OCA Atlas for 1RJL

1RJL

Immune System

date

Nov 19, 2003

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

compound

source

Molecule: Fab H6831 L-Chain
Chain: A

Organism_scientific: Mus Musculus
Organism_common: Mouse
Strain: Balb-C

Molecule: Fab H6831 H-Chain
Chain: B

Organism_scientific: Mus Musculus
Organism_common: Mouse
Strain: Balb-C

Molecule: Outer Surface Protein B
Chain: C
Engineered: Yes

Organism_scientific: Borrelia Burgdorferi
Gene: Ospb, Bba16
Expression_system: Escherichia Coli
Expression_system_common: Bacteria
Expression_system_strain: Bl2(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet9c

Molecule: Outer Surface Protein B
Chain: D
Fragment: 5-Residue Polyunknown Fragment
Engineered: Yes

symmetry

Space Group: C 1 2 1

R_factor

0.191

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
186.286	37.271	87.939	90.00	90.66	90.00

method

X-Ray Diffraction

resolution

2.60 Å

related structures

by homologous chain: 1BQL, 1FJ1, 1I9J, 1P4P

similarity

Belongs to the Lipoprotein_1 family.

subcellular loc.

Attached to the outer membrane by a lipid anchor.

Gene

BB ; OSPB (B. burgdorferi)

Gene
Ontology

Chain	Function	Process	Component
C			cell outer membrane membrane outer membrane

Primary reference

Structural Investigation of Borrelia burgdorferi OspB, a BactericidalFab Target., Becker M, Bunikis J, Lade BD, Dunn JJ, Barbour AG, Lawson CL, J Biol Chem 2005 Apr 29;280(17):17363-70. Epub 2005 Feb 15. PMID:15713683

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (92 Kb) [Save to disk]

Biological Unit Coordinates (1rjl.pdb1.gz) 87 Kb

CSU: Contacts of Structural Units for 1RJL

Likely Quarternary Molecular Structure file(s) for 1RJL

Structure Factors (183 Kb)

Retrieve 1RJL in mmCIF format [Save to disk]

View 1RJL in 3D

Proteopedia, because life has more than 2D.

On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.

On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

On AstexViewer, from MSD-EBI (viewer documentation).

On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 1RJL

Protein Explorer, Easier to use and more powerful than RasMol. (Win and Mac only)

Noncovalent Bond Finder displays the closest contacts to ligand or interface, reports distances, walks over water bridges.

Cartoon representation from PDB Cartoon

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala

Dipole moment, from Dipole Server at Weizmann Institute

Crystal Contacts, from CryCo at Weizmann Institute

3D motif for 1RJL, from MSDmotif at EBI

Classification of representative domains in scop (Structural Classification of Proteins)
- Domain d1rjla1, region A:1-107 [Jmol] [rasmolscript] [script source]
- Domain d1rjla2, region A:108-212 [Jmol] [rasmolscript] [script source]
- Domain d1rjlb1, region B:1-120 [Jmol] [rasmolscript] [script source]
- Domain d1rjlb2, region B:121-221 [Jmol] [rasmolscript] [script source]
- Domain d1rjlc_, region C [Jmol] [rasmolscript] [script source]

Fold representative 1rjl from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1rjl_D] [1rjl_C] [1rjl_B] [1rjl_A]

Other resources with information on 1RJL

InterPro: IPR001809

PDBREPORT (protein verification by WHAT_CHECK procedures)

MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

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