OCA Atlas for 1AD0

1AD0

Immunoglobulin

date

Feb 19, 1997

title

Fab Fragment Of Engineered Human Monoclonal Antibody A5b7

authors

M.J.Banfield, R.L.Brady

compound

source

Molecule: Antibody A5b7 (Light Chain)
Chain: A, C
Fragment: Fab Fragment
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Mus Musculus
Expression_system_common: House Mouse
Expression_system_taxid: 10090
Expression_system_cell: Nso Cells

Molecule: Antibody A5b7 (Heavy Chain)
Chain: B, D
Fragment: Fab Fragment
Engineered: Yes

symmetry

Space Group: P 1

R_factor

0.209

R_Free

0.262

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
48.310	66.270	81.380	69.88	82.48	71.34

method

X-Ray Diffraction

resolution

2.50 Å

related structures

by homologous chain: 1GC1, 1M7I, 1NMB, 1Y0L

Primary reference

VL:VH domain rotations in engineered antibodies: crystal structures of the Fab fragments from two murine antitumor antibodies and their engineered human constructs., Banfield MJ, King DJ, Mountain A, Brady RL, Proteins 1997 Oct;29(2):161-71. PMID:9329081

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (138 Kb) [Save to disk]

Biological Unit Coordinates (1ad0.pdb1.gz) 69 Kb

Biological Unit Coordinates (1ad0.pdb2.gz) 68 Kb

CSU: Contacts of Structural Units for 1AD0

Likely Quarternary Molecular Structure file(s) for 1AD0

Structure Factors (457 Kb)

Retrieve 1AD0 in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 1AD0 from S2C, [Save to disk]

Re-refined 1ad0 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1AD0 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.

Visual 3D analysis of 1AD0

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

3D motif for 1AD0, from MSDmotif at EBI

Genome occurence of 1AD0's fold from GeneCensus

Classification of representative domains in scop (Structural Classification of Proteins)
- Domain d1ad0a1, region A:1-107 [Jmol] [rasmolscript] [script source]
- Domain d1ad0a2, region A:108-213 [Jmol] [rasmolscript] [script source]
- Domain d1ad0b1, region B:1-113 [Jmol] [rasmolscript] [script source]
- Domain d1ad0b2, region B:114-211 [Jmol] [rasmolscript] [script source]
- Domain d1ad0c1, region C:1-107 [Jmol] [rasmolscript] [script source]
- Domain d1ad0c2, region C:108-213 [Jmol] [rasmolscript] [script source]
- Domain d1ad0d1, region D:1-113 [Jmol] [rasmolscript] [script source]
- Domain d1ad0d2, region D:114-211 [Jmol] [rasmolscript] [script source]

Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH

Summaries and structural analyses of PDB data files from PDBSum

Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1ad0_D] [1ad0] [1ad0_B] [1ad0_A] [1ad0_C]

SWISS-PROT database:

Domain organization of by SWISSPFAM

Domains found in 1AD0: [IG_like] [IGv ] by SMART

Other resources with information on 1AD0

Community annotation for 1AD0 at PDBWiki (http://pdbwiki.org)

MMDB (Entrez's Structure Database)

Movements, Movies and Images

Domain movements in 1AD0 from the Database of Macromolecular Movements.

Images from IMB Jena Image Library of Biological Macromolecules.

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