1H3P | pdb_00001h3p

STRUCTURAL CHARACTERISATION OF A MONOCLONAL ANTIBODY SPECIFIC FOR THE PRES1 REGION OF THE HEPATITIS B VIRUS

PDB DOI: https://doi.org/10.2210/pdb1H3P/pdb
Entry: 1H3P supersedes: 1GM3

Classification: IMMUNOGLOBULIN
Organism(s): Mus musculus
Mutation(s): No

Deposited: 2002-09-12 Released: 2002-09-19
Deposition Author(s): Pizarro, J.C., Vulliez-Le-normand, B., Riottot, M.M., Budkowska, A., Bentley, G.A.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.60 Å
R-Value Free:
0.291 (Depositor), 0.278 (DCC)
R-Value Work:
0.213 (Depositor), 0.203 (DCC)
R-Value Observed:
0.213 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.4 of the entry. See complete history.

Literature

Structural and Functional Characterisation of a Monoclonal Antibody Specific for the Pres1 Region of Hepatitis B Virus

Pizarro, J.C., Vulliez-Le-Normand, B., Riottot, M.M., Budkowska, A., Bentley, G.A.

(2001) FEBS Lett 509: 463

PubMed: 11749974 Search on PubMed
DOI: https://doi.org/10.1016/s0014-5793(01)03190-8
Primary Citation Related Structures:
1H3P

PubMed Abstract:
The monoclonal antibody 5a19, raised against the ay serotype of hepatitis B virus, binds to the segment of the preS1 region comprising residues 37-43, which is implicated in attachment of the virus to hepatocytes. The dissociation constant, derived from kinetic studies using surface plasmon resonance techniques, is in the low nanomolar range. The nucleotide sequence of the variable domains has been determined and the corresponding germ-line genes have been identified. The three-dimensional structure of the Fab fragment has been determined by X-ray crystallography to 2.6 A resolution.

Organizational Affiliation

Unité d' Immunologie Structurale, Institut Pasteur, Paris, France.

Macromolecule Content

Total Structure Weight: 49.81 kDa
Atom Count: 3,450
Modeled Residue Count: 435
Deposited Residue Count: 459
Unique protein chains: 2

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ANTIBODY FAB FRAGMENT	A [auth H]	219	Mus musculus	Mutation(s): 0
UniProt
Find proteins for Q65ZL8 (Mus musculus) Explore Q65ZL8 Go to UniProtKB: Q65ZL8
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q65ZL8
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
ANTIBODY FAB FRAGMENT	B [auth L]	240	Mus musculus	Mutation(s): 0
UniProt
Find proteins for Q52L64 (Mus musculus) Explore Q52L64 Go to UniProtKB: Q52L64
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q52L64
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.60 Å
R-Value Free: 0.291 (Depositor), 0.278 (DCC)
R-Value Work: 0.213 (Depositor), 0.203 (DCC)
R-Value Observed: 0.213 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 47.01	α = 90
b = 88.46	β = 90
c = 111.67	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	refinement
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2002-09-19

Deposition Author(s):

Pizarro, J.C.

Vulliez-Le-normand, B.

Riottot, M.M.

Budkowska, A.

Bentley, G.A.

This entry supersedes: 1GM3

Revision History (Full details and data files)

Version 1.0: 2002-09-19
Type: Initial release
Version 1.1: 2011-05-08
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2023-12-13
Changes: Data collection, Database references, Refinement description
Version 1.4: 2024-10-09
Changes: Structure summary