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(-) Description

Title :  AIIGLMV SEGMENT FROM ALZHEIMER'S AMYLOID-BETA DISPLAYED ON 54-MEMBERED MACROCYCLE SCAFFOLD
 
Authors :  M. Zhao, C. Liu, P. N. Cheng, D. Eisenberg, J. S. Nowick
Date :  26 Jul 11  (Deposition) - 31 Oct 12  (Release) - 16 Jul 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A  (4x)
Biol. Unit 3:  A  (2x)
Biol. Unit 4:  A,B  (2x)
Biol. Unit 5:  B  (4x)
Biol. Unit 6:  B  (2x)
Keywords :  Amyloid-Related, Macrocycle, Hao, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. N. Cheng, C. Liu, M. Zhao, D. Eisenberg, J. S. Nowick
Amyloid Beta-Sheet Mimics That Antagonize Protein Aggregation And Reduce Amyloid Toxicity.
Nat Chem V. 4 927 2012
PubMed-ID: 23089868  |  Reference-DOI: 10.1038/NCHEM.1433

(-) Compounds

Molecule 1 - CYCLIC PSEUDO-PEPTIDE (ORN)AIIGLMV(ORN)KF(HAO)(4BF)K
    Chains: A, B
    Engineered: YES
    Other Details: SYNTHETIC CONSTRUCT
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): AB
Biological Unit 2 (4x): A 
Biological Unit 3 (2x): A 
Biological Unit 4 (2x): AB
Biological Unit 5 (4x):  B
Biological Unit 6 (2x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 13)

Asymmetric Unit (4, 13)
No.NameCountTypeFull Name
14BF2Mod. Amino Acid4-BROMO-L-PHENYLALANINE
2HAO2Mod. Amino Acid{[3-(HYDRAZINOCARBONYL)-4-METHOXYPHENYL]AMINO}(OXO)ACETIC ACID
3MPD5Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
4ORN4Mod. Amino AcidL-ORNITHINE
Biological Unit 1 (4, 13)
No.NameCountTypeFull Name
14BF2Mod. Amino Acid4-BROMO-L-PHENYLALANINE
2HAO2Mod. Amino Acid{[3-(HYDRAZINOCARBONYL)-4-METHOXYPHENYL]AMINO}(OXO)ACETIC ACID
3MPD5Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
4ORN4Mod. Amino AcidL-ORNITHINE
Biological Unit 2 (4, 24)
No.NameCountTypeFull Name
14BF4Mod. Amino Acid4-BROMO-L-PHENYLALANINE
2HAO4Mod. Amino Acid{[3-(HYDRAZINOCARBONYL)-4-METHOXYPHENYL]AMINO}(OXO)ACETIC ACID
3MPD8Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
4ORN8Mod. Amino AcidL-ORNITHINE
Biological Unit 3 (4, 12)
No.NameCountTypeFull Name
14BF2Mod. Amino Acid4-BROMO-L-PHENYLALANINE
2HAO2Mod. Amino Acid{[3-(HYDRAZINOCARBONYL)-4-METHOXYPHENYL]AMINO}(OXO)ACETIC ACID
3MPD4Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
4ORN4Mod. Amino AcidL-ORNITHINE
Biological Unit 4 (4, 26)
No.NameCountTypeFull Name
14BF4Mod. Amino Acid4-BROMO-L-PHENYLALANINE
2HAO4Mod. Amino Acid{[3-(HYDRAZINOCARBONYL)-4-METHOXYPHENYL]AMINO}(OXO)ACETIC ACID
3MPD10Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
4ORN8Mod. Amino AcidL-ORNITHINE
Biological Unit 5 (4, 28)
No.NameCountTypeFull Name
14BF4Mod. Amino Acid4-BROMO-L-PHENYLALANINE
2HAO4Mod. Amino Acid{[3-(HYDRAZINOCARBONYL)-4-METHOXYPHENYL]AMINO}(OXO)ACETIC ACID
3MPD12Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
4ORN8Mod. Amino AcidL-ORNITHINE
Biological Unit 6 (4, 14)
No.NameCountTypeFull Name
14BF2Mod. Amino Acid4-BROMO-L-PHENYLALANINE
2HAO2Mod. Amino Acid{[3-(HYDRAZINOCARBONYL)-4-METHOXYPHENYL]AMINO}(OXO)ACETIC ACID
3MPD6Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
4ORN4Mod. Amino AcidL-ORNITHINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:3 , PHE A:10 , HAO A:11 , ILE B:2 , 4BF B:12 , MPD B:14BINDING SITE FOR RESIDUE MPD A 14
2AC2SOFTWAREILE A:2 , 4BF A:12 , MPD A:14 , ILE B:2 , HAO B:11BINDING SITE FOR RESIDUE MPD B 14
3AC3SOFTWARELEU A:5 , HAO A:11 , 4BF A:12BINDING SITE FOR RESIDUE MPD A 15
4AC4SOFTWAREORN B:8 , LYS B:13BINDING SITE FOR RESIDUE MPD B 15
5AC5SOFTWARELEU B:5 , LYS B:9 , HAO B:11 , 4BF B:12BINDING SITE FOR RESIDUE MPD B 16

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3T4G)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3T4G)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) Sequences/Alignments

Asymmetric 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    
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Chain A from PDB  Type:PROTEIN  Length:14
                                             
               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
                  3t4g A  0 aAIIGLMVaKFxyK 13
                            |       |9 || 
                            |       8-ORN 
                            0-ORN     11-HAO
                                       12-4BF


Chain B from PDB  Type:PROTEIN  Length:14
                                             
               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
                  3t4g B  0 aAIIGLMVaKFxyK 13
                            |       |9 || 
                            |       8-ORN 
                            0-ORN     11-HAO
                                       12-4BF
   Legend:   → Mismatch (orange background)
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  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 3T4G)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3T4G)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3T4G)

(-) Gene Ontology  (0, 0)

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