1RJL - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Title :   STRUCTURE OF THE COMPLEX BETWEEN OSPB-CT AND BACTERICIDAL FAB-H6831

Authors :   M. Becker, J. Bunikis, B. D. Lade, J. J. Dunn, A. G. Barbour, C. L. Lawson

Date :   19 Nov 03 (Deposition) - 30 Nov 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.60

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

Keywords :   Beta Sheet, Antibody-Protein Complex, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Becker, J. Bunikis, B. D. Lade, J. J. Dunn, A. G. Barbour, C. L. Lawson
Structural Investigation Of Borrelia Burgdorferi Ospb, A Bactericidalfab Target.
J. Biol. Chem. V. 280 17363 2005
PubMed-ID: 15713683 | Reference-DOI: 10.1074/JBC.M412842200
(for further references see the PDB file header)

Molecule 1 - FAB H6831 L-CHAIN
	Chains	:	A
	Organism Common	:	HOUSE MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Strain	:	BALB-C

Molecule 2 - FAB H6831 H-CHAIN
	Chains	:	B
	Organism Common	:	HOUSE MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Strain	:	BALB-C

Molecule 3 - OUTER SURFACE PROTEIN B
	Chains	:	C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET9C
	Expression System Strain	:	BL2(DE3)/PLYSS
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	OSPB, BBA16
	Organism Common	:	LYME DISEASE SPIROCHETE
	Organism Scientific	:	BORRELIA BURGDORFERI
	Organism Taxid	:	139

Molecule 4 - OUTER SURFACE PROTEIN B
	Chains	:	D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET9C
	Expression System Strain	:	BL2(DE3)/PLYSS
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	5-RESIDUE POLYUNKNOWN FRAGMENT
	Gene	:	OSPB, BBA16
	Organism Common	:	LYME DISEASE SPIROCHETE
	Organism Scientific	:	BORRELIA BURGDORFERI
	Organism Taxid	:	139

		1	2	3	4
Asymmetric/Biological Unit	:	A	B	C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 5)

No.	Name	Count	Type	Full Name
1	UNK	5	Mod. Amino Acid

(no "Site" information available for 1RJL)

Asymmetric/Biological Unit

No.	Residues
1	A:23	-	A:88
2	A:134	-	A:194
3	B:22	-	B:96
4	B:147	-	B:202

Asymmetric/Biological Unit

No.	Residues
1	Ser A:7	-	Pro A:8
2	Phe A:94	-	Pro A:95
3	Tyr A:140	-	Pro A:141
4	Trp B:195	-	Pro B:196

Asymmetric/Biological Unit (2, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_OSPB_BORBU_011 *	K	218	Q	OSPB_BORBU	---	---	C	K	218	Q
2	UniProt	VAR_OSPB_BORBU_012 *	K	253	T	OSPB_BORBU	---	---	C	K	253	T
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

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

(no "Exon" information available for 1RJL)

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:212
                                                                                                                                                                                                                                                    
               SCOP domains d1rjla1 A:1-107 Immunoglobulin light chain kappa variable domain, VL-kappa                                 d1rjla2 A:108-212 Immunoglobulin light chain kappa constant domain, CL-kappa                              SCOP domains
               CATH domains 1rjlA01 A:1-108 Immunoglobulins                                                                             1rjlA02 A:109-211 Immunoglobulins                                                                      - CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee.......eeeeee......eeeee...ee.......eeeeee..eeeeee.........eeeeee......ee...eeeee.......eeeee..hhhhhh..eeeeeeeeeee.....eeeeee..eee...eeeee.........eeeeeeeeeehhhhh....eeeeee.......eeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1rjl A   1 DIQMNQSPSSLSASLGDTITITCHASQNINVWLNWFQQKPGSIPKLLIYMASNLHTGVPSRFSGSGSGTGFTLTISSLQPEDIATYYCQQGQSFPLTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRN 212
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210

Chain B from PDB  Type:PROTEIN  Length:221
                                                                                                                                                                                                                                                             
               SCOP domains d1rjlb1 B:1-120 Immunoglobulin heavy chain variable domain, VH                                                          d1rjlb2 B:121-221 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                       SCOP domains
               CATH domains 1rjlB01 B:1-120 Immunoglobulins                                                                                         1rjlB02 B:121-219 Immunoglobulins                                                                  -- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee...eeee.....eeeeeeee........eeeeeee...eeeeeeee......eee.......eeeeee....eeeeee........eeeeeeeee.....eeeee...eeeee.........eeee...........eeeeeeeeee.....eeee........eee...ee....eeeeeeeee..........eeeeee....eeeeee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1rjl B   1 QVQLQQPGSVLVRPGASVKLSCKASGFTFTSSWMHWAKQRPGQGLEWIGEIHPNSGNTHYNEKFKGKATLTVDTSSSTAYVDLSSLTSEDSAVYYCARMRYGDYYAMDNWGQGTSVTVSSAKTTAPPVYPLAPVCGDTTGSSVTLGCLVKGYFPESVTLLWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKIEPRG 221
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220

Chain C from PDB  Type:PROTEIN  Length:95
 aligned with OSPB_BORBU | P17739 from UniProtKB/Swiss-Prot  Length:296

    Alignment length:95
                                   211       221       231       241       251       261       271       281       291     
           OSPB_BORBU   202 TVEIKEGTVTLKREIEKDGKVKVFLNDTAGSNKKTGKWEDSTSTLTISADSKKTKDLVFLTDGTITVQQYNTAGTSLEGSASEIKNLSELKNALK 296
               SCOP domains d1rjlc_ C: Outer surface protein B                                                              SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..eeeeeee.....eeeeeee......eeeeee....eeeeee..eeeeeeee.....eeeee............ee..hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------Q----------------------------------T------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------- Transcript
                 1rjl C 202 TVEIKEGTVTLKREIEKDGKVKVFLNDTAGSNKKTGKWEDSTSTLTISADSKKTKDLVFLTDGTITVQQYNTAGTSLEGSASEIKNLSELKNALK 296
                                   211       221       231       241       251       261       271       281       291

Chain D from PDB  Type:PROTEIN  Length:5
                                     
               SCOP domains ----- SCOP domains
               CATH domains ----- CATH domains
               Pfam domains ----- Pfam domains
         Sec.struct. author ..... Sec.struct. author
                 SAPs(SNPs) ----- SAPs(SNPs)
                    PROSITE ----- PROSITE
                 Transcript ----- Transcript
                 1rjl D   1 xxxxx   5
                            |||||
                            1-UNK
                             2-UNK
                              3-UNK
                               4-UNK
                                5-UNK

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: Mainly Beta (13760)

Architecture: Sandwich (5577)

Topology: Immunoglobulin-like (3897)

Homologous Superfamily: Immunoglobulins (2282)

House mouse (Mus musculus) (616)

1a	1rjlA02	A:109-211
1b	1rjlB02	B:121-219
1c	1rjlB01	B:1-120
1d	1rjlA01	A:1-108

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

Asymmetric/Biological Unit(hide GO term definitions)

Chain C (OSPB_BORBU | P17739)

cellular component
	GO:0009279		cell outer membrane		A lipid bilayer that forms the outermost membrane of the cell envelope; enriched in polysaccharide and protein; the outer leaflet of the membrane contains specific lipopolysaccharide structures.
	GO:0016020		membrane		A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
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	Sites
(no "Sites" information available for 1rjl)

	Cis Peptide Bonds
		Phe A:94 - Pro A:95	[ RasMol ]
		Ser A:7 - Pro A:8	[ RasMol ]
		Trp B:195 - Pro B:196	[ RasMol ]
		Tyr A:140 - Pro A:141	[ RasMol ]

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	1rjl
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	OSPB_BORBU \| P17739
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	OSPB_BORBU \| P17739
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	OSPB_BORBU \| P17739	:	1p4p

1fj1	OSPA + FAB LA-2
1osp	OSPA + AN N-TERM FAB
1p4p	OSPB-CT ALONE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 5)

Sites (0, 0)

SS Bonds (4, 4)

Cis Peptide Bonds (4, 4)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (2, 2)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (5, 5)

CATH Domains (1, 4)

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