 Binding Sites
"Binding Sites" is a descriptor in the National Library of Medicine's controlled vocabulary thesaurus,
MeSH (Medical Subject Headings). Descriptors are arranged in a hierarchical structure,
which enables searching at various levels of specificity.
The parts of a macromolecule that directly participate in its specific combination with another molecule.
| Descriptor ID |
D001665
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| MeSH Number(s) |
G02.111.570.120
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| Concept/Terms |
Binding Sites- Binding Sites
- Site, Binding
- Sites, Binding
- Binding Site
- Combining Site
- Combining Sites
- Site, Combining
- Sites, Combining
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Below are MeSH descriptors whose meaning is more general than "Binding Sites".
Below are MeSH descriptors whose meaning is more specific than "Binding Sites".
This graph shows the total number of publications written about "Binding Sites" by people in UAMS Profiles by year, and whether "Binding Sites" was a major or minor topic of these publications.
To see the data from this visualization as text, click here.
| Year | Major Topic | Minor Topic | Total |
|---|
| 2024 | 0 | 2 | 2 | | 2022 | 0 | 3 | 3 | | 2021 | 0 | 5 | 5 | | 2020 | 1 | 2 | 3 | | 2019 | 1 | 5 | 6 | | 2018 | 0 | 6 | 6 | | 2017 | 0 | 10 | 10 | | 2016 | 0 | 9 | 9 | | 2015 | 0 | 9 | 9 | | 2014 | 0 | 13 | 13 | | 2013 | 0 | 13 | 13 | | 2012 | 0 | 11 | 11 | | 2011 | 0 | 10 | 10 | | 2010 | 0 | 11 | 11 | | 2009 | 0 | 11 | 11 | | 2008 | 0 | 7 | 7 | | 2007 | 0 | 10 | 10 | | 2006 | 0 | 19 | 19 | | 2005 | 0 | 16 | 16 | | 2004 | 0 | 16 | 16 | | 2003 | 0 | 24 | 24 | | 2002 | 0 | 11 | 11 | | 2001 | 0 | 5 | 5 | | 2000 | 0 | 6 | 6 | | 1999 | 0 | 10 | 10 | | 1998 | 0 | 5 | 5 | | 1997 | 0 | 9 | 9 | | 1996 | 0 | 7 | 7 | | 1995 | 0 | 7 | 7 | | 1994 | 0 | 4 | 4 | | 1993 | 0 | 7 | 7 | | 1992 | 0 | 1 | 1 | | 1991 | 1 | 2 | 3 | | 1990 | 1 | 4 | 5 | | 1989 | 0 | 1 | 1 |
To return to the timeline, click here.
Below are the most recent publications written about "Binding Sites" by people in Profiles over the past ten years.
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He X, Yun MK, Li Z, Waddell MB, Nourse A, Churion KA, Kreuzer KN, Byrd AK, White SW. Structural and functional insights into the interaction between the bacteriophage T4 DNA processing proteins gp32 and Dda. Nucleic Acids Res. 2024 Nov 11; 52(20):12748-12762.
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Gao J, Proffitt DR, Marecki JC, Protacio RU, Wahls WP, Byrd AK, Raney KD. Two residues in the DNA binding site of Pif1 helicase are essential for nuclear functions but dispensable for mitochondrial respiratory growth. Nucleic Acids Res. 2024 Jun 24; 52(11):6543-6557.
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Yeager C, Carter G, Gohara DW, Yennawar NH, Enemark EJ, Arnold JJ, Cameron CE. Enteroviral 2C protein is an RNA-stimulated ATPase and uses a two-step mechanism for binding to RNA and ATP. Nucleic Acids Res. 2022 11 11; 50(20):11775-11798.
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Yan NL, Nair R, Chu A, Wilson IA, Johnson KA, Morgan GJ, Kelly JW. Amyloidogenic immunoglobulin light chain kinetic stabilizers comprising a simple urea linker module reveal a novel binding sub-site. Bioorg Med Chem Lett. 2022 03 15; 60:128571.
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McDermott A, Kim K, Kasper S, Ho SM, Leung YK. The androgen receptor inhibits transcription of GPER1 by preventing Sp1 and Sp3 from binding to the promoters in prostate cancer cells. Oncotarget. 2022; 13:46-60.
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Greaney AJ, Starr TN, Barnes CO, Weisblum Y, Schmidt F, Caskey M, Gaebler C, Cho A, Agudelo M, Finkin S, Wang Z, Poston D, Muecksch F, Hatziioannou T, Bieniasz PD, Robbiani DF, Nussenzweig MC, Bjorkman PJ, Bloom JD. Mapping mutations to the SARS-CoV-2 RBD that escape binding by different classes of antibodies. Nat Commun. 2021 07 07; 12(1):4196.
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Penthala NR, Balasubramaniam M, Dachavaram SS, Morris EJ, Bhat-Nakshatri P, Ponder J, Jordan CT, Nakshatri H, Crooks PA. Antitumor properties of novel sesquiterpene lactone analogs as NF?B inhibitors that bind to the IKK? ubiquitin-like domain (ULD). Eur J Med Chem. 2021 Nov 15; 224:113675.
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Vyskocil S, Cardin D, Ciavarri J, Conlon J, Cullis C, England D, Gershman R, Gigstad K, Gipson K, Gould A, Greenspan P, Griffin R, Gulavita N, Harrison S, Hu Z, Hu Y, Hata A, Huang J, Huang SC, Janowick D, Jones M, Kolev V, Langston SP, Lee HM, Li G, Lok D, Ma L, Mai D, Malley J, Matsuda A, Mizutani H, Mizutani M, Molchanova N, Nunes E, Pusalkar S, Renou C, Rowland S, Sato Y, Shaw M, Shen L, Shi Z, Skene R, Soucy F, Stroud S, Xu H, Xu T, Abu-Yousif AO, Zhang J. Identification of Novel Carbocyclic Pyrimidine Cyclic Dinucleotide STING Agonists for Antitumor Immunotherapy Using Systemic Intravenous Route. J Med Chem. 2021 05 27; 64(10):6902-6923.
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Oltvai ZN, Harley SE, Koes D, Michel S, Warlick ED, Nelson AC, Yohe S, Mroz P. Assessing acquired resistance to IDH1 inhibitor therapy by full-exon IDH1 sequencing and structural modeling. Cold Spring Harb Mol Case Stud. 2021 04; 7(2).
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Yan W, Zhang L, Lv F, Moccia M, Carlomagno F, Landry C, Santoro M, Gosselet F, Frett B, Li HY. Discovery of pyrazolo-thieno[3,2-d]pyrimidinylamino-phenyl acetamides as type-II pan-tropomyosin receptor kinase (TRK) inhibitors: Design, synthesis, and biological evaluation. Eur J Med Chem. 2021 Apr 15; 216:113265.
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Balasubramaniam M, Mainali N, Bowroju SK, Atluri P, Penthala NR, Ayyadevera S, Crooks PA, Shmookler Reis RJ. Structural modeling of GSK3? implicates the inactive (DFG-out) conformation as the target bound by TDZD analogs. Sci Rep. 2020 10 27; 10(1):18326.
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Drew ED, Janes RW. Identification of a druggable binding pocket in the spike protein reveals a key site for existing drugs potentially capable of combating Covid-19 infectivity. BMC Mol Cell Biol. 2020 Jul 01; 21(1):49.
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Moldoveanu T, Czabotar PE. BAX, BAK, and BOK: A Coming of Age for the BCL-2 Family Effector Proteins. Cold Spring Harb Perspect Biol. 2020 04 01; 12(4).
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Banaszek A, Bumm TGP, Nowotny B, Geis M, Jacob K, W?lfl M, Trebing J, Kucka K, Kouhestani D, Gogishvili T, Krenz B, Lutz J, Rasche L, H?nemann D, Neuweiler H, Heiby JC, Bargou RC, Wajant H, Einsele H, Riethm?ller G, Stuhler G. On-target restoration of a split T cell-engaging antibody for precision immunotherapy. Nat Commun. 2019 11 26; 10(1):5387.
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Juvvadi PR, Fox D, Bobay BG, Hoy MJ, Gobeil SMC, Venters RA, Chang Z, Lin JJ, Averette AF, Cole DC, Barrington BC, Wheaton JD, Ciofani M, Trzoss M, Li X, Lee SC, Chen YL, Mutz M, Spicer LD, Schumacher MA, Heitman J, Steinbach WJ. Harnessing calcineurin-FK506-FKBP12 crystal structures from invasive fungal pathogens to develop antifungal agents. Nat Commun. 2019 09 19; 10(1):4275.
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Byrum SD, Washam CL, Patterson JD, Vyas KK, Gilbert KM, Blossom SJ. Continuous Developmental and Early Life Trichloroethylene Exposure Promoted DNA Methylation Alterations in Polycomb Protein Binding Sites in Effector/Memory CD4+ T Cells. Front Immunol. 2019; 10:2016.
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Feng H, Bao S, Rahman MA, Weyn-Vanhentenryck SM, Khan A, Wong J, Shah A, Flynn ED, Krainer AR, Zhang C. Modeling RNA-Binding Protein Specificity In?Vivo by Precisely Registering Protein-RNA Crosslink Sites. Mol Cell. 2019 06 20; 74(6):1189-1204.e6.
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Lee T, Christov PP, Shaw S, Tarr JC, Zhao B, Veerasamy N, Jeon KO, Mills JJ, Bian Z, Sensintaffar JL, Arnold AL, Fogarty SA, Perry E, Ramsey HE, Cook RS, Hollingshead M, Davis Millin M, Lee KM, Koss B, Budhraja A, Opferman JT, Kim K, Arteaga CL, Moore WJ, Olejniczak ET, Savona MR, Fesik SW. Discovery of Potent Myeloid Cell Leukemia-1 (Mcl-1) Inhibitors That Demonstrate in Vivo Activity in Mouse Xenograft Models of Human Cancer. J Med Chem. 2019 04 25; 62(8):3971-3988.
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Dworatzek E, Mahmoodzadeh S, Schriever C, Kusumoto K, Kramer L, Santos G, Fliegner D, Leung YK, Ho SM, Zimmermann WH, Lutz S, Regitz-Zagrosek V. Sex-specific regulation of collagen I and III expression by 17?-Estradiol in cardiac fibroblasts: role of estrogen receptors. Cardiovasc Res. 2019 02 01; 115(2):315-327.
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Kaur H, Nandivada S, Acharjee MC, McNabb DS, Li J. Estimating RNA Polymerase Protein Binding Sites on ? DNA Using Solid-State Nanopores. ACS Sens. 2019 01 25; 4(1):100-109.
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Simon EJ, Linstedt AD. Site-specific glycosylation of Ebola virus glycoprotein by human polypeptide GalNAc-transferase 1 induces cell adhesion defects. J Biol Chem. 2018 12 21; 293(51):19866-19873.
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Kiaei M, Balasubramaniam M, Govind Kumar V, Shmookler Reis RJ, Moradi M, Varughese KI. ALS-causing mutations in profilin-1 alter its conformational dynamics: A computational approach to explain propensity for aggregation. Sci Rep. 2018 08 30; 8(1):13102.
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Lei MG, Lee CY. Repression of Capsule Production by XdrA and CodY in Staphylococcus aureus. J Bacteriol. 2018 09 15; 200(18).
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Chintapalli SV, Anishkin A, Adams SH. Exploring the entry route of palmitic acid and palmitoylcarnitine into myoglobin. Arch Biochem Biophys. 2018 10 01; 655:56-66.
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Dovey CM, Diep J, Clarke BP, Hale AT, McNamara DE, Guo H, Brown NW, Cao JY, Grace CR, Gough PJ, Bertin J, Dixon SJ, Fiedler D, Mocarski ES, Kaiser WJ, Moldoveanu T, York JD, Carette JE. MLKL Requires the Inositol Phosphate Code to Execute Necroptosis. Mol Cell. 2018 06 07; 70(5):936-948.e7.
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Katoli P, Godbole A, Romanowski MJ, Clark K, Meredith E, Saenz-Vash V, Wang YK, Lewicki N, Nguyen AA, Lynch JM. Full-length myocilin protein is purified from mammalian cells as a dimer. Protein Expr Purif. 2018 07; 147:38-48.
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Uchida T, Wakasugi M, Kitamura T, Yamamoto T, Asakura M, Fujiwara R, Itoh T, Fujii H, Hirono S. Exploration of DPP-IV inhibitors with a novel scaffold by multistep in silico screening. J Mol Graph Model. 2018 01; 79:254-263.
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Avnir Y, Prachanronarong KL, Zhang Z, Hou S, Peterson EC, Sui J, Zayed H, Kurella VB, McGuire AT, Stamatatos L, Hilbert BJ, Bohn MF, Kowalik TF, Jensen JD, Finberg RW, Wang JP, Goodall M, Jefferis R, Zhu Q, Kurt Yilmaz N, Schiffer CA, Marasco WA. Structural Determination of the Broadly Reactive Anti-IGHV1-69 Anti-idiotypic Antibody G6 and Its Idiotope. Cell Rep. 2017 Dec 12; 21(11):3243-3255.
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Knox B, Wang Y, Rogers LJ, Xuan J, Yu D, Guan H, Chen J, Shi T, Ning B, Kadlubar SA. A functional SNP in the 3'-UTR of TAP2 gene interacts with microRNA hsa-miR-1270 to suppress the gene expression. Environ Mol Mutagen. 2018 03; 59(2):134-143.
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Shwab EK, Juvvadi PR, Waitt G, Soderblom EJ, Moseley MA, Nicely NI, Steinbach WJ. Phosphorylation of Aspergillus fumigatus PkaR impacts growth and cell wall integrity through novel mechanisms. FEBS Lett. 2017 11; 591(22):3730-3744.
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Ramaker RC, Savic D, Hardigan AA, Newberry K, Cooper GM, Myers RM, Cooper SJ. A genome-wide interactome of DNA-associated proteins in the human liver. Genome Res. 2017 11; 27(11):1950-1960.
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Gill P, Bhattacharyya S, McCullough S, Letzig L, Mishra PJ, Luo C, Dweep H, James L. MicroRNA regulation of CYP 1A2, CYP3A4 and CYP2E1 expression in acetaminophen toxicity. Sci Rep. 2017 09 26; 7(1):12331.
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Ahsan KB, Masuda A, Rahman MA, Takeda JI, Nazim M, Ohkawara B, Ito M, Ohno K. SRSF1 suppresses selection of intron-distal 5' splice site of DOK7 intron 4 to generate functional full-length Dok-7 protein. Sci Rep. 2017 09 05; 7(1):10446.
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Eoff RL, Raney KD. A catch and release program for single-stranded DNA. J Biol Chem. 2017 08 04; 292(31):13085-13086.
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Lopez CR, Singh S, Hambarde S, Griffin WC, Gao J, Chib S, Yu Y, Ira G, Raney KD, Kim N. Yeast Sub1 and human PC4 are G-quadruplex binding proteins that suppress genome instability at co-transcriptionally formed G4 DNA. Nucleic Acids Res. 2017 Jun 02; 45(10):5850-5862.
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Janganati V, Ponder J, Thakkar S, Jordan CT, Crooks PA. Succinamide derivatives of melampomagnolide B and their anti-cancer activities. Bioorg Med Chem. 2017 07 15; 25(14):3694-3705.
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Buckberry S, Bianco-Miotto T, Bent SJ, Clifton V, Shoubridge C, Shankar K, Roberts CT. Placental transcriptome co-expression analysis reveals conserved regulatory programs across gestation. BMC Genomics. 2017 01 03; 18(1):10.
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Allison D, Delancey E, Ramey H, Williams C, Alsharif ZA, Al-Khattabi H, Ontko A, Gilmore D, Alam MA. Synthesis and antimicrobial studies of novel derivatives of 4-(4-formyl-3-phenyl-1H-pyrazol-1-yl)benzoic acid as potent anti-Acinetobacter baumannii agents. Bioorg Med Chem Lett. 2017 02 01; 27(3):387-392.
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Su Z, Wang F, Lee JH, Stephens KE, Papazyan R, Voronina E, Krautkramer KA, Raman A, Thorpe JJ, Boersma MD, Kuznetsov VI, Miller MD, Taverna SD, Phillips GN, Denu JM. Reader domain specificity and lysine demethylase-4 family function. Nat Commun. 2016 11 14; 7:13387.
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Balasubramanian A, Manzano M, Teramoto T, Pilankatta R, Padmanabhan R. High-throughput screening for the identification of small-molecule inhibitors of the flaviviral protease. Antiviral Res. 2016 10; 134:6-16.
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Meagher M, Enemark EJ. Structure of a double hexamer of the Pyrococcus furiosus minichromosome maintenance protein N-terminal domain. Acta Crystallogr F Struct Biol Commun. 2016 07; 72(Pt 7):545-51.
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Nickell JR, Culver JP, Janganati V, Zheng G, Dwoskin LP, Crooks PA. 1,4-Diphenalkylpiperidines: A new scaffold for the design of potent inhibitors of the vesicular monoamine transporter-2. Bioorg Med Chem Lett. 2016 07 01; 26(13):2997-3000.
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Culbertson AT, Tietze AA, Tietze D, Chou YH, Smith AL, Young ZT, Zabotina OA. A homology model of Xyloglucan Xylosyltransferase 2 reveals critical amino acids involved in substrate binding. Glycobiology. 2016 09; 26(9):961-972.
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Giebel NL, Shadley JD, McCarver DG, Dorko K, Gramignoli R, Strom SC, Yan K, Simpson PM, Hines RN. Role of Chromatin Structural Changes in Regulating Human CYP3A Ontogeny. Drug Metab Dispos. 2016 07; 44(7):1027-37.
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Casta?eda CA, Dixon EK, Walker O, Chaturvedi A, Nakasone MA, Curtis JE, Reed MR, Krueger S, Cropp TA, Fushman D. Linkage via K27 Bestows Ubiquitin Chains with Unique Properties among Polyubiquitins. Structure. 2016 Mar 01; 24(3):423-36.
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Paugh SW, Coss DR, Bao J, Laudermilk LT, Grace CR, Ferreira AM, Waddell MB, Ridout G, Naeve D, Leuze M, LoCascio PF, Panetta JC, Wilkinson MR, Pui CH, Naeve CW, Uberbacher EC, Bonten EJ, Evans WE. MicroRNAs Form Triplexes with Double Stranded DNA at Sequence-Specific Binding Sites; a Eukaryotic Mechanism via which microRNAs Could Directly Alter Gene Expression. PLoS Comput Biol. 2016 Feb; 12(2):e1004744.
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Quarato G, Guy CS, Grace CR, Llambi F, Nourse A, Rodriguez DA, Wakefield R, Frase S, Moldoveanu T, Green DR. Sequential Engagement of Distinct MLKL Phosphatidylinositol-Binding Sites Executes Necroptosis. Mol Cell. 2016 Feb 18; 61(4):589-601.
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Penthala NR, Ketkar A, Sekhar KR, Freeman ML, Eoff RL, Balusu R, Crooks PA. 1-Benzyl-2-methyl-3-indolylmethylene barbituric acid derivatives: Anti-cancer agents that target nucleophosmin 1 (NPM1). Bioorg Med Chem. 2015 Nov 15; 23(22):7226-33.
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Yahashiri A, Jorgenson MA, Weiss DS. Bacterial SPOR domains are recruited to septal peptidoglycan by binding to glycan strands that lack stem peptides. Proc Natl Acad Sci U S A. 2015 Sep 08; 112(36):11347-52.
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Tian E, B?rset M, Sawyer JR, Brede G, V?tsveen TK, Hov H, Waage A, Barlogie B, Shaughnessy JD, Epstein J, Sundan A. Allelic mutations in noncoding genomic sequences construct novel transcription factor binding sites that promote gene overexpression. Genes Chromosomes Cancer. 2015 Nov; 54(11):692-701.
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Hartman JH, Letzig LG, Roberts DW, James LP, Fifer EK, Miller GP. Cooperativity in CYP2E1 metabolism of acetaminophen and styrene mixtures. Biochem Pharmacol. 2015 Oct 01; 97(3):341-9.
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Manzano M, Forte E, Raja AN, Schipma MJ, Gottwein E. Divergent target recognition by coexpressed 5'-isomiRs of miR-142-3p and selective viral mimicry. RNA. 2015 Sep; 21(9):1606-20.
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Garimalla S, Kieber-Emmons T, Pashov AD. The Patterns of Coevolution in Clade B HIV Envelope's N-Glycosylation Sites. PLoS One. 2015; 10(6):e0128664.
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Giannakakis A, Zhang J, Jenjaroenpun P, Nama S, Zainolabidin N, Aau MY, Yarmishyn AA, Vaz C, Ivshina AV, Grinchuk OV, Voorhoeve M, Vardy LA, Sampath P, Kuznetsov VA, Kurochkin IV, Guccione E. Contrasting expression patterns of coding and noncoding parts of the human genome upon oxidative stress. Sci Rep. 2015 May 29; 5:9737.
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Penthala NR, Thakkar S, Crooks PA. Heteroaromatic analogs of the resveratrol analog DMU-212 as potent anti-cancer agents. Bioorg Med Chem Lett. 2015 Jul 15; 25(14):2763-7.
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Ding D, Nickell JR, Dwoskin LP, Crooks PA. Quinolyl analogues of norlobelane: novel potent inhibitors of [(3)H]dihydrotetrabenazine binding and [(3)H]dopamine uptake at the vesicular monoamine transporter-2. Bioorg Med Chem Lett. 2015 Jul 01; 25(13):2613-6.
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Epling LB, Grace CR, Lowe BR, Partridge JF, Enemark EJ. Cancer-associated mutants of RNA helicase DDX3X are defective in RNA-stimulated ATP hydrolysis. J Mol Biol. 2015 May 08; 427(9):1779-1796.
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Roy S, Sadhukhan R, Ghosh U, Das TK. Interaction studies between biosynthesized silver nanoparticle with calf thymus DNA and cytotoxicity of silver nanoparticles. Spectrochim Acta A Mol Biomol Spectrosc. 2015 Apr 15; 141:176-84.
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