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(-) Description

Title :  CRYSTAL STRUCTURES OF COLLAGEN MODEL PEPTIDES WITH PRO-HYP-GLY SEQUENCE AT 1.3A
 
Authors :  K. Okuyama, C. Hongo, R. Fukushima, G. Wu, K. Noguchi, Y. Tanaka, N. Nish
Date :  13 Nov 03  (Deposition) - 03 Aug 04  (Release) - 25 Dec 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.26
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Collagen, Triple-Helix, Structural Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Okuyama, C. Hongo, R. Fukushima, G. Wu, H. Narita, K. Noguchi, Y. Tanaka, N. Nishino
Crystal Structures Of Collagen Model Peptides With Pro-Hyp-Gly Repeating Sequence At 1. 26 A Resolution: Implications For Proline Ring Puckering
Biopolymers V. 76 367 2004
PubMed-ID: 15386273  |  Reference-DOI: 10.1002/BIP.20107

(-) Compounds

Molecule 1 - COLLAGEN LIKE PEPTIDE
    Chains: A
    Engineered: YES
    Other Details: THIS TRIPLET IS VERY POPULAR IN THE COLLAGEN SEQUENCE.
    Synthetic: YES
 
Molecule 2 - COLLAGEN LIKE PEPTIDE
    Chains: B
    Engineered: YES
    Other Details: THIS TRIPLET IS VERY POPULAR IN THE COLLAGEN SEQUENCE.
    Synthetic: YES
 
Molecule 3 - COLLAGEN LIKE PEPTIDE
    Chains: C
    Engineered: YES
    Other Details: THIS TRIPLET IS VERY POPULAR IN THE COLLAGEN SEQUENCE.
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 7)

Asymmetric/Biological Unit (1, 7)
No.NameCountTypeFull Name
1HYP7Mod. Amino Acid4-HYDROXYPROLINE

(-) Sites  (0, 0)

(no "Site" information available for 1V4F)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1V4F)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1V4F)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 1V4F)

(-) 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:7
                                     
               SCOP domains d1v4fa_ SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author ....... Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                   1v4f A 1 GPpGPpG 7
                              |  | 
                              |  | 
                              3-HYP
                                 6-HYP


Chain B from PDB  Type:PROTEIN  Length:7
                                     
               SCOP domains d1v4fb_ SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author ....... Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                   1v4f B 1 pGPpGPp 7
                            |  |  |
                            |  |  |
                            1-HYP |
                               4-HYP
                                  7-HYP


Chain C from PDB  Type:PROTEIN  Length:7
                                     
               SCOP domains d1v4fc_ SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author ....... Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                   1v4f C 1 PpGPpGP 7
                             |  |  
                             |  |  
                             2-HYP 
                                5-HYP
   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, 3)

Asymmetric/Biological Unit
(-)
Class: Designed proteins (167)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1V4F)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1V4F)

(-) Gene Ontology  (0, 0)

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

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

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(-) Related Entries Specified in the PDB File

1cag SIMILAR SEQUENCE
1v6q THE SAME PEPTIDE MEASURED AT RT
1v7h HOLOMOLOGOUS PEPTIDE MEASURED AT 100K