A Closer Look at Membrane Proteins by Dragana Robajac, Miloš Šunderić, Nikola Gligorijev - HTML preview

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ABBREVIATIONS

 

 

 

 

7TMIR

 

7-TM inverted repeat

ABC

 

ATP–binding cassette (transporter)

AbgT

 

p-Aminobenzoyl-glutamate transporter

ADP

 

Adenosine diphosphate

AMBER

 

Assisted model building with energy refinement

aMD

 

Accelerated molecular dynamics

AMP

 

Antimicrobial peptide

APC 

 

Amino acid-polyamine-organocation (transporter)

AQP

 

Aquaporin

ARM

 

Armadillo repeat motif

ATP

 

Adenosine triphosphate

BAF

 

Barrier-to-autointegration factor

BCA

 

Bicinchoninic acid

BCCT

 

Betaine-choline-carnitine-transporter

BD 

 

Brownian dynamics

BHK

 

Baby hamster kidney

cAMP

 

Cyclic adenosine monophosphate

CCCP

 

Carbonyl cyanide m-chlorophenyl hydrazone

CD 

 

Circular dichroism (spectroscopy)

CDG

 

Congenital disorders of glycosylation

CGMD

 

Coarse grained molecular dynamics

CHARMM 

Chemistry at Harvard Macromolecular Mechanics

 CMC  

Critical micellar concentration

 CMT  

Critical micellular concentration

CMM-CG 

Center for Molecular Modeling Coarse-Grained

 Co-IP  

Co-immunoprecipitation

 CT   

Cholera toxin

 DAPI  

4′,6-Diamidino-2-phenylindole

 DDM  

n-Dodecyl β-D-maltoside

 DEER  

Double electron-electron resonance (spectroscopy)

 DHA1  

Drug/H+ antiporter-1

 DinF  

DNA damage-inducible protein F

 DM   

Diabetes mellitus

 DMPC  

Dimyristoylphosphatidylcholine

 

DMT

 

Drug/metabolite transporter

DMSO

 

Dimethyl sulphoxide

DNA

 

Deoxyribonucleic acid

DPPC

 

Dipalmitoylphosphatidylcholine

DSSP

 

Define secondary structure of proteins

DXC

 

Deoxycholate

EC 

 

Extracellular

ECM

 

Extracellular matrix

EDTA

 

Ethylenediaminetetraacetic acid

EFPA

 

Enhancing functional protein accumulation

EGF

 

Epidermal growth factor

EM 

 

Electron microscopy

EMT

 

Epithelial–tesenchymal transition

ER 

 

Endoplasmic reticulum

EVB

 

Empirical valence bond

FOXO

 

Forkhead family box O (transcription factors)

FRAP

 

Fluorescence  recovery  after photobleaching

(microscopy)

FRB 

 

FKBP12/rapamycin-binding

FRET

 

Förster resonance energy transfer

FSM

 

Flexible surface model

GCMC

 

Grand canonical Monte Carlo

GDM

 

Gestational diabetes mellitus

GFP

 

Green fluorescent protein

GH 

 

Growth hormone

GLUT

 

Glucose transporter

gp210

 

Glycoprotein-210 (antibody)

GPCR

 

G–Protein coupled receptor

Grb2

 

Growth factor–bound protein 2

GROMOS 

GROningen MOlecular Simulation

GSK3 β   

Glycogen synthase kinase 3β

HILO

Highly  inclined  and  laminated optical  sheet

(microscopy)

HIV   

Human immunodeficiency virus

HLB  

Hydrophile-lipophile balance

HPr   

Heat-stable protein

HyR  

Hybrid receptor

IC   

Intracellular

 

IF 

 

Inward facing (conformation)

IGF 

 

Insulin-like growth factor

IGFBP

 

Insulin-like growth factor binding protein

IMAC

 

Immobilised metal affinity chromatography

IMP

 

Integral membrane protein

IPTG

 

Isopropyl β-D-1-thiogalactopyranoside

INM

 

Inner nuclear membrane

INM-SM

 

Inner nuclear membrane sorting motif

IR 

 

Insulin receptor

IRS 

 

Insulin receptor substrate

IUGR

 

Intrauterine growth restriction

KEGG

 

Kyoto Encyclopedia of Genes and Genomes

KASH 

 

Klarsicht, ANC-1, syne homology

LB 

 

Luria-Bertani  

LBR

 

Lamin B receptor

LDAO

 

Lauryldimethylamine oxide

LEM

 

Lamin-associated protein [LAP]2, emerin, MAN1

MATE

 

Multidrug and toxic compound extrusion

MD 

 

Molecular dynamics

MDR1

 

Multidrug resistance protein 1

MES

 

2-(N-Morpholino)ethanesulfonic acid

MFS

 

Major facilitator superfamily

MMP

 

Matrix metalloproteinase

MRE

 

Mean residue ellipiticity

MS-CG

 

Multiscale coarse grained

MtlA

 

Mannitol-specific enzyme IICBA

MtlD

 

Mannitol-1-phosphate dehydrogenase

MWCO

 

Molecular weight cut off

NAT

 

Nucleobase ascorbate transporter

NBD

 

Nucleotide binding domain

NCS1

 

Nucleobase-cation-symporter 1

NE 

 

Nuclear envelope

NETs

 

Nuclear envelope pransmembrane proteins

NLS

 

Nuclear localization signal

NMR

 

Nuclear magnetic resonance

NPC

 

Nuclear pore complexes

NSS

 

Neurotransmitter sodium symporter

Nup

 

Nucleoporin

 

ODV

 

Occlusion derived virus

OF 

 

Outward facing (conformation)

OHS

 

Oligosaccharide/H+ symporter

ONM

 

Outer nuclear membrane

PACE

 

Proteobacterial antimicrobial compound efflux

PBC

 

Periodic boundary conditions

PC 

 

Phosphatidylcholine

PCR

 

Polymerase chain reaction

PDB

 

Protein Data Bank

PE 

 

Preeclampsia

PEP

 

Phosphoenol pyruvate

PG 

 

Phosphatidylglycerol

POPE

 

1-Palmitoyl-2-oleoyl-sn-glycero-3phosphatidylethanolamine

PTEN

 

Phosphatase and tensin

PTM

 

Post–translational modification

PTS

 

Phosphoenolpyruvate-dependent phospotransferase

QM 

 

Quantum mechanical

RDF

 

Radial distribution functions

RMSF 

 

Root mean square fluctuations

RNAi

 

RNA interference

RND

 

Resistance-nodulation-division

ROS

 

Reactive oxygen species

S6K

 

S6 kinase

SAXS

 

Small-angle X-ray scattering

SBGP

 

Single binding center gated (model)

SDS

 

Sodium dodecyl sulphate

SDS-PAGE

Sodium  dodecyl  sulphate  polyacrylamide gel electrophoresis

SHC  

Src homology collagen

SMA  

Styrene maleic acid

SMALP  

Styrene maleic acid lipid particle

smFRAP

Single-molecul