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Crystal structure of the heterodimeric complex of human RGS10 and activated Gi alpha 3
Biology and Chemistry Report
2IHB
  •   Structure Details   Hide

    Structure Keywords

    Keywords SIGNALING PROTEIN
    Text G protein signalling, RGS, heterotrimeric G protein, signalling complex, Structural Genomics, Structural Genomics Consortium, SGC, SIGNALING PROTEIN

    Polymeric Molecules

    Chain A
    Description Guanine nucleotide-binding protein G(k) subunit alpha 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 37201.7 
    Source Method genetically manipulated  
    Entity Name Gi, alpha-3 
    Chain B
    Description Regulator of G-protein signalling 10 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 18021.6 
    Source Method genetically manipulated  

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    ALF  TETRAFLUOROALUMINATE ION  Al F4   102.98  View 
    GDP  GUANOSINE-5'-DIPHOSPHATE  C10 H15 N5 O11 P2   443.20  View 
    MG  MAGNESIUM ION  Mg   24.31  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A GNAI3_HUMAN P08754     
    B RGS10_HUMAN A8K408     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A
    GO ID   Ontology GO Term Definition
    6184   GTP Catabolic Process  The Chemical Reactions and Pathways Resulting in the Breakdown of GTP Guanosine Triphosphate. 
    6810   Transport  The Directed Movement of Substances (such As Macromolecules Small Molecules Ions) Into Out of or Within a Cell or Between Cells or Within a Multicellular Organism by Means of Some Agent Such As a Transporter or Pore. 
    6906   Vesicle Fusion  Fusion of the Membrane of a Transport Vesicle with Its Target Membrane. 
    7049   Cell Cycle  The Progression of Biochemical and Morphological Phases and Events That Occur in a Cell During Successive Cell Replication or Nuclear Replication Events. Canonically the Cell Cycle Comprises the Replication and Segregation of Genetic Material Followed by the Division of the Cell But in Endocycles or Syncytial Cells Nuclear Replication or Nuclear Division May Not Be Followed by Cell Division. 
    7165   Signal Transduction  The Cellular Process in Which a Signal Is Conveyed to Trigger a Change in the Activity or State of a Cell. Signal Transduction Begins with Reception of a Signal (e.g. a Ligand Binding to a Receptor or Receptor Activation by a Stimulus Such As Light) or For Signal Transduction in the Absence of Ligand Signal Withdrawal or the Activity of a Constitutively Active Receptor. Signal Transduction Ends with Regulation of a Downstream Cellular Process E.g. Regulation of Transcription or Regulation of a Metabolic Process. Signal Transduction Covers Signaling From Receptors Located On the Surface of the Cell and Signaling Via Molecules Located Within the Cell. For Signaling Between Cells Signal Transduction Is Restricted to Events At and Within the Receiving Cell. 
    7186   G Protein Coupled Receptor Signaling Pathway  A Series of Molecular Signals That Proceeds with an Activated Receptor Promoting the Exchange of GDP For GTP On the Alpha Subunit of an Associated Heterotrimeric G Protein Complex. the GTP Bound Activated Alpha G Protein Then Dissociates From the Beta and Gamma Subunits to Further Transmit the Signal Within the Cell. the Pathway Begins with Receptor Ligand Interaction or For Basal Gpcr Signaling the Pathway Begins with the Receptor Activating Its G Protein in the Absence of an Agonist and Ends with Regulation of a Downstream Cellular Process E.g. Transcription. 
    7188   Adenylate Cyclase Modulating G Protein Coupled Receptor Signaling Pathway  The Series of Molecular Signals Generated As a Consequence of a G Protein Coupled Receptor Binding to Its Physiological Ligand Where the Pathway Proceeds Through Activation or Inhibition of Adenylyl Cyclase Activity and a Subsequent Change in the Concentration of Cyclic AMP (camp). 
    7193   Adenylate Cyclase Inhibiting G Protein Coupled Receptor Signaling Pathway  The Series of Molecular Signals Generated As a Consequence of a G Protein Coupled Receptor Binding to Its Physiological Ligand Where the Pathway Proceeds Through Inhibition of Adenylyl Cyclase Activity and a Subsequent Decrease in the Concentration of Cyclic AMP (camp). 
    7194   Negative Regulation of Adenylate Cyclase Activity  Any Process That Stops Prevents or Reduces the Frequency Rate or Extent of Adenylate Cyclase Activity. 
    7268   Synaptic Transmission  The Process of Communication From a Neuron to a Target (neuron Muscle or Secretory Cell) Across a Synapse. 
    7596   Blood Coagulation  The Sequential Process in Which the Multiple Coagulation Factors of the Blood Interact Ultimately Resulting in the Formation of an Insoluble Fibrin Clot; It May Be Divided Into Three Stages: Stage 1 the Formation of Intrinsic and Extrinsic Prothrombin Converting Principle; Stage 2 the Formation of Thrombin; Stage 3 the Formation of Stable Fibrin Polymers. 
    30168   Platelet Activation  A Series of Progressive Overlapping Events Triggered by Exposure of the Platelets to Subendothelial Tissue. These Events Include Shape Change Adhesiveness Aggregation and Release Reactions. When Carried Through to Completion These Events Lead to the Formation of a Stable Hemostatic Plug. 
    51301   Cell Division  The Process Resulting in Division and Partitioning of Components of a Cell to Form More Cells; May or May Not Be Accompanied by the Physical Separation of a Cell Into Distinct Individually Membrane Bounded Daughter Cells. 
    5737   Cytoplasm  All of the Contents of a Cell Excluding the Plasma Membrane and Nucleus But Including Other Subcellular Structures. 
    5765   Lysosomal Membrane  The Lipid Bilayer Surrounding the Lysosome and Separating Its Contents From the Cell Cytoplasm. 
    5794   Golgi Apparatus  A Compound Membranous Cytoplasmic Organelle of Eukaryotic Cells Consisting of Flattened Ribosome Free Vesicles Arranged in a More or Less Regular Stack. the Golgi Apparatus Differs From the Endoplasmic Reticulum in Often Having Slightly Thicker Membranes Appearing in Sections As a Characteristic Shallow Semicircle So That the Convex Side (cis or Entry Face) Abuts the Endoplasmic Reticulum Secretory Vesicles Emerging From the Concave Side (trans or Exit Face). in Vertebrate Cells There Is Usually One Such Organelle While in Invertebrates and Plants Where They Are Known Usually As Dictyosomes There May Be Several Scattered in the Cytoplasm. the Golgi Apparatus Processes Proteins Produced On the Ribosomes of the Rough Endoplasmic Reticulum; Such Processing Includes Modification of the Core Oligosaccharides of Glycoproteins and the Sorting and Packaging of Proteins For Transport to a Variety of Cellular Locations. Three Different Regions of the Golgi Are Now Recognized Both in Terms of Structure and Function: Cis in the Vicinity of the Cis Face Trans in the Vicinity of the Trans Face and Medial Lying Between the Cis and Trans Regions. 
    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. 
    5815   Microtubule Organizing Center  An Intracellular Structure That Can Catalyze Gamma Tubulin Dependent Microtubule Nucleation and That Can Anchor Microtubules by Interacting with Their Minus Ends Plus Ends or Sides. 
    5834   Heterotrimeric G Protein Complex  Any of a Family of Heterotrimeric GTP Binding and Hydrolyzing Proteins; They Belong to a Superfamily of Gtpases That Includes Monomeric Proteins Such As Ef Tu and Ras. Heterotrimeric G Proteins Consist of Three Subunits; the Alpha Subunit Contains the Guanine Nucleotide Binding Site and Possesses Gtpase Activity; the Beta and Gamma Subunits Are Tightly Associated and Function As a Beta Gamma Heterodimer; Extrinsic Plasma Membrane Proteins (cytoplasmic Face) That Function As a Complex to Transduce Signals From G Protein Coupled Receptors to an Effector Protein. 
    5856   Cytoskeleton  Any of the Various Filamentous Elements That Form the Internal Framework of Cells and Typically Remain After Treatment of the Cells with Mild Detergent to Remove Membrane Constituents and Soluble Components of the Cytoplasm. the Term Embraces Intermediate Filaments Microfilaments Microtubules the Microtrabecular Lattice and Other Structures Characterized by a Polymeric Filamentous Nature and Long Range Order Within the Cell. the Various Elements of the Cytoskeleton Not Only Serve in the Maintenance of Cellular Shape But Also Have Roles in Other Cellular Functions Including Cellular Movement Cell Division Endocytosis and Movement of Organelles. 
    5886   Plasma Membrane  The Membrane Surrounding a Cell That Separates the Cell From Its External Environment. It Consists of a Phospholipid Bilayer and Associated Proteins. 
    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. 
    30496   Midbody  A Thin Cytoplasmic Bridge Formed Between Daughter Cells At the End of Cytokinesis. the Midbody Forms Where the Contractile Ring Constricts and May Persist For Some Time Before Finally Breaking to Complete Cytokinesis. 
    42588   Zymogen Granule  A Membrane Bounded Cytoplasmic Secretory Granule Found in Enzyme Secreting Cells and Visible by Light Microscopy. Contain Zymogen an Inactive Enzyme Precursor Often of a Digestive Enzyme. 
    45121   Membrane Raft  Any of the Small (10 200 Nm) Heterogeneous Highly Dynamic Sterol and Sphingolipid Enriched Membrane Domains That Compartmentalize Cellular Processes. Small Rafts Can Sometimes Be Stabilized to Form Larger Platforms Through Protein Protein and Protein Lipid Interactions. 
    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. 
    3924   Gtpase Activity  Catalysis of the Reaction: GTP + H2o = GDP + Phosphate. 
    4871   Signal Transducer Activity  Conveys a Signal Across a Cell to Trigger a Change in Cell Function or State. a Signal Is a Physical Entity or Change in State That Is Used to Transfer Information in Order to Trigger a Response. 
    5525   GTP Binding  Interacting Selectively and Non Covalently with GTP Guanosine Triphosphate. 
    19001   Guanyl Nucleotide Binding  Interacting Selectively and Non Covalently with Guanyl Nucleotides Any Compound Consisting of Guanosine Esterified with (ortho)phosphate. 
    19904   Protein Domain Specific Binding  Interacting Selectively and Non Covalently with a Specific Domain of a Protein. 
    31683   G Protein Beta/gamma Subunit Complex Binding  Interacting Selectively and Non Covalently with a Complex of G Protein Beta/gamma Subunits. 
    31821   G Protein Coupled Serotonin Receptor Binding  Interacting Selectively and Non Covalently with a Metabotropic Serotonin Receptor. 
    32794   Gtpase Activating Protein Binding  Interacting Selectively and Non Covalently with a Gtpase Activating Protein. 
    46872   Metal Ion Binding  Interacting Selectively and Non Covalently with Any Metal Ion. 
    Chain B
    GO ID   Ontology GO Term Definition
    38032   Termination of G Protein Coupled Receptor Signaling Pathway  The Signaling Process in Which G Protein Coupled Receptor Signaling Is Brought to an End. For Example Through the Action of Gtpase Activating Proteins (gaps) That Act to Accelerate Hydrolysis of GTP to GDP On G Alpha Proteins Thereby Terminating the Transduced Signal. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain B
    Common Name Human
    Scientific Name Homo sapiens  
    Genus Homo
    Gene rgs10
    Host Scientific Name Escherichia coli  
    Host Genus Escherichia
    Host Strain Bl21(de3)r3
    Host Vector Type Plasmid
    Host Plasmid Name pNIC28-Bsa4


    Chain A
    Common Name Human
    Scientific Name Homo sapiens  
    Genus Homo
    Gene gnai3
    Host Scientific Name Escherichia coli  
    Host Genus Escherichia
    Host Strain Bl21(de3)r3
    Host Vector Type Plasmid
    Host Plasmid Name pNIC28-Bsa4


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    1 1p13 2773     guanine nucleotide binding protein (G protein), alpha inhibiting activity polypeptide 3 GNAI3    

    Single Nucleotide Polymorphisms (from LS-SNP database)

    SNP ID LsSnp Link dbSNP Link Chain PDB position Amino acid changes Secondary structure Solvent Accessibility Chromosome Chromosome position Ligand
    rs142991217 LS-SNP   dbSNP   A 68 Q - > R Turn 66% (Exposed) 1 110116559
    rs146129509 LS-SNP   dbSNP   A 84 I - > V Helix 0% (Buried) 1 110116606
    rs145097404 LS-SNP   dbSNP   A 90 R - > W Helix 66% (Exposed) 1 110116624
    rs138850957 LS-SNP   dbSNP   A 90 R - > Q Helix 66% (Exposed) 1 110116625
    rs11558725 LS-SNP   dbSNP   A 111 A - > T 3/10 Helix 22% (Intermediate) 1 110121853
    rs142294586 LS-SNP   dbSNP   A 134 G - > S Helix 64% (Exposed) 1 110121922
    rs61754626 LS-SNP   dbSNP   A 170 T - > I Coil 44% (Exposed) 1 110125106
    rs61758986 LS-SNP   dbSNP   A 264 I - > V Beta Ladder 1% (Buried) 1 110129420
    rs112547520 LS-SNP   dbSNP   A 295 T - > A Bend 37% (Exposed) 1 110134673
    rs138513964 LS-SNP   dbSNP   A 343 I - > N Helix 1% (Buried) 1 110134818
    rs140063580 LS-SNP   dbSNP   B 35 E - > D Helix 41% (Exposed) 10 121286857
    rs117042762 LS-SNP   dbSNP   B 44 V - > M Helix 9% (Intermediate) 10 121286832
    rs181678543 LS-SNP   dbSNP   B 75 K - > N Helix 40% (Exposed) 10 121285550
    rs201021693 LS-SNP   dbSNP   B 76 T - > M Helix 69% (Exposed) 10 121285548
    rs1802228 LS-SNP   dbSNP   B 94 A - > V Coil 4% (Buried) 10 121275115
    rs147982585 LS-SNP   dbSNP   B 100 V - > M Coil 19% (Intermediate) 10 121275098