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(-) Description

Title :  THE CRYSTAL STRUCTURE OF MURINE CTLA4 (CD152)
 
Authors :  D. A. Ostrov, W. Shi, J. C. Schwartz, S. C. Almo, S. G. Nathenson
Date :  05 Jan 00  (Deposition) - 27 Oct 00  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  A,B,C,D  (1x)
Keywords :  Immunoglobulin Variable Domain-Like Beta-Sandwich, Homodimer, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  D. A. Ostrov, W. Shi, J. C. Schwartz, S. C. Almo, S. G. Nathenson
Structure Of Murine Ctla-4 And Its Role In Modulating T Cell Responsiveness.
Science V. 290 816 2000
PubMed-ID: 11052947  |  Reference-DOI: 10.1126/SCIENCE.290.5492.816
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CYTOTOXIC T LYMPHOCYTE ASSOCIATED ANTIGEN 4
    ChainsA, B, C, D
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET3
    Expression System Taxid562
    FragmentEXTRACELLULAR FRAGMENT
    Organism CommonHOUSE MOUSE
    Organism ScientificMUS MUSCULUS
    Organism Taxid10090
    SynonymCTLA4

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit ABCD
Biological Unit 1 (1x)AB  
Biological Unit 2 (1x)  CD
Biological Unit 3 (1x)ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric Unit (2, 5)
No.NameCountTypeFull Name
1CL4Ligand/IonCHLORIDE ION
2EDO1Ligand/Ion1,2-ETHANEDIOL
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2EDO1Ligand/Ion1,2-ETHANEDIOL
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2EDO-1Ligand/Ion1,2-ETHANEDIOL
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2EDO1Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:16 , ALA A:17 , SER A:18 , HOH A:929 , SER B:18BINDING SITE FOR RESIDUE CL A 201
2AC2SOFTWAREALA A:11 , HOH B:930 , GLN D:111 , HOH D:566BINDING SITE FOR RESIDUE CL A 202
3AC3SOFTWAREVAL C:16 , ALA C:17 , SER C:18 , HOH C:931 , SER D:18 , HOH D:927BINDING SITE FOR RESIDUE CL C 203
4AC4SOFTWAREHOH C:932 , SER D:7 , VAL D:8BINDING SITE FOR RESIDUE CL D 204
5AC5SOFTWARETYR A:98 , HOH A:813BINDING SITE FOR RESIDUE EDO A 301

(-) SS Bonds  (8, 8)

Asymmetric Unit
No.Residues
1A:21 -A:92
2A:48 -A:66
3B:21 -B:92
4B:48 -B:66
5C:21 -C:92
6C:48 -C:66
7D:21 -D:92
8D:48 -D:66

(-) Cis Peptide Bonds  (12, 12)

Asymmetric Unit
No.Residues
1Ser A:24 -Pro A:25
2Tyr A:98 -Pro A:99
3Pro A:100 -Pro A:101
4Ser B:24 -Pro B:25
5Tyr B:98 -Pro B:99
6Pro B:100 -Pro B:101
7Ser C:24 -Pro C:25
8Tyr C:98 -Pro C:99
9Pro C:100 -Pro C:101
10Ser D:24 -Pro D:25
11Tyr D:98 -Pro D:99
12Pro D:100 -Pro D:101

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1DQT)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1DQT)

(-) Exons   (0, 0)

(no "Exon" information available for 1DQT)

(-) 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:117
 aligned with CTLA4_MOUSE | P09793 from UniProtKB/Swiss-Prot  Length:223

    Alignment length:117
                                    47        57        67        77        87        97       107       117       127       137       147       
          CTLA4_MOUSE    38 IQVTQPSVVLASSHGVASFPCEYSPSHNTDEVRVTVLRQTNDQMTEVCATTFTEKNTVGFLDYPFCSGTFNESRVNLTIQGLRAVDTGLYLCKVELMYPPPYFVGMGNGTQIYVIDP 154
               SCOP domains d1dqta_ A: Immunoreceptor CTLA-4 (CD152), N-terminal fragment                                                         SCOP domains
               CATH domains 1dqtA00 A:1-117 Immunoglobulins                                                                                       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee...eee......eeeeeeee......eeeeeeeee....eeeeeeeee.....ee......eeeeee..eeeeee...hhhhheeeeeeeeeee....eeee...eeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1dqt A   1 IQVTQPSVVLASSHGVASFPCEYSPSHNTDEVRVTVLRQTNDQMTEVCATTFTEKNTVGFLDYPFCSGTFNESRVNLTIQGLRAVDTGLYLCKVELMYPPPYFVGMGNGTQIYVIDP 117
                                    10        20        30        40        50        60        70        80        90       100       110       

Chain B from PDB  Type:PROTEIN  Length:117
 aligned with CTLA4_MOUSE | P09793 from UniProtKB/Swiss-Prot  Length:223

    Alignment length:117
                                    47        57        67        77        87        97       107       117       127       137       147       
          CTLA4_MOUSE    38 IQVTQPSVVLASSHGVASFPCEYSPSHNTDEVRVTVLRQTNDQMTEVCATTFTEKNTVGFLDYPFCSGTFNESRVNLTIQGLRAVDTGLYLCKVELMYPPPYFVGMGNGTQIYVIDP 154
               SCOP domains d1dqtb_ B: Immunoreceptor CTLA-4 (CD152), N-terminal fragment                                                         SCOP domains
               CATH domains 1dqtB00 B:1-117 Immunoglobulins                                                                                       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee...eee......eeeeeeee......eeeeeeeee....eeeeeeeee.............eeeeee..eeeeee...hhhhheeeeeeeeeee....eeee...eeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1dqt B   1 IQVTQPSVVLASSHGVASFPCEYSPSHNTDEVRVTVLRQTNDQMTEVCATTFTEKNTVGFLDYPFCSGTFNESRVNLTIQGLRAVDTGLYLCKVELMYPPPYFVGMGNGTQIYVIDP 117
                                    10        20        30        40        50        60        70        80        90       100       110       

Chain C from PDB  Type:PROTEIN  Length:117
 aligned with CTLA4_MOUSE | P09793 from UniProtKB/Swiss-Prot  Length:223

    Alignment length:117
                                    47        57        67        77        87        97       107       117       127       137       147       
          CTLA4_MOUSE    38 IQVTQPSVVLASSHGVASFPCEYSPSHNTDEVRVTVLRQTNDQMTEVCATTFTEKNTVGFLDYPFCSGTFNESRVNLTIQGLRAVDTGLYLCKVELMYPPPYFVGMGNGTQIYVIDP 154
               SCOP domains d1dqtc_ C: Immunoreceptor CTLA-4 (CD152), N-terminal fragment                                                         SCOP domains
               CATH domains 1dqtC00 C:1-117 Immunoglobulins                                                                                       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee...eee......eeeeeeee......eeeeeeeee....eeeeeeeee.....ee......eeeeee..eeeeee...hhhhheeeeeeeeeee....eeee...eeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1dqt C   1 IQVTQPSVVLASSHGVASFPCEYSPSHNTDEVRVTVLRQTNDQMTEVCATTFTEKNTVGFLDYPFCSGTFNESRVNLTIQGLRAVDTGLYLCKVELMYPPPYFVGMGNGTQIYVIDP 117
                                    10        20        30        40        50        60        70        80        90       100       110       

Chain D from PDB  Type:PROTEIN  Length:117
 aligned with CTLA4_MOUSE | P09793 from UniProtKB/Swiss-Prot  Length:223

    Alignment length:117
                                    47        57        67        77        87        97       107       117       127       137       147       
          CTLA4_MOUSE    38 IQVTQPSVVLASSHGVASFPCEYSPSHNTDEVRVTVLRQTNDQMTEVCATTFTEKNTVGFLDYPFCSGTFNESRVNLTIQGLRAVDTGLYLCKVELMYPPPYFVGMGNGTQIYVIDP 154
               SCOP domains d1dqtd_ D: Immunoreceptor CTLA-4 (CD152), N-terminal fragment                                                         SCOP domains
               CATH domains 1dqtD00 D:1-117 Immunoglobulins                                                                                       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee...eee......eeeeeeee......eeeeeeeee....eeeeeeeee.....ee......eeeeee..eeeeee...hhhhheeeeeeeeeee....eeee...eeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1dqt D   1 IQVTQPSVVLASSHGVASFPCEYSPSHNTDEVRVTVLRQTNDQMTEVCATTFTEKNTVGFLDYPFCSGTFNESRVNLTIQGLRAVDTGLYLCKVELMYPPPYFVGMGNGTQIYVIDP 117
                                    10        20        30        40        50        60        70        80        90       100       110       

   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, 4)

Asymmetric Unit

(-) CATH Domains  (1, 4)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1DQT)

(-) Gene Ontology  (15, 15)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (CTLA4_MOUSE | P09793)
biological process
    GO:0050853    B cell receptor signaling pathway    A series of molecular signals initiated by the cross-linking of an antigen receptor on a B cell.
    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:0006974    cellular response to DNA damage 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 stimulus indicating damage to its DNA from environmental insults or errors during metabolism.
    GO:0006955    immune response    Any immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat.
    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:0030889    negative regulation of B cell proliferation    Any process that stops, prevents or reduces the rate or extent of B cell proliferation.
    GO:0045590    negative regulation of regulatory T cell differentiation    Any process that stops, prevents, or reduces the rate of differentiation of regulatory T cells.
    GO:0043065    positive regulation of apoptotic process    Any process that activates or increases the frequency, rate or extent of cell death by apoptotic process.
cellular component
    GO:0005794    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.
    GO:0045334    clathrin-coated endocytic vesicle    A clathrin-coated, membrane-bounded intracellular vesicle formed by invagination of the plasma membrane around an extracellular substance.
    GO:0009897    external side of plasma membrane    The leaflet of the plasma membrane that faces away from the cytoplasm and any proteins embedded or anchored in it or attached to its surface.
    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:0048471    perinuclear region of cytoplasm    Cytoplasm situated near, or occurring around, the nucleus.
    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)

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        CTLA4_MOUSE | P097935e56 5e5m

(-) Related Entries Specified in the PDB File

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