEIN, FOSX, FROM LISTERIA MONOCYTOGENES COMPLEXED WITH MN(II) AND 1S,2S- DIHYDROXYPROPYLPHOSPHONIC ACID

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 2)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 2)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (1, 2)

Pfam Domains (0, 0)

Gene Ontology (3, 3)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File