1PFO - JenaLib

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Title :   PERFRINGOLYSIN O

Authors :   J. Rossjohn, M. W. Parker

Date :   31 Jul 97 (Deposition) - 05 Aug 98 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

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

Keywords :   Toxin, Thiol-Activated Cytolysin, Hemolysis, Cytolysis (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Rossjohn, S. C. Feil, W. J. Mckinstry, R. K. Tweten, M. W. Parker
Structure Of A Cholesterol-Binding, Thiol-Activated Cytolysin And A Model Of Its Membrane Form.
Cell(Cambridge, Mass. ) V. 89 685 1997
PubMed-ID: 9182756 | Reference-DOI: 10.1016/S0092-8674(00)80251-2
(for further references see the PDB file header)

Molecule 1 - PERFRINGOLYSIN O
	Cellular Location	:	CYTOPLASM
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Organism Scientific	:	CLOSTRIDIUM PERFRINGENS
	Organism Taxid	:	1502
	Other Details	:	SECRETED AS A MONOMER, FORMS MEMBRANE-BOUND OLIGOMERS
	Synonym	:	PFO

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

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 1PFO)

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	ACT	UNKNOWN	CYS A:459	ACTIVE SITE CYSTEINE OF THE TRP-RICH MOTIF.

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

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

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

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	THIOL_CYTOLYSINS	PS00481	Thiol-activated cytolysins signature.	TACY_CLOP1	457-468	1	A:457-468
1	THIOL_CYTOLYSINS	PS00481	Thiol-activated cytolysins signature.	TACY_CLOPE	457-468	1	A:457-468

Biological Unit 1 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	THIOL_CYTOLYSINS	PS00481	Thiol-activated cytolysins signature.	TACY_CLOP1	457-468	2	A:457-468
1	THIOL_CYTOLYSINS	PS00481	Thiol-activated cytolysins signature.	TACY_CLOPE	457-468	2	A:457-468

(no "Exon" information available for 1PFO)

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
	(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:471
 aligned with TACY_CLOP1 | Q0TUS0 from UniProtKB/Swiss-Prot  Length:500

    Alignment length:471
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499 
           TACY_CLOP1    30 DITDKNQSIDSGISSLSYNRNEVLASNGDKIESFVPKEGKKAGNKFIVVERQKRSLTTSPVDISIIDSVNDRTYPGALQLADKAFVENRPTILMVKRKPININIDLPGLKGENSIKVDDPTYGKVSGAIDELVSKWNEKYSSTHTLPARTQYSESMVYSKSQISSALNVNAKVLENSLGVDFNAVANNEKKVMILAYKQIFYTVSADLPKNPSDLFDDSVTFNDLKQKGVSNEAPPLMVSNVAYGRTIYVKLETTSSSKDVQAAFKALIKNTDIKNSQQYKDIYENSSFTAVVLGGDAQEHNKVVTKDFDEIRKVIKDNATFSTKNPAYPISYTSVFLKDNSVAAVHNKTDYIETTSTEYSKGKINLDHSGAYVAQFEVAWDEVSYDKEGNEVLTHKTWDGNYQDKTAHYSTVIPLEANARNIRIKARECTGLAWEWWRDVISEYDVPLTNNINVSIWGTTLYPGSSITYN 500
               SCOP domains d1pfoa_ A: Perfringolysin                                                                                                                                                                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 1pfoA01                 1pfoA02 A:54-89,A:374-390           1pfoA01 A:30-53,A:90-178,A:229-274,A:350-373 HIV-1 Reverse Transcriptase; Chain          --------------------------------------------------1pfoA01 A:30-53,A:90-178,A:229-274,A:350-373  ---------------------------------------------------------------------------1pfoA01                 1pfoA02          1pfoA04 A:391-500 Perfringolysin, domain 4                                                                     CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhh......................eeeee...eeeeeeeeeeeeeeee.................eeee.hhhhh............eeeee.........eeee....hhhhhhhhhhhhhhhhhh.....eee.eeeeeeee...hhhhhhhh...hhhhhhh....hhhhh....eeeeeeeeeeeeeeee.....hhhh......hhhhhh.......eeeeeeeeeeeeeeeeeeee......hhhhhhhhhh..hhhh.hhhhhhhhheeeeeeeee........eee..hhhhhhhhhh..eee........eeeeee........eeeeeeeeeeeeeeee.eeeeeee.....eeeeeeeeeeee.....eeeeeee...........eeeeeee.......eeeeee.....hhh.eeeeee.......eeeeeeee....eeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------THIOL_CYTOLY-------------------------------- PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1pfo A  30 DITDKNQSIDSGISSLSYNRNEVLASNGDKIESFVPKEGKKAGNKFIVVERQKRSLTTSPVDISIIDSVNDRTYPGALQLADKALVENRPTILMVKRKPININIDLPGLKGENSIKVDDPTYGKVSGAIDELVSKWNEKYSSTHTLPARTQYSESMVYSKSQISSALNVNAKVLENSLGVDFNAVANNEKKVMILAYKQIFYTVSADLPKNPSDLFDDSVTFNDLKQKGVSNEAPPLMVSNVAYGRTIYVKLETTSSSKDVQAAFKALIKNTDIKNSQQYKDIYENSSFTAVVLGGDAQEHNKVVTKDFDEIRKVIKDNATFSTKNPAYPISYTSVFLKDNSVAAVHNKTDYIETTSTEYSKGKINLDHSGAYVAQFEVAWDEVSYDKEGNEVLTHKTWDGNYQDKTAHYSTVIPLEANARNIRIKARECTGLAWEWWRDVISEYDVPLTNNINVSIWGTTLYPGSSITYN 500
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499

Chain A from PDB  Type:PROTEIN  Length:471
 aligned with TACY_CLOPE | P0C2E9 from UniProtKB/Swiss-Prot  Length:500

    Alignment length:471
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499 
           TACY_CLOPE    30 DITDKNQSIDSGISSLSYNRNEVLASNGDKIESFVPKEGKKTGNKFIVVERQKRSLTTSPVDISIIDSVNDRTYPGALQLADKAFVENRPTILMVKRKPININIDLPGLKGENSIKVDDPTYGKVSGAIDELVSKWNEKYSSTHTLPARTQYSESMVYSKSQISSALNVNAKVLENSLGVDFNAVANNEKKVMILAYKQIFYTVSADLPKNPSDLFDDSVTFNDLKQKGVSNEAPPLMVSNVAYGRTIYVKLETTSSSKDVQAAFKALIKNTDIKNSQQYKDIYENSSFTAVVLGGDAQEHNKVVTKDFDEIRKVIKDNATFSTKNPAYPISYTSVFLKDNSVAAVHNKTDYIETTSTEYSKGKINLDHSGAYVAQFEVAWDEVSYDKEGNEVLTHKTWDGNYQDKTAHYSTVIPLEANARNIRIKARECTGLAWEWWRDVISEYDVPLTNNINVSIWGTTLYPGSSITYN 500
               SCOP domains d1pfoa_ A: Perfringolysin                                                                                                                                                                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 1pfoA01                 1pfoA02 A:54-89,A:374-390           1pfoA01 A:30-53,A:90-178,A:229-274,A:350-373 HIV-1 Reverse Transcriptase; Chain          --------------------------------------------------1pfoA01 A:30-53,A:90-178,A:229-274,A:350-373  ---------------------------------------------------------------------------1pfoA01                 1pfoA02          1pfoA04 A:391-500 Perfringolysin, domain 4                                                                     CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhh......................eeeee...eeeeeeeeeeeeeeee.................eeee.hhhhh............eeeee.........eeee....hhhhhhhhhhhhhhhhhh.....eee.eeeeeeee...hhhhhhhh...hhhhhhh....hhhhh....eeeeeeeeeeeeeeee.....hhhh......hhhhhh.......eeeeeeeeeeeeeeeeeeee......hhhhhhhhhh..hhhh.hhhhhhhhheeeeeeeee........eee..hhhhhhhhhh..eee........eeeeee........eeeeeeeeeeeeeeee.eeeeeee.....eeeeeeeeeeee.....eeeeeee...........eeeeeee.......eeeeee.....hhh.eeeeee.......eeeeeeee....eeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------THIOL_CYTOLY-------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1pfo A  30 DITDKNQSIDSGISSLSYNRNEVLASNGDKIESFVPKEGKKAGNKFIVVERQKRSLTTSPVDISIIDSVNDRTYPGALQLADKALVENRPTILMVKRKPININIDLPGLKGENSIKVDDPTYGKVSGAIDELVSKWNEKYSSTHTLPARTQYSESMVYSKSQISSALNVNAKVLENSLGVDFNAVANNEKKVMILAYKQIFYTVSADLPKNPSDLFDDSVTFNDLKQKGVSNEAPPLMVSNVAYGRTIYVKLETTSSSKDVQAAFKALIKNTDIKNSQQYKDIYENSSFTAVVLGGDAQEHNKVVTKDFDEIRKVIKDNATFSTKNPAYPISYTSVFLKDNSVAAVHNKTDYIETTSTEYSKGKINLDHSGAYVAQFEVAWDEVSYDKEGNEVLTHKTWDGNYQDKTAHYSTVIPLEANARNIRIKARECTGLAWEWWRDVISEYDVPLTNNINVSIWGTTLYPGSSITYN 500
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499

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 '\|'

Asymmetric Unit

Classes(

)

Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Membrane and cell surface proteins and peptides (2046)

Fold: Perfringolysin (7)

Superfamily: Perfringolysin (7)

Family: Perfringolysin (5)

Protein domain: Perfringolysin (3)

Clostridium perfringens [TaxId: 1502] (3)

d1pfoa_

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

Asymmetric Unit(hide GO term definitions)

Chain A (TACY_CLOPE | P0C2E9)

molecular function
	GO:0015485	cholesterol binding	Interacting selectively and non-covalently with cholesterol (cholest-5-en-3-beta-ol); the principal sterol of vertebrates and the precursor of many steroids, including bile acids and steroid hormones.
	GO:0008289	lipid binding	Interacting selectively and non-covalently with a lipid.
biological process
	GO:0019835	cytolysis	The rupture of cell membranes and the loss of cytoplasm.
	GO:0044179	hemolysis in other organism	The cytolytic destruction of red blood cells, with the release of intracellular hemoglobin, in one organism by another.
	GO:0009405	pathogenesis	The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
cellular component
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
	GO:0033644	host cell membrane	Double layer of lipid molecules as it encloses host cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins. The host is defined as the larger of the organisms involved in a symbiotic interaction.
	GO:0020002	host cell plasma membrane	The plasma membrane surrounding a host cell.
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

Chain A (TACY_CLOP1 | Q0TUS0)

molecular function
	GO:0015485	cholesterol binding	Interacting selectively and non-covalently with cholesterol (cholest-5-en-3-beta-ol); the principal sterol of vertebrates and the precursor of many steroids, including bile acids and steroid hormones.
	GO:0008289	lipid binding	Interacting selectively and non-covalently with a lipid.
biological process
	GO:0019835	cytolysis	The rupture of cell membranes and the loss of cytoplasm.
	GO:0044179	hemolysis in other organism	The cytolytic destruction of red blood cells, with the release of intracellular hemoglobin, in one organism by another.
	GO:0009405	pathogenesis	The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
cellular component
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
	GO:0033644	host cell membrane	Double layer of lipid molecules as it encloses host cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins. The host is defined as the larger of the organisms involved in a symbiotic interaction.
	GO:0020002	host cell plasma membrane	The plasma membrane surrounding a host cell.
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

Asymmetric Unit
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Biological Unit
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		Biological Unit 1	[ Jena3D ]

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	TACY_CLOP1 \| Q0TUS0	:	1m3i 1m3j 2bk1 2bk2
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(no "Related Entries Specified in the PDB File" available for 1PFO)

Description

Compounds

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Ligands, Modified Residues, Ions (0, 0)

Sites (1, 1)

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