{"doi":"10.1038/nsmb1272","title":"The positions of TFIIF and TFIIE in the RNA polymerase II transcription preinitiation complex","abstract":null,"journal":"Nature Structural & Molecular Biology","year":2007,"id":589740,"datarank":7.280698453832073,"base_score":5.181783550292085,"endowment":5.181783550292085,"self_citation_contribution":0.7772675325438129,"citation_network_contribution":6.503430921288261,"self_endowment_contribution":0.7772675325438129,"citer_contribution":6.503430921288261,"corpus_percentile":null,"corpus_rank":null,"citation_count":177,"citer_count":159,"citers_with_citation_signal":132,"citers_with_endowment":132,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":null,"is_data_producer":false,"deposit_databanks":null,"is_oa":false,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":null,"fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":265064,"name":"Linda Warfield","orcid":null,"position":1,"is_corresponding":false},{"id":262433,"name":"Steven Hahn","orcid":"0000-0001-7240-2533","position":2,"is_corresponding":false},{"id":1508855,"name":"Hung-Ta Chen","orcid":null,"position":0,"is_corresponding":false}],"reference_count":0,"raw_metadata":{"has_enrichment":true,"resolved":true,"title":"The positions of TFIIF and TFIIE in the RNA polymerase II transcription preinitiation complex","abstract":"We incorporated the non-natural photoreactive amino acid p-benzoyl-L-phenylalanine (Bpa) into the RNA polymerase II (Pol II) surface surrounding the central cleft formed by the Rpb1 and Rpb2 subunits. Photo-cross-linking of preinitiation complexes (PICs) with these Pol II derivatives and hydroxyl-radical cleavage assays revealed that the TFIIF dimerization domain interacts with the Rpb2 lobe and protrusion domains adjacent to Rpb9, while TFIIE cross-links to the Rpb1 clamp domain on the opposite side of the Pol II central cleft. Mutations in the Rpb2 lobe and protrusion domains alter both Pol II-TFIIF binding and the transcription start site, a phenotype associated with mutations in TFIIF, Rpb9 and TFIIB. Together with previous biochemical and structural studies, these findings illuminate the structural organization of the PIC and the network of protein-protein interactions involved in transcription start site selection.","is_dataset_classified":null,"base_score":5.181783550292085,"endowment":5.181783550292085,"datacite_reuse_total":0,"file_count":0,"downloads":0,"views":0,"has_version_chain":false,"is_dataset":false,"is_oa":false,"pmid":"17632521","pmcid":"PMC2483787","openalex_id":"https://openalex.org/W1972091887","authors":[],"funders":[{"funder_name":"NIGMS NIH HHS","grant_id":"R01 GM053451","title":null},{"funder_name":"NIGMS NIH HHS","grant_id":"5R01GM053451","title":null},{"funder_name":"National Institutes of Health","grant_id":"5R01GM053451-04","title":"MOLECULAR ANALYSIS OF RNAPIII TRANSCRIPTION INITIATION"}],"total_grants":3,"fwci":4.7774,"citation_percentile":0.95995676,"influential_citations":0,"citation_trend":[{"year":2012,"count":26},{"year":2013,"count":13},{"year":2014,"count":12},{"year":2015,"count":6},{"year":2016,"count":14},{"year":2017,"count":15},{"year":2018,"count":1},{"year":2019,"count":4},{"year":2020,"count":7},{"year":2021,"count":4},{"year":2022,"count":6},{"year":2023,"count":4},{"year":2024,"count":4},{"year":2025,"count":1},{"year":2026,"count":1}],"oa_status":"green","license":"Springer TDM","oa_locations":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2483787","host_type":"repository"},{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2483787","host_type":"repository"},{"url":"http://www.nature.com/articles/nsmb1272.pdf","host_type":"publisher"},{"url":"http://www.nature.com/articles/nsmb1272","host_type":"publisher"},{"url":"https://doi.org/10.1038/nsmb1272","host_type":"journal"},{"url":"https://pubmed.ncbi.nlm.nih.gov/17632521","host_type":"repository"},{"url":"https://europepmc.org/articles/pmc2483787?pdf=render","host_type":""},{"url":"https://dx.doi.org/10.1038/nsmb1272","host_type":""}],"fields_of_study":["RNA and protein synthesis mechanisms","Genomics and Chromatin Dynamics","RNA modifications and cancer","0301 basic medicine","0303 health sciences","03 medical and health sciences"],"mesh_terms":["Amino Acids","Binding Sites","Computer Simulation","Models, Molecular","Mutation","Peptide Mapping","RNA Polymerase II","Saccharomyces cerevisiae","Substrate Specificity","Protein Structure, Tertiary","Dimerization","Transcription Factors, TFII","Transcription Initiation Site"],"keywords":["Transcription factor II F","Transcription factor II A","Transcription factor II E","Transcription preinitiation complex","Transcription factor II B","RNA polymerase II holoenzyme","RNA polymerase II","Chemistry","Transcription factor II D","Cell biology","Biology","Molecular biology","Genetics","Biochemistry","Transcription factor","RNA polymerase","RNA","Transcriptional regulation","Promoter","Gene","Models, Molecular","Binding Sites","Saccharomyces cerevisiae","Peptide Mapping","Protein Structure, Tertiary","Substrate Specificity","Transcription Factors, TFII","Mutation","Transcription factors","Computer Simulation","Amino Acids","Transcription Initiation Site","Transcription","Dimerization"],"sdg_mappings":[{"sdg_number":0,"sdg_label":"Clean water and sanitation"}],"linked_datasets":[],"clinical_trials":[],"software_tools":[],"database_accessions":[{"name":"pdb"}],"source":"live","citation_network_status":"fetched"},"created_at":"2026-07-24T05:51:24.955754Z","pmid":null,"pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}