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(-) Description

Title :  SEVEN TANDEM LEUCINE-RICH REPEATS OF HUMAN GLYCOPROTEIN 1B ALPHA
 
Authors :  J. C. Whisstock, Y. Shen, J. A. Lopez, R. K. Andrews, M. C. Berndt
Date :  23 Sep 01  (Deposition) - 10 Apr 02  (Release) - 18 Dec 02  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  A
Keywords :  Leucine-Rich Repeat (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. C. Whisstock, Y. Shen, J. A. Lopez, R. K. Andrews, M. C. Berndt
Molecular Modeling Of The Seven Tandem Leucine-Rich Repeats Within The Ligand-Binding Region Of Platelet Glycoprotein Ib Alpha.
Thromb. Haemost. V. 87 329 2002
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PLATELET GLYCOPROTEIN IB ALPHA CHAIN
    ChainsA
    FragmentRESIDUES 1-165
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS

 Structural Features

(-) Chains, Units

  
Theoretical Model 

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1K13)

(-) Sites  (0, 0)

(no "Site" information available for 1K13)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1K13)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1K13)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (7, 7)

Theoretical Model (7, 7)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_011909R72HGP1BA_HUMANPolymorphism6068AR21H
2UniProtVAR_014206L73FGP1BA_HUMANDisease (BSS)121908063AL22F
3UniProtVAR_005256C81RGP1BA_HUMANDisease (BSS)781541857AC30R
4UniProtVAR_013511L86FGP1BA_HUMANPolymorphism13306411AL35F
5UniProtVAR_014207L145PGP1BA_HUMANDisease (BSS)771048666AL94P
6UniProtVAR_005257T161MGP1BA_HUMANPolymorphism6065AT110M
7UniProtVAR_005258A172VGP1BA_HUMANDisease (BSS)121908065AA121V

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 6)

Theoretical Model (1, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LRRPS51450 Leucine-rich repeat profile.GP1BA_HUMAN72-93
94-115
117-137
141-162
165-186
189-210
  6A:21-42
A:43-64
A:66-86
A:90-111
A:114-135
A:138-159

(-) Exons   (1, 1)

Theoretical Model (1, 1)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.2bENST000003291252bENSE00001299958chr17:4835900-48371501251GP1BA_HUMAN1-4174171A:1-165165
1.3aENST000003291253aENSE00001488421chr17:4837187-4837858672GP1BA_HUMAN418-6402230--

(-) Sequences/Alignments

Theoretical Model
   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:165
 aligned with GP1BA_HUMAN | P07359 from UniProtKB/Swiss-Prot  Length:652

    Alignment length:165
                                    61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211     
          GP1BA_HUMAN    52 LHLSENLLYTFSLATLMPYTRLTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFA 216
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhh......eee...................eee........hhhhhhh.....eee............hhhhhh...eee.....................eee.....................eee.........hhhhhh....... Sec.struct. author
                 SAPs(SNPs) --------------------HF-------R----F----------------------------------------------------------P---------------M----------V-------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------LRR  PDB: A:21-42     LRR  PDB: A:43-64     -LRR  PDB: A:66-86    ---LRR  PDB: A:90-111    --LRR  PDB: A:114-135   --LRR  PDB: A:138-159   ------ PROSITE
               Transcript 1 Exon 1.2b  PDB: A:1-165 UniProt: 1-417 [INCOMPLETE]                                                                                                                   Transcript 1
                 1k13 A   1 LHLSENLLYTFSLATLMPYTRLTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFA 165
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160     

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  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  (0, 0)

(no "SCOP Domain" information available for 1K13)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1K13)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1K13)

(-) Gene Ontology  (24, 24)

Theoretical Model(hide GO term definitions)
Chain A   (GP1BA_HUMAN | P07359)
molecular function
    GO:0005515    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).
    GO:0004860    protein kinase inhibitor activity    Stops, prevents or reduces the activity of a protein kinase, an enzyme which phosphorylates a protein.
    GO:0015057    thrombin-activated receptor activity    A G-protein-coupled receptor activity that is activated by cleavage by thrombin, which exposes a tethered ligand corresponding to the new N-terminus, which binds to the receptor and activates it.
biological process
    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:0007597    blood coagulation, intrinsic pathway    A protein activation cascade that contributes to blood coagulation and consists of the interactions among high molecular weight kininogen, prekallikrein, and factor XII that lead to the activation of clotting factor X.
    GO:0007155    cell adhesion    The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules.
    GO:0000902    cell morphogenesis    The developmental process in which the size or shape of a cell is generated and organized.
    GO:0007166    cell surface receptor signaling pathway    A series of molecular signals initiated by activation of a receptor on the surface of a cell. The pathway begins with binding of an extracellular ligand to a cell surface receptor, or for receptors that signal in the absence of a ligand, by ligand-withdrawal or the activity of a constitutively active receptor. The pathway ends with regulation of a downstream cellular process, e.g. transcription.
    GO:0019221    cytokine-mediated signaling pathway    A series of molecular signals initiated by the binding of a cytokine to a receptor on the surface of a cell, and ending with regulation of a downstream cellular process, e.g. transcription.
    GO:0042730    fibrinolysis    A process that solubilizes fibrin in the bloodstream of a multicellular organism, chiefly by the proteolytic action of plasmin.
    GO:0007599    hemostasis    The stopping of bleeding (loss of body fluid) or the arrest of the circulation to an organ or part.
    GO:0046426    negative regulation of JAK-STAT cascade    Any process that stops, prevents, or reduces the frequency, rate or extent of the JAK-STAT signaling pathway activity.
    GO:0006469    negative regulation of protein kinase activity    Any process that stops, prevents, or reduces the frequency, rate or extent of protein kinase activity.
    GO:0030168    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.
    GO:0030193    regulation of blood coagulation    Any process that modulates the frequency, rate or extent of blood coagulation.
    GO:0070493    thrombin-activated receptor signaling pathway    The series of molecular signals generated as a consequence of a thrombin-activated receptor binding to one of its physiological ligands.
cellular component
    GO:0031362    anchored component of external side of plasma membrane    The component of the plasma membrane consisting of the gene products that are tethered to the external side of the membrane only by a covalently attached anchor, such as a lipid group embedded in the membrane. Gene products with peptide sequences that are embedded in the membrane are excluded from this grouping.
    GO:0009986    cell surface    The external part of the cell wall and/or plasma membrane.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    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: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:0005887    integral component of plasma membrane    The component of the plasma 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)

UniProtKB/Swiss-Prot
        GP1BA_HUMAN | P073591gwb 1m0z 1m10 1ook 1p8v 1p9a 1qyy 1sq0 1u0n 2bp3 3p72 3pmh 4c2a 4c2b 4ch2 4ch8 4mgx 4yr6

(-) Related Entries Specified in the PDB File

1k14 1K14 CONTAINS CANINE GLYCOPROTEIN 1B ALPHA
1k15 1K15 CONTAINS MURINE GLYCOPROTEIN 1B ALPHA