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(-) Description

Authors :  K. Chattopadhyay, U. A. Ramagopal, S. G. Nathenson, S. C. Almo
Date :  28 Aug 07  (Deposition) - 20 Nov 07  (Release) - 30 Dec 08  (Revision)
Resolution :  1.95
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (3x)
Keywords :  Gitrl, Glucocorticoid-Induced Tnf Receptor Ligand, Cytokine, Glycoprotein, Membrane, Signal-Anchor, Transmembrane, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google))
Reference :  K. Chattopadhyay, U. A. Ramagopal, A. Mukhopadhaya, V. N. Malashkevich, T. P. Dilorenzo, M. Brenowitz, S. G. Nathenson, S. C. Almo
Assembly And Structural Properties Of Glucocorticoid-Induced Tnf Receptor Ligand: Implications For Function.
Proc. Natl. Acad. Sci. Usa V. 104 19452 2007
PubMed-ID: 18040044  |  Reference-DOI: 10.1073/PNAS.0709264104
(for further references see the PDB file header)

(-) Compounds

    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET-14B
    Expression System StrainROSETTA (DE3) PLYSS
    Expression System Taxid562
    Organism CommonBAKER'S YEAST, HUMAN
    Organism Taxid4932,9606

 Structural Features

(-) Chains, Units

Asymmetric Unit A
Biological Unit 1 (3x)A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)

(-) SS Bonds  (1, 1)

Asymmetric Unit
1A:58 -A:78

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
1Gly A:63 -Pro A:64
2Leu A:65 -Pro A:66

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2R32)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2R32)

(-) Exons   (0, 0)

(no "Exon" information available for 2R32)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:140
 aligned with TNF18_HUMAN | Q9UNG2 from UniProtKB/Swiss-Prot  Length:199

    Alignment length:197
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       
               SCOP domains ---------------        ------                      --------                  d2r32a1 A:57-176    Glucocorticoid-induced TNF-r      elated ligand, TNFSF18                                             SCOP domains
               CATH domains 2r32A01 A:19-47                                                              2r32A02 A:57-176     [code=, no name       defined]                                                           CATH domains
               Pfam domains ---------------        ------                      --------                  ----------TNF-2r   32A01 A:67-155                                                                  --------------------- Pfam domains
         Sec.struct. author Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                                    28    |    -   |    |-         -         - |      |-         -       |59        69  |   | 79        89        99    |    - |     119       129       139       149       159       169       
                                         33       34   39                     40     47                 57             72  76                         104    111                                                                 

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric Unit

(-) CATH Domains  (2, 2)

Asymmetric Unit
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
Clan: C1q_TNF (45)

(-) Gene Ontology  (25, 25)

Asymmetric Unit(hide GO term definitions)
Chain A   (TNF18_HUMAN | Q9UNG2)
molecular function
    GO:0005125    cytokine activity    Functions to control the survival, growth, differentiation and effector function of tissues and cells.
    GO:0005102    receptor binding    Interacting selectively and non-covalently with one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.
    GO:0032813    tumor necrosis factor receptor superfamily binding    Interacting selectively and non-covalently with any member of the tumor necrosis factor receptor superfamily.
biological process
    GO:0002309    T cell proliferation involved in immune response    The expansion of a T cell population by cell division as part of an immune response.
    GO:0002250    adaptive immune response    An immune response mediated by cells expressing specific receptors for antigen produced through a somatic diversification process, and allowing for an enhanced secondary response to subsequent exposures to the same antigen (immunological memory).
    GO:0007267    cell-cell signaling    Any process that mediates the transfer of information from one cell to another. This process includes signal transduction in the receiving cell and, where applicable, release of a ligand and any processes that actively facilitate its transport and presentation to the receiving cell. Examples include signaling via soluble ligands, via cell adhesion molecules and via gap junctions.
    GO:0002376    immune system process    Any process involved in the development or functioning of the immune system, an organismal system for calibrated responses to potential internal or invasive threats.
    GO:2000329    negative regulation of T-helper 17 cell lineage commitment    Any process that stops, prevents or reduces the frequency, rate or extent of T-helper 17 cell lineage commitment.
    GO:0043066    negative regulation of apoptotic process    Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process.
    GO:0051092    positive regulation of NF-kappaB transcription factor activity    Any process that activates or increases the frequency, rate or extent of activity of the transcription factor NF-kappaB.
    GO:0045785    positive regulation of cell adhesion    Any process that activates or increases the frequency, rate or extent of cell adhesion.
    GO:0050729    positive regulation of inflammatory response    Any process that activates or increases the frequency, rate or extent of the inflammatory response.
    GO:0002687    positive regulation of leukocyte migration    Any process that activates or increases the frequency, rate, or extent of leukocyte migration.
    GO:0010759    positive regulation of macrophage chemotaxis    Any process that increases the rate, frequency or extent of macrophage chemotaxis. Macrophage chemotaxis is the movement of a macrophage in response to an external stimulus.
    GO:0090026    positive regulation of monocyte chemotaxis    Any process that increases the frequency, rate, or extent of monocyte chemotaxis.
    GO:0090073    positive regulation of protein homodimerization activity    Any process that increases the frequency, rate or extent of protein homodimerization, interacting selectively with an identical protein to form a homodimer.
    GO:0042129    regulation of T cell proliferation    Any process that modulates the frequency, rate or extent of T cell proliferation.
    GO:2000508    regulation of dendritic cell chemotaxis    Any process that modulates the frequency, rate or extent of dendritic cell chemotaxis.
    GO:0007165    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.
    GO:0033209    tumor necrosis factor-mediated signaling pathway    A series of molecular signals initiated by the binding of a tumor necrosis factor to a receptor on the surface of a cell, and ending with regulation of a downstream cellular process, e.g. transcription.
cellular component
    GO:0009986    cell surface    The external part of the cell wall and/or plasma membrane.
    GO:0005615    extracellular space    That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.


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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

        TNF18_HUMAN | Q9UNG22q1m 2r30 3b93 3b94

(-) Related Entries Specified in the PDB File

2q1m 2r30