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(-) Description

Title :  PROTAMINE-DNA COMPLEX 2
 
Authors :  K. Biegeleisen
Date :  02 Sep 05  (Deposition) - 04 Oct 05  (Release) - 01 Aug 06  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X
Keywords :  Dna, Helix, Non-Helical, Topology, Topological, Topologically- Linked, Topologically Non-Linked, Side-By-Side, Straight Ladder, Tertiary Structure (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Biegeleisen
The Probable Structure Of The Protamine-Dna Complex.
J. Theor. Biol. V. 241 533 2006
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - REPEAT PEPTIDE
    Chains: A, B, G, H, Q, R, W, X
    Engineered: YES
    Synthetic: YES
 
Molecule 2 - 5'-D(P*GP*TP*A)-3'
    Chains: C, E, I, O, U
    Engineered: YES
    Synthetic: YES
 
Molecule 3 - 5'-D(P*TP*AP*C)-3'
    Chains: D, F, J, T
    Engineered: YES
    Synthetic: YES
 
Molecule 4 - 5'-D(P*GP*T)-3'
    Chains: K
    Engineered: YES
    Synthetic: YES
 
Molecule 5 - 5'-D(P*AP*C)-3'
    Chains: L
    Engineered: YES
    Synthetic: YES
 
Molecule 6 - 5'-D(P*GP*TP*AP*C)-3'
    Chains: M, N, S
    Engineered: YES
    Synthetic: YES
 
Molecule 7 - 5'-D(P*TP*AP*CP*G)-3'
    Chains: P, V
    Engineered: YES
    Synthetic: YES

 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 2AWS)

(-) Sites  (0, 0)

(no "Site" information available for 2AWS)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2AWS)

(-) 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:4
                                  
               SCOP domains ---- SCOP domains
               CATH domains ---- CATH domains
               Pfam domains ---- Pfam domains
         Sec.struct. author .ee. Sec.struct. author
                 SAPs(SNPs) ---- SAPs(SNPs)
                    PROSITE ---- PROSITE
                 Transcript ---- Transcript
                   2aws A 1 RRRR 4


Chain B from PDB  Type:PROTEIN  Length:4
                                  
               SCOP domains ---- SCOP domains
               CATH domains ---- CATH domains
               Pfam domains ---- Pfam domains
         Sec.struct. author .ee. Sec.struct. author
                 SAPs(SNPs) ---- SAPs(SNPs)
                    PROSITE ---- PROSITE
                 Transcript ---- Transcript
                   2aws B 1 RRRR 4


Chain C from PDB  Type:DNA  Length:3
                                 
                   2aws C 1 GTA 3


Chain D from PDB  Type:DNA  Length:3
                                 
                   2aws D 1 TAC 3


Chain E from PDB  Type:DNA  Length:3
                                 
                   2aws E 1 GTA 3


Chain F from PDB  Type:DNA  Length:3
                                 
                   2aws F 1 TAC 3


Chain G from PDB  Type:PROTEIN  Length:4
                                  
               SCOP domains ---- SCOP domains
               CATH domains ---- CATH domains
               Pfam domains ---- Pfam domains
         Sec.struct. author .ee. Sec.struct. author
                 SAPs(SNPs) ---- SAPs(SNPs)
                    PROSITE ---- PROSITE
                 Transcript ---- Transcript
                   2aws G 1 RRRR 4


Chain H from PDB  Type:PROTEIN  Length:4
                                  
               SCOP domains ---- SCOP domains
               CATH domains ---- CATH domains
               Pfam domains ---- Pfam domains
         Sec.struct. author .ee. Sec.struct. author
                 SAPs(SNPs) ---- SAPs(SNPs)
                    PROSITE ---- PROSITE
                 Transcript ---- Transcript
                   2aws H 1 RRRR 4


Chain I from PDB  Type:DNA  Length:3
                                 
                   2aws I 1 GTA 3


Chain J from PDB  Type:DNA  Length:3
                                 
                   2aws J 1 TAC 3


Chain K from PDB  Type:DNA  Length:2
                                
                   2aws K 1 GT 2


Chain L from PDB  Type:DNA  Length:2
                                
                   2aws L 1 AC 2


Chain M from PDB  Type:DNA  Length:4
                                  
                   2aws M 1 GTAC 4


Chain N from PDB  Type:DNA  Length:4
                                  
                   2aws N 1 GTAC 4


Chain O from PDB  Type:DNA  Length:3
                                 
                   2aws O 1 GTA 3


Chain P from PDB  Type:DNA  Length:4
                                  
                   2aws P 1 TACG 4


Chain Q from PDB  Type:PROTEIN  Length:4
                                  
               SCOP domains ---- SCOP domains
               CATH domains ---- CATH domains
               Pfam domains ---- Pfam domains
         Sec.struct. author .ee. Sec.struct. author
                 SAPs(SNPs) ---- SAPs(SNPs)
                    PROSITE ---- PROSITE
                 Transcript ---- Transcript
                   2aws Q 1 RRRR 4


Chain R from PDB  Type:PROTEIN  Length:4
                                  
               SCOP domains ---- SCOP domains
               CATH domains ---- CATH domains
               Pfam domains ---- Pfam domains
         Sec.struct. author .ee. Sec.struct. author
                 SAPs(SNPs) ---- SAPs(SNPs)
                    PROSITE ---- PROSITE
                 Transcript ---- Transcript
                   2aws R 1 RRRR 4


Chain S from PDB  Type:DNA  Length:4
                                  
                   2aws S 1 GTAC 4


Chain T from PDB  Type:DNA  Length:3
                                 
                   2aws T 1 TAC 3


Chain U from PDB  Type:DNA  Length:3
                                 
                   2aws U 1 GTA 3


Chain V from PDB  Type:DNA  Length:4
                                  
                   2aws V 1 TACG 4


Chain W from PDB  Type:PROTEIN  Length:4
                                  
               SCOP domains ---- SCOP domains
               CATH domains ---- CATH domains
               Pfam domains ---- Pfam domains
         Sec.struct. author .ee. Sec.struct. author
                 SAPs(SNPs) ---- SAPs(SNPs)
                    PROSITE ---- PROSITE
                 Transcript ---- Transcript
                   2aws W 1 RRRR 4


Chain X from PDB  Type:PROTEIN  Length:4
                                  
               SCOP domains ---- SCOP domains
               CATH domains ---- CATH domains
               Pfam domains ---- Pfam domains
         Sec.struct. author .ee. Sec.struct. author
                 SAPs(SNPs) ---- SAPs(SNPs)
                    PROSITE ---- PROSITE
                 Transcript ---- Transcript
                   2aws X 1 RRRR 4
   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  (0, 0)

(no "SCOP Domain" information available for 2AWS)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Theoretical Model(hide GO term definitions)
    (no "Gene Ontology" information available for 2AWS)

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  Ligands, Modified Residues, Ions
(no "Ligands, Modified Residues, Ions" information available for 2aws)
 
  Sites
(no "Sites" information available for 2aws)
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2aws)
 

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  2aws
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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

2awr PROTAMINE-DNA COMPLEX 1