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(-) Description

Title :  STRUCTURE OF QUASIRACEMIC ALA-MAGAININ 2 WITH A BETA AMINO ACID SUBSTITUTION AT POSITION 8
 
Authors :  Z. Hayouka, N. C. Thomas, D. E. Mortenson, K. A. Satyshur, B. Weisblum, K. T. Forest, S. H. Gellman
Date :  09 Jul 15  (Deposition) - 23 Sep 15  (Release) - 07 Oct 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B,C,D,E,F,G,H  (1x)
Biol. Unit 2:  A (1x),B (1x),C (1x),D (1x),E (1x),F (1x),G (1x),H (1x)
Keywords :  Antimicrobial, Quasiracemate, Homochiral Dimerization, Beta Amino Acid, Antimicrobial Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. Hayouka, N. C. Thomas, D. E. Mortenson, K. A. Satyshur, B. Weisblum, K. T. Forest, S. H. Gellman
Quasiracemate Crystal Structures Of Magainin 2 Derivatives Support The Functional Significance Of The Phenylalanine Zipper Motif.
J. Am. Chem. Soc. V. 137 11884 2015
PubMed-ID: 26369301  |  Reference-DOI: 10.1021/JACS.5B07206

(-) Compounds

Molecule 1 - D-ALA-MAGAININ DERIVATIVE
    Chains: A, B, C, D
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES
 
Molecule 2 - L-ACPC8-ALA-MAGAININ
    Chains: E, F, G, H
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): ABCDEFGH
Biological Unit 2 (1x): A (1x)B (1x)C (1x)D (1x)E (1x)F (1x)G (1x)H (1x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (12, 86)

Asymmetric Unit (12, 86)
No.NameCountTypeFull Name
1CL2Ligand/IonCHLORIDE ION
2DAL20Mod. Amino AcidD-ALANINE
3DGL4Mod. Amino AcidD-GLUTAMIC ACID
4DHI4Mod. Amino AcidD-HISTIDINE
5DIL8Mod. Amino AcidD-ISOLEUCINE
6DLE4Mod. Amino AcidD-LEUCINE
7DLY16Mod. Amino AcidD-LYSINE
8DPN12Mod. Amino AcidD-PHENYLALANINE
9DSG4Mod. Amino AcidD-ASPARAGINE
10DVA4Mod. Amino AcidD-VALINE
11MED4Mod. Amino AcidD-METHIONINE
12XCP4Mod. Amino Acid(1S,2S)-2-AMINOCYCLOPENTANECARBOXYLIC ACID
Biological Unit 1 (11, 84)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2DAL20Mod. Amino AcidD-ALANINE
3DGL4Mod. Amino AcidD-GLUTAMIC ACID
4DHI4Mod. Amino AcidD-HISTIDINE
5DIL8Mod. Amino AcidD-ISOLEUCINE
6DLE4Mod. Amino AcidD-LEUCINE
7DLY16Mod. Amino AcidD-LYSINE
8DPN12Mod. Amino AcidD-PHENYLALANINE
9DSG4Mod. Amino AcidD-ASPARAGINE
10DVA4Mod. Amino AcidD-VALINE
11MED4Mod. Amino AcidD-METHIONINE
12XCP4Mod. Amino Acid(1S,2S)-2-AMINOCYCLOPENTANECARBOXYLIC ACID
Biological Unit 2 (10, 80)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2DAL20Mod. Amino AcidD-ALANINE
3DGL4Mod. Amino AcidD-GLUTAMIC ACID
4DHI4Mod. Amino AcidD-HISTIDINE
5DIL8Mod. Amino AcidD-ISOLEUCINE
6DLE4Mod. Amino AcidD-LEUCINE
7DLY16Mod. Amino AcidD-LYSINE
8DPN12Mod. Amino AcidD-PHENYLALANINE
9DSG4Mod. Amino AcidD-ASPARAGINE
10DVA4Mod. Amino AcidD-VALINE
11MED4Mod. Amino AcidD-METHIONINE
12XCP-1Mod. Amino Acid(1S,2S)-2-AMINOCYCLOPENTANECARBOXYLIC ACID

(-) Sites  (0, 0)

(no "Site" information available for 5CGN)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5CGN)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5CGN)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5CGN)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5CGN)

(-) Exons   (0, 0)

(no "Exon" information available for 5CGN)

(-) 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    
   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:22
                                                     
               SCOP domains ---------------------- SCOP domains
               CATH domains ---------------------- CATH domains
               Pfam domains ---------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------- SAPs(SNPs)
                    PROSITE ---------------------- PROSITE
                 Transcript ---------------------- Transcript
                  5cgn A  1 GxGxxxxxxxxxxxxxxxxxxx 22
                             | |||||10||||||||20||
                             | ||||||11-DLY|||20-DIL
                             2-DIL||||12-DPN|||21-MED
                               4-DLY|| 13-DAL|| 22-DSG
                                5-DPN|  14-DLY|   
                                 6-DLE   15-DAL   
                                  7-DHI   16-DPN  
                                   8-DAL   17-DVA 
                                    9-DAL   18-DAL
                                    10-DLY   19-DGL


Chain B from PDB  Type:PROTEIN  Length:22
                                                     
               SCOP domains ---------------------- SCOP domains
               CATH domains ---------------------- CATH domains
               Pfam domains ---------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------- SAPs(SNPs)
                    PROSITE ---------------------- PROSITE
                 Transcript ---------------------- Transcript
                  5cgn B  1 GxGxxxxxxxxxxxxxxxxxxx 22
                             | |||||10||||||||20||
                             | ||||||11-DLY|||20-DIL
                             2-DIL||||12-DPN|||21-MED
                               4-DLY|| 13-DAL|| 22-DSG
                                5-DPN|  14-DLY|   
                                 6-DLE   15-DAL   
                                  7-DHI   16-DPN  
                                   8-DAL   17-DVA 
                                    9-DAL   18-DAL
                                    10-DLY   19-DGL


Chain C from PDB  Type:PROTEIN  Length:22
                                                     
               SCOP domains ---------------------- SCOP domains
               CATH domains ---------------------- CATH domains
               Pfam domains ---------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------- SAPs(SNPs)
                    PROSITE ---------------------- PROSITE
                 Transcript ---------------------- Transcript
                  5cgn C  1 GxGxxxxxxxxxxxxxxxxxxx 22
                             | |||||10||||||||20||
                             | ||||||11-DLY|||20-DIL
                             2-DIL||||12-DPN|||21-MED
                               4-DLY|| 13-DAL|| 22-DSG
                                5-DPN|  14-DLY|   
                                 6-DLE   15-DAL   
                                  7-DHI   16-DPN  
                                   8-DAL   17-DVA 
                                    9-DAL   18-DAL
                                    10-DLY   19-DGL


Chain D from PDB  Type:PROTEIN  Length:22
                                                     
               SCOP domains ---------------------- SCOP domains
               CATH domains ---------------------- CATH domains
               Pfam domains ---------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------- SAPs(SNPs)
                    PROSITE ---------------------- PROSITE
                 Transcript ---------------------- Transcript
                  5cgn D  1 GxGxxxxxxxxxxxxxxxxxxx 22
                             | |||||10||||||||20||
                             | ||||||11-DLY|||20-DIL
                             2-DIL||||12-DPN|||21-MED
                               4-DLY|| 13-DAL|| 22-DSG
                                5-DPN|  14-DLY|   
                                 6-DLE   15-DAL   
                                  7-DHI   16-DPN  
                                   8-DAL   17-DVA 
                                    9-DAL   18-DAL
                                    10-DLY   19-DGL


Chain E from PDB  Type:PROTEIN  Length:22
                                                     
               SCOP domains ---------------------- SCOP domains
               CATH domains ---------------------- CATH domains
               Pfam domains ---------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------- SAPs(SNPs)
                    PROSITE ---------------------- PROSITE
                 Transcript ---------------------- Transcript
                  5cgn E  1 GIGKFLHxAKKFAKAFVAEIMN 22
                                   |10        20  
                                   8-XCP          


Chain F from PDB  Type:PROTEIN  Length:22
                                                     
               SCOP domains ---------------------- SCOP domains
               CATH domains ---------------------- CATH domains
               Pfam domains ---------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------- SAPs(SNPs)
                    PROSITE ---------------------- PROSITE
                 Transcript ---------------------- Transcript
                  5cgn F  1 GIGKFLHxAKKFAKAFVAEIMN 22
                                   |10        20  
                                   8-XCP          


Chain G from PDB  Type:PROTEIN  Length:22
                                                     
               SCOP domains ---------------------- SCOP domains
               CATH domains ---------------------- CATH domains
               Pfam domains ---------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------- SAPs(SNPs)
                    PROSITE ---------------------- PROSITE
                 Transcript ---------------------- Transcript
                  5cgn G  1 GIGKFLHxAKKFAKAFVAEIMN 22
                                   |10        20  
                                   8-XCP          


Chain H from PDB  Type:PROTEIN  Length:22
                                                     
               SCOP domains ---------------------- SCOP domains
               CATH domains ---------------------- CATH domains
               Pfam domains ---------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------- SAPs(SNPs)
                    PROSITE ---------------------- PROSITE
                 Transcript ---------------------- Transcript
                  5cgn H  1 GIGKFLHxAKKFAKAFVAEIMN 22
                                   |10        20  
                                   8-XCP
   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 5CGN)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5CGN)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5CGN)

(-) Gene Ontology  (7, 7)

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UniProtKB/Swiss-Prot
        MAGA_XENLA | P11006: 1d9j 1d9l 1d9m 1d9o 1d9p 1dum 1f0d 1f0e 1f0f 1f0g 1f0h 2lsa 2mag 4mgp 5cgo

(-) Related Entries Specified in the PDB File

5cgo