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Asym./Biol. Unit (Jmol Viewer)

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Title :   MANIPULATING THE COUPLED FOLDING AND BINDING PROCESS DRIVES AFFINITY MATURATION IN A PROTEIN-PROTEIN COMPLEX

Authors :   S. Cho

Date :   17 Jan 08 (Deposition) - 12 May 09 (Release) - 12 May 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

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

Keywords :   Superantigen, Secreted, Toxin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. Cho, C. P. Swaminathan, M. C. Kerzic, R. Guan, J. Yang, M. C. Kieke, P. S. Andersen, D. M. Krantz, R. A. Mariuzza, S. J. Eric
Manipulating The Coupled Folding And Binding Process Drives Affinity Maturation In A Protein-Protein Complex
To Be Published
PubMed: search
(for further references see the PDB file header)

Molecule 1 - T CELL RECEPTOR BETA CHAIN 8.2
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PT7-7
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Fragment	:	VARIABLE DOMAIN
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090

Molecule 2 - ENTEROTOXIN TYPE C-3
	Chains	:	B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET26B+
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Gene	:	ENTC3
	Organism Scientific	:	STAPHYLOCOCCUS AUREUS
	Organism Taxid	:	1280
	Synonym	:	SEC3

		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	SO4	2	Ligand/Ion	SULFATE ION

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	unknown	LYS B:75 , LYS B:98 , ARG B:138	BINDING SITE FOR RESIDUE SO4 B 500
2	AC2	unknown	LYS B:25 , GLU B:173 , PHE B:174	BINDING SITE FOR RESIDUE SO4 B 501
3	AC3	SOFTWARE	LYS B:75 , LYS B:98 , ARG B:138	BINDING SITE FOR RESIDUE SO4 B 500
4	AC4	SOFTWARE	LYS B:25 , GLU B:173 , PHE B:174	BINDING SITE FOR RESIDUE SO4 B 501

Asymmetric/Biological Unit

No.	Residues
1	A:23	-	A:92
2	B:93	-	B:108

Asymmetric/Biological Unit

No.	Residues
1	Ser A:7	-	Pro A:8

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

Asymmetric/Biological Unit (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	STAPH_STREP_TOXIN_1	PS00277	Staphylococcal enterotoxin/Streptococcal pyrogenic exotoxin signature 1.	ENTC3_STAAU	139-148	1	B:110-119
2	STAPH_STREP_TOXIN_2	PS00278	Staphyloccocal enterotoxin/Streptococcal pyrogenic exotoxin signature 2.	ENTC3_STAAU	178-201	1	B:149-172

(no "Exon" information available for 3BZD)

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:109
                                                                                                                                             
               SCOP domains d3bzda_ A: automated matches                                                                                  SCOP domains
               CATH domains 3bzdA00 A:2-117 Immunoglobulins                                                                               CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee..eeee.....eeeeeee.....eeeeeee.....eeeeeeeee..eeee.......eeeeee..eeeeee...hhhhh.eeeeeee....eee...eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 3bzd A   2 AAVTQSPRNKVAVTGEKVTLSCQQTNNHNNMYWYRQDTGHGLRLIHYSYGAGSTEKGDIPDGYKASRPSQEQFSLILESATPSQTSVYFCASGGGGTLYFGAGTRLSVL 117
                                    11        21        31        41        51        61 ||     72        82        92       108         
                                                                                        63|                                 101|         
                                                                                         65                                  108

Chain B from PDB  Type:PROTEIN  Length:234
 aligned with ENTC3_STAAU | P0A0L5 from UniProtKB/Swiss-Prot  Length:266

    Alignment length:236
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258      
          ENTC3_STAAU    29 SQPDPMPDDLHKSSEFTGTMGNMKYLYDDHYVSATKVKSVDKFLAHDLIYNISDKKLKNYDKVKTELLNEDLAKKYKDEVVDVYGSNYYVNCYFSSKDNVGKVTGGKTCMYGGITKHEGNHFDNGNLQNVLVRVYENKRNTISFEVQTDKKSVTAQELDIKARNFLINKKNLYEFNSSPYETGYIKFIENNGNTFWYDMMPAPGDKFDQSKYLMMYNDNKTVDSKSVKIEVHLTTK 264
               SCOP domains d3bzdb1 B:2-116 Staphylococcal enterotoxin C3, SEC3                                                                  d3bzdb2 B:117-235 Staphylococcal enterotoxin C3, SEC3                                                                   SCOP domains
               CATH domains 3bzdB01 B:2-31,B:118-235      3bzdB02 B:32-117  [code=2.40.50.110, no name defined]                                   3bzdB01 B:2-31,B:118-235  [code=3.10.20.120, no name defined]                                                          CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhh.hhhhh...hhhhhh......eeeeee...ee....eeee............eeee..hhhhhhhhhh..eeeee...............--......eee..eee...........eeeeeeeee...eeeeeeeee....eehhhhhhhhhhhhhhhhh........eeeeeeeeee...eeeeee.........hhhhhhhhhh...ee.....eeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------STAPH_STRE-----------------------------STAPH_STREP_TOXIN_2     --------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3bzd B   2 SQPDPMPDDLHKSSEFTGTMGNMKYLYDDHYVSATKVKSVDKFLAHDLIYNISDKKLKNYDKVKTELLNEDLAKKYKDEVVDVYGSNYYVNCYFSSKDNV--WWHGKTCMYGGITKHEGNHFDNGNLQNVLVRVYENKRNTISFEVQTDKKSVTAQELDIKARNFLINKKNLYEFNSSPYETGYIKFIENNGNTFWYDMMPAPGDKFDQSKYLMMYNDNKTVDSKSVKIEVHLTTK 235
                                    11        21        31        41        51        61        71        81        91       101  |    109       119       129       139       149       159       169       179       189       199       209       219       229      
                                                                                                                             101  |                                                                                                                                     
                                                                                                                                102

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 "Pfam Domain" information available for 3BZD)

Asymmetric/Biological Unit(hide GO term definitions)

Chain B (ENTC3_STAAU | P0A0L5)

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
		Ser A:7 - Pro A:8	[ RasMol ]

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Description

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Ligands, Modified Residues, Ions (1, 2)

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