OCA Atlas for 5CD3

5CD3

date

authors

compound

source

symmetry

R_factor

R_Free

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma

method

X-Ray Diffraction

resolution

Primary reference

Key gp120 Glycans Pose Roadblocks to the Rapid Development of VRC01-Class Antibodies in an HIV-1-Infected Chinese Donor., Kong L, Ju B, Chen Y, He L, Ren L, Liu J, Hong K, Su B, Wang Z, Ozorowski G, Ji X, Hua Y, Chen Y, Deller MC, Hao Y, Feng Y, Garces F, Wilson R, Dai K, O'Dell S, McKee K, Mascola JR, Ward AB, Wyatt RT, Li Y, Wilson IA, Zhu J, Shao Y, Immunity. 2016 Apr 19;44(4):939-50. doi: 10.1016/j.immuni.2016.03.006. Epub 2016 , Apr 5. PMID:27067056

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (267 Kb) [Save to disk]

Biological Unit Coordinates (5cd3.pdb1.gz) 69 Kb

Biological Unit Coordinates (5cd3.pdb2.gz) 70 Kb

Biological Unit Coordinates (5cd3.pdb3.gz) 70 Kb

Biological Unit Coordinates (5cd3.pdb4.gz) 70 Kb

CSU: Contacts of Structural Units for 5CD3

Structure Factors (691 Kb)

Retrieve 5CD3 in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 5CD3 from S2C, [Save to disk]

Re-refined 5cd3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5CD3 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.

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5cd3] [5cd3_A] [5cd3_B] [5cd3_C] [5cd3_D] [5cd3_E] [5cd3_F] [5cd3_G] [5cd3_H]

SWISS-PROT database:

Domains found in 5CD3: [IG_like] [IGv ] by SMART

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