Structure of covid19

Version vom 27. Juni 2020, 16:11 Uhr

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

integrative papers

32507543 2020. Spiking Pandemic Potential: Structural and Immunological Aspects of SARS-CoV-2.
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

• Genome announcmentsto be filled-up

32398273 2020. RNA genome conservation and secondary structure in SARS-CoV-2 and SARS-related viruses: a first look.
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
32496247 2020. Genome analysis of SARS-CoV-2 isolates occurring in India: Present scenario.
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
32466577 2020. Early Phylogenetic Diversification of SARS-CoV-2: Determination of Variants and the Effect on Epidemiology, Immunology, and Diagnostics.
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
32471829 2020. Novel Immunoglobulin Domain Proteins Provide Insights into Evolution and Pathogenesis of SARS-CoV-2-Related Viruses.
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
32499358 2020. Complete Genome Sequence of a SARS-CoV-2 Strain Isolated in Northern Germany.
32437232 2020. Virus-induced genetics revealed by multidimensional precision medicine transcriptional workflow applicable to COVID-19.
32439706 2020. Reply to Sanchez-Pacheco et al., Chookajorn, and Mavian et al.: Explaining phylogenetic network analysis of SARS-CoV-2 genomes.
32422894 2020. A Novel Synonymous Mutation of SARS-CoV-2: Is This Possible to Affect Their Antigenicity and Immunogenicity?
32506536 2020. Emerging viral mutants in Australia suggest RNA recombination event in the SARS-CoV-2 genome.
32459984 2020. SARS-CoV-2 Phylogenetic Analysis, Lazio Region, Italy, February-March 2020.
32462705 2020. Clinical features, isolation, and complete genome sequence of severe acute respiratory syndrome coronavirus 2 from the first two patients in Vietnam.

32472763 2020. Comparative analysis of Coronaviridae nucleocapsid and surface glycoprotein sequences.
32503822 2020. Human Gene Sequences in SARS-CoV-2 and Other Viruses.
32503821 2020. SARS-CoV-2 orf1b Gene Sequence in the NTNG1 Gene on Human Chromosome 1.
32474554 2020. Mapping the genomic landscape & diversity of COVID-19 based on >3950 clinical isolates of SARS-CoV-2: Likely origin & transmission dynamics of isolates sequenced in India.
32474553 2020. Analysis of RNA sequences of 3636 SARS-CoV-2 collected from 55 countries reveals selective sweep of one virus type.
32485332 2020. SARS-CoV-2 Molecular and Phylogenetic analysis in COVID-19 patients: A preliminary report from Iran.
32497295 2020. Comment on "Genetic variants and source of introduction of SARS-CoV-2 in South America".
32492206 2020. Understanding the possible origin and genotyping of first Bangladeshi SARS-CoV-2 strain.
32492196 2020. High-Coverage SARS-CoV-2 Genome Sequences Acquired by Target Capture Sequencing.
32492183 2020. Evidence for mutations in SARS-CoV-2 Italian isolates potentially affecting virus transmission.

32222993 ä. Genomic characterization and phylogenetic analysis of SARS?COV?2 in Italy
32515358 2020. Mutations in SARS-CoV-2 viral RNA identified in Eastern India: Possible implications for the ongoing outbreak in India and impact on viral structure and host susceptibility.

32417310 2020. Characterization of eight novel full-length genomes of SARS-CoV-2 among imported COVID-19 cases from abroad in Yunnan, China.
32410229 2020. Evidence of Increasing Diversification of Emerging SARS-CoV-2 Strains.
32401345 2020. Genetic variants and source of introduction of SARS-CoV-2 in South America.

32416074 2020. A Novel Bat Coronavirus Closely Related to SARS-CoV-2 Contains Natural Insertions at the S1/S2 Cleavage Site of the Spike Protein.
32525765 2020. Genetic cluster analysis of SARS-CoV-2 and the identification of those responsible for the major outbreaks in various countries.
32524946 2020. Genetic structure of SARS-CoV-2 reflects clonal superspreading and multiple independent introduction events, North-Rhine Westphalia, Germany, February and March 2020.
32445924 2020. Overwhelming mutations or SNPs of SARS-CoV-2: A point of caution.

32534867 2020. Sequence homology between human PARP14 and the SARS-CoV-2 ADP ribose 1'-phosphatase.

32473976 2020. SARS-CoV-2 and COVID-19: A genetic, epidemiological, and evolutionary perspective.
32501423 2020. Developing an ultra-efficient microsatellite discoverer to find structural differences between SARS-CoV-1 and Covid-19.
32159234 2020. Identification of coronavirus sequences in carp cDNA from Wuhan, China.

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

32493627 2020. Structural Proteins in Severe Acute Respiratory Syndrome Coronavirus-2.

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

nsp6 protein

32283146 2020. Evolutionary analysis of SARS-CoV-2: how mutation of Non-Structural Protein 6 (NSP6) could affect viral autophagy.

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

32438371 2020. Structure of replicating SARS-CoV-2 polymerase.
32443810 2020. A Structural View of SARS-CoV-2 RNA Replication Machinery: RNA Synthesis, Proofreading and Final Capping.
32427393 2020. Telomeres and COVID-19.
32392072 2020. Novel Coronavirus Polymerase and Nucleotidyl-Transferase Structures: Potential to Target New Outbreaks.
32526208 2020. Structural Basis for RNA Replication by the SARS-CoV-2 Polymerase.
32531208 2020. Structural and Biochemical Characterization of the nsp12-nsp7-nsp8 Core Polymerase Complex from SARS-CoV-2.

nucleocapsid

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

• Target ACE2, Spike protein

receptor binding: trmpss2

32165541 2020. Enhanced isolation of SARS-CoV-2 by TMPRSS2-expressing cells
32404436 2020. TMPRSS2 and TMPRSS4 promote SARS-CoV-2 infection of human small intestinal enterocytes.
32410502 2020. First comprehensive computational analysis of functional consequences of TMPRSS2 SNPs in susceptibility to SARS-CoV-2 among different populations.
32437018 2020. TMPRSS2: Potential Biomarker for COVID-19 Outcomes.
32468052 2020. Pancancer analysis of transmembrane protease serine 2 and cathepsin L that mediate cellular SARSCoV2 infection leading to COVID-19.

receptor binding: trmpss4

32404436 2020. TMPRSS2 and TMPRSS4 promote SARS-CoV-2 infection of human small intestinal enterocytes.

receptor binding: grp78, g-proteins

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

candidate receptor binding DPP4

32405622 2020. The MERS-CoV Receptor DPP4 as a Candidate Binding Target of the SARS-CoV-2 Spike.

Uptake: cathepsin L

32468052 2020. Pancancer analysis of transmembrane protease serine 2 and cathepsin L that mediate cellular SARSCoV2 infection leading to COVID-19.

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

32479856 2020. SARS-CoV-2 entry in host cells-multiple targets for treatment and prevention.

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
32433742 2020. Extended ORF8 Gene Region Is Valuable in the Epidemiological Investigation of SARS-similar Coronavirus.

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