2V25 - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   STRUCTURE OF THE CAMPYLOBACTER JEJUNI ANTIGEN PEB1A, AN ASPARTATE AND GLUTAMATE RECEPTOR WITH BOUND ASPARTATE

Authors :   A. Muller, E. Dodson, M. Del Rocio Leon-Kempis, D. J. Kelly, A. J. Wilkinson, K. S. Wilson

Date :   01 Jun 07 (Deposition) - 26 Jun 07 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.49

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

Keywords :   Antigen, Adhesin, Aspartate, Glutamate, Transport, Abc Transport, Virulence Factor, Campylobacter Jejuni, Receptor (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Muller, M. Del Rocio Leon-Kempis, E. Dodson, K. S. Wilson, A. J. Wilkinson, D. J. Kelly
A Bacterial Virulence Factor With A Dual Role As An Adhesin And A Solute Binding-Protein: The Crystal Structure At 1. 5 A Resolution Of The Peb1A Protein From The Food-Borne Human Pathogen Campylobacter Jejuni
J. Mol. Biol. V. 372 160 2007
PubMed-ID: 17631313 | Reference-DOI: 10.1016/J.JMB.2007.06.041

Molecule 1 - MAJOR CELL-BINDING FACTOR
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET21A
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Organism Scientific	:	CAMPYLOBACTER JEJUNI
	Organism Taxid	:	197
	Strain	:	NCTC 11168
	Synonym	:	CBF1, PEB1, PEB1A

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 6)

No.	Name	Count	Type	Full Name
1	ASP	2	Mod. Amino Acid	ASPARTIC ACID
2	ZN	4	Ligand/Ion	ZINC ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	ASP	1	Mod. Amino Acid	ASPARTIC ACID
2	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	ASP	1	Mod. Amino Acid	ASPARTIC ACID
2	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LYS B:19 , ARG B:67 , THR B:82 , THR B:84 , ARG B:89 , ALA B:131 , THR B:132 , TYR B:156 , ASP B:174 , ILE B:177	BINDING SITE FOR RESIDUE ASP B1234
2	AC2	SOFTWARE	LYS A:19 , ALA A:64 , ARG A:67 , THR A:82 , THR A:84 , ARG A:89 , ALA A:131 , THR A:132 , TYR A:156 , ASP A:174 , ILE A:177 , HOH A:2094	BINDING SITE FOR RESIDUE ASP A1234
3	AC3	SOFTWARE	HIS A:24 , HOH A:2261 , HOH A:2262	BINDING SITE FOR RESIDUE ZN A1235
4	AC4	SOFTWARE	GLU A:111 , LYS A:166 , HIS A:220 , HOH A:2264 , HOH A:2265	BINDING SITE FOR RESIDUE ZN A1236
5	AC5	SOFTWARE	HIS B:24 , HOH B:2264 , HOH B:2265	BINDING SITE FOR RESIDUE ZN B1235
6	AC6	SOFTWARE	ASP B:147 , HIS B:220 , HOH B:2266 , HOH B:2267	BINDING SITE FOR RESIDUE ZN B1236

(no "SS Bond" information available for 2V25)

(no "Cis Peptide Bond" information available for 2V25)

(no "SAP(SNP)/Variant" information available for 2V25)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SBP_BACTERIAL_3	PS01039	Bacterial extracellular solute-binding proteins, family 3 signature.	PEB1A_CAMJE	63-76	2	A:37-50 B:37-50

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SBP_BACTERIAL_3	PS01039	Bacterial extracellular solute-binding proteins, family 3 signature.	PEB1A_CAMJE	63-76	1	A:37-50 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SBP_BACTERIAL_3	PS01039	Bacterial extracellular solute-binding proteins, family 3 signature.	PEB1A_CAMJE	63-76	1	- B:37-50

(no "Exon" information available for 2V25)

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:232
 aligned with PEB1A_CAMJE | Q0P9X8 from UniProtKB/Swiss-Prot  Length:259

    Alignment length:232
                                                                                                                                                                                                                                                                259 
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258| 
         PEB1A_CAMJE     29 GKLESIKSKGQLIVGVKNDVPHYALLDQATGEIKGFEVDVAKLLAKSILGDDKKIKLVAVNAKTRGPLLDNGSVDAVIATFTITPERKRIYNFSEPYYQDAIGLLVLKEKKYKSLADMKGANIGVAQAATTKKAIGEAAKKIGIDVKFSEFPDYPSIKAALDAKRVDAFSVDKSILLGYVDDKSEILPDSFEPQSYGIVTKKDDPAFAKYVDDFVKEHKNEIDALAKKWGL-    -
               SCOP domains d2v25a_ A: automated matches                                                                                                                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhh.eeeee..ee...eee......eehhhhhhhhhhhhhhhh....eeeee....hhhhhhhh....ee......hhhhhh.eee....eeeeeeeeee.hhh..hhhhh...eeeee...hhhhhhhhhhhhh....eeeee.hhhhhhhhhhh....eeeeehhhhh......eee......eeee..eee..hhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------SBP_BACTERIAL_---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2v25 A    3 GKLESIKSKGQLIVGVKNDVPHYALLDQATGEIKGFEVDVAKLLAKSILGDDKKIKLVAVNAKTRGPLLDNGSVDAVIATFTITPERKRIYNFSEPYYQDAIGLLVLKEKKYKSLADMKGANIGVAQAATTKKAIGEAAKKIGIDVKFSEFPDYPSIKAALDAKRVDAFSVDKSILLGYVDDKSEILPDSFEPQSYGIVTKKDDPAFAKYVDDFVKEHKNEIDALAKKWGLD 1234
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232||
                                                                                                                                                                                                                                                                233|
                                                                                                                                                                                                                                                                1234

Chain B from PDB  Type:PROTEIN  Length:232
 aligned with PEB1A_CAMJE | Q0P9X8 from UniProtKB/Swiss-Prot  Length:259

    Alignment length:232
                                                                                                                                                                                                                                                                259 
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258| 
         PEB1A_CAMJE     29 GKLESIKSKGQLIVGVKNDVPHYALLDQATGEIKGFEVDVAKLLAKSILGDDKKIKLVAVNAKTRGPLLDNGSVDAVIATFTITPERKRIYNFSEPYYQDAIGLLVLKEKKYKSLADMKGANIGVAQAATTKKAIGEAAKKIGIDVKFSEFPDYPSIKAALDAKRVDAFSVDKSILLGYVDDKSEILPDSFEPQSYGIVTKKDDPAFAKYVDDFVKEHKNEIDALAKKWGL-    -
               SCOP domains d2v25b_ B: automated matches                                                                                                                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----------SBP_bac_3-2v25B01 B:14-233                                                                                                                                                                                                  - Pfam domains (1)
           Pfam domains (2) -----------SBP_bac_3-2v25B02 B:14-233                                                                                                                                                                                                  - Pfam domains (2)
         Sec.struct. author hhhhhhhhhh.eeeee..ee...eee......eehhhhhhhhhhhhhhhh....eeeee....hhhhhhhh....ee......hhhhhh.eee....eeeeeeeeee.hhh..hhhhhh..eeeee...hhhhhhhhhhhhh....eeeee.hhhhhhhhhhh....eeeeehhhhh......eee......eeee..eee..hhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------SBP_BACTERIAL_---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2v25 B    3 GKLESIKSKGQLIVGVKNDVPHYALLDQATGEIKGFEVDVAKLLAKSILGDDKKIKLVAVNAKTRGPLLDNGSVDAVIATFTITPERKRIYNFSEPYYQDAIGLLVLKEKKYKSLADMKGANIGVAQAATTKKAIGEAAKKIGIDVKFSEFPDYPSIKAALDAKRVDAFSVDKSILLGYVDDKSEILPDSFEPQSYGIVTKKDDPAFAKYVDDFVKEHKNEIDALAKKWGLD 1234
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232||
                                                                                                                                                                                                                                                                233|
                                                                                                                                                                                                                                                                1234

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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	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(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: Periplasmic binding protein-like II (813)

Superfamily: Periplasmic binding protein-like II (813)

Family: automated matches (267)

Protein domain: automated matches (267)

Campylobacter jejuni [TaxId: 197] (1)

1a	d2v25a_	A:
1b	d2v25b_	B:

(no "CATH Domain" information available for 2V25)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: PBP (391)

Family: SBP_bac_3 (32)

Campylobacter jejuni (2)

1a	SBP_bac_3-2v25B01	B:14-233
1b	SBP_bac_3-2v25B02	B:14-233

Asymmetric Unit(hide GO term definitions)

Chain A,B (PEB1A_CAMJE | Q0P9X8)

molecular function
	GO:0005215	transporter activity	Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells.
biological process
	GO:0006810	transport	The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
	GO:0009986	cell surface	The external part of the cell wall and/or plasma membrane.

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