- PDB-5kiu: VCP-interacting membrane protein (VIMP) -
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Open data
ID or keywords:
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Basic information
Entry
Database: PDB / ID: 5kiu
Title
VCP-interacting membrane protein (VIMP)
Components
Selenoprotein S
Keywords
MEMBRANE PROTEIN / p97 adaptor protein / VCP-interacting membrane protein / VIMP
Function / homology
Function and homology information
regulation of nitric oxide metabolic process / negative regulation of acute inflammatory response to antigenic stimulus / Derlin-1-VIMP complex / negative regulation of macrophage apoptotic process / negative regulation of glycogen biosynthetic process / negative regulation of nitric-oxide synthase biosynthetic process / very-low-density lipoprotein particle / negative regulation of glucose import / low-density lipoprotein particle / Derlin-1 retrotranslocation complex ...regulation of nitric oxide metabolic process / negative regulation of acute inflammatory response to antigenic stimulus / Derlin-1-VIMP complex / negative regulation of macrophage apoptotic process / negative regulation of glycogen biosynthetic process / negative regulation of nitric-oxide synthase biosynthetic process / very-low-density lipoprotein particle / negative regulation of glucose import / low-density lipoprotein particle / Derlin-1 retrotranslocation complex / response to redox state / retrograde protein transport, ER to cytosol / regulation of gluconeogenesis / ER overload response / ubiquitin-specific protease binding / cytoplasmic microtubule / antioxidant activity / negative regulation of interleukin-6 production / negative regulation of tumor necrosis factor production / negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway / response to glucose / ERAD pathway / endoplasmic reticulum unfolded protein response / cell redox homeostasis / establishment of protein localization / negative regulation of inflammatory response / cellular response to insulin stimulus / E3 ubiquitin ligases ubiquitinate target proteins / signaling receptor activity / cellular response to oxidative stress / ATPase binding / cellular response to lipopolysaccharide / endoplasmic reticulum membrane / enzyme binding / endoplasmic reticulum / plasma membrane Similarity search - Function
Single alpha-helices involved in coiled-coils or other helix-helix interfaces - #2950 / Selenoprotein S / Selenoprotein S (SelS) / Single alpha-helices involved in coiled-coils or other helix-helix interfaces / Helix non-globular / Special Similarity search - Domain/homology
Resolution: 2.2→60.58 Å / Cor.coef. Fo:Fc: 0.962 / Cor.coef. Fo:Fc free: 0.944 / SU B: 17.438 / SU ML: 0.207 / Cross valid method: THROUGHOUT / ESU R: 0.323 / ESU R Free: 0.231 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
Rfactor
Num. reflection
% reflection
Selection details
Rfree
0.24434
173
4.5 %
RANDOM
Rwork
0.18576
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obs
0.1885
3681
97.15 %
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Solvent computation
Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK