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(-) Description

Title :  CRYSTAL STRUCTURE OF MACROCYCLES CONTAINING ABETA17-23 (LV(PHI)(MEA) AED) AND ABETA30-36 (AIIGL(ORN)V)
 
Authors :  R. K. Spencer, H. Li, J. S. Nowick
Date :  05 Dec 13  (Deposition) - 02 Apr 14  (Release) - 09 Jul 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.02
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F,G,H,I,J,K,L
Keywords :  Beta-Sheet, Beta-Hairpin, Amyloid, De Novo Protein, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. K. Spencer, H. Li, J. S. Nowick
X-Ray Crystallographic Structures Of Trimers And Higher-Order Oligomeric Assemblies Of A Peptide Derived Fro A Beta (17-36).
J. Am. Chem. Soc. V. 136 5595 2014
PubMed-ID: 24669800  |  Reference-DOI: 10.1021/JA5017409

(-) Compounds

Molecule 1 - CYCLIC HEXADECAPEPTIDE (ORN)LV(PHI)(MEA)AED(ORN)AIIGL(ORN) V
    Chains: A, B, C, D, E, F, G, H, I, J, K, L
    Engineered: YES

 Structural Features

(-) Chains, Units

  123456789101112
Asymmetric/Biological Unit : ABCDEFGHIJKL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 64)

Asymmetric/Biological Unit (5, 64)
No.NameCountTypeFull Name
1CL2Ligand/IonCHLORIDE ION
2MEA12Mod. Amino AcidN-METHYLPHENYLALANINE
3NA2Ligand/IonSODIUM ION
4ORN36Mod. Amino AcidL-ORNITHINE
5PHI12Mod. Amino AcidIODO-PHENYLALANINE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP C:8 , ILE C:12 , HOH C:203 , GLU G:7BINDING SITE FOR RESIDUE NA C 101
2AC2SOFTWAREGLY D:13 , ORN D:15BINDING SITE FOR RESIDUE CL D 101
3AC3SOFTWAREILE K:12 , GLY K:13 , HOH K:213BINDING SITE FOR RESIDUE CL K 101
4AC4SOFTWAREHOH D:220 , ILE K:11BINDING SITE FOR RESIDUE NA K 102

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4NW8)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4NW8)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4NW8)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4NW8)

(-) Exons   (0, 0)

(no "Exon" information available for 4NW8)

(-) 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:16
                                               
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
               Pfam domains ---------------- Pfam domains
         Sec.struct. author .eeeeee...eeeeee Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                  4nw8 A  1 aLVffAEDaAIIGLaV 16
                            |  ||   10    | 
                            |  ||   |     | 
                            1-ORN   |     | 
                               4-PHI|     | 
                                5-MEA     | 
                                    9-ORN | 
                                         15-ORN


Chain B from PDB  Type:PROTEIN  Length:16
                                               
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
               Pfam domains ---------------- Pfam domains
         Sec.struct. author .eeeeee...eeeeee Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                  4nw8 B  1 aLVffAEDaAIIGLaV 16
                            |  ||   10    | 
                            |  ||   |     | 
                            1-ORN   |     | 
                               4-PHI|     | 
                                5-MEA     | 
                                    9-ORN | 
                                         15-ORN


Chain C from PDB  Type:PROTEIN  Length:16
                                               
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
               Pfam domains ---------------- Pfam domains
         Sec.struct. author .eeeeee...eeeeee Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                  4nw8 C  1 aLVffAEDaAIIGLaV 16
                            |  ||   10    | 
                            |  ||   |     | 
                            1-ORN   |     | 
                               4-PHI|     | 
                                5-MEA     | 
                                    9-ORN | 
                                         15-ORN


Chain D from PDB  Type:PROTEIN  Length:16
                                               
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
               Pfam domains ---------------- Pfam domains
         Sec.struct. author .eeeeee...eeeeee Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                  4nw8 D  1 aLVffAEDaAIIGLaV 16
                            |  ||   10    | 
                            |  ||   |     | 
                            1-ORN   |     | 
                               4-PHI|     | 
                                5-MEA     | 
                                    9-ORN | 
                                         15-ORN


Chain E from PDB  Type:PROTEIN  Length:16
                                               
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
               Pfam domains ---------------- Pfam domains
         Sec.struct. author .eeeeee...eeeeee Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                  4nw8 E  1 aLVffAEDaAIIGLaV 16
                            |  ||   10    | 
                            |  ||   |     | 
                            1-ORN   |     | 
                               4-PHI|     | 
                                5-MEA     | 
                                    9-ORN | 
                                         15-ORN


Chain F from PDB  Type:PROTEIN  Length:16
                                               
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
               Pfam domains ---------------- Pfam domains
         Sec.struct. author .eeeeee...eeeeee Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                  4nw8 F  1 aLVffAEDaAIIGLaV 16
                            |  ||   10    | 
                            |  ||   |     | 
                            1-ORN   |     | 
                               4-PHI|     | 
                                5-MEA     | 
                                    9-ORN | 
                                         15-ORN


Chain G from PDB  Type:PROTEIN  Length:16
                                               
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
               Pfam domains ---------------- Pfam domains
         Sec.struct. author .eeeeee...eeeeee Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                  4nw8 G  1 aLVffAEDaAIIGLaV 16
                            |  ||   10    | 
                            |  ||   |     | 
                            1-ORN   |     | 
                               4-PHI|     | 
                                5-MEA     | 
                                    9-ORN | 
                                         15-ORN


Chain H from PDB  Type:PROTEIN  Length:16
                                               
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
               Pfam domains ---------------- Pfam domains
         Sec.struct. author .eeeeee...eeeeee Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                  4nw8 H  1 aLVffAEDaAIIGLaV 16
                            |  ||   10    | 
                            |  ||   |     | 
                            1-ORN   |     | 
                               4-PHI|     | 
                                5-MEA     | 
                                    9-ORN | 
                                         15-ORN


Chain I from PDB  Type:PROTEIN  Length:16
                                               
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
               Pfam domains ---------------- Pfam domains
         Sec.struct. author .eeeeee...eeeeee Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                  4nw8 I  1 aLVffAEDaAIIGLaV 16
                            |  ||   10    | 
                            |  ||   |     | 
                            1-ORN   |     | 
                               4-PHI|     | 
                                5-MEA     | 
                                    9-ORN | 
                                         15-ORN


Chain J from PDB  Type:PROTEIN  Length:16
                                               
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
               Pfam domains ---------------- Pfam domains
         Sec.struct. author .eeeeee...eeeeee Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                  4nw8 J  1 aLVffAEDaAIIGLaV 16
                            |  ||   10    | 
                            |  ||   |     | 
                            1-ORN   |     | 
                               4-PHI|     | 
                                5-MEA     | 
                                    9-ORN | 
                                         15-ORN


Chain K from PDB  Type:PROTEIN  Length:16
                                               
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
               Pfam domains ---------------- Pfam domains
         Sec.struct. author .eeeeee...eeeeee Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                  4nw8 K  1 aLVffAEDaAIIGLaV 16
                            |  ||   10    | 
                            |  ||   |     | 
                            1-ORN   |     | 
                               4-PHI|     | 
                                5-MEA     | 
                                    9-ORN | 
                                         15-ORN


Chain L from PDB  Type:PROTEIN  Length:16
                                               
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
               Pfam domains ---------------- Pfam domains
         Sec.struct. author .eeeeee...eeeeee Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                  4nw8 L  1 aLVffAEDaAIIGLaV 16
                            |  ||   10    | 
                            |  ||   |     | 
                            1-ORN   |     | 
                               4-PHI|     | 
                                5-MEA     | 
                                    9-ORN | 
                                         15-ORN
   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 4NW8)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4NW8)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4NW8)

(-) Gene Ontology  (0, 0)

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 Related Entries

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(-) Related Entries Specified in the PDB File

4ntp 4ntr 4nw9