List of works - Sriram Subramaniam

1.8 Å resolution structure of β-galactosidase with a 200 kV CRYO ARM electron microscope

scientific article published on 11 June 2020

2.2 Å resolution cryo-EM structure of β-galactosidase in complex with a cell-permeant inhibitor

scientific article published on 7 May 2015

2.3 Å resolution cryo-EM structure of human p97 and mechanism of allosteric inhibition

scientific article

3D imaging of diatoms with ion-abrasion scanning electron microscopy

scientific article published on 06 March 2009

3D imaging of mammalian cells with ion-abrasion scanning electron microscopy

scientific article

3D visualization of HIV transfer at the virological synapse between dendritic cells and T cells

scientific article

A 3D cellular context for the macromolecular world.

scientific article

A Tail-Based Mechanism Drives Nucleosome Demethylation by the LSD2/NPAC Multimeric Complex

scientific article published on 01 April 2019

A coiled-coil-repeat protein 'Ccrp' in Bdellovibrio bacteriovorus prevents cellular indentation, but is not essential for vibroid cell morphology.

scientific article

A collaborative framework for 3D alignment and classification of heterogeneous subvolumes in cryo-electron tomography.

scientific article

A core-weighted fitting method for docking atomic structures into low-resolution maps: application to cryo-electron microscopy.

scientific article published on January 2003

A versatile nano display platform from bacterial spore coat proteins

scientific article

Activation and regeneration of rhodopsin in the insect visual cycle.

scientific article published in November 1994

Adult-onset leukoencephalopathy with neuroaxonal spheroids and pigmented glia: report of five cases and a new mutation.

scientific article

An energy-based three-dimensional segmentation approach for the quantitative interpretation of electron tomograms

scientific article

Atomic Resolution Cryo-EM Structure of β-Galactosidase.

scientific article published on 10 May 2018

Automated 100-position specimen loader and image acquisition system for transmission electron microscopy

scientific article

Automated data collection with a Tecnai 12 electron microscope: applications for molecular imaging by cryomicroscopy.

scientific article

Automated image acquisition and processing using a new generation of 4K x 4K CCD cameras for cryo electron microscopic studies of macromolecular assemblies.

scientific article published in August 2003

Automated methods for 3D Segmentation of Focused Ion Beam-Scanning Electron Microscopic Images

Biochemical and structural analyses reveal that the tumor suppressor neurofibromin (NF1) forms a high-affinity dimer

scientific article published on 13 December 2019

Breaking Cryo-EM Resolution Barriers to Facilitate Drug Discovery.

scientific article

Bridging the imaging gap: visualizing subcellular architecture with electron tomography

scientific article

Broadly protective murine monoclonal antibodies against influenza B virus target highly conserved neuraminidase epitopes.

scientific article

Building bridges between cellular and molecular structural biology

scientific article

CCD detectors in high-resolution biological electron microscopy.

scientific article

COVID-19 and cryo-EM

scientific article published on 02 July 2020

Catching HIV 'in the act' with 3D electron microscopy

scientific article

Cell surface filaments of the gliding bacterium Flavobacterium johnsoniae revealed by cryo-electron tomography

scientific article

Chemical mapping of mammalian cells by atom probe tomography.

scientific article

Chemoreceptors in Caulobacter crescentus: trimers of receptor dimers in a partially ordered hexagonally packed array.

scientific article published on 08 August 2008

Chemotaxis kinase CheA is activated by three neighbouring chemoreceptor dimers as effectively as by receptor clusters

scientific article

Classification and 3D averaging with missing wedge correction in biological electron tomography

scientific article published on 21 March 2008

Comparative study of the presence of Chlamydia pneumoniae in cerebrospinal fluid of Patients with clinically definite and monosymptomatic multiple sclerosis

scientific article

Complexes of neutralizing and non-neutralizing affinity matured Fabs with a mimetic of the internal trimeric coiled-coil of HIV-1 gp41

scientific article (publication date: 2013)

Compositional Mapping of the Surface and Interior of Mammalian Cells at Submicrometer Resolution ⬇️

scientific article published on January 26, 2011

Computational separation of conformational heterogeneity using cryo-electron tomography and 3D sub-volume averaging

scientific article

Correlative 3D imaging of whole mammalian cells with light and electron microscopy.

scientific article published on September 2011

Cryo-EM Analysis of the Conformational Landscape of Human P-glycoprotein (ABCB1) During its Catalytic Cycle.

scientific article

Cryo-EM Structures Reveal Mechanism and Inhibition of DNA Targeting by a CRISPR-Cas Surveillance Complex

scientific article published on October 2017

Cryo-EM Structures of the Magnesium Channel CorA Reveal Symmetry Break upon Gating.

scientific article

Cryo-EM of viruses and vaccine design

scientific article

Cryo-EM structure of a dimeric B-Raf:14-3-3 complex reveals asymmetry in the active sites of B-Raf kinases

scientific article published on 19 September 2019

Cryo-EM structure of human rhodopsin bound to an inhibitory G protein

scientific article published in Nature

Cryo-EM structure of the bacteriophage T4 portal protein assembly at near-atomic resolution

scientific article published on 6 July 2015

Cryo-EM structures reveal coordinated domain motions that govern DNA cleavage by Cas9

scientific article published on 08 July 2019

Cryo-EM: beyond the microscope.

scientific article

Cryo-electron Microscopy Structures of Chimeric Hemagglutinin Displayed on a Universal Influenza Vaccine Candidate.

scientific article published on 22 March 2016

Cryo-electron microscopy--a primer for the non-microscopist

scientific article

Cryo-electron tomography of bacteria: progress, challenges and future prospects.

scientific article

Cryoelectron tomographic analysis of an HIV-neutralizing protein and its complex with native viral gp120

scientific article published on 28 June 2007

Data management challenges in three-dimensional EM.

scientific article

Deep-learning-assisted Volume Visualization

scientific article published on 22 January 2018

Defective structural RNA processing in relapsing-remitting multiple sclerosis

scientific article

Derivation of neural stem cells from human adult peripheral CD34+ cells for an autologous model of neuroinflammation

scientific article

Determination of molecular structures of HIV envelope glycoproteins using cryo-electron tomography and automated sub-tomogram averaging.

scientific article

Development of chemical exchange saturation transfer at 7T ⬇️

scientific article published on March 22, 2011

Direct visualization of Escherichia coli chemotaxis receptor arrays using cryo-electron microscopy.

scholarly article

Direct visualization of receptor arrays in frozen-hydrated sections and plunge-frozen specimens of E. coli engineered to overproduce the chemotaxis receptor Tsr.

scientific article

Electron crystallography of bacteriorhodopsin with millisecond time resolution

scientific article published on 01 December 1999

Electron diffraction studies of light-induced conformational changes in the Leu-93 --> Ala bacteriorhodopsin mutant.

scientific article

Electron microscopic analysis of membrane assemblies formed by the bacterial chemotaxis receptor Tsr.

scientific article

Electron tomography of degenerating neurons in mice with abnormal regulation of iron metabolism

scientific article

Electron tomography of the contact between T cells and SIV/HIV-1: implications for viral entry.

scientific article

Evaluation of denoising algorithms for biological electron tomography.

scientific article

Experimental allergic encephalomyelitis: a misleading model of multiple sclerosis

scientific article

Expression of IL-33 and its epigenetic regulation in Multiple Sclerosis

scientific article published in May 2014

Expression of bacteriorhodopsin in Sf9 and COS-1 cells.

scientific article published on February 1997

Extended polypeptide linkers establish the spatial architecture of a pyruvate dehydrogenase multienzyme complex.

scientific article

Focused ion beams in biology.

scientific article

From structure to mechanism: electron crystallographic studies of bacteriorhodopsin

scientific article

Frontiers in Cryo Electron Microscopy of Complex Macromolecular Assemblies

scientific article published on 20 March 2019

Glutamate receptor desensitization is mediated by changes in quaternary structure of the ligand binding domain

scientific article

Gray matter involvement in multiple sclerosis

scientific article

Griffithsin tandemers: flexible and potent lectin inhibitors of the human immunodeficiency virus

scientific article published on 23 January 2015

HIV-1 Envelope Glycoprotein Trimers Display Open Quaternary Conformation When Bound to the gp41 Membrane-Proximal External-Region-Directed Broadly Neutralizing Antibody Z13e1 ⬇️

scientific article published on April 17, 2013

HIV-1 envelope glycoprotein structure

scientific article

Improved diffusion tensor imaging of the optic nerve using multishot two-dimensional navigated acquisitions

scientific article

Ion-abrasion scanning electron microscopy reveals distorted liver mitochondrial morphology in murine methylmalonic acidemia

scientific article

Ion-abrasion scanning electron microscopy reveals surface-connected tubular conduits in HIV-infected macrophages

scientific article (publication date: September 2009)

Lateral density of receptor arrays in the membrane plane influences sensitivity of the E. coli chemotaxis response

scientific article

Lateral diffusion of specific antibodies bound to lipid monolayers on alkylated substrates.

scientific article published on March 1986

Malaria parasites use a soluble RhopH complex for erythrocyte invasion and an integral form for nutrient uptake

scientific article published on 04 January 2021

Mapping of Ebolavirus Neutralization by Monoclonal Antibodies in the ZMapp Cocktail Using Cryo-Electron Tomography and Studies of Cellular Entry

scientific article

Maturation of the HIV-1 core by a non-diffusional phase transition.

scientific article

Membrane protein structure determination using cryo-electron tomography and 3D image averaging.

scientific article

Microbiology catches the cryo-EM bug.

scientific article published on 12 April 2018

Mitochondrial reticulum for cellular energy distribution in muscle

scientific article published in Nature

Molecular architecture and mechanism of an icosahedral pyruvate dehydrogenase complex: a multifunctional catalytic machine

scientific article

Molecular architecture of native HIV-1 gp120 trimers

scientific article

Molecular architectures of trimeric SIV and HIV-1 envelope glycoproteins on intact viruses: strain-dependent variation in quaternary structure

scientific article (publication date: 2010)

Molecular structure of a 9-MDa icosahedral pyruvate dehydrogenase subcomplex containing the E2 and E3 enzymes using cryoelectron microscopy

scientific article

Molecular structures of trimeric HIV-1 Env in complex with small antibody derivatives.

scientific article

Multi-resolution correlative focused ion beam scanning electron microscopy: applications to cell biology

scientific article

Plasmodium vivax and human hexokinases share similar active sites but display distinct quaternary architectures

scientific article published on 26 March 2020

Power Grid Protection of the Muscle Mitochondrial Reticulum.

scientific article

Prefusion structure of trimeric HIV-1 envelope glycoprotein determined by cryo-electron microscopy

scientific article

Projection structure and molecular architecture of OxlT, a bacterial membrane transporter.

scientific article

Projection structure of the bacterial oxalate transporter OxlT at 3.4A resolution.

scientific article published in December 2003

Prostaglandin I2 Signaling Drives Th17 Differentiation and Exacerbates Experimental Autoimmune Encephalomyelitis ⬇️

scientific article published on May 10, 2012

Protein Secondary Structure Determination by Constrained Single-Particle Cryo-Electron Tomography

scientific article

Protein conformational changes in the bacteriorhodopsin photocycle

scientific article published on 01 March 1999

Protein conformational changes in the bacteriorhodopsin photocycle: comparison of findings from electron and X-ray crystallographic analyses.

scientific article

Proton translocation by bacteriorhodopsin in the absence of substantial conformational changes.

scientific article published in May 2002

Qualitative and quantitative detection of Chlamydophila pneumoniae DNA in cerebrospinal fluid from multiple sclerosis patients and controls

scientific article

Replacement of aspartic residues 85, 96, 115, or 212 affects the quantum yield and kinetics of proton release and uptake by bacteriorhodopsin.

scientific article

Replacement of leucine-93 by alanine or threonine slows down the decay of the N and O intermediates in the photocycle of bacteriorhodopsin: implications for proton uptake and 13-cis-retinal----all-trans-retinal reisomerization ⬇️

scientific article published on August 1, 1991

Resolution advances in cryo-EM enable application to drug discovery

scientific article

Role of HAMP domains in chemotaxis signaling by bacterial chemoreceptors.

scientific article

Role of HDAC3 on p53 Expression and Apoptosis in T Cells of Patients with Multiple Sclerosis ⬇️

scientific article published on February 8, 2011

Self-assembled monolayers improve protein distribution on holey carbon cryo-EM supports.

scientific article

Semi-automated 3D segmentation of human skeletal muscle using Focused Ion Beam-Scanning Electron Microscopic images

scientific article published on 23 March 2019

Shape-based regularization of electron tomographic reconstruction.

scientific article

Single-particle cryo-EM structure of a voltage-activated potassium channel in lipid nanodiscs

scientific article published on 15 August 2018

Site-specific 3D imaging of cells and tissues with a dual beam microscope

scientific article

Spatial localization of the Ebola virus glycoprotein mucin-like domain determined by cryo-electron tomography.

scientific article

Spiral architecture of the nucleoid in Bdellovibrio bacteriovorus

scientific article

Staphylococcal enterotoxin A induces small clusters of HLA-DR1 on B cells

scientific article (publication date: 2009)

Stoichiometry and absolute quantification of proteins with mass spectrometry using fluorescent and isotope-labeled concatenated peptide standards.

scientific article published on 19 November 2007

Structural and biochemical rationale for enhanced spike protein fitness in delta and kappa SARS-CoV-2 variants

scientific article published on 08 February 2022

Structural basis for early-onset neurological disorders caused by mutations in human selenocysteine synthase.

scientific article published on 31 August 2016

Structural basis of kainate subtype glutamate receptor desensitization

scientific article

Structural insights into the mechanism of proton pumping by bacteriorhodopsin

scientific article

Structural mechanism of glutamate receptor activation and desensitization

scientific article

Structural mechanism of trimeric HIV-1 envelope glycoprotein activation

scientific article published in 2012

Structural mechanisms of centromeric nucleosome recognition by the kinetochore protein CENP-N.

scientific article

Structural model for 12-helix transporters belonging to the major facilitator superfamily

scientific article

Structural plasticity of a transmembrane peptide allows self-assembly into biologically active nanoparticles

scientific article

Structural snapshots of conformational changes in a seven-helix membrane protein: lessons from bacteriorhodopsin

scientific article published on 28 July 2009

Structure and accessibility of HA trimers on intact 2009 H1N1 pandemic influenza virus to stem region-specific neutralizing antibodies

scientific article

Structure and transport mechanism of the bacterial oxalate transporter OxlT

scientific article

Structure of the primed state of the ATPase domain of chromatin remodeling factor ISWI bound to the nucleosome

scientific article published on 01 September 2019

Structure of trimeric HIV-1 envelope glycoproteins.

scientific article published on 8 October 2013

Structure of -galactosidase at 3.2-A resolution obtained by cryo-electron microscopy

scientific article

Targeted conformational search with map-restrained self-guided Langevin dynamics: application to flexible fitting into electron microscopic density maps.

scientific article published on 20 July 2013

The SIV surface spike imaged by electron tomography: one leg or three?

scientific article

The crystal structure of human GlnRS provides basis for the development of neurological disorders

scientific article

The democratization of cryo-EM.

scientific article published in July 2016

The residues Leu 93 and Asp 96 act independently in the bacteriorhodopsin photocycle: studies with the leu 93-->Ala, Asp 96-->Asn double mutant.

scientific article

The role of infections in the pathogenesis and course of multiple sclerosis ⬇️

scientific article published on April 1, 2010

Three-Dimensional Imaging of Viral Infections.

scientific article published on 9 July 2014

Three-dimensional electron microscopic imaging of membrane invaginations in Escherichia coli overproducing the chemotaxis receptor Tsr

scientific article published in August 2004

Three-dimensional imaging of HIV-1 virological synapses reveals membrane architectures involved in virus transmission.

scientific article

Three-dimensional imaging of the highly bent architecture of Bdellovibrio bacteriovorus by using cryo-electron tomography

scientific article

Three-dimensional structure of a bacterial oxalate transporter.

scientific article

Three-dimensional structures of soluble CD4-bound states of trimeric simian immunodeficiency virus envelope glycoproteins determined by using cryo-electron tomography

scientific article

Trimeric HIV-1 glycoprotein gp140 immunogens and native HIV-1 envelope glycoproteins display the same closed and open quaternary molecular architectures

scientific article

Using Cryo-EM to Map Small Ligands on Dynamic Metabolic Enzymes: Studies with Glutamate Dehydrogenase.

scientific article published on April 2016

Visualizing Cancer

scientific article published on 01 December 2020

Visualizing cells and humans in 3D: biomedical image analysis at nanometer and meter scales

scientific article published on September 2012

Workshop report: Crystal City V--quantitative bioanalytical method validation and implementation: the 2013 revised FDA guidance

scientific article

List of works by Sriram Subramaniam

1.8 Å resolution structure of β-galactosidase with a 200 kV CRYO ARM electron microscope

2.2 Å resolution cryo-EM structure of β-galactosidase in complex with a cell-permeant inhibitor

2.3 Å resolution cryo-EM structure of human p97 and mechanism of allosteric inhibition

3D imaging of diatoms with ion-abrasion scanning electron microscopy

3D imaging of mammalian cells with ion-abrasion scanning electron microscopy

3D visualization of HIV transfer at the virological synapse between dendritic cells and T cells

A 3D cellular context for the macromolecular world.

A Tail-Based Mechanism Drives Nucleosome Demethylation by the LSD2/NPAC Multimeric Complex

A coiled-coil-repeat protein 'Ccrp' in Bdellovibrio bacteriovorus prevents cellular indentation, but is not essential for vibroid cell morphology.

A collaborative framework for 3D alignment and classification of heterogeneous subvolumes in cryo-electron tomography.

A core-weighted fitting method for docking atomic structures into low-resolution maps: application to cryo-electron microscopy.

A versatile nano display platform from bacterial spore coat proteins

Activation and regeneration of rhodopsin in the insect visual cycle.

Adult-onset leukoencephalopathy with neuroaxonal spheroids and pigmented glia: report of five cases and a new mutation.

An energy-based three-dimensional segmentation approach for the quantitative interpretation of electron tomograms

Atomic Resolution Cryo-EM Structure of β-Galactosidase.

Automated 100-position specimen loader and image acquisition system for transmission electron microscopy

Automated data collection with a Tecnai 12 electron microscope: applications for molecular imaging by cryomicroscopy.

Automated image acquisition and processing using a new generation of 4K x 4K CCD cameras for cryo electron microscopic studies of macromolecular assemblies.

Automated methods for 3D Segmentation of Focused Ion Beam-Scanning Electron Microscopic Images

Biochemical and structural analyses reveal that the tumor suppressor neurofibromin (NF1) forms a high-affinity dimer

Breaking Cryo-EM Resolution Barriers to Facilitate Drug Discovery.

Bridging the imaging gap: visualizing subcellular architecture with electron tomography

Broadly protective murine monoclonal antibodies against influenza B virus target highly conserved neuraminidase epitopes.

Building bridges between cellular and molecular structural biology

CCD detectors in high-resolution biological electron microscopy.

COVID-19 and cryo-EM

Catching HIV 'in the act' with 3D electron microscopy

Cell surface filaments of the gliding bacterium Flavobacterium johnsoniae revealed by cryo-electron tomography

Chemical mapping of mammalian cells by atom probe tomography.

Chemoreceptors in Caulobacter crescentus: trimers of receptor dimers in a partially ordered hexagonally packed array.

Chemotaxis kinase CheA is activated by three neighbouring chemoreceptor dimers as effectively as by receptor clusters

Classification and 3D averaging with missing wedge correction in biological electron tomography

Comparative study of the presence of Chlamydia pneumoniae in cerebrospinal fluid of Patients with clinically definite and monosymptomatic multiple sclerosis

Complexes of neutralizing and non-neutralizing affinity matured Fabs with a mimetic of the internal trimeric coiled-coil of HIV-1 gp41

Compositional Mapping of the Surface and Interior of Mammalian Cells at Submicrometer Resolution ⬇️

Computational separation of conformational heterogeneity using cryo-electron tomography and 3D sub-volume averaging

Correlative 3D imaging of whole mammalian cells with light and electron microscopy.

Cryo-EM Analysis of the Conformational Landscape of Human P-glycoprotein (ABCB1) During its Catalytic Cycle.

Cryo-EM Structures Reveal Mechanism and Inhibition of DNA Targeting by a CRISPR-Cas Surveillance Complex

Cryo-EM Structures of the Magnesium Channel CorA Reveal Symmetry Break upon Gating.

Cryo-EM of viruses and vaccine design

Cryo-EM structure of a dimeric B-Raf:14-3-3 complex reveals asymmetry in the active sites of B-Raf kinases

Cryo-EM structure of human rhodopsin bound to an inhibitory G protein

Cryo-EM structure of the bacteriophage T4 portal protein assembly at near-atomic resolution

Cryo-EM structures reveal coordinated domain motions that govern DNA cleavage by Cas9

Cryo-EM: beyond the microscope.

Cryo-electron Microscopy Structures of Chimeric Hemagglutinin Displayed on a Universal Influenza Vaccine Candidate.

Cryo-electron microscopy--a primer for the non-microscopist

Cryo-electron tomography of bacteria: progress, challenges and future prospects.

Cryoelectron tomographic analysis of an HIV-neutralizing protein and its complex with native viral gp120

Data management challenges in three-dimensional EM.

Deep-learning-assisted Volume Visualization

Defective structural RNA processing in relapsing-remitting multiple sclerosis

Derivation of neural stem cells from human adult peripheral CD34+ cells for an autologous model of neuroinflammation

Determination of molecular structures of HIV envelope glycoproteins using cryo-electron tomography and automated sub-tomogram averaging.

Development of chemical exchange saturation transfer at 7T ⬇️

Direct visualization of Escherichia coli chemotaxis receptor arrays using cryo-electron microscopy.

Direct visualization of receptor arrays in frozen-hydrated sections and plunge-frozen specimens of E. coli engineered to overproduce the chemotaxis receptor Tsr.

Electron crystallography of bacteriorhodopsin with millisecond time resolution

Electron diffraction studies of light-induced conformational changes in the Leu-93 --> Ala bacteriorhodopsin mutant.

Electron microscopic analysis of membrane assemblies formed by the bacterial chemotaxis receptor Tsr.

Electron tomography of degenerating neurons in mice with abnormal regulation of iron metabolism

Electron tomography of the contact between T cells and SIV/HIV-1: implications for viral entry.

Evaluation of denoising algorithms for biological electron tomography.

Experimental allergic encephalomyelitis: a misleading model of multiple sclerosis

Expression of IL-33 and its epigenetic regulation in Multiple Sclerosis

Expression of bacteriorhodopsin in Sf9 and COS-1 cells.

Extended polypeptide linkers establish the spatial architecture of a pyruvate dehydrogenase multienzyme complex.

Focused ion beams in biology.

From structure to mechanism: electron crystallographic studies of bacteriorhodopsin

Frontiers in Cryo Electron Microscopy of Complex Macromolecular Assemblies

Glutamate receptor desensitization is mediated by changes in quaternary structure of the ligand binding domain

Gray matter involvement in multiple sclerosis

Griffithsin tandemers: flexible and potent lectin inhibitors of the human immunodeficiency virus

HIV-1 Envelope Glycoprotein Trimers Display Open Quaternary Conformation When Bound to the gp41 Membrane-Proximal External-Region-Directed Broadly Neutralizing Antibody Z13e1 ⬇️

HIV-1 envelope glycoprotein structure

Improved diffusion tensor imaging of the optic nerve using multishot two-dimensional navigated acquisitions

Ion-abrasion scanning electron microscopy reveals distorted liver mitochondrial morphology in murine methylmalonic acidemia