Structure of covid19

Version vom 22. Juni 2020, 06:12 Uhr

coviki.org collects the really good Ideas and the scientific Record on Covid-19 Virus.

integrative papers
32181901 ä. A guideline for homology modeling of the proteins from newly discovered betacoronavirus, 2019 novel coronavirus (2019?nCoV)
32296735 2020. Prudently conduct the engineering and synthesis of the SARS-CoV-2 virus
C7085496 ä. Structural, glycosylation and antigenic variation between 2019 novel coronavirus (2019-nCoV) and SARS coronavirus (SARS-CoV)
32254054 2020. Visualizing an unseen enemy; mobilizing structural biology to counter COVID-191
32254048 2020. Visualizing an unseen enemy; mobilizing structural biology to counter COVID-191
32311462 2020. On the molecular determinants of the SARS-CoV-2 attack
32229288 ä. Molecular characterization of SARS-CoV-2 from the first case of COVID-19 in Italy
32306836 2020. Novel 2019 coronavirus structure, mechanism of action, antiviral drug promises and rule out against its treatment
32265180 ä. Genotype and phenotype of COVID-19: Their roles in pathogenesis
32178970 2020. Composition of human-specific slow codons and slow di-codons in SARS-CoV and 2019-nCoV are lower than other coronaviruses suggesting a faster protein synthesis rate of SARS-CoV and 2019-nCoV
32350227 2020. Characteristics of SARS-CoV-2 isolated from asymptomatic carrier in Tokyo
32342926 2020. Properties of Coronavirus and SARS-CoV-2
32194253 ä. Molecular basis of COVID-19 relationships in different species: a one health perspective
32303698 ä. A map of SARS-CoV-2 and host cell interactions
C7085496 ä. Structural, glycosylation and antigenic variation between 2019 novel coronavirus (2019-nCoV) and SARS coronavirus (SARS-CoV)
32218151 2020. Structural Genomics of SARS-CoV-2 Indicates Evolutionary Conserved Functional Regions of Viral Proteins
32098422 2020. Systematic Comparison of Two Animal-to-Human Transmitted Human Coronaviruses: SARS-CoV-2 and SARS-CoV
32348474 2020. Expanding our understanding of the role polyprotein conformation plays in the coronavirus life cycle
32367648 2020. SARS-CoV-2 variants: Relevance for symptom granularity, epidemiology, immunity (herd, vaccines), virus origin and containment?
32342578 2020. The Importance Of Naturally Attenuated Sars-Cov-2 In The Fight Against Covid-19
32104911 ä. Evolutionary history, potential intermediate animal host, and cross?species analyses of SARS?CoV?2
32365353 2020. Rapid reconstruction of SARS-CoV-2 using a synthetic genomics platform
32092385 2020. The continuous evolution and dissemination of 2019 novel human coronavirus
32361530 2020. The puzzle of sharing bio-molecular targets between coronaviruses and mediators of the cardiovascular system in humans: Looking for plausible hypotheses
32402329 2020. Novel human coronavirus (SARS-CoV-2): A lesson from animal coronaviruses
32452417 2020. New insights into the evolutionary features of viral overlapping genes by discriminant analysis

genome
32167180 ä. The establishment of reference sequence for SARS?CoV?2 and variation analysis
32330414 ä. The Architecture of SARS-CoV-2 Transcriptome
32289263 ä. An Infectious cDNA Clone of SARS-CoV-2

• genomic var. is high

32007145 2020. Genomic characterisation and epidemiology of 2019 novel coronavirus: implications for virus origins and receptor binding
31987001 2020. Genomic characterization of the 2019 novel human-pathogenic coronavirus isolated from a patient with atypical pneumonia after visiting Wuhan
32269081 2020. Phylogenetic network analysis of SARS-CoV-2 genomes
32265007 2020. Whole genome and phylogenetic analysis of two SARS-CoV-2 strains isolated in Italy in January and February 2020: additional clues on multiple introductions and further circulation in Europe

C7200767 2020. Chaos game representation dataset of SARS-CoV-2 genome
32301390 2020. Attenuated SARS-CoV-2 variants with deletions at the S1/S2 junction
32129843 ä. Genomic diversity of SARS-CoV-2 in Coronavirus Disease 2019 patients
32129842 ä. A glimpse into the origins of genetic diversity in SARS-CoV-2

32169673 2020. Genetic evolution analysis of 2019 novel coronavirus and coronavirus from other species
32349035 2020. Genomic Analysis and Comparative Multiple Sequence of SARS-CoV2
32222995 ä. Phylogenetic analysis of the first four SARS?CoV?2 cases in Chile
32167166 ä. An exclusive 42 amino acid signature in pp1ab protein provides insights into the evolutive history of the 2019 novel human?pathogenic coronavirus (SARS?CoV?2)
32149036 2020. Identification of Coronavirus Isolated from a Patient in Korea with COVID-19
32357545 2020. Emergence of Drift Variants That May Affect COVID-19 Vaccine Development and Antibody Treatment
32242873 2020. Full-genome sequences of the first two SARS-CoV-2 viruses from India
32351056 2020. Decoding the evolution and transmissions of the novel pneumonia coronavirus (SARS-CoV-2 / HCoV-19) using whole genomic data
32092483 2020. Genetic diversity and evolution of SARS-CoV-2
32335334 ä. Emerging genetic diversity among clinical isolates of SARS-CoV-2: Lessons for today
32171191 2020. Genomic analysis of a 2019-novel coronavirus (2019-nCoV) strain in the first COVID-19 patient found in Hangzhou
32238585 2020. Isolation and Full-Length Genome Characterization of SARS-CoV-2 from COVID-19 Cases in Northern Italy
32238584 2020. Computational inference of selection underlying the evolution of the novel coronavirus, SARS-CoV-2
32314811 2020. Understanding evolution of SARS-CoV-2: a perspective from analysis of genetic diversity of RdRp gene
32311094 2020. Distinct Viral Clades of SARS-CoV-2: Implications for Modeling of Viral Spread
32165386 2020. Complete Genome Sequence of a 2019 Novel Coronavirus (SARS-CoV-2) Strain Isolated in Nepal
32145215 ä. Identification of the hyper-variable genomic hotspot for the novel coronavirus SARS-CoV-2
31994738 2020. The 2019?new coronavirus epidemic: Evidence for virus evolution
32027036 2020. Genomic variance of the 2019?nCoV coronavirus
32004758 2020. Full-genome evolutionary analysis of the novel corona virus (2019-nCoV) rejects the hypothesis of emergence as a result of a recent recombination event
32300673 2020. Genomic characterization of a novel SARS-CoV-2
32353474 ä. Genotyping coronavirus SARS-CoV-2: Methods and implications
32362650 2020. Genomic analysis of SARS-CoV-2 strains among Indians returning from Italy, Iran & China, & Italian tourists in India
32387564 2020. Emergence of genomic diversity and recurrent mutations in SARS-CoV-2

32288962 2020. Evolutionary perspectives on novel coronaviruses identified in pneumonia cases in China
C7107875 ä. On the origin and continuing evolution of SARS-CoV-2
C7197565 ä. No evidence for distinct types in the evolution of SARS-CoV-2

structure
32092911 2020. Rigidity of the Outer Shell Predicted by a Protein Intrinsic Disorder Model Sheds Light on the COVID-19 (Wuhan-2019-nCoV) Infectivity
32362648 2020. Transmission electron microscopy imaging of SARS-CoV-2
32361692 2020. How the COVID-19 Overcomes the Battle? An Approach to Virus Structure
32292212 2020. Photopolarimetrical properties of coronavirus model particles: Spike proteins number influence

nsp

32275073 2020. Response to Ribeiro da Silva et al ,"Role of Nonstructural Proteins in the Pathogenesis of SARS-CoV-2

nsp1 protein
32336957 2020. Combination of Biodata Mining and Computational Modelling in Identification and Characterization of ORF1ab Polyprotein of SARS-CoV-2 Isolated from Oronasopharynx of an Iranian Patient

nsp2 protein
32083328 ä. COVID?2019: The role of the nsp2 and nsp3 in its pathogenesis

nsp3 protein
32083328 ä. COVID?2019: The role of the nsp2 and nsp3 in its pathogenesis
29128390 2018. Nsp3 of coronaviruses: Structures and functions of a large multi-domain protein

nsp15 endoribonuclease NendoU
32304108 2020. Crystal structure of Nsp15 endoribonuclease NendoU from SARS-CoV-2

papain-like proteinase 2
32216114 ä. Structural and biochemical characterization of SARS-CoV papain-like protease 2

replication factors
32321524 2020. Emerging SARS-CoV-2 mutation hot spots include a novel RNA-dependent-RNA polymerase variant
32277040 2020. Structure of the RNA-dependent RNA polymerase from COVID-19 virus
32167173 ä. The potential chemical structure of anti?SARS?CoV?2 RNA?dependent RNA polymerase

nucleocapside
32363136 ä. Crystal structure of SARS-CoV-2 nucleocapsid protein RNA binding domain reveals potential unique drug targeting sites
32302675 ä. Comparative computational analysis of SARS-CoV-2 nucleocapsid protein epitopes in taxonomically related coronaviruses
32416961 2020. Biochemical characterization of SARS-CoV-2 nucleocapsid protein

vacuolar interaction

innate interference

virus secretion

envelope

receptor binding: ace2
32057769 2020. The spike glycoprotein of the new coronavirus 2019-nCoV contains a furin-like cleavage site absent in CoV of the same clade
32155444 ä. Structure, Function, and Antigenicity of the SARS-CoV-2 Spike Glycoprotein
32178593 2020. Emerging WuHan (COVID-19) coronavirus: glycan shield and structure prediction of spike glycoprotein and its interaction with human CD26
32320687 ä. Phylogenetic Analysis and Structural Modeling of SARS-CoV-2 Spike Protein Reveals an Evolutionary Distinct and Proteolytically Sensitive Activation Loop
32009228 2020. Evolution of the novel coronavirus from the ongoing Wuhan outbreak and modeling of its spike protein for risk of human transmission
32075877 2020. Cryo-EM structure of the 2019-nCoV spike in the prefusion conformation
32081428 2020. Structure analysis of the receptor binding of 2019-nCoV
32142651 2020. SARS-CoV-2 Cell Entry Depends on ACE2 and TMPRSS2 and Is Blocked by a Clinically Proven Protease Inhibitor
32203189 ä. Characterization of the receptor-binding domain (RBD) of 2019 novel coronavirus: implication for development of RBD protein as a viral attachment inhibitor and vaccine
32275855 ä. Structural and Functional Basis of SARS-CoV-2 Entry by Using Human ACE2
32201080 ä. Spike protein recognition of mammalian ACE2 predicts the host range and an optimized ACE2 for SARS-CoV-2 infection
32210742 2020. Role of changes in SARS-CoV-2 spike protein in the interaction with the human ACE2 receptor: An in silico analysis
32327200 ä. Covid-19 and the angiotensin-converting enzyme (ACE2): Areas for research

31996437 2020. Receptor Recognition by the Novel Coronavirus from Wuhan: an Analysis Based on Decade-Long Structural Studies of SARS Coronavirus

32221306 2020. Characterization of spike glycoprotein of SARS-CoV-2 on virus entry and its immune cross-reactivity with SARS-CoV

32245784 2020. A highly conserved cryptic epitope in the receptor binding domains of SARS-CoV-2 and SARS-CoV

32132184 2020. Structural basis for the recognition of SARS-CoV-2 by full-length human ACE2
32198713 ä. A Unique Protease Cleavage Site Predicted in the Spike Protein of the Novel Pneumonia Coronavirus (2019-nCoV) Potentially Related to Viral Transmissibility
32365751 2020. The SARS-CoV-2 Exerts a Distinctive Strategy for Interacting with the ACE2 Human Receptor
32378705 2020. A virus that has gone viral: amino acid mutation in S protein of Indian isolate of Coronavirus COVID-19 might impact receptor binding, and thus, infectivity
32132669 2020. Novel antibody epitopes dominate the antigenicity of spike glycoprotein in SARS-CoV-2 compared to SARS-CoV
32338224 2020. Focus on Receptors for Coronaviruses with Special Reference to Angiotensin-converting Enzyme 2 as a Potential Drug Target - A Perspective
32363391 ä. Deducing the N- and O- glycosylation profile of the spike protein of novel coronavirus SARS-CoV-2

32376714 2020. Gene of the month: the 2019-nCoV/SARS-CoV-2 novel coronavirus spike protein

32225176 2020. Structure of the SARS-CoV-2 spike receptor-binding domain bound to the ACE2 receptor
32225175 2020. Structural basis of receptor recognition by SARS-CoV-2
32329276 2020. Spike protein in the detection and treatment of novel coronavirus
C7190498 ä. The biological characteristics of SARS-CoV-2 spike protein Pro330-Leu650

receptor binding: trmpss2
32165541 2020. Enhanced isolation of SARS-CoV-2 by TMPRSS2-expressing cells

receptor binding: grp78, g-proteins

32329083 2020. (ang.)COVID-19 transmission through host cell directed network of GPCR

endocytosis membrane fusion
32047258 ä. Fusion mechanism of 2019-nCoV and fusion inhibitors targeting HR1 domain in spike protein
32265513 ä. SARS-CoV-2 infects T lymphocytes through its spike protein-mediated membrane fusion
32130973 2020. A potential role for integrins in host cell entry by SARS-CoV-2
32246503 ä. SARS?COV?2 and infectivity: Possible increase in infectivity associated to integrin motif expression
32272173 2020. Coronavirus membrane fusion mechanism offers a potential target for antiviral development
32094589 ä. Functional assessment of cell entry and receptor usage for SARS-CoV-2 and other lineage B betacoronaviruses

32047128 2020. Distinct Roles for Sialoside and Protein Receptors in Coronavirus Infection

3CL proteinase and main proteinase is the same...
32293875 ä. Why Are Lopinavir and Ritonavir Effective against the Newly Emerged Coronavirus 2019? Atomistic Insights into the Inhibitory Mechanisms
32239142 ä. Potential covalent drugs targeting the main protease of the SARS-CoV-2 coronavirus
32308266 2020. Molecular docking and dynamics simulation of FDA approved drugs with the main protease from 2019 novel coronavirus
32313296 2020. Identification of potential binders of the main protease 3CLpro of the COVID-19 via structure-based ligand design and molecular modeling
32391184 2020. Comprehensive Insights into the Catalytic Mechanism of Middle East Respiratory Syndrome 3C-Like Protease and Severe Acute Respiratory Syndrome 3C-Like Protease
32210741 2020. Unrevealing sequence and structural features of novel coronavirus using in silico approaches: The main protease as molecular target
32194944 2020. Prediction of the SARS-CoV-2 (2019-nCoV) 3C-like protease (3CL pro) structure: virtual screening reveals velpatasvir, ledipasvir, and other drug repurposing candidates

orf
32357959 2020. An 81 nucleotide deletion in SARS-CoV-2 ORF7a identified from sentinel surveillance in Arizona (Jan-Mar 2020)
32371472 2020. SARS-CoV-2 and ORF3a: Nonsynonymous Mutations, Functional Domains, and Viral Pathogenesis

varia
32200634 ä. Protein Structure and Sequence Reanalysis of 2019-nCoV Genome Refutes Snakes as Its Intermediate Host and the Unique Similarity between Its Spike Protein Insertions and HIV-1

32123347 ä. The species Severe acute respiratory syndrome-related coronavirus: classifying 2019-nCoV and naming it SARS-CoV-2
C7152894 ä. A COMPREHENSIVE ANALYSIS OF GENOME COMPOSITION AND CODON USAGE PATTERNS OF EMERGING CORONAVIRUSES
32366025 2020. Codon Usage and Phenotypic Divergences of SARS-CoV-2 Genes
32291894 2020. Cytosine drives evolution of SARS-CoV-2
32159237 ä. From SARS and MERS CoVs to SARS?CoV?2: Moving toward more biased codon usage in viral structural and nonstructural genes
C7181939 2020. Etymologia: Coronavirus
32387562 2020. Coding potential and sequence conservation of SARS-CoV-2 and related animal viruses
32294518 2020. A comprehensive analysis of genome composition and codon usage patterns of emerging coronaviruses