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Crystal structure of oxidized human nm23-H1
Biology and Chemistry Report
4ENO
  •   Structure Details   Hide

    Structure Keywords

    Keywords TRANSFERASE
    Text Ferredoxin-like/Alpha, beta proteins, nucleoside diphosphate kinase, TRANSFERASE

    Polymeric Molecules

    Chain A,B
    Description Nucleoside diphosphate kinase A 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 17170.9 
    Source Method genetically manipulated  
    Entity Name NDK A, NDP kinase A, Granzyme A-activated DNase, GAAD, Metastasis inhibition factor nm23, Tumor metastatic process-associated protein, nm23-H1 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    PO4  PHOSPHATE ION  O4 P   94.97  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A,B NDKA_HUMAN P15531     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    A B  2.7.4.6      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A,B
    GO ID   Ontology GO Term Definition
    2762   Negative Regulation of Myeloid Leukocyte Differentiation  Any Process That Stops Prevents or Reduces the Frequency Rate or Extent of Myeloid Leukocyte Differentiation. 
    6165   Nucleoside Diphosphate Phosphorylation  The Process of Introducing a Phosphate Group Into a Nucleoside Diphosphate to Produce a Nucleoside Triphosphate. 
    6183   GTP Biosynthetic Process  The Chemical Reactions and Pathways Resulting in the Formation of GTP Guanosine Triphosphate. 
    6228   Utp Biosynthetic Process  The Chemical Reactions and Pathways Resulting in the Formation of Utp Uridine (5' )triphosphate. 
    6241   Ctp Biosynthetic Process  The Chemical Reactions and Pathways Resulting in the Formation of Ctp Cytidine 5' Triphosphate. 
    6308   DNA Catabolic Process  The Cellular DNA Metabolic Process Resulting in the Breakdown of DNA Deoxyribonucleic Acid One of the Two Main Types of Nucleic Acid Consisting of a Long Unbranched Macromolecule Formed From One or Two Strands of Linked Deoxyribonucleotides the 3' Phosphate Group of Each Constituent Deoxyribonucleotide Being Joined in 3' 5' Phosphodiester Linkage to the 5' Hydroxyl Group of the Deoxyribose Moiety of the Next One. 
    6897   Endocytosis  A Vesicle Mediated Transport Process in Which Cells Take Up External Materials or Membrane Constituents by the Invagination of a Small Region of the Plasma Membrane to Form a New Membrane Bounded Vesicle. 
    7399   Nervous System Development  The Process Whose Specific Outcome Is the Progression of Nervous Tissue Over Time From Its Formation to Its Mature State. 
    7595   Lactation  The Secretion of Milk by the Mammary Gland. 
    8285   Negative Regulation of Cell Proliferation  Any Process That Stops Prevents or Reduces the Rate or Extent of Cell Proliferation. 
    9117   Nucleotide Metabolic Process  The Chemical Reactions and Pathways Involving a Nucleotide a Nucleoside That Is Esterified with (ortho)phosphate or an Oligophosphate At Any Hydroxyl Group On the Glycose Moiety; May Be Mono Di or Triphosphate; This Definition Includes Cyclic Nucleotides (nucleoside Cyclic Phosphates). 
    10629   Negative Regulation of Gene Expression  Any Process That Decreases the Frequency Rate or Extent of Gene Expression. Gene Expression Is the Process in Which a Gene's Coding Sequence Is Converted Into a Mature Gene Product or Products (proteins or Rna). This Includes the Production of an RNA Transcript As Well As Any Processing to Produce a Mature RNA Product or an MRNA (for Protein Coding Genes) and the Translation of That MRNA Into Protein. Some Protein Processing Events May Be Included When They Are Required to Form an Active Form of a Product From an Inactive Precursor Form. 
    10976   Positive Regulation of Neuron Projection Development  Any Process That Increases the Rate Frequency or Extent of Neuron Projection Development. Neuron Projection Development Is the Process Whose Specific Outcome Is the Progression of a Neuron Projection Over Time From Its Formation to the Mature Structure. a Neuron Projection Is Any Process Extending From a Neural Cell Such As Axons or Dendrites (collectively Called Neurites). 
    14075   Response to Amine  Any Process That Results in a Change in State or Activity of a Cell or an Organism (in Terms of Movement Secretion Enzyme Production Gene Expression Etc.) As a Result of an Amine Stimulus. an Amine Is a Compound Formally Derived From Ammonia by Replacing One Two or Three Hydrogen Atoms by Hydrocarbyl Groups. 
    15949   Nucleobase Containing Small Molecule Interconversion  The Chemical Reactions and Pathways by Which a Nucleobase Nucleoside or Nucleotide Small Molecule Is Synthesized From Another Nucleobase Nucleoside or Nucleotide Small Molecule. 
    16310   Phosphorylation  The Process of Introducing a Phosphate Group Into a Molecule Usually with the Formation of a Phosphoric Ester a Phosphoric Anhydride or a Phosphoric Amide. 
    21766   Hippocampus Development  The Progression of the Hippocampus Over Time From Its Initial Formation Until Its Mature State. 
    30154   Cell Differentiation  The Process in Which Relatively Unspecialized Cells E.g. Embryonic or Regenerative Cells Acquire Specialized Structural And/or Functional Features That Characterize the Cells Tissues or Organs of the Mature Organism or Some Other Relatively Stable Phase of the Organism's Life History. Differentiation Includes the Processes Involved in Commitment of a Cell to a Specific Fate and Its Subsequent Development to the Mature State. 
    30879   Mammary Gland Development  The Process Whose Specific Outcome Is the Progression of the Mammary Gland Over Time From Its Formation to the Mature Structure. the Mammary Gland Is a Large Compound Sebaceous Gland That in Female Mammals Is Modified to Secrete Milk. Its Development Starts with the Formation of the Mammary Line and Ends As the Mature Gland Cycles Between Nursing and Weaning Stages. 
    33574   Response to Testosterone  Any Process That Results in a Change in State or Activity of a Cell or an Organism (in Terms of Movement Secretion Enzyme Production Gene Expression Etc.) As a Result of a Testosterone Stimulus. 
    35690   Cellular Response to Drug  Any Process That Results in a Change in State or Activity of a Cell (in Terms of Movement Secretion Enzyme Production Gene Expression Etc.) As a Result of a Drug Stimulus. a Drug Is a Substance Used in the Diagnosis Treatment or Prevention of a Disease. 
    42493   Response to Drug  Any Process That Results in a Change in State or Activity of a Cell or an Organism (in Terms of Movement Secretion Enzyme Production Gene Expression Etc.) As a Result of a Drug Stimulus. a Drug Is a Substance Used in the Diagnosis Treatment or Prevention of a Disease. 
    42981   Regulation of Apoptotic Process  Any Process That Modulates the Occurrence or Rate of Cell Death by Apoptotic Process. 
    43388   Positive Regulation of DNA Binding  Any Process That Increases the Frequency Rate or Extent of DNA Binding. DNA Binding Is Any Process in Which a Gene Product Interacts Selectively with DNA (deoxyribonucleic Acid). 
    44281   Small Molecule Metabolic Process  The Chemical Reactions and Pathways Involving Small Molecules Any Low Molecular Weight Monomeric Non Encoded Molecule. 
    50679   Positive Regulation of Epithelial Cell Proliferation  Any Process That Activates or Increases the Rate or Extent of Epithelial Cell Proliferation. 
    51591   Response to Camp  Any Process That Results in a Change in State or Activity of a Cell or an Organism (in Terms of Movement Secretion Enzyme Production Gene Expression Etc.) As a Result of a Camp (cyclic AMP Adenosine 3' 5' Cyclophosphate) Stimulus. 
    55086   Nucleobase Containing Small Molecule Metabolic Process  The Cellular Chemical Reactions and Pathways Involving a Nucleobase Containing Small Molecule: a Nucleobase a Nucleoside or a Nucleotide. 
    71333   Cellular Response to Glucose Stimulus  Any Process That Results in a Change in State or Activity of a Cell (in Terms of Movement Secretion Enzyme Production Gene Expression Etc.) As a Result of a Glucose Stimulus. 
    71398   Cellular Response to Fatty Acid  Any Process That Results in a Change in State or Activity of a Cell (in Terms of Movement Secretion Enzyme Production Gene Expression Etc.) As a Result of a Fatty Acid Stimulus. 
    5634   Nucleus  A Membrane Bounded Organelle of Eukaryotic Cells in Which Chromosomes Are Housed and Replicated. in Most Cells the Nucleus Contains All of the Cell's Chromosomes Except the Organellar Chromosomes and Is the Site of RNA Synthesis and Processing. in Some Species or in Specialized Cell Types RNA Metabolism or DNA Replication May Be Absent. 
    5737   Cytoplasm  All of the Contents of a Cell Excluding the Plasma Membrane and Nucleus But Including Other Subcellular Structures. 
    5739   Mitochondrion  A Semiautonomous Self Replicating Organelle That Occurs in Varying Numbers Shapes and Sizes in the Cytoplasm of Virtually All Eukaryotic Cells. It Is Notably the Site of Tissue Respiration. 
    5813   Centrosome  A Structure Comprised of a Core Structure (in Most Organisms a Pair of Centrioles) and Peripheral Material From Which a Microtubule Based Structure Such As a Spindle Apparatus Is Organized. Centrosomes Occur Close to the Nucleus During Interphase in Many Eukaryotic Cells Though in Animal Cells It Changes Continually During the Cell Division Cycle. 
    5829   Cytosol  The Part of the Cytoplasm That Does Not Contain Organelles But Which Does Contain Other Particulate Matter Such As Protein Complexes. 
    16020   Membrane  Double Layer of Lipid Molecules That Encloses All Cells and in Eukaryotes Many Organelles; May Be a Single or Double Lipid Bilayer; Also Includes Associated Proteins. 
    32587   Ruffle Membrane  The Portion of the Plasma Membrane Surrounding a Ruffle. 
    48471   Perinuclear Region of Cytoplasm  Cytoplasm Situated Near or Occurring Around the Nucleus. 
    70062   Extracellular Vesicular Exosome  A Membrane Bounded Vesicle That Is Released Into the Extracellular Region by Fusion of the Limiting Endosomal Membrane of a Multivesicular Body with the Plasma Membrane. 
    166   Nucleotide Binding  Interacting Selectively and Non Covalently with a Nucleotide Any Compound Consisting of a Nucleoside That Is Esterified with (ortho)phosphate or an Oligophosphate At Any Hydroxyl Group On the Ribose or Deoxyribose. 
    287   Magnesium Ion Binding  Interacting Selectively and Non Covalently with Magnesium (mg) Ions. 
    977   RNA Polymerase Ii Regulatory Region Sequence Specific DNA Binding  Interacting Selectively and Non Covalently with a Specific Sequence of DNA That Is Part of a Regulatory Region That Controls the Transcription of a Gene or Cistron by RNA Polymerase Ii. 
    3697   Single Stranded DNA Binding  Interacting Selectively and Non Covalently with Single Stranded Dna. 
    4536   Deoxyribonuclease Activity  Catalysis of the Hydrolysis of Ester Linkages Within Deoxyribonucleic Acid. 
    4550   Nucleoside Diphosphate Kinase Activity  Catalysis of the Reaction: ATP + Nucleoside Diphosphate = Adp + Nucleoside Triphosphate. 
    5515   Protein Binding  Interacting Selectively and Non Covalently with Any Protein or Protein Complex (a Complex of Two or More Proteins That May Include Other Nonprotein Molecules). 
    5524   ATP Binding  Interacting Selectively and Non Covalently with ATP Adenosine 5' Triphosphate a Universally Important Coenzyme and Enzyme Regulator. 
    5525   GTP Binding  Interacting Selectively and Non Covalently with GTP Guanosine Triphosphate. 
    16301   Kinase Activity  Catalysis of the Transfer of a Phosphate Group Usually From ATP to a Substrate Molecule. 
    16740   Transferase Activity  Catalysis of the Transfer of a Group E.g. a Methyl Group Glycosyl Group Acyl Group Phosphorus Containing or Other Groups From One Compound (generally Regarded As the Donor) to Another Compound (generally Regarded As the Acceptor). Transferase Is the Systematic Name For Any Enzyme of EC Class 2. 
    19215   Intermediate Filament Binding  Interacting Selectively and Non Covalently with an Intermediate Filament a Distinct Elongated Structure Characteristically 10 Nm in Diameter That Occurs in the Cytoplasm of Higher Eukaryotic Cells. Intermediate Filaments Form a Fibrous System Composed of Chemically Heterogeneous Subunits and Involved in Mechanically Integrating the Various Components of the Cytoplasmic Space. 
    19899   Enzyme Binding  Interacting Selectively and Non Covalently with Any Enzyme. 
    19901   Protein Kinase Binding  Interacting Selectively and Non Covalently with a Protein Kinase Any Enzyme That Catalyzes the Transfer of a Phosphate Group Usually From ATP to a Protein Substrate. 
    42802   Identical Protein Binding  Interacting Selectively and Non Covalently with an Identical Protein or Proteins. 
    43015   Gamma Tubulin Binding  Interacting Selectively and Non Covalently with the Microtubule Constituent Protein Gamma Tubulin. 
    43024   Ribosomal Small Subunit Binding  Interacting Selectively and Non Covalently with Any Part of the Small Ribosomal Subunit. 
    44822   Poly(a) RNA Binding  Interacting Non Covalently with a Poly(a) RNA a RNA Molecule Which Has a Tail of Adenine Bases. 
    46872   Metal Ion Binding  Interacting Selectively and Non Covalently with Any Metal Ion. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain A,B
    Common Name Human
    Scientific Name Homo sapiens  
    Gene nme1, ndpka, nm23
    Host Scientific Name Escherichia coli  


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    17 17q21.3 4830     NME/NM23 nucleoside diphosphate kinase 1 NME1