Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asym./Biol. Unit - manually
(-)Asym./Biol. Unit
collapse expand < >
Image Asym./Biol. Unit - manually
Asym./Biol. Unit - manually  (Jmol Viewer)
Image Asym./Biol. Unit
Asym./Biol. Unit  (Jmol Viewer)

(-) Description

Title :  CRYSTAL STRUCTURE OF THE COMPLEX OF THE WILD-TYPE VON WILLEBRAND FACTOR A1 DOMAIN AND GLYCOPROTEIN IB ALPHA AT 2.6 ANGSTROM RESOLUTION
 
Authors :  J. J. Dumas, R. Kumar, T. Mcdonagh, F. Sullivan, M. L. Stahl, W. S. Somers, L. Mosyak
Date :  17 Mar 04  (Deposition) - 13 Apr 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Leucine Rich Repeat (Lrr), Right-Handed Beta-Alpha Superhelix); Integrin A (Or I) Domain Fold, Blood Clotting (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. J. Dumas, R. Kumar, T. Mcdonagh, F. Sullivan, M. L. Stahl, W. S. Somers, L. Mosyak
Crystal Structure Of The Wild-Type Von Willebrand Factor A1-Glycoprotein Ibalpha Complex Reveals Conformation Differences With A Complex Bearing Von Willebrand Disease Mutations
J. Biol. Chem. V. 279 23327 2004
PubMed-ID: 15039442  |  Reference-DOI: 10.1074/JBC.M401659200
(for further references see the PDB file header)

(-) Compounds

Molecule 1
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System StrainBL21DE3
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    FragmentA1
    GeneVWF, F8VWF
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
 
Molecule 2 - PLATELET GLYCOPROTEIN IB ALPHA CHAIN (GLYCOPROTEIN IBALPHA) (GP-IB ALPHA) (GPIBA) (GPIB-ALPHA)
    (cd42b-alpha) (cd42b) [containsGLYCOCALICIN]
    ChainsB
    EngineeredYES
    Expression SystemCRICETULUS GRISEUS
    Expression System CellCHO
    Expression System CommonCHINESE HAMSTER
    Expression System Taxid10029
    FragmentGLYCOPROTEIN IB-(ALPHA)
    GeneGP1BA
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1SQ0)

(-) Sites  (0, 0)

(no "Site" information available for 1SQ0)

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:509 -A:695
2B:4 -B:17
3B:209 -B:248
4B:211 -B:264

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1SQ0)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (28, 28)

Asymmetric/Biological Unit (28, 28)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
01UniProtVAR_011909R72HGP1BA_HUMANPolymorphism6068BR56H
02UniProtVAR_014206L73FGP1BA_HUMANDisease (BSS)121908063BL57F
03UniProtVAR_005256C81RGP1BA_HUMANDisease (BSS)781541857BC65R
04UniProtVAR_013511L86FGP1BA_HUMANPolymorphism13306411BL70F
05UniProtVAR_014207L145PGP1BA_HUMANDisease (BSS)771048666BL129P
06UniProtVAR_005257T161MGP1BA_HUMANPolymorphism6065BT145M
07UniProtVAR_005258A172VGP1BA_HUMANDisease (BSS)121908065BA156V
08UniProtVAR_005260C225SGP1BA_HUMANDisease (BSS)  ---BC209S
09UniProtVAR_019657G249SGP1BA_HUMANDisease (VWDP)  ---BG233S
10UniProtVAR_005261G249VGP1BA_HUMANDisease (VWDP)121908062BG233V
11UniProtVAR_011910A254SGP1BA_HUMANPolymorphism382524BA238S
12UniProtVAR_005262M255VGP1BA_HUMANDisease (VWDP)121908064BM239V
13UniProtVAR_067340C1272FVWF_HUMANDisease (VWD2)63524161AC509F
14UniProtVAR_005793C1272RVWF_HUMANDisease (VWD2)61749372AC509R
15UniProtVAR_005794R1306WVWF_HUMANDisease (VWD2)61749384AR543W
16UniProtVAR_005795R1308CVWF_HUMANDisease (VWD2)61749387AR545C
17UniProtVAR_005796W1313CVWF_HUMANDisease (VWD2)61749392AW550C
18UniProtVAR_005797V1314LVWF_HUMANDisease (VWD2)61749393AV551L
19UniProtVAR_005798V1316MVWF_HUMANDisease (VWD2)61749397AV553M
20UniProtVAR_005799V1318LVWF_HUMANDisease (VWD2)  ---AV555L
21UniProtVAR_005800G1324SVWF_HUMANDisease (VWD2)61749398AG561S
22UniProtVAR_005801R1341QVWF_HUMANDisease (VWD2)61749403AR578Q
23UniProtVAR_005802R1374CVWF_HUMANDisease (VWD2)61750071AR611C
24UniProtVAR_005803R1374HVWF_HUMANDisease (VWD2)61750072AR611H
25UniProtVAR_005804T1381AVWF_HUMANPolymorphism216311AA618A
26UniProtVAR_005805R1399HVWF_HUMANPolymorphism216312AR636H
27UniProtVAR_005806L1460VVWF_HUMANDisease (VWD2)61750088AL697V
28UniProtVAR_005807A1461VVWF_HUMANDisease (VWD2)61750089AA698V

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

(-) PROSITE Motifs  (2, 7)

Asymmetric/Biological Unit (2, 7)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LRRPS51450 Leucine-rich repeat profile.GP1BA_HUMAN72-93
94-115
117-137
141-162
165-186
189-210
  6B:56-77
B:78-99
B:101-121
B:125-146
B:149-170
B:173-194
2VWFAPS50234 VWFA domain profile.VWF_HUMAN1498-1665
1277-1453
1691-1871
  1-
A:514-690
-

(-) Exons   (2, 2)

Asymmetric/Biological Unit (2, 2)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000002614051ENSE00001184496chr12:6233836-6233587250VWF_HUMAN-00--
1.2ENST000002614052ENSE00001653826chr12:6232362-623230855VWF_HUMAN1-19190--
1.4ENST000002614054ENSE00001261893chr12:6230504-6230340165VWF_HUMAN19-74560--
1.5ENST000002614055ENSE00001261546chr12:6220134-6220032103VWF_HUMAN74-108350--
1.6ENST000002614056ENSE00002152539chr12:6219748-6219540209VWF_HUMAN108-178710--
1.7aENST000002614057aENSE00001676171chr12:6204750-6204626125VWF_HUMAN178-219420--
1.8ENST000002614058ENSE00001682720chr12:6184717-6184501217VWF_HUMAN220-292730--
1.9ENST000002614059ENSE00001640051chr12:6182907-6182785123VWF_HUMAN292-333420--
1.10ENST0000026140510ENSE00001656280chr12:6181608-6181497112VWF_HUMAN333-370380--
1.11ENST0000026140511ENSE00001700039chr12:6180509-618046347VWF_HUMAN370-386170--
1.12ENST0000026140512ENSE00001674584chr12:6174439-6174303137VWF_HUMAN386-431460--
1.13ENST0000026140513ENSE00001645253chr12:6173550-6173412139VWF_HUMAN432-478470--
1.14ENST0000026140514ENSE00001679915chr12:6172220-6172120101VWF_HUMAN478-511340--
1.15ENST0000026140515ENSE00001640163chr12:6167210-6167015196VWF_HUMAN512-577660--
1.16ENST0000026140516ENSE00001727074chr12:6166238-6166023216VWF_HUMAN577-649730--
1.17bENST0000026140517bENSE00000936967chr12:6161949-6161709241VWF_HUMAN649-729810--
1.18ENST0000026140518ENSE00000936968chr12:6155983-615588995VWF_HUMAN729-761330--
1.19ENST0000026140519ENSE00000936969chr12:6153617-6153457161VWF_HUMAN761-814540--
1.20ENST0000026140520ENSE00000936970chr12:6145657-6145554104VWF_HUMAN815-849350--
1.21ENST0000026140521ENSE00000936971chr12:6143992-6143854139VWF_HUMAN849-895470--
1.22ENST0000026140522ENSE00000936972chr12:6140744-6140610135VWF_HUMAN896-940450--
1.23ENST0000026140523ENSE00000936973chr12:6138654-6138508147VWF_HUMAN941-989490--
1.24ENST0000026140524ENSE00000936974chr12:6135212-6135072141VWF_HUMAN990-1036470--
1.25ENST0000026140525ENSE00001731504chr12:6134859-6134746114VWF_HUMAN1037-1074380--
1.26ENST0000026140526ENSE00000936976chr12:6132953-6132797157VWF_HUMAN1075-1127530--
1.27ENST0000026140527ENSE00001792722chr12:6132064-6131906159VWF_HUMAN1127-1180540--
1.28ENST0000026140528ENSE00001679248chr12:6131201-6131066136VWF_HUMAN1180-1225460--
1.29ENST0000026140529ENSE00001749068chr12:6128909-61275311379VWF_HUMAN1225-16854611A:506-703198
1.30ENST0000026140530ENSE00001676963chr12:6126036-6125920117VWF_HUMAN1685-1724400--
1.31ENST0000026140531ENSE00001646337chr12:6125822-6125682141VWF_HUMAN1724-1771480--
1.32ENST0000026140532ENSE00001603271chr12:6125398-6125255144VWF_HUMAN1771-1819490--
1.33ENST0000026140533ENSE00000936983chr12:6122811-6122647165VWF_HUMAN1819-1874560--
1.34ENST0000026140534ENSE00001761241chr12:6121296-612125344VWF_HUMAN1874-1888150--
1.35ENST0000026140535ENSE00001622286chr12:6120960-6120783178VWF_HUMAN1889-1948600--
1.36ENST0000026140536ENSE00001261636chr12:6105388-6105168221VWF_HUMAN1948-2021740--
1.37ENST0000026140537ENSE00000866874chr12:6103773-6103581193VWF_HUMAN2022-2086650--
1.38ENST0000026140538ENSE00000866873chr12:6103369-6103028342VWF_HUMAN2086-22001150--
1.39ENST0000026140539ENSE00001328745chr12:6101184-6100985200VWF_HUMAN2200-2266670--
1.40ENST0000026140540ENSE00001261609chr12:6094831-6094729103VWF_HUMAN2267-2301350--
1.41ENST0000026140541ENSE00001261603chr12:6094285-609421175VWF_HUMAN2301-2326260--
1.42ENST0000026140542ENSE00000866869chr12:6092420-6092316105VWF_HUMAN2326-2361360--
1.43ENST0000026140543ENSE00001309185chr12:6091157-6090952206VWF_HUMAN2361-2429690--
1.44ENST0000026140544ENSE00000866867chr12:6085426-6085277150VWF_HUMAN2430-2479500--
1.45ENST0000026140545ENSE00001261579chr12:6080875-6080765111VWF_HUMAN2480-2516370--
1.46ENST0000026140546ENSE00001316394chr12:6078557-6078377181VWF_HUMAN2517-2577610--
1.47ENST0000026140547ENSE00000866864chr12:6077333-607729341VWF_HUMAN2577-2590140--
1.48ENST0000026140548ENSE00001289624chr12:6076768-6076652117VWF_HUMAN2591-2629390--
1.49ENST0000026140549ENSE00001312819chr12:6062760-606266299VWF_HUMAN2630-2662330--
1.50ENST0000026140550ENSE00001326641chr12:6061685-6061557129VWF_HUMAN2663-2705430--
1.51ENST0000026140551ENSE00001307387chr12:6061049-606101040VWF_HUMAN2706-2719140--
1.52aENST0000026140552aENSE00001293437chr12:6059049-605895298VWF_HUMAN2719-2751330--
1.53bENST0000026140553bENSE00001314535chr12:6058369-6058040330VWF_HUMAN2752-2813620--

2.2bENST000003291252bENSE00001299958chr17:4835900-48371501251GP1BA_HUMAN1-4174171B:1-265265
2.3aENST000003291253aENSE00001488421chr17:4837187-4837858672GP1BA_HUMAN418-6402230--

(-) Sequences/Alignments

Asymmetric/Biological 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:198
 aligned with VWF_HUMAN | P04275 from UniProtKB/Swiss-Prot  Length:2813

    Alignment length:198
                                  1278      1288      1298      1308      1318      1328      1338      1348      1358      1368      1378      1388      1398      1408      1418      1428      1438      1448      1458        
           VWF_HUMAN   1269 DFYCSRLLDLVFLLDGSSRLSEAEFEVLKAFVVDMMERLRISQKWVRVAVVEYHDGSHAYIGLKDRKRPSELRRIASQVKYAGSQVASTSEVLKYTLFQIFSKIDRPEASRITLLLMASQEPQRMSRNFVRYVQGLKKKKVIVIPVGIGPHANLKQIRLIEKQAPENKAFVLSSVDELEQQRDEIVSYLCDLAPEAPP 1466
               SCOP domains d1sq0a_ A: von Willebrand factor A1 domain, vWA1                                                                                                                                                       SCOP domains
               CATH domains 1sq0A00 A:506-703  [code=3.40.50.410, no name defined]                                                                                                                                                 CATH domains
               Pfam domains --------VWA-1sq0A01 A:514-691                                                                                                                                                             ------------ Pfam domains
         Sec.struct. author .......eeeeeeee.....hhhhhhhhhhhhhhhhhhh......eeeeeeee...eeeee......hhhhhhhhhhhh........hhhhhhhhhhhhh.........eeeeeeee....hhhhh.hhhhhhhhhhhh.eeeeeeee....hhhhhhhhhhhh.....eee.hhhhh..hhhhhhhhhhh....... Sec.struct. author
             SAPs(SNPs) (1) ---F---------------------------------W-C----CL-M-L-----S----------------Q--------------------------------C------A-----------------H------------------------------------------------------------VV----- SAPs(SNPs) (1)
             SAPs(SNPs) (2) ---R-----------------------------------------------------------------------------------------------------H-------------------------------------------------------------------------------------------- SAPs(SNPs) (2)
                    PROSITE --------VWFA  PDB: A:514-690 UniProt: 1277-1453                                                                                                                                          ------------- PROSITE
               Transcript 1 Exon 1.29  PDB: A:506-703 UniProt: 1225-1685 [INCOMPLETE]                                                                                                                                              Transcript 1
                1sq0 A  506 DFYCSRLLDLVFLLDGSSRLSEAEFEVLKAFVVDMMERLRISQKWVRVAVVEYHDGSHAYIGLKDRKRPSELRRIASQVKYAGSQVASTSEVLKYTLFQIFSKIDRPEASRIALLLMASQEPQRMSRNFVRYVQGLKKKKVIVIPVGIGPHANLKQIRLIEKQAPENKAFVLSSVDELEQQRDEIVSYLCDLAPEAPP  703
                                   515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685       695        

Chain B from PDB  Type:PROTEIN  Length:265
 aligned with GP1BA_HUMAN | P07359 from UniProtKB/Swiss-Prot  Length:652

    Alignment length:265
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276     
         GP1BA_HUMAN     17 HPICEVSKVASHLEVNCDKRNLTALPPDLPKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPWLCNCEILYFRRWLQDNAENVYVWKQGVDVKAMTSNVASVQCDNSDKFPVYKYPGKGCP  281
               SCOP domains d1sq0b_ B: von Willebrand factor binding domain of glycoprotein Ib alpha                                                                                                                                                                                                  SCOP domains
               CATH domains 1sq0B00 B:1-265 Ribonuclease Inhibitor                                                                                                                                                                                                                                    CATH domains
           Pfam domains (1) --LRRNT-1sq0B05 B:3-30        ------------------------LRR_7-1sq0B02 B:55-77  LRR_1-1sq0B01       --------------------------------------------------LRR_8-1sq0B03 B:148-197                           -------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) ---------------------------------------------------------------------------------------------------------------------------------------------------LRR_8-1sq0B04 B:148-197                           -------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author ....eeeee..eeeee..................eee.......eee.hhhh......eee.......eee.........eee....................eee.....................eee.....................eee.....................eee....................eee........hhhhhhhhhhhhhh...eeeeee....eeeee.hhhhhhhhh...hhhhh...... Sec.struct. author
             SAPs(SNPs) (1) -------------------------------------------------------HF-------R----F----------------------------------------------------------P---------------M----------V----------------------------------------------------S-----------------------S----SV-------------------------- SAPs(SNPs) (1)
             SAPs(SNPs) (2) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------V-------------------------------- SAPs(SNPs) (2)
                    PROSITE -------------------------------------------------------LRR  PDB: B:56-77     LRR  PDB: B:78-99     -LRR  PDB: B:101-121  ---LRR  PDB: B:125-146   --LRR  PDB: B:149-170   --LRR  PDB: B:173-194   ----------------------------------------------------------------------- PROSITE
               Transcript 2 Exon 2.2b  PDB: B:1-265 UniProt: 1-417 [INCOMPLETE]                                                                                                                                                                                                                       Transcript 2
                1sq0 B    1 HPICEVSKVASHLEVNCDKRDLTALPPDLPKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNDLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPWLCNCEILYFRRWLQDNAENVYVWKQGVDVKAMTSNVASVQCDNSDKFPVYKYPGKGCP  265
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260     

   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  (2, 2)

Asymmetric/Biological Unit

(-) CATH Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (5, 6)

Asymmetric/Biological Unit
(-)
Clan: LRR (77)
(-)
Clan: vWA-like (60)
(-)
Family: VWA (50)

(-) Gene Ontology  (45, 52)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (VWF_HUMAN | P04275)
molecular function
    GO:0051087    chaperone binding    Interacting selectively and non-covalently with a chaperone protein, a class of proteins that bind to nascent or unfolded polypeptides and ensure correct folding or transport.
    GO:0005518    collagen binding    Interacting selectively and non-covalently with collagen, a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals. Collagen is highly enriched in glycine (some regions are 33% glycine) and proline, occurring predominantly as 3-hydroxyproline (about 20%).
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0019865    immunoglobulin binding    Interacting selectively and non-covalently with an immunoglobulin.
    GO:0005178    integrin binding    Interacting selectively and non-covalently with an integrin.
    GO:0002020    protease binding    Interacting selectively and non-covalently with any protease or peptidase.
    GO:0047485    protein N-terminus binding    Interacting selectively and non-covalently with a protein N-terminus, the end of any peptide chain at which the 2-amino (or 2-imino) function of a constituent amino acid is not attached in peptide linkage to another amino-acid residue.
    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:0042803    protein homodimerization activity    Interacting selectively and non-covalently with an identical protein to form a homodimer.
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:0031589    cell-substrate adhesion    The attachment of a cell to the underlying substrate via adhesion molecules.
    GO:0030198    extracellular matrix organization    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an extracellular matrix.
    GO:0007599    hemostasis    The stopping of bleeding (loss of body fluid) or the arrest of the circulation to an organ or part.
    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:0002576    platelet degranulation    The regulated exocytosis of secretory granules containing preformed mediators such as histamine and serotonin by a platelet.
    GO:0051260    protein homooligomerization    The process of creating protein oligomers, compounds composed of a small number, usually between three and ten, of identical component monomers. Oligomers may be formed by the polymerization of a number of monomers or the depolymerization of a large protein polymer.
    GO:0035902    response to immobilization stress    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of being rendered immobile.
    GO:0009611    response to wounding    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to the organism.
cellular component
    GO:0033093    Weibel-Palade body    A large, elongated, rod-shaped secretory granule characteristic of vascular endothelial cells that contain a number of structurally and functionally distinct proteins, of which the best characterized are von Willebrand factor (VWF) and P-selectin. Weibel-Palade bodies are formed from the trans-Golgi network in a process that depends on VWF, which is densely packed in a highly organized manner, and on coat proteins that remain associated with the granules. Upon cell stimulation, regulated exocytosis releases the contained proteins to the cell surface, where they act in the recruitment of platelets and leukocytes and in inflammatory and vasoactive responses.
    GO:0005783    endoplasmic reticulum    The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached).
    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:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
    GO:0031091    platelet alpha granule    A secretory organelle found in blood platelets, which is unique in that it exhibits further compartmentalization and acquires its protein content via two distinct mechanisms: (1) biosynthesis predominantly at the megakaryocyte (MK) level (with some vestigial platelet synthesis) (e.g. platelet factor 4) and (2) endocytosis and pinocytosis at both the MK and circulating platelet levels (e.g. fibrinogen (Fg) and IgG).
    GO:0031093    platelet alpha granule lumen    The volume enclosed by the membrane of the platelet alpha granule.
    GO:0005578    proteinaceous extracellular matrix    A layer consisting mainly of proteins (especially collagen) and glycosaminoglycans (mostly as proteoglycans) that forms a sheet underlying or overlying cells such as endothelial and epithelial cells. The proteins are secreted by cells in the vicinity. An example of this component is found in Mus musculus.

Chain B   (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.

 Visualization

(-) Interactive Views

Asymmetric/Biological Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
(no "Ligands, Modified Residues, Ions" information available for 1sq0)
 
  Sites
(no "Sites" information available for 1sq0)
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1sq0)
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  1sq0
    Family and Domain InformationProDom | SYSTERS
    General Structural InformationGlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in MembranesOPM
    Protein SurfaceSURFACE
    Secondary StructureDSSP (structure derived) | HSSP (homology derived)
    Structural GenomicsGeneCensus
    Structural NeighboursCE | VAST
    Structure ClassificationCATH | Dali | SCOP
    Validation and Original DataBMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  GP1BA_HUMAN | P07359
    Comparative Protein Structure ModelsModBase
    Genomic InformationEnsembl
    Protein-protein InteractionDIP
    Sequence, Family and Domain InformationInterPro | Pfam | SMART | UniProtKB/SwissProt
  VWF_HUMAN | P04275
    Comparative Protein Structure ModelsModBase
    Genomic InformationEnsembl
    Protein-protein InteractionDIP
    Sequence, Family and Domain InformationInterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme InformationBRENDA | EC-PDB | Enzyme | IntEnz
    PathwayKEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  177820
    Disease InformationOMIM
  231200
    Disease InformationOMIM
  613554
    Disease InformationOMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related InformationGenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain InformationXDom
    Interatomic Contacts of Structural UnitsCSU
    Ligand-protein ContactsLPC
    Protein CavitiescastP
    Sequence and Secondary StructurePDBCartoon
    Structure AlignmentSTRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence BrowserSTING
 
Access by UniProt ID/Accession number
  GP1BA_HUMAN | P07359
    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)
  VWF_HUMAN | P04275
    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        GP1BA_HUMAN | P073591gwb 1k13 1m0z 1m10 1ook 1p8v 1p9a 1qyy 1u0n 2bp3 3p72 3pmh 4c2a 4c2b 4ch2 4ch8 4mgx 4yr6
        VWF_HUMAN | P042751ao3 1atz 1auq 1fe8 1fns 1ijb 1ijk 1m10 1oak 1u0n 1uex 2adf 2mhp 2mhq 3gxb 3hxo 3hxq 3ppv 3ppw 3ppx 3ppy 3zqk 4c29 4c2a 4c2b 4dmu 4nt5 5bv8

(-) Related Entries Specified in the PDB File

1auq CRYSTAL STRUCTURE OF THE A1 DOMAIN OF VON WILLEBRAND FACTOR
1m0z CRYSTAL STRUCTURE OF THE VON WILLEBRAND FACTOR BINDING DOMAIN OF GLYCOPROTEIN IB ALPHA
1m10 CRYSTAL STRUCTURE OF THE COMPLEX OF GLYCOPROTEIN IB ALPHA AND THE VON WILLEBRAND FACTOR A1 DOMAIN WITH GAIN-OF- FUNCTION MUTATIONS
1ook CRYSTAL STRUCTURE OF THE COMPLEX OF GLYCOPROTEIN IB-ALPHA AND ALPHA-THROMBIN
1p8v CRYSTAL STRUCTURE OF THE COMPLEX OF GLYCOPROTEIN IB-ALPHA AND ALPHA-THROMBIN