OCA Atlas for 4D0M

4D0M

Phosphatidylinositol 4-kinase III beta in a complex with Rab11a-GTP- gamma-S and the Rab-binding domain of FIP3

date

authors

Burke, J.E., Inglis, A.J., Perisic, O., Masson, G.R., McLaughlin, S.H., Rutaganira, F., Shokat, K.M., Williams, R.L.

compound

source

symmetry

R_factor

R_Free

0.35946

crystal
cell

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

method

X-Ray Diffraction

resolution

6.00

ligand

093, GSP, MG

enzyme

Gene
Ontology

Chain	Function	Process	Component
S, Y, g, W, c, I, G, Q, M, C, A, O
T, N, d, Z, J, B, H, D, h, X, P, R
a, K, E, j, e, b, U, F, V, L, f, i

Primary reference

Structures of PI4KIIIbeta complexes show simultaneous recruitment of Rab11 and its effectors., Burke JE, Inglis AJ, Perisic O, Masson GR, McLaughlin SH, Rutaganira F, Shokat KM, Williams RL, Science. 2014 May 30;344(6187):1035-8. doi: 10.1126/science.1253397. PMID:24876499

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1365 Kb) [Save to disk]

Biological Unit Coordinates (4d0m.pdb1.gz) 458 Kb

Biological Unit Coordinates (4d0m.pdb2.gz) 459 Kb

Biological Unit Coordinates (4d0m.pdb3.gz) 458 Kb

LPC: Ligand-Protein Contacts for 4D0M

CSU: Contacts of Structural Units for 4D0M

Structure Factors (868 Kb)

Retrieve 4D0M in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 4D0M from S2C, [Save to disk]

Re-refined 4d0m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 4D0M 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 4D0M

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute

3D motif for 4D0M, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [4d0m_R] [4d0m_Z] [4d0m_a] [4d0m_V] [4d0m_e] [4d0m_J] [4d0m_c] [4d0m_i] [4d0m_g] [4d0m_f] [4d0m_O] [4d0m_A] [4d0m_K] [4d0m_E] [4d0m_M] [4d0m_P] [4d0m_Y] [4d0m_d] [4d0m_B] [4d0m_C] [4d0m_H] [4d0m_X] [4d0m_I] [4d0m_F] [4d0m_W] [4d0m_b] [4d0m_G] [4d0m_N] [4d0m_S] [4d0m_h] [4d0m_Q] [4d0m_L] [4d0m_j] [4d0m_T] [4d0m] [4d0m_U] [4d0m_D]

SWISS-PROT database:

Domain organization of by SWISSPFAM

Domains found in 4D0M: [PI3Kc] [RAB ] by SMART

Other resources with information on 4D0M

Community annotation for 4D0M at PDBWiki (http://pdbwiki.org)

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