2A77 | pdb_00002a77

Anti-Cocaine Antibody 7.5.21, Crystal Form II

PDB DOI: https://doi.org/10.2210/pdb2A77/pdb

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

Deposited: 2005-07-04 Released: 2005-07-12
Deposition Author(s): Pozharski, E., Hewagama, A., Shanafelt, A., Ringe, D., Petsko, G.A.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free:
0.263 (Depositor), 0.262 (DCC)
R-Value Work:
0.218 (Depositor), 0.216 (DCC)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.5 of the entry. See complete history.

Literature

Flexibility of Packing: Four Crystal Forms of an Anti-Cocaine Antibody 7.5.21

Pozharski, E., Hewagama, A., Shanafelt, A., Ringe, D., Petsko, G.A.

To be published.

Macromolecule Content

Total Structure Weight: 48.98 kDa
Atom Count: 3,755
Modeled Residue Count: 433
Deposited Residue Count: 438
Unique protein chains: 2

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Immunoglobulin Light Chain	A [auth L]	216	Mus musculus	Mutation(s): 0

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Immunoglobulin Heavy Chain	B [auth H]	222	Mus musculus	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain J [auth H] SDF format, chain I [auth H] SDF format, chain H SDF format, chain E [auth L] SDF format, chain D [auth L] SDF format, chain C [auth L] MOL2 format, chain J [auth H] MOL2 format, chain I [auth H] MOL2 format, chain H MOL2 format, chain E [auth L] MOL2 format, chain D [auth L] MOL2 format, chain C [auth L] mmCIF format, chain J [auth H] mmCIF format, chain I [auth H] mmCIF format, chain H mmCIF format, chain E [auth L] mmCIF format, chain D [auth L] mmCIF format, chain C [auth L]	C [auth L] D [auth L] E [auth L] H I [auth H] C [auth L], D [auth L], E [auth L], H, I [auth H], J [auth H]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain C [auth L] Focus chain D [auth L] Focus chain E [auth L] Focus chain H Focus chain I [auth H] Focus chain J [auth H] Interactions & Density Focus chain C [auth L] Focus chain D [auth L] Focus chain E [auth L] Focus chain H Focus chain I [auth H] Focus chain J [auth H]
GOL Query on GOL Download:Ideal Coordinates CCD File SDF format, chain O [auth H] SDF format, chain N [auth H] SDF format, chain M [auth H] SDF format, chain L [auth H] SDF format, chain K [auth H] SDF format, chain G [auth L] SDF format, chain F [auth L] MOL2 format, chain O [auth H] MOL2 format, chain N [auth H] MOL2 format, chain M [auth H] MOL2 format, chain L [auth H] MOL2 format, chain K [auth H] MOL2 format, chain G [auth L] MOL2 format, chain F [auth L] mmCIF format, chain O [auth H] mmCIF format, chain N [auth H] mmCIF format, chain M [auth H] mmCIF format, chain L [auth H] mmCIF format, chain K [auth H] mmCIF format, chain G [auth L] mmCIF format, chain F [auth L]	F [auth L] G [auth L] K [auth H] L [auth H] M [auth H] F [auth L], G [auth L], K [auth H], L [auth H], M [auth H], N [auth H], O [auth H]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain F [auth L] Focus chain G [auth L] Focus chain K [auth H] Focus chain L [auth H] Focus chain M [auth H] Focus chain N [auth H] Focus chain O [auth H] Interactions & Density Focus chain F [auth L] Focus chain G [auth L] Focus chain K [auth H] Focus chain L [auth H] Focus chain M [auth H] Focus chain N [auth H] Focus chain O [auth H]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.263 (Depositor), 0.262 (DCC)
R-Value Work: 0.218 (Depositor), 0.216 (DCC)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 112.41	α = 90
b = 81.857	β = 112.09
c = 61.608	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
AMoRE	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2005-07-12

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2005-07-12
Type: Initial release
Version 1.1: 2008-04-30
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Advisory, Version format compliance
Version 1.3: 2017-10-11
Changes: Refinement description
Version 1.4: 2023-08-23
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.5: 2024-10-30
Changes: Structure summary