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(-) Description

Title :  TISSUE FACTOR (TF) FROM RABBIT
 
Authors :  Y. A. Muller, A. M. De Vos
Date :  14 Jan 98  (Deposition) - 27 May 98  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.35
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Blood Coagulation Factor, Fviia Activation, Cytokine Receptor Superfamily, Extracellular Domain, Glycoprotein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. A. Muller, R. F. Kelley, A. M. De Vos
Hinge Bending Within The Cytokine Receptor Superfamily Revealed By The 2. 4 A Crystal Structure Of The Extracellular Domain Of Rabbit Tissue Factor.
Protein Sci. V. 7 1106 1998
PubMed-ID: 9605315
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TISSUE FACTOR
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: EXTRACELLULAR DOMAIN, RESIDUES 1 - 219
    Organ: BLOOD
    Organism Common: RABBIT
    Organism Scientific: ORYCTOLAGUS CUNICULUS
    Organism Taxid: 9986

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1A21)

(-) Sites  (0, 0)

(no "Site" information available for 1A21)

(-) SS Bonds  (4, 4)

Asymmetric Unit
No.Residues
1A:47 -A:55
2A:184 -A:207
3B:47 -B:55
4B:184 -B:207

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Glu A:24 -Pro A:25
2Glu B:24 -Pro B:25

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1A21)

(-) PROSITE Motifs  (1, 2)

Asymmetric Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TISSUE_FACTORPS00621 Tissue factor signature.TF_RABIT75-92
 		  2A:43-60
B:43-60
Biological Unit 1 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TISSUE_FACTORPS00621 Tissue factor signature.TF_RABIT75-92
 		  1A:43-60
-
Biological Unit 2 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TISSUE_FACTORPS00621 Tissue factor signature.TF_RABIT75-92
 		  1-
B:43-60

(-) Exons   (0, 0)

(no "Exon" information available for 1A21)

(-) 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:194
 aligned with TF_RABIT | P24055 from UniProtKB/Swiss-Prot  Length:292

    Alignment length:205
                                    45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235     
             TF_RABIT    36 TGRAYNLTWKSTNFKTILEWEPKSIDHVYTVQISTRLENWKSKCFLTAETECDLTDEVVKDVGQTYMARVLSYPARNGNTTGFPEEPPFRNSPEFTPYLDTNLGQPTIQSFEQVGTKLNVTVQDARTLVRRNGTFLSLRAVFGKDLNYTLYYWRASSTGKKTATTNTNEFLIDVDKGENYCFSVQAVIPSRKRKQRSPESLTECT 240
               SCOP domains d1a21a1 A:4-106 Extracellular region of human tissue factor                                            d1a21a2 A:107-208 Extracel    lular region of human      tissue factor                                 SCOP domains
               CATH domains 1a21A01 A:4-103 Immunoglobulins                                                                     1a21A02 A:104-205 Immunoglobu    lins                                                                 --- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeee..eeeee.......eeeeeeee......eeee......eee.hhhhhh......eeeeeeee..--.........eeee.....hhhh.......eeeeeee..eeeeee.......----....hhhhhhhh.eeeeeee.-----.eeeee...eeeee.......eeeeeee.................. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------TISSUE_FACTOR     ---------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1a21 A   4 TGRAYNLTWKSTNFKTILEWEPKSIDHVYTVQISTRLENWKSKCFLTAETECDLTDEVVKDVGQTYMARVLSYPAR--NTTGFPEEPPFRNSPEFTPYLDTNLGQPTIQSFEQVGTKLNVTVQDARTLV----TFLSLRAVFGKDLNYTLYYWR-----KKTATTNTNEFLIDVDKGENYCFSVQAVIPSRKRKQRSPESLTECT 208
                                    13        23        33        43        53        63        73     |  83        93       103       113       123        |-   |   143       153   |   163       173       183       193       203     
                                                                                                      79 82                                               132  137                 157   163                                             


Chain B from PDB  Type:PROTEIN  Length:197
 aligned with TF_RABIT | P24055 from UniProtKB/Swiss-Prot  Length:292

    Alignment length:205
                                    45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235     
             TF_RABIT    36 TGRAYNLTWKSTNFKTILEWEPKSIDHVYTVQISTRLENWKSKCFLTAETECDLTDEVVKDVGQTYMARVLSYPARNGNTTGFPEEPPFRNSPEFTPYLDTNLGQPTIQSFEQVGTKLNVTVQDARTLVRRNGTFLSLRAVFGKDLNYTLYYWRASSTGKKTATTNTNEFLIDVDKGENYCFSVQAVIPSRKRKQRSPESLTECT 240
               SCOP domains d1a21b1 B:4-106 Extracellular region of human tissue factor                                            d1a21b2 B:107-208 Extracellular region of human tis     sue factor                                     SCOP domains
               CATH domains 1a21B01 B:4-103 Immunoglobulins                                                                     1a21B02 B:104-206 Immunoglobulins                                                                      -- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeee..eeeee.......eeeeeeee......eeee......eee.hhhhhh......eeeeeeee.---..................hhhh.......eeeeeee..eeeeee...............hhhhhhhh.eeeeeee.-----.eeeee...eeeee.......eeeeeee.................. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------TISSUE_FACTOR     ---------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1a21 B   4 TGRAYNLTWKSTNFKTILEWEPKSIDHVYTVQISTRLENWKSKCFLTAETECDLTDEVVKDVGQTYMARVLSYPA---NTTGFPEEPPFRNSPEFTPYLDTNLGQPTIQSFEQVGTKLNVTVQDARTLVRRNGTFLSLRAVFGKDLNYTLYYWR-----KKTATTNTNEFLIDVDKGENYCFSVQAVIPSRKRKQRSPESLTECT 208
                                    13        23        33        43        53        63        73    |   83        93       103       113       123       133       143       153   |   163       173       183       193       203     
                                                                                                     78  82                                                                        157   163
   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
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1A21)

(-) Gene Ontology  (16, 16)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (TF_RABIT | P24055)
molecular function
    GO:0005543    phospholipid binding    Interacting selectively and non-covalently with phospholipids, a class of lipids containing phosphoric acid as a mono- or diester.
    GO:0002020    protease binding    Interacting selectively and non-covalently with any protease or peptidase.
biological process
    GO:0006919    activation of cysteine-type endopeptidase activity involved in apoptotic process    Any process that initiates the activity of the inactive enzyme cysteine-type endopeptidase in the context of an apoptotic process.
    GO:0002541    activation of plasma proteins involved in acute inflammatory response    Any process activating plasma proteins by proteolysis as part of an acute inflammatory response.
    GO:0007596    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.
    GO:0007599    hemostasis    The stopping of bleeding (loss of body fluid) or the arrest of the circulation to an organ or part.
    GO:0045766    positive regulation of angiogenesis    Any process that activates or increases angiogenesis.
    GO:0001938    positive regulation of endothelial cell proliferation    Any process that activates or increases the rate or extent of endothelial cell proliferation.
    GO:0010641    positive regulation of platelet-derived growth factor receptor signaling pathway    Any process that increases the frequency, rate or extent of the platelet-derived growth factor receptor signaling pathway.
    GO:0051897    positive regulation of protein kinase B signaling    Any process that activates or increases the frequency, rate or extent of protein kinase B signaling, a series of reactions mediated by the intracellular serine/threonine kinase protein kinase B.
cellular component
    GO:0009986    cell surface    The external part of the cell wall and/or plasma membrane.
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0031012    extracellular matrix    A structure lying external to one or more cells, which provides structural support for cells or tissues.
    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.

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