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(-) Description

Title :  STRUCTURE ANALYSIS OF (POG)4-LOG-(POG)5
 
Authors :  K. Okuyama
Date :  14 Jun 06  (Deposition) - 24 Apr 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Collagen, Triple Helix, Leu, Structural Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Okuyama, H. Narita, T. Kawaguchi, K. Noguchi, Y. Tanaka, N. Nishino
Unique Side Chain Conformation Of A Leu Residue In A Triple-Helical Structure
Biopolymers V. 86 212 2007
PubMed-ID: 17373653  |  Reference-DOI: 10.1002/BIP.20724
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - COLLAGEN LIKE PEPTIDE
    Chains: A, B, C
    Engineered: YES
    Other Details: LEU-HYP-GLY GUEST TRIPLET SANDWICHED BY HOST PRO-HYP-GLY SEQUENCE;
THIS HOST 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  (2, 32)

Asymmetric/Biological Unit (2, 32)
No.NameCountTypeFull Name
1EOH3Ligand/IonETHANOL
2HYP29Mod. Amino Acid4-HYDROXYPROLINE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHYP A:26 , GLY A:27 , PRO A:28 , HOH A:1103 , HOH A:2027BINDING SITE FOR RESIDUE EOH A 101
2AC2SOFTWARELEU A:13 , HYP A:14 , GLY A:15 , PRO A:16 , HYP C:11 , HOH C:3001BINDING SITE FOR RESIDUE EOH A 102
3AC3SOFTWAREHYP A:23 , HOH A:1015 , HOH A:1064 , HOH C:1025 , HOH C:2006BINDING SITE FOR RESIDUE EOH A 103

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2DRT)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2DRT)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2DRT)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2DRT)

(-) Exons   (0, 0)

(no "Exon" information available for 2DRT)

(-) 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:29
                                                            
               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
                  2drt A  2 pGPpGPpGPpGLpGPpGPpGPpGPpGPpG 30
                            |  |  | 11  |  |  21 |  |  | 
                            |  |  |  |  |  |  |  |  |  | 
                            2-HYP |  |  |  |  |  |  |  | 
                               5-HYP |  |  |  |  |  |  | 
                                  8-HYP |  |  |  |  |  | 
                                    11-HYP |  |  |  |  | 
                                       14-HYP |  |  |  | 
                                          17-HYP |  |  | 
                                             20-HYP |  | 
                                                23-HYP | 


Chain B from PDB  Type:PROTEIN  Length:29
                                                            
               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
                  2drt B  2 pGPpGPpGPpGLpGPpGPpGPpGPpGPpG 30
                            |  |  | 11  |  |  21 |  |  | 
                            |  |  |  |  |  |  |  |  |  | 
                            2-HYP |  |  |  |  |  |  |  | 
                               5-HYP |  |  |  |  |  |  | 
                                  8-HYP |  |  |  |  |  | 
                                    11-HYP |  |  |  |  | 
                                       14-HYP |  |  |  | 
                                          17-HYP |  |  | 
                                             20-HYP |  | 
                                                23-HYP | 


Chain C from PDB  Type:PROTEIN  Length:28
                                                           
               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
                  2drt C  1 PpGPpGPpGPpGLpGPpGPpGPpGPpGP 28
                             |  |  |10|  |  | 20  |  |  
                             |  |  |  |  |  |  |  |  |  
                             2-HYP |  |  |  |  |  |  |  
                                5-HYP |  |  |  |  |  |  
                                   8-HYP |  |  |  |  |  
                                     11-HYP |  |  |  |  
                                        14-HYP |  |  |  
                                           17-HYP |  |  
                                              20-HYP |  
                                                 23-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 2DRT)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2DRT)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2DRT)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 2DRT)

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 Related Entries

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(-) Related Entries Specified in the PDB File

1v4f SIMILAR SEQUENCE WITH NO LOG TRIPLET
2drx SIMILAR SEQUENCE WITH TWO LOG TRIPLET