A. Lomize

发表

engineering data for buried residues Interatomic potentials and solvation parameters from protein data

M. Reibarkh, A. Lomize, I. Pogozheva, 2002 .

Interatomic potentials and solvation parameters from protein engineering data for buried residues

M. Reibarkh, A. Lomize, I. Pogozheva, 2002, Protein science : a publication of the Protein Society.

Positioning of proteins in membranes: A computational approach

Andrei L Lomize, Irina D Pogozheva, Mikhail A. Lomize, 2006, Protein science : a publication of the Protein Society.

Life at the border: Adaptation of proteins to anisotropic membrane environment

A. Lomize, I. Pogozheva, H. Mosberg, 2014, Protein science : a publication of the Protein Society.

The role of hydrophobic interactions in positioning of peripheral proteins in membranes

Andrei L Lomize, Irina D Pogozheva, Mikhail A. Lomize, 2007, BMC Structural Biology.

Evolution and adaptation of single-pass transmembrane proteins.

A. Lomize, I. Pogozheva, 2018, Biochimica et biophysica acta. Biomembranes.

Quantification of helix–helix binding affinities in micelles and lipid bilayers

Andrei L Lomize, A. Lomize, I. Pogozheva, 2004, Protein science : a publication of the Protein Society.

Solvation models and computational prediction of orientations of peptides and proteins in membranes.

A. Lomize, I. Pogozheva, 2013, Methods in molecular biology.

The contribution of surface residues to membrane binding and ligand transfer by the α-tocopherol transfer protein (α-TTP).

Varsha Thakur, Danny Manor, Andrei L. Lomize, 2011, Journal of molecular biology.

Membrane topology of the colicin E1 channel using genetically encoded fluorescence.

A. Lomize, I. Pogozheva, Derek Ho, 2011, Biochemistry.

Opioid receptor three-dimensional structures from distance geometry calculations with hydrogen bonding constraints.

A. Lomize, I. Pogozheva, H. Mosberg, 1998, Biophysical journal.

Bmc Structural Biology

Andrei L Lomize, Irina D Pogozheva, Mikhail A. Lomize, 2022 .

Development of a model for the delta-opioid receptor pharmacophore: 3. Comparison of the cyclic tetrapeptide, Tyr-c[D-Cys-Phe-D-Pen]OH with other conformationally constrained delta-receptor selective ligands.

A. Lomize, I. Pogozheva, H. Mosberg, 1998, Biopolymers.

Antimicrobial Action of the Cyclic Peptide Bactenecin on Burkholderia pseudomallei Correlates with Efficient Membrane Permeabilization

A. Lomize, S. Daduang, S. Taweechaisupapong, 2013, PLoS neglected tropical diseases.

Prediction of protein structure: The problem of fold multiplicity

A. Lomize, I. Pogozheva, H. Mosberg, 1999, Proteins.

Pharmacophore elements of the TIPP class of delta opioid receptor antagonists

A. Lomize, H. Mosberg, C. Mousigian, 1994, Letters in Peptide Science.

Development of a model for the delta opioid receptor pharmacophore. 1. Conformationally restricted Tyr1 replacements in the cyclic delta receptor selective tetrapeptide Tyr-c[D-Cys-Phe-D-Pen]OH (JOM-13).

A. Lomize, H. Mosberg, F. Porreca, 1994, Journal of medicinal chemistry.

Development of a model for the delta-opioid receptor pharmacophore. 4. Residue 3 dehydrophenylalanine analogues of Tyr-c[D-Cys-Phe-D-Pen]OH (JOM-13) confirm required gauche orientation of aromatic side chain.

A. Lomize, I. Pogozheva, H. Mosberg, 1998, Biopolymers.

Membranome 3.0: Database of single‐pass membrane proteins with AlphaFold models

C. Deane, C. Outeiral, A. Lomize, 2022, Protein science : a publication of the Protein Society.

Cytotoxic potency of small macrocyclic knot proteins: structure-activity and mechanistic studies of native and chemically modified cyclotides.

A. Lomize, U. Göransson, J. Gullbo, 2011, Organic & biomolecular chemistry.

Two-dimensional 1H-NMR study of the spatial structure of neurotoxin II from Naja naja oxiana.

A. Arseniev, A. Lomize, V. Tsetlin, 1993, European journal of biochemistry.

2D-NMR FOR 3D-STRUCTURE OF MEMBRANE SPANNING POLYPEPTIDES: Gramacidin A and Fragments of Bacteriorhodopsin

A. Arseniev, A. Lomize, A. Golovanov, 1991 .

Interactions of human melanocortin 4 receptor with nonpeptide and peptide agonists.

M. Mulholland, A. Lomize, I. Pogozheva, 2005, Biochemistry.

Identification of unified coordinate frameworks for antiparallel and parallel helix to helix packing in peptides and proteins

A. Lomize, 1994 .

Anisotropic Solvent Model of the Lipid Bilayer. 2. Energetics of Insertion of Small Molecules, Peptides, and Proteins in Membranes

Andrei L. Lomize, Irina D. Pogozheva, Henry I. Mosberg, 2011, J. Chem. Inf. Model..

OPM database and PPM web server: resources for positioning of proteins in membranes

Hyeon Joo, Andrei L. Lomize, Irina D. Pogozheva, 2011, Nucleic Acids Res..

Structure of the first representative of Pfam family PF09410 (DUF2006) reveals a structural signature of the calycin superfamily that suggests a role in lipid metabolism

Slawomir K. Grzechnik, Mitchell D. Miller, A. Godzik, 2009, Acta crystallographica. Section F, Structural biology and crystallization communications.

1H‐NMR study of gramicidin A transmembrane ion channel

Y. Ovchinnikov, A. Arseniev, A. Lomize, 1985, FEBS letters.

TMPfold: a web tool for predicting stability of transmembrane α-helix association.

A. Lomize, I. Pogozheva, K. Schnitzer, 2020, Journal of molecular biology.

Carnitine palmitoyltransferase 2: Analysis of membrane association and complex structure with a substrate analog

A. Rufer, M. Hennig, R. Thoma, 2007, FEBS letters.

The transmembrane 7-alpha-bundle of rhodopsin: distance geometry calculations with hydrogen bonding constraints.

A. Lomize, I. Pogozheva, H. Mosberg, 1997, Biophysical journal.

Open and closed conformations of two SpoIIAA-like proteins (YP_749275.1 and YP_001095227.1) provide insights into membrane association and ligand binding

Mitchell D. Miller, A. Godzik, A. Deacon, 2009, Acta crystallographica. Section F, Structural biology and crystallization communications.

Membranome: a database for proteome-wide analysis of single-pass membrane proteins

Andrei L. Lomize, Irina D. Pogozheva, Mikhail A. Lomize, 2016, Nucleic Acids Res..

[Refinement of the spatial structure of the gramicidin A ion channel].

A. Lomize, V. Orekhov, A. S. Arsen’ev, 1994, Bioorganicheskaia khimiia.

Conformational Analysis of the δ Receptor-Selective, Cyclic Opioid Peptide, Tyr-cyclo[D-Cys-Phe-D-Pen]OH (JOM-13). Comparison of X-ray Crystallographic Structures, Molecular Mechanics Simulations, and 1H NMR Data

Andrei L. Lomize, Henry I. Mosberg, Judith L. Flippen-Anderson, 1994 .

Comparative Molecular Dynamics Simulation Studies of Realistic Eukaryotic, Prokaryotic, and Archaeal Membranes

W. Im, A. Lomize, I. Pogozheva, 2022, J. Chem. Inf. Model..

Membranome 2.0: database for proteome‐wide profiling of bitopic proteins and their dimers

Andrei L. Lomize, Irina D. Pogozheva, Jacob M. Hage, 2018, Bioinform..

OPM: Orientations of Proteins in Membranes database

Andrei L. Lomize, Irina D. Pogozheva, Henry I. Mosberg, 2006, Bioinform..

Anisotropic Solvent Model of the Lipid Bilayer. 1. Parameterization of Long-Range Electrostatics and First Solvation Shell Effects

Andrei L. Lomize, Irina D. Pogozheva, Henry I. Mosberg, 2011, J. Chem. Inf. Model..

Structural adaptations of proteins to different biological membranes.

A. Lomize, I. Pogozheva, S. Tristram-Nagle, 2013, Biochimica et biophysica acta.

Spatial arrangement of proteins in planar and curved membranes by PPM 3.0

A. Lomize, I. Pogozheva, Spencer C. Todd, 2021, Protein science : a publication of the Protein Society.

Thermodynamic model of secondary structure for α-helical peptides and proteins

A. Lomize, H. Mosberg, 1997 .

Physics-Based Method for Modeling Passive Membrane Permeability and Translocation Pathways of Bioactive Molecules

Andrei L Lomize, Irina D Pogozheva, A. Lomize, 2019, J. Chem. Inf. Model..

Structural organization of G-protein-coupled receptors

Andrei L. Lomize, Irina D. Pogozheva, Henry I. Mosberg, 1999, J. Comput. Aided Mol. Des..

Structural bioinformatics OPM : Orientations of Proteins in Membranes database

Andrei L. Lomize, Irina D. Pogozheva, Henry I. Mosberg, 2006 .

PerMM: A Web Tool and Database for Analysis of Passive Membrane Permeability and Translocation Pathways of Bioactive Molecules

Andrei L Lomize, Jacob M Hage, Kevin Schnitzer, 2019, J. Chem. Inf. Model..

Three-dimensional structure of proteolytic fragment 163-231 of bacterioopsin determined from nuclear magnetic resonance data in solution.

D. Nolde, A. Arseniev, A. Lomize, 1992, European journal of biochemistry.

Thermodynamics-Based Molecular Modeling of α-Helices in Membranes and Micelles

A. Lomize, I. Pogozheva, K. Schnitzer, 2021, J. Chem. Inf. Model..

Complex of an active mu-opioid receptor with a cyclic peptide agonist modeled from experimental constraints.

H. Levine, A. Lomize, I. Pogozheva, 2004, Biochemistry.

Community-wide assessment of GPCR structure modelling and ligand docking: GPCR Dock 2008

Charles L. Brooks, Adrian W. R. Serohijos, John Moult, 2009, Nature Reviews Drug Discovery.

Structural modeling of cytokine-receptor-JAK2 signaling complexes using AlphaFold Multimer

W. Im, A. Lomize, I. Pogozheva, 2023, bioRxiv.

TMDOCK: An Energy-Based Method for Modeling α-Helical Dimers in Membranes.

Andrei L Lomize, Irina D Pogozheva, A. Lomize, 2017, Journal of molecular biology.

The 2D NMR of Single and Double Stranded Helixes of Gramicidin A in Micelles and Solutions

A. Arseniev, A. Lomize, I. Barsukov, 1987 .

The role of hydrophobic interactions in positioning of peripheral proteins in membranes

Mikhail A. Lomize, A. Lomize, I. Pogozheva, 2007, BMC Structural Biology.

Cytotoxic potency of small macrocyclic knot proteins: structure-activity and mechanistic studies of native and chemically modified cyclotides.

A. Lomize, U. Göransson, J. Gullbo, 2011, Organic & biomolecular chemistry.

Carnitine palmitoyltransferase 2: Analysis of membrane association and complex structure with a substrate analog

A. Rufer, M. Hennig, R. Thoma, 2007, FEBS letters.