A Fe2+-dependent self-inhibited state influences the druggability of human collagen lysyl hydroxylase (LH/PLOD) enzymes

Article Medicine, Research & Experimental

PLODs are overexpressed in ovarian cancer and are associated with gap junctions via connexin 43

Ting Guo et al.

Summary: The study revealed that PLODs are generally overexpressed in ovarian cancer, and each PLOD may not be functionally redundant. The association between PLOD3 and gap junctions warrants further investigation.

LABORATORY INVESTIGATION (2021)

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Article Biochemistry & Molecular Biology

Hypoxia-induced PLOD1 overexpression contributes to the malignant phenotype of glioblastoma via NF-κB signaling

Zhenlin Wang et al.

Summary: PLOD1 is highly expressed in malignant tumors such as esophageal squamous cell carcinoma, gastric cancer, and colorectal cancer, particularly associated with the progression of the most malignant mesenchymal subtype in GBM. Molecular experiments and tumor xenograft models demonstrated that PLOD1 overexpression promotes tumor viability, proliferation, migration, and mesenchymal transition, with an association to the NF-kappa B signaling pathway. High PLOD1 expression may be a potential treatment target for mesenchymal GBM or even all GBM by enhancing tumor invasiveness.

ONCOGENE (2021)

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Article Multidisciplinary Sciences

High-throughput determination of protein affinities using unmodified peptide libraries in nanomolar scale

Clemens Schulte et al.

Summary: Protein-protein interactions are crucial for understanding physiology and pathology, with short linear motifs playing a key role. Current approaches for determining protein-peptide affinity have limitations, but the TRIC method presents a high-throughput way to analyze these interactions in solution. TRIC allows for the identification and mapping of protein interaction sites with varying affinities, providing a label-free method for determining binding affinities of unmodified peptide libraries.

ISCIENCE (2021)

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Review Biochemistry & Molecular Biology

Collagen hydroxylysine glycosylation: non-conventional substrates for atypical glycosyltransferase enzymes

Francesca De Giorgi et al.

Summary: The translation discusses the necessary post-translational modifications required by collagen molecules, the importance of glycan attachments, and the essential roles these modifications play in maintaining the homeostasis of collagen and ECM.

BIOCHEMICAL SOCIETY TRANSACTIONS (2021)

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Article Multidisciplinary Sciences

Comprehensive analysis of PLOD family members in low-grade gliomas using bioinformatics methods

Yonghui Zhao et al.

Summary: The study explored the significance of PLODs in LGG, finding that their high expression levels were associated with shorter DFS and OS in LGG patients. Additionally, the mechanism of PLODs in LGG may involve responses to hypoxia, oxidoreductase activity, Lysine degradation, and immune cell infiltration. These findings suggest that PLODs could serve as biomarkers for diagnosis, prognosis, and potential therapeutic targets in LGG patients.

PLOS ONE (2021)

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Correction Biotechnology & Applied Microbiology

Corrigendum to PLOD2 Is a Potent Prognostic Marker and Associates with Immune Infiltration in Cervical Cancer ( vol 2021, 5512310,2021)

Guang Li et al.

BIOMED RESEARCH INTERNATIONAL (2021)

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Article Immunology

Integrated Profiling Identifies PLOD3 as a Potential Prognostic and Immunotherapy Relevant Biomarker in Colorectal Cancer

Junhong Shi et al.

Summary: PLOD3 is highly expressed in colorectal cancer and associated with advanced stage CRC and poor survival. High PLOD3 expression is correlated with low levels of immune cells such as B cells, CD4(+) T cells, M1 macrophages, and CD8(+) T cells. Patients with high PLOD3 expression may be resistant to immunotherapy.

FRONTIERS IN IMMUNOLOGY (2021)

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Article Multidisciplinary Sciences

The relationship between PLOD1 expression level and glioma prognosis investigated using public databases

Lei Tian et al.

Summary: In gliomas, high expression of PLOD1 is associated with poor survival and can serve as an oncogenic factor and independent prognostic indicator. The high expression of PLOD1 is enriched in ECM-related pathways, and its positive correlation with various genes also linked to poor prognosis of glioma. Targeting PLOD1 may be a potential therapeutic strategy for glioma patients.

PEERJ (2021)

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Article Biology

A collagen glucosyltransferase drives lung adenocarcinoma progression in mice

Hou-Fu Guo et al.

Summary: Guo et al. have determined the molecular basis of collagen lysyl hydroxylase 2 (LH2) substrate specificity, showing that LH2 functions not only as a telopeptidyl lysyl hydroxylase, but also as a collagen glucosyltransferase to drive lung cancer progression. The research suggests that LH2 plays a crucial role in promoting LUAD progression through a variety of mechanisms, including tLH-dependent and tLH-independent pathways.

COMMUNICATIONS BIOLOGY (2021)

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Article Biochemistry & Molecular Biology

A Human Pan-Cancer System Analysis of Procollagen-Lysine, 2-Oxoglutarate 5-Dioxygenase 3 (PLOD3)

Siming Gong et al.

Summary: The study analyzed the impact of PLOD3 in 33 types of cancers, finding that its expression levels are associated with cancer progression, metastasis, and survival period, particularly in terms of immune response and genetic alterations. In addition to potentially serving as an inducer of cancer and a potential therapeutic target, PLOD3 also plays a crucial role in various immune cells and tumor mutation burden.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2021)

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Article Biotechnology & Applied Microbiology

PLOD3 Is Associated with Immune Cell Infiltration and Genomic Instability in Colon Adenocarcinoma

Xianyu Deng et al.

Summary: The study found that PLOD3 is highly upregulated in COAD and associated with unfavorable prognosis. High PLOD3 expression is linked to tumor genomic instability and reduced immune cell infiltration levels in COAD. Additionally, high PLOD3 expression weakens the immune response and enhances tumor-promoting pathways in COAD, contributing to poor prognosis.

BIOMED RESEARCH INTERNATIONAL (2021)

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Article Oncology

Lysyl hydroxylase 2-induced collagen cross-link switching promotes metastasis in head and neck squamous cell carcinomas *

Kotaro Sato et al.

Summary: Head and neck squamous cell carcinoma (HNSCC) is the 6th most common cancer globally, with patient prognosis closely related to tumor metastases and the role of collagen in the tumor microenvironment (TME). Lysyl hydroxylase 2 (LH2) is key in modifying collagen cross-links, affecting HNSCC tumor invasion and metastasis.

NEOPLASIA (2021)

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Article Biology

Optimized Recombinant Production of Secreted Proteins Using Human Embryonic Kidney (HEK293) Cells Grown in Suspension

Silvia Faravelli et al.

Summary: This study presents a clear protocol for high-efficient recombinant protein production of HEK293 cells in suspension culture, optimizing the maintenance schedule to simplify the work of operators responsible for cell culture maintenance.

BIO-PROTOCOL (2021)

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Article Biochemistry & Molecular Biology

Hypoxia-induced PLOD2 regulates invasion and epithelial-mesenchymal transition in endometrial carcinoma cells

Junhui Wan et al.

GENES & GENOMICS (2020)

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Article Biochemical Research Methods

Knockdown of PLOD3 suppresses the malignant progression of renal cell carcinoma via reducing TWIST1 expression

Da Xie et al.

MOLECULAR AND CELLULAR PROBES (2020)

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Article Biotechnology & Applied Microbiology

PLOD1 Is a Prognostic Biomarker and Mediator of Proliferation and Invasion in Osteosarcoma

Haoli Jiang et al.

BIOMED RESEARCH INTERNATIONAL (2020)

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Article Oncology

Identification of PLOD Family Genes as Novel Prognostic Biomarkers for Hepatocellular Carcinoma

Bo Yang et al.

FRONTIERS IN ONCOLOGY (2020)

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Article Oncology

Overexpressing PLOD family genes predict poor prognosis in gastric cancer

Shan-Shan Li et al.

JOURNAL OF CANCER (2020)

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Article Dentistry, Oral Surgery & Medicine

Aberrant Collagen Cross-linking in Human Oral Squamous Cell Carcinoma

T. Saito et al.

JOURNAL OF DENTAL RESEARCH (2019)

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Article Cell Biology

PLOD3 suppression exerts an anti-tumor effect on human lung cancer cells by modulating the PKC-delta signaling pathway

Jeong-Hwa Baek et al.

CELL DEATH & DISEASE (2019)

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Article Genetics & Heredity

Pathogenic variants in PLOD3 result in a Stickler syndrome-like connective tissue disorder with vascular complications

Lisa Jean Ewans et al.

JOURNAL OF MEDICAL GENETICS (2019)

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Article Oncology

Aberrantly expressed PLOD1 promotes cancer aggressiveness in bladder cancer: a potential prognostic marker and therapeutic target

Yasutaka Yamada et al.

MOLECULAR ONCOLOGY (2019)

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Article Cell Biology

Procollagen-lysine, 2-oxoglutarate 5-dioxygenases 1, 2, and 3 are potential prognostic indicators in patients with clear cell renal cell carcinoma

Wen-Hao Xu et al.

AGING-US (2019)

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Article Biochemical Research Methods

Development of a High-Throughput Lysyl Hydroxylase (LH) Assay and Identification of Small-Molecule Inhibitors against LH2

Ashwini K. Devkota et al.

SLAS DISCOVERY (2019)

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Article Medical Laboratory Technology

PLOD3 is Upregulated in Gastric Cancer and Correlated with Clinicopathologic Characteristics

Biao Wang et al.

CLINICAL LABORATORY (2019)

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Article Biochemistry & Molecular Biology

Inhibition of enzymes involved in collagen cross-linking reduces vascular smooth muscle cell calcification

Eva Jover et al.

FASEB JOURNAL (2018)

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Article Biochemistry & Molecular Biology

High Expression of PLOD1 Drives Tumorigenesis and Affects Clinical Outcome in Gastrointestinal Carcinoma

Dazhi Wang et al.

GENETIC TESTING AND MOLECULAR BIOMARKERS (2018)

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Article Chemistry, Physical

The Structural Asymmetry of Mitochondrial Hsp90 (Trap1) Determines Fine Tuning of Functional Dynamics

Elisabetta Moroni et al.

JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2018)

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Article Multidisciplinary Sciences

Pro-metastatic collagen lysyl hydroxylase dimer assemblies stabilized by Fe2+-binding

Hou-Fu Guo et al.

NATURE COMMUNICATIONS (2018)

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Article

Overexpression of PLOD3 promotes tumor progression and poor prognosis in gliomas

Chia-Kuang Tsai et al.

Oncotarget (2018)

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Review Oncology

Cell Adhesion and Matrix Stiffness: Coordinating Cancer Cell invasion and Metastasis

Vasiliki Gkretsi et al.

FRONTIERS IN ONCOLOGY (2018)

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Article Multidisciplinary Sciences

Molecular architecture of the multifunctional collagen lysyl hydroxylase and glycosyltransferase LH3

Luigi Scietti et al.

NATURE COMMUNICATIONS (2018)

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Article Cell Biology

PLOD2 regulated by transcription factor FOXA1 promotes metastasis in NSCLC

Hongzhi Du et al.

CELL DEATH & DISEASE (2017)

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Article Oncology

Procollagen-lysine 2-oxoglutarate 5-dioxygenase 2 promotes hypoxia-induced glioma migration and invasion

Yangyang Xu et al.

ONCOTARGET (2017)

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Article Oncology

Hypoxia-induced PLOD2 promotes proliferation, migration and invasion via PI3K/Akt signaling in glioma

Ye Song et al.

ONCOTARGET (2017)

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Review Medicine, Research & Experimental

PLOD2 in cancer research

Hongzhi Du et al.

BIOMEDICINE & PHARMACOTHERAPY (2017)

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Article Oncology

Cancer-Associated Fibroblasts Induce a Collagen Cross-link Switch in Tumor Stroma

Daniela Pankova et al.

MOLECULAR CANCER RESEARCH (2016)

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Article Oncology

Regulation of the collagen cross-linking enzymes LOXL2 and PLOD2 by tumor-suppressive microRNA-26a/b in renal cell carcinoma

Akira Kurozumi et al.

INTERNATIONAL JOURNAL OF ONCOLOGY (2016)

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Article Biochemistry & Molecular Biology

Lysyl Hydroxylase 2 Is Secreted by Tumor Cells and Can Modify Collagen in the Extracellular Space

Yulong Chen et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2016)

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Article Chemistry, Medicinal

MCPB.py: A Python Based Metal Center Parameter Builder

Pengfei Li et al.

JOURNAL OF CHEMICAL INFORMATION AND MODELING (2016)

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Article Biochemistry & Molecular Biology

Selective inhibition of prolyl 4-hydroxylases by bipyridinedicarboxylates

James D. Vasta et al.

BIOORGANIC & MEDICINAL CHEMISTRY (2015)

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Review Biochemistry & Molecular Biology

Catalytic Mechanisms of Fe(II)-and 2-Oxoglutarate-dependent Oxygenases

Salette Martinez et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2015)

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Article Chemistry, Physical

ff14SB: Improving the Accuracy of Protein Side Chain and Backbone Parameters from ff99SB

James A. Maier et al.

JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2015)

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Article Medicine, Research & Experimental

Lysyl hydroxylase 2 induces a collagen cross-link switch in tumor stroma

Yulong Chen et al.

JOURNAL OF CLINICAL INVESTIGATION (2015)

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Article Chemistry, Physical

Routine Microsecond Molecular Dynamics Simulations with AMBER on GPUs. 2. Explicit Solvent Particle Mesh Ewald

Romelia Salomon-Ferrer et al.

JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2013)

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Article Oncology

Procollagen Lysyl Hydroxylase 2 Is Essential for Hypoxia-Induced Breast Cancer Metastasis

Daniele M. Gilkes et al.

MOLECULAR CANCER RESEARCH (2013)

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Article Oncology

Hypoxia-Dependent Modification of Collagen Networks Promotes Sarcoma Metastasis

T. S. Karin Eisinger-Mathason et al.

CANCER DISCOVERY (2013)

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Article Cell Biology

Global secretome analysis identifies novel mediators of bone metastasis

Mario Andres Blanco et al.

CELL RESEARCH (2012)

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Review Biochemistry & Molecular Biology

Lysine post-translational modifications of collagen

Mitsuo Yamauchi et al.

LYSINE-BASED POST-TRANSLATIONAL MODIFICATION OF PROTEINS (2012)

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Article Gastroenterology & Hepatology

PLOD2 induced under hypoxia is a novel prognostic factor for hepatocellular carcinoma after curative resection

Takehiro Noda et al.

LIVER INTERNATIONAL (2012)

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Article Biochemical Research Methods

Corresponding Functional Dynamics across the Hsp90 Chaperone Family: Insights from a Multiscale Analysis of MD Simulations

Giulia Morra et al.

PLOS COMPUTATIONAL BIOLOGY (2012)

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Review Chemistry, Multidisciplinary

Inhibition of 2-oxoglutarate dependent oxygenases

Nathan R. Rose et al.

CHEMICAL SOCIETY REVIEWS (2011)

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Article Chemistry, Physical

Improved Treatment of Ligands and Coupling Effects in Empirical Calculation and Rationalization of pKa Values

Chresten R. Sondergaard et al.

JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2011)

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Review Biochemistry & Molecular Biology

Physiological and biochemical aspects of hydroxylations and demethylations catalyzed by human 2-oxoglutarate oxygenases

Christoph Loenarz et al.

TRENDS IN BIOCHEMICAL SCIENCES (2011)

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Article Biochemical Research Methods

Features and development of Coot

P. Emsley et al.

ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY (2010)

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Article Biochemistry & Molecular Biology

Matrix Crosslinking Forces Tumor Progression by Enhancing Integrin Signaling

Kandice R. Levental et al.

CELL (2009)

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Review Chemistry, Physical

Determination of alkali and halide monovalent ion parameters for use in explicitly solvated biomolecular simulations

In Suk Joung et al.

JOURNAL OF PHYSICAL CHEMISTRY B (2008)

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Editorial Material Biochemistry & Molecular Biology

Expanding chemical biology of 2-oxoglutarate oxygenases

Christoph Loenarz et al.

NATURE CHEMICAL BIOLOGY (2008)

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Article Medicine, General & Internal

Collagen reorganization at the tumor-stromal interface facilitates local invasion

Paolo P. Provenzano et al.

BMC MEDICINE (2006)

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Review Biochemistry & Molecular Biology

Structural studies on 2-oxoglutarate oxygenases and related double-stranded β-helix fold proteins

Ian J. Clifton et al.

JOURNAL OF INORGANIC BIOCHEMISTRY (2006)

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Review Chemistry, Multidisciplinary

The Amber biomolecular simulation programs

DA Case et al.

JOURNAL OF COMPUTATIONAL CHEMISTRY (2005)

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Article Chemistry, Physical

Balanced basis sets of split valence, triple zeta valence and quadruple zeta valence quality for H to Rn: Design and assessment of accuracy

F Weigend et al.

PHYSICAL CHEMISTRY CHEMICAL PHYSICS (2005)

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Review Chemistry, Multidisciplinary

Dioxygen activation at mononuclear nonheme iron active sites: Enzymes, models, and intermediates

M Costas et al.

CHEMICAL REVIEWS (2004)

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Article Chemistry, Multidisciplinary

Development and testing of a general amber force field

JM Wang et al.

JOURNAL OF COMPUTATIONAL CHEMISTRY (2004)

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Article Biochemistry & Molecular Biology

Increased formation of pyridinoline cross-links due to higher telopeptide lysyl hydroxylase levels is a general fibrotic phenomenon

AJ van der Slot et al.

MATRIX BIOLOGY (2004)

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A Fe2+-dependent self-inhibited state influences the druggability of human collagen lysyl hydroxylase (LH/PLOD) enzymes

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