3CMO | pdb_00003cmo

HIV neutralizing monoclonal antibody YZ18

PDB DOI: https://doi.org/10.2210/pdb3CMO/pdb

Classification: IMMUNE SYSTEM
Organism(s): Mus musculus
Mutation(s): No

Deposited: 2008-03-24 Released: 2008-08-05
Deposition Author(s): Jin, L., Prasad, V., Paul, S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free:
0.287 (Depositor), 0.286 (DCC)
R-Value Work:
0.248 (Depositor), 0.247 (DCC)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

HIV neutralizing monoclonal antibody YZ18

Jin, L., Prasad, V., Paul, S.

To be published.

Macromolecule Content

Total Structure Weight: 94.41 kDa
Atom Count: 6,720
Modeled Residue Count: 863
Deposited Residue Count: 864
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fab light chain	A [auth L], C [auth X]	210	Mus musculus	Mutation(s): 0
UniProt
Find proteins for I6L991 (Mus musculus) Explore I6L991 Go to UniProtKB: I6L991
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	I6L991
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Fab heavy chain	B [auth H], D [auth Y]	222	Mus musculus	Mutation(s): 0
UniProt
Find proteins for P01865 (Mus musculus) Explore P01865 Go to UniProtKB: P01865
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P01865
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free: 0.287 (Depositor), 0.286 (DCC)
R-Value Work: 0.248 (Depositor), 0.247 (DCC)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 75.65	α = 90
b = 69.94	β = 94.93
c = 84.36	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
d*TREK	data reduction
d*TREK	data scaling
CNS	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2008-08-05

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2008-08-05
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2017-10-25
Changes: Refinement description
Version 1.3: 2023-08-30
Changes: Data collection, Database references, Refinement description
Version 1.4: 2024-10-30
Changes: Structure summary

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.