Entry Database : PDB / ID : 5wle Structure visualization Downloads & linksTitle Crystal structure of the PPS PHD finger in complex with H3K4me3 ComponentsH3K4me3 Peptide Protein partner of snf, isoform A DetailsKeywords HYDROLASE / Epigenetic / PHD / Histone / trimethylatedFunction / homology Function and homology informationFunction Domain/homology Component
Hydrolases; Acting on acid anhydrides / small nuclear ribonucleoprotein complex / regulation of alternative mRNA splicing, via spliceosome / Chromatin modifying enzymes / epigenetic regulation of gene expression / telomere organization / RNA Polymerase I Promoter Opening / Interleukin-7 signaling / Assembly of the ORC complex at the origin of replication / DNA methylation ... Hydrolases; Acting on acid anhydrides / small nuclear ribonucleoprotein complex / regulation of alternative mRNA splicing, via spliceosome / Chromatin modifying enzymes / epigenetic regulation of gene expression / telomere organization / RNA Polymerase I Promoter Opening / Interleukin-7 signaling / Assembly of the ORC complex at the origin of replication / DNA methylation / helicase activity / Condensation of Prophase Chromosomes / ERCC6 (CSB) and EHMT2 (G9a) positively regulate rRNA expression / SIRT1 negatively regulates rRNA expression / Chromatin modifications during the maternal to zygotic transition (MZT) / HCMV Late Events / PRC2 methylates histones and DNA / Defective pyroptosis / HDACs deacetylate histones / RNA Polymerase I Promoter Escape / Transcriptional regulation by small RNAs / Formation of the beta-catenin:TCF transactivating complex / RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function / NoRC negatively regulates rRNA expression / Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3 / B-WICH complex positively regulates rRNA expression / HDMs demethylate histones / PKMTs methylate histone lysines / Meiotic recombination / RMTs methylate histone arginines / Pre-NOTCH Transcription and Translation / Activation of anterior HOX genes in hindbrain development during early embryogenesis / HCMV Early Events / Transcriptional regulation of granulopoiesis / structural constituent of chromatin / nucleosome / nucleosome assembly / chromatin organization / RUNX1 regulates transcription of genes involved in differentiation of HSCs / Factors involved in megakaryocyte development and platelet production / HATs acetylate histones / gene expression / Senescence-Associated Secretory Phenotype (SASP) / Oxidative Stress Induced Senescence / Estrogen-dependent gene expression / hydrolase activity / cadherin binding / protein heterodimerization activity / Amyloid fiber formation / DNA-templated transcription / protein-containing complex / DNA binding / extracellular exosome / extracellular region / nucleoplasm / membrane / nucleus / metal ion binding Similarity search - Function Spen paralogue and orthologue SPOC, C-terminal / SPOC domain / BRK domain / BRK domain / BRK domain superfamily / domain in transcription and CHROMO domain helicases / Transcription factor S-II (TFIIS), central domain / Domain in the central regions of transcription elongation factor S-II (and elsewhere) / Transcription elongation factor S-II, central domain / Transcription elongation factor S-II, central domain superfamily ... Spen paralogue and orthologue SPOC, C-terminal / SPOC domain / BRK domain / BRK domain / BRK domain superfamily / domain in transcription and CHROMO domain helicases / Transcription factor S-II (TFIIS), central domain / Domain in the central regions of transcription elongation factor S-II (and elsewhere) / Transcription elongation factor S-II, central domain / Transcription elongation factor S-II, central domain superfamily / TFIIS central domain profile. / Zinc/RING finger domain, C3HC4 (zinc finger) / Herpes Virus-1 / Zinc finger, PHD-type, conserved site / PHD-finger / Zinc finger PHD-type signature. / Zinc finger PHD-type profile. / Zinc finger, PHD-finger / Histone H3 signature 1. / Zinc finger, PHD-type / PHD zinc finger / Histone H3 signature 2. / Histone H3 / Histone H3/CENP-A / Histone H2A/H2B/H3 / Core histone H2A/H2B/H3/H4 / Zinc finger, FYVE/PHD-type / Histone-fold / Zinc finger, RING/FYVE/PHD-type / 2-Layer Sandwich / Alpha Beta Similarity search - Domain/homologyBiological species Drosophila melanogaster (fruit fly)Homo sapiens (human)Method X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution : 1.952 Å DetailsAuthors Klein, B.J. / Kutateladze, T.G. Funding support United States, 4items Details Hide detailsOrganization Grant number Country National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) GM106416 United States National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) GM101664 United States National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) GM100907 United States National Institutes of Health/National Institute on Alcohol Abuse and Alcoholism (NIH/NIAAA) T32AA007464 United States
CitationJournal : Structure / Year : 2017Title : A Unique pH-Dependent Recognition of Methylated Histone H3K4 by PPS and DIDO.Authors : Tencer, A.H. / Gatchalian, J. / Klein, B.J. / Khan, A. / Zhang, Y. / Strahl, B.D. / van Wely, K.H.M. / Kutateladze, T.G. History Deposition Jul 26, 2017 Deposition site : RCSB / Processing site : RCSBRevision 1.0 Oct 4, 2017 Provider : repository / Type : Initial releaseRevision 1.1 Oct 18, 2017 Group : Database references / Category : citationItem : _citation.journal_volume / _citation.page_first / _citation.page_lastRevision 1.2 Dec 11, 2019 Group : Author supporting evidence / Category : pdbx_audit_support / Item : _pdbx_audit_support.funding_organizationRevision 1.3 Oct 4, 2023 Group : Data collection / Database references ... Data collection / Database references / Derived calculations / Refinement description Category : chem_comp_atom / chem_comp_bond ... chem_comp_atom / chem_comp_bond / database_2 / pdbx_initial_refinement_model / struct_conn / struct_conn_type Item : _database_2.pdbx_DOI / _database_2.pdbx_database_accession ... _database_2.pdbx_DOI / _database_2.pdbx_database_accession / _struct_conn.conn_type_id / _struct_conn.id / _struct_conn.pdbx_dist_value / _struct_conn.pdbx_leaving_atom_flag / _struct_conn.ptnr1_auth_asym_id / _struct_conn.ptnr1_auth_comp_id / _struct_conn.ptnr1_auth_seq_id / _struct_conn.ptnr1_label_asym_id / _struct_conn.ptnr1_label_atom_id / _struct_conn.ptnr1_label_comp_id / _struct_conn.ptnr1_label_seq_id / _struct_conn.ptnr2_auth_asym_id / _struct_conn.ptnr2_auth_comp_id / _struct_conn.ptnr2_auth_seq_id / _struct_conn.ptnr2_label_asym_id / _struct_conn.ptnr2_label_atom_id / _struct_conn.ptnr2_label_comp_id / _struct_conn.ptnr2_label_seq_id / _struct_conn_type.id
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