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(-) Description

Title :  CRYSTAL STRUCTURE OF A VWF BINDING COLLAGEN III DERIVED TRIPLE HELICAL PEPTIDE
 
Authors :  T. H. C. Brondijk, E. G. Huizinga
Date :  08 Feb 12  (Deposition) - 28 Mar 12  (Release) - 18 Apr 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.39
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Collagen Triple Helix, Von Willebrand Factor, Structural Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. H. Brondijk, D. Bihan, R. W. Farndale, E. G. Huizinga
Implications For Collagen I Chain Registry From The Structure Of The Collagen Von Willebrand Factor A3 Domain Complex.
Proc. Natl. Acad. Sci. Usa V. 109 5253 2012
PubMed-ID: 22440751  |  Reference-DOI: 10.1073/PNAS.1112388109

(-) Compounds

Molecule 1 - COLLAGEN III DERIVED PEPTIDE
    Chains: A, B, C
    Engineered: YES
    Other Details: SYNTHETIC PEPTIDE COVERS PART OF HUMAN COLLAGEN III SEQUENCE
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 33)

Asymmetric/Biological Unit (4, 33)
No.NameCountTypeFull Name
1ACE2Mod. Amino AcidACETYL GROUP
2GOL4Ligand/IonGLYCEROL
3HYP24Mod. Amino Acid4-HYDROXYPROLINE
4NH23Mod. Amino AcidAMINO GROUP

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHYP A:27 , GLY A:28 , HYP A:30 , HOH A:203 , HOH A:206 , PRO B:29BINDING SITE FOR RESIDUE GOL A 101
2AC2SOFTWAREHOH A:206 , VAL B:17 , MET B:18 , PRO B:26 , HYP B:27 , GLY B:28 , PRO B:29 , HOH B:206 , HOH B:244 , HOH B:251 , VAL C:17BINDING SITE FOR RESIDUE GOL B 101
3AC3SOFTWAREVAL C:17 , MET C:18 , GLY C:19 , PHE C:20 , HYP C:21 , HOH C:217BINDING SITE FOR RESIDUE GOL C 101
4AC4SOFTWAREPRO A:29 , GLY B:4 , PRO B:5 , HYP B:6 , PRO C:5 , GLY C:25 , PRO C:26 , HYP C:27 , HOH C:212 , HOH C:263BINDING SITE FOR RESIDUE GOL C 102

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4DMT)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4DMT)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4DMT)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4DMT)

(-) Exons   (0, 0)

(no "Exon" information available for 4DMT)

(-) 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:31
                                                              
               SCOP domains ------------------------------- SCOP domains
               CATH domains ------------------------------- CATH domains
               Pfam domains ------------------------------- Pfam domains
         Sec.struct. author ............................... Sec.struct. author
                 SAPs(SNPs) ------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------- PROSITE
                 Transcript ------------------------------- Transcript
                  4dmt A  1 GPpGPpGPpGPRGQpGVMGFpGPpGPpGPpx 31
                              |  |  10    |   20|  |  | 30|
                              |  |  |     |     |  |  |  31-NH2
                              3-HYP |     |     |  |  |  | 
                                 6-HYP    |     |  |  |  | 
                                    9-HYP |     |  |  |  | 
                                         15-HYP |  |  |  | 
                                               21-HYP |  | 
                                                  24-HYP | 
                                                     27-HYP
                                                        30-HYP


Chain B from PDB  Type:PROTEIN  Length:32
                                                               
               SCOP domains -------------------------------- SCOP domains
               CATH domains -------------------------------- CATH domains
               Pfam domains -------------------------------- Pfam domains
         Sec.struct. author ................................ Sec.struct. author
                 SAPs(SNPs) -------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------- PROSITE
                 Transcript -------------------------------- Transcript
                  4dmt B  0 xGPpGPpGPpGPRGQpGVMGFpGPpGPpGPpx 31
                            |  |  |  9     |  19 |  |  |29||
                            |  |  |  |     |     |  |  |  31-NH2
                            0-ACE |  |     |     |  |  |  | 
                               3-HYP |     |     |  |  |  | 
                                  6-HYP    |     |  |  |  | 
                                     9-HYP |     |  |  |  | 
                                          15-HYP |  |  |  | 
                                                21-HYP |  | 
                                                   24-HYP | 
                                                      27-HYP


Chain C from PDB  Type:PROTEIN  Length:32
                                                               
               SCOP domains -------------------------------- SCOP domains
               CATH domains -------------------------------- CATH domains
               Pfam domains -------------------------------- Pfam domains
         Sec.struct. author ................................ Sec.struct. author
                 SAPs(SNPs) -------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------- PROSITE
                 Transcript -------------------------------- Transcript
                  4dmt C  0 xGPpGPpGPpGPRGQpGVMGFpGPpGPpGPpx 31
                            |  |  |  9     |  19 |  |  |29||
                            |  |  |  |     |     |  |  |  31-NH2
                            0-ACE |  |     |     |  |  |  | 
                               3-HYP |     |     |  |  |  | 
                                  6-HYP    |     |  |  |  | 
                                     9-HYP |     |  |  |  | 
                                          15-HYP |  |  |  | 
                                                21-HYP |  | 
                                                   24-HYP | 
                                                      27-HYP
   Legend:   → Mismatch (orange background)
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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 4DMT)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4DMT)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4DMT)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
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 Related Entries

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4dmu