1V1P - JenaLib

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

Asym./Biol. Unit (Jmol Viewer)

Title :   THE STRUCTURE SSL FROM STAPHYLOCOCCUS AUREUS FROM AN ORTHORHOMBIC CRYSTAL FORM

Authors :   D. C. Briggs, C. E. Naylor

Date :   21 Apr 04 (Deposition) - 01 Jul 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.70

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

Keywords :   Virulence Factor, Antigen Presenting Cell, Secreted Protein, Staphylococcal Exotoxin 1, Set1, Superantigen, Ob-Fold, {Beta}-Grasp (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Al-Shangiti, C. E. Naylor, S. Nair, D. C. Briggs, B. Henderson, B. Chain
Structural Relationships And Cellular Tropism Of Staphylococcal Superantigen-Like Proteins
Infect. Immun. V. 72 4261 2004
PubMed-ID: 15213171 | Reference-DOI: 10.1128/IAI.72.7.4261-4270.2004

Molecule 1 - EXOTOXIN 1
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PQE30
	Expression System Strain	:	K12
	Expression System Taxid	:	562
	Expression System Variant	:	JM109(PREP4)
	Organism Scientific	:	STAPHYLOCOCCUS AUREUS
	Organism Taxid	:	1280
	Strain	:	NCTC6571
	Synonym	:	STAPHYLOCOCCAL SUPERANTIGEN LIKE PROTEIN 7

Molecule 2 - EXOTOXIN 1
	Chains	:	B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PQE30
	Expression System Strain	:	K12
	Expression System Taxid	:	562
	Expression System Variant	:	JM109(PREP4)
	Organism Scientific	:	STAPHYLOCOCCUS AUREUS
	Organism Taxid	:	1280
	Strain	:	NCTC6571
	Synonym	:	STAPHYLOCOCCAL SUPERANTIGEN LIKE PROTEIN 7

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 1V1P)

(no "Site" information available for 1V1P)

(no "SS Bond" information available for 1V1P)

Asymmetric/Biological Unit

No.	Residues
1	Lys A:105	-	Asn A:106
2	Asn B:108	-	Asn B:109
3	Asp B:177	-	Glu B:178

(no "SAP(SNP)/Variant" information available for 1V1P)

(no "PROSITE Motif" information available for 1V1P)

(no "Exon" information available for 1V1P)

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:191
 aligned with Q9ZFS5_STAAU | Q9ZFS5 from UniProtKB/TrEMBL  Length:231

    Alignment length:193
                                    48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228   
         Q9ZFS5_STAAU    39 HLHDIRDLHRYYSSESFEYSNVSGKVENYNGSNVVRFNPKDQNHQLFLLGKDKEQYKEGLQGQNVFVVQELIDPNGRLSTVGGVTKKNNKTSETNTPLFVNKVNGEDLDASIDSFLIQKEEISLKELDFKIRQQLVNNYGLYKGTSKYGKIIINLKDENKVEIDLGDKLQFERMGDVLNSKDIRGISVTINQI 231
               SCOP domains d1v1pa1 A:21-108 Exotoxin 1 (SET1, Supe  rantigen-like protein 7)                         d1v1pa2 A:109-211 Exotoxin 1 (SET1, Superantigen-like protein 7)                                        SCOP domains
               CATH domains 1v1pA01      --------------------------------------------------------------------------1v1pA01 A:21-33,A:106-211  [code=3.10.20.120, no name defined]                                             CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhh....eeeeeeee..eee..eeeeee..--..eeeee.hhhhhhh...eeeeeeee...ee.....eeee..ee........eeeeeeeeeee..eeeeeeeeeee...eeehhhhhhhhhhhhhhhhh........eeeeeee...eeeeee.....hhhhhh.eee...eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v1p A  21 HLHDIRDLHRYYSSESFEYSNVSGKVENYNGSNVVRFNP--QNHQLFLLGKDKEQYKEGLQGQNVFVVQELIDPNGRLSTVGGVTKKNNKTSETNTPLFVNKVNGEDLDASIDSFLIQKEEISLKELDFKIRQQLVNNYGLYKGTSKYGKIIINLKDENKVEIDLGDKLQFERMGDVLNSKDIRGISVTINQI 211
                                    30        40        50        |- |      68        78        88        98       108       118       128       138       148       158       168       178       188       198       208   
                                                                 59 60

Chain B from PDB  Type:PROTEIN  Length:191
 aligned with Q9ZFS5_STAAU | Q9ZFS5 from UniProtKB/TrEMBL  Length:231

    Alignment length:191
                                    50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230 
         Q9ZFS5_STAAU    41 HDIRDLHRYYSSESFEYSNVSGKVENYNGSNVVRFNPKDQNHQLFLLGKDKEQYKEGLQGQNVFVVQELIDPNGRLSTVGGVTKKNNKTSETNTPLFVNKVNGEDLDASIDSFLIQKEEISLKELDFKIRQQLVNNYGLYKGTSKYGKIIINLKDENKVEIDLGDKLQFERMGDVLNSKDIRGISVTINQI 231
               SCOP domains d1v1pb1 B:23-108 Exotoxin 1 (SET1, Superantigen-like protein 7)                       d1v1pb2 B:109-213 Exotoxin 1 (SET1, Superantigen-like protein 7)                                          SCOP domains
               CATH domains 1v1pB01    --------------------------------------------------------------------------1v1pB01 B:23-33,B:108-213  [code=3.10.20.120, no name defined]                                             CATH domains
           Pfam domains (1) ---DUF1954-1v1pB03 B:26-108                                                           ------Stap_Strp_tox_C-1v1pB01 B:115-211                                                                -- Pfam domains (1)
           Pfam domains (2) ---DUF1954-1v1pB04 B:26-108                                                           ------Stap_Strp_tox_C-1v1pB02 B:115-211                                                                -- Pfam domains (2)
         Sec.struct. author .hhhhhhhhh....eee......ee......eeee......eeee..hhhhhhh.......eeee...ee.....eeee..ee........eeeeeeeeeee..eeeeeeeeeee...eeehhhhhhhhhhhhhhhh.........eeeeeee...eeeeee.....hhhhh..eee...eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v1p B  23 HDIRDLHRYYSSESFEYSNVSGKVENYNGSNVVRFNPKDQNHQLFLLGKDKEQYKEGLQGQNVFVVQELIDPNGRLSTVGGVTKKNNKTSETNTPLFVNKVNGEDLDASIDSFLIQKEEISLKELDFKIRQQLVNNYGLYKGTSKYGKIIINLKDENKVEIDLGDKLQFERMGDVLNSKDIRGISVTINQI 213
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212

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/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Roll (3276)

Topology: Ubiquitin-like (UB roll) (674)

Homologous Superfamily: [code=3.10.20.120, no name defined] (91)

Staphylococcus aureus. Organism_taxid: 1280. Strain: nctc6571. (2)

1a	1v1pA01	A:21-33,A:106-211
1b	1v1pB01	B:23-33,B:108-213

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Ant-toxin_C (48)

Family: Stap_Strp_tox_C (48)

Staphylococcus aureus (41)

1a	Stap_Strp_tox_C-1v1pB01	B:115-211
1b	Stap_Strp_tox_C-1v1pB02	B:115-211

Clan: no clan defined [family: DUF1954] (9)

Family: DUF1954 (9)

Staphylococcus aureus (8)

2a	DUF1954-1v1pB03	B:26-108
2b	DUF1954-1v1pB04	B:26-108

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (Q9ZFS5_STAAU | Q9ZFS5)

biological process
	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.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Asn B:108 - Asn B:109	[ RasMol ]
		Asp B:177 - Glu B:178	[ RasMol ]
		Lys A:105 - Asn A:106	[ RasMol ]

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	1v1p
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	Q9ZFS5_STAAU \| Q9ZFS5	:	1v1o

1v1o	STAPHYLOCOCCAL SUPERANTIGEN-LIKE PROTEIN 7

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (2, 4)

CATH Domains (1, 2)

Pfam Domains (2, 4)

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