9DS3 | pdb_00009ds3

Crystal structure of Apo-241_2F04 Fab

PDB DOI: https://doi.org/10.2210/pdb9DS3/pdb

Classification: IMMUNE SYSTEM
Organism(s): Homo sapiens
Expression System: Cricetulus griseus
Mutation(s): No

Deposited: 2024-09-26 Released: 2025-10-01
Deposition Author(s): Lin, T.H., Wilson, I.A.
Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free:
0.234 (Depositor), 0.232 (DCC)
R-Value Work:
0.207 (Depositor), 0.206 (DCC)
R-Value Observed:
0.208 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Crystal structure of 05.GC.w13.02 Fab in complex with H1 HA from A/California/04/2009(H1N1)

Lin, T.H., Moore, N., Wilson, I.A., Ellebedy, A.H., Kleinstein, S.H., Ward, A.B., Turner, J.S., Krammer, F., Presti, P.M., Teefey, S.A., Middleton, W.D., Suessen, T., Hoehn, K., Schmitz, A.J., Zhou, J.Q., Mohammed, B.M., Msllsdi, S.K., Wnag, M., McMahon, M., Han, J., Kim, W., Meng, H., McIntire, K.M.

To be published.

Macromolecule Content

Total Structure Weight: 95.32 kDa
Atom Count: 7,424
Modeled Residue Count: 880
Deposited Residue Count: 882
Unique protein chains: 2

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
241_2F04, Heavy chain	A, C [auth B]	226	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
241_2F04, Light chain	B [auth I], D [auth C]	215	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free: 0.234 (Depositor), 0.232 (DCC)
R-Value Work: 0.207 (Depositor), 0.206 (DCC)
R-Value Observed: 0.208 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 151.95	α = 90
b = 117.973	β = 120.1
c = 93.428	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2025-10-01

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	75N93019C00051

Revision History (Full details and data files)

Version 1.0: 2025-10-01
Type: Initial release

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.