OCA Atlas for 5YMS

5YMS

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

ligand

A2G, GAL, NAG

enzyme

Gene
Ontology

Chain	Function	Process	Component
B, F, G, H, D, A, C, E

Primary reference

Glycan Binding Specificity and Mechanism of Human and Porcine P[6]/P[19] Rotavirus VP8*s., Sun X, Li D, Qi J, Chai W, Wang L, Wang L, Peng R, Wang H, Zhang Q, Pang L, Kong X, Wang H, Jin M, Gao GF, Duan Z, J Virol. 2018 May 2. pii: JVI.00538-18. doi: 10.1128/JVI.00538-18. PMID:29720519

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (444 Kb) [Save to disk]

Biological Unit Coordinates (5yms.pdb1.gz) 59 Kb

Biological Unit Coordinates (5yms.pdb2.gz) 59 Kb

Biological Unit Coordinates (5yms.pdb3.gz) 58 Kb

Biological Unit Coordinates (5yms.pdb4.gz) 58 Kb

Biological Unit Coordinates (5yms.pdb5.gz) 58 Kb

Biological Unit Coordinates (5yms.pdb6.gz) 59 Kb

Biological Unit Coordinates (5yms.pdb7.gz) 58 Kb

Biological Unit Coordinates (5yms.pdb8.gz) 59 Kb

LPC: Ligand-Protein Contacts for 5YMS

CSU: Contacts of Structural Units for 5YMS

Structure Factors (1551 Kb)

Retrieve 5YMS in mmCIF format [Save to disk]

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

View 5YMS 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: [5yms_A] [5yms_B] [5yms_C] [5yms_D] [5yms_E] [5yms_F] [5yms_G] [5yms_H]

SWISS-PROT database:

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