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(-) Description

Title :  CRYSTAL STRUCTURE OF LIPOPEPTIDE DETERGENT (LPD-12) (HEXAGONAL)
 
Authors :  D. N. Ho, N. C. Pomroy, J. A. Cuesta-Seijo, G. G. Prive
Date :  21 Feb 08  (Deposition) - 09 Sep 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1:  A,B,C,D,E,F,G,H  (1x)
Biol. Unit 2:  I,J,K,L  (2x)
Keywords :  Alpha Helix, Acyl Chains, Detergent, Amphiphilic, Lipopeptide, Self-Assembling Peptide, De Novo Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. N. Ho, N. C. Pomroy, J. A. Cuesta-Seijo, G. G. Prive
Packing And Twinning In Orthorhombic And Hexagonal Crystals Of Lipopeptide Detergent (Lpd-12)
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - LPD-12
    Chains: A, B, C, D, E, F, G, H, I, J, K, L
    Engineered: YES
    Other Details: DE NOVO DESIGNED LIPOPEPTIDE
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123456789101112
Asymmetric Unit : ABCDEFGHIJKL
Biological Unit 1 (1x): ABCDEFGH    
Biological Unit 2 (2x):         IJKL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 64)

Asymmetric Unit (4, 64)
No.NameCountTypeFull Name
1ACE12Mod. Amino AcidACETYL GROUP
2DMU16Ligand/IonDECYL-BETA-D-MALTOPYRANOSIDE
3NH212Mod. Amino AcidAMINO GROUP
4O1224Mod. Amino AcidN~5~-DODECANOYL-L-ORNITHINE
Biological Unit 1 (4, 41)
No.NameCountTypeFull Name
1ACE8Mod. Amino AcidACETYL GROUP
2DMU9Ligand/IonDECYL-BETA-D-MALTOPYRANOSIDE
3NH28Mod. Amino AcidAMINO GROUP
4O1216Mod. Amino AcidN~5~-DODECANOYL-L-ORNITHINE
Biological Unit 2 (4, 46)
No.NameCountTypeFull Name
1ACE8Mod. Amino AcidACETYL GROUP
2DMU14Ligand/IonDECYL-BETA-D-MALTOPYRANOSIDE
3NH28Mod. Amino AcidAMINO GROUP
4O1216Mod. Amino AcidN~5~-DODECANOYL-L-ORNITHINE

(-) Sites  (14, 14)

Asymmetric Unit (14, 14)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELYS A:8 , HOH A:1082 , ALA H:5 , LYS H:8 , HOH L:1157BINDING SITE FOR RESIDUE DMU A 501
02AC2SOFTWAREALA B:16 , ALA B:20BINDING SITE FOR RESIDUE DMU B 502
03AC3SOFTWARETYR B:12 , ALA B:16 , HOH B:1099 , LYS C:8 , ALA C:9 , TYR C:12BINDING SITE FOR RESIDUE DMU B 503
04AC4SOFTWAREALA D:5BINDING SITE FOR RESIDUE DMU D 504
05AC5SOFTWAREALA D:5 , LYS D:8 , TYR E:12 , HOH E:1137BINDING SITE FOR RESIDUE DMU B 505
06AC6SOFTWARELYS D:8 , ALA E:9BINDING SITE FOR RESIDUE DMU D 506
07AC7SOFTWAREALA F:5 , LYS F:8 , ALA F:9BINDING SITE FOR RESIDUE DMU F 507
08AC8SOFTWAREALA A:5 , ALA A:6 , GLU E:15 , HOH E:1046 , LYS H:8 , LYS H:11 , TYR H:12 , GLU H:15 , HOH H:1005 , HOH H:1111 , HOH H:1168BINDING SITE FOR RESIDUE DMU H 509
09AC9SOFTWAREALA I:1 , GLU I:4 , ALA I:5 , LYS I:8 , HOH I:1057BINDING SITE FOR RESIDUE DMU I 510
10BC1SOFTWARELYS J:8 , ALA J:9 , TYR J:12 , TYR K:12BINDING SITE FOR RESIDUE DMU J 511
11BC2SOFTWAREALA L:6BINDING SITE FOR RESIDUE DMU K 512
12BC3SOFTWARETYR J:12 , TYR K:12BINDING SITE FOR RESIDUE DMU J 513
13BC4SOFTWAREHOH L:1072BINDING SITE FOR RESIDUE DMU I 514
14BC5SOFTWAREHOH I:1174BINDING SITE FOR RESIDUE DMU J 515

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3CBA)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3CBA)

(-) Exons   (0, 0)

(no "Exon" information available for 3CBA)

(-) 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:27
                                                          
               SCOP domains --------------------------- SCOP domains
               CATH domains --------------------------- CATH domains
               Pfam domains --------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------- SAPs(SNPs)
                    PROSITE --------------------------- PROSITE
                 Transcript --------------------------- Transcript
                  3cba A  0 xAxAEAAEKAAKYAAEAAEKAAKAxAx 26
                            | |      9        19    | |
                            | |                    24-O12
                            0-ACE                    26-NH2
                              2-O12                    


Chain B from PDB  Type:PROTEIN  Length:27
                                                          
               SCOP domains --------------------------- SCOP domains
               CATH domains --------------------------- CATH domains
               Pfam domains --------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------- SAPs(SNPs)
                    PROSITE --------------------------- PROSITE
                 Transcript --------------------------- Transcript
                  3cba B  0 xAxAEAAEKAAKYAAEAAEKAAKAxAx 26
                            | |      9        19    | |
                            | |                    24-O12
                            0-ACE                    26-NH2
                              2-O12                    


Chain C from PDB  Type:PROTEIN  Length:27
                                                          
               SCOP domains --------------------------- SCOP domains
               CATH domains --------------------------- CATH domains
               Pfam domains --------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------- SAPs(SNPs)
                    PROSITE --------------------------- PROSITE
                 Transcript --------------------------- Transcript
                  3cba C  0 xAxAEAAEKAAKYAAEAAEKAAKAxAx 26
                            | |      9        19    | |
                            | |                    24-O12
                            0-ACE                    26-NH2
                              2-O12                    


Chain D from PDB  Type:PROTEIN  Length:27
                                                          
               SCOP domains --------------------------- SCOP domains
               CATH domains --------------------------- CATH domains
               Pfam domains --------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------- SAPs(SNPs)
                    PROSITE --------------------------- PROSITE
                 Transcript --------------------------- Transcript
                  3cba D  0 xAxAEAAEKAAKYAAEAAEKAAKAxAx 26
                            | |      9        19    | |
                            | |                    24-O12
                            0-ACE                    26-NH2
                              2-O12                    


Chain E from PDB  Type:PROTEIN  Length:27
                                                          
               SCOP domains --------------------------- SCOP domains
               CATH domains --------------------------- CATH domains
               Pfam domains --------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------- SAPs(SNPs)
                    PROSITE --------------------------- PROSITE
                 Transcript --------------------------- Transcript
                  3cba E  0 xAxAEAAEKAAKYAAEAAEKAAKAxAx 26
                            | |      9        19    | |
                            | |                    24-O12
                            0-ACE                    26-NH2
                              2-O12                    


Chain F from PDB  Type:PROTEIN  Length:27
                                                          
               SCOP domains --------------------------- SCOP domains
               CATH domains --------------------------- CATH domains
               Pfam domains --------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------- SAPs(SNPs)
                    PROSITE --------------------------- PROSITE
                 Transcript --------------------------- Transcript
                  3cba F  0 xAxAEAAEKAAKYAAEAAEKAAKAxAx 26
                            | |      9        19    | |
                            | |                    24-O12
                            0-ACE                    26-NH2
                              2-O12                    


Chain G from PDB  Type:PROTEIN  Length:27
                                                          
               SCOP domains --------------------------- SCOP domains
               CATH domains --------------------------- CATH domains
               Pfam domains --------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------- SAPs(SNPs)
                    PROSITE --------------------------- PROSITE
                 Transcript --------------------------- Transcript
                  3cba G  0 xAxAEAAEKAAKYAAEAAEKAAKAxAx 26
                            | |      9        19    | |
                            | |                    24-O12
                            0-ACE                    26-NH2
                              2-O12                    


Chain H from PDB  Type:PROTEIN  Length:27
                                                          
               SCOP domains --------------------------- SCOP domains
               CATH domains --------------------------- CATH domains
               Pfam domains --------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------- SAPs(SNPs)
                    PROSITE --------------------------- PROSITE
                 Transcript --------------------------- Transcript
                  3cba H  0 xAxAEAAEKAAKYAAEAAEKAAKAxAx 26
                            | |      9        19    | |
                            | |                    24-O12
                            0-ACE                    26-NH2
                              2-O12                    


Chain I from PDB  Type:PROTEIN  Length:27
                                                          
               SCOP domains --------------------------- SCOP domains
               CATH domains --------------------------- CATH domains
               Pfam domains --------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------- SAPs(SNPs)
                    PROSITE --------------------------- PROSITE
                 Transcript --------------------------- Transcript
                  3cba I  0 xAxAEAAEKAAKYAAEAAEKAAKAxAx 26
                            | |      9        19    | |
                            | |                    24-O12
                            0-ACE                    26-NH2
                              2-O12                    


Chain J from PDB  Type:PROTEIN  Length:27
                                                          
               SCOP domains --------------------------- SCOP domains
               CATH domains --------------------------- CATH domains
               Pfam domains --------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------- SAPs(SNPs)
                    PROSITE --------------------------- PROSITE
                 Transcript --------------------------- Transcript
                  3cba J  0 xAxAEAAEKAAKYAAEAAEKAAKAxAx 26
                            | |      9        19    | |
                            | |                    24-O12
                            0-ACE                    26-NH2
                              2-O12                    


Chain K from PDB  Type:PROTEIN  Length:27
                                                          
               SCOP domains --------------------------- SCOP domains
               CATH domains --------------------------- CATH domains
               Pfam domains --------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------- SAPs(SNPs)
                    PROSITE --------------------------- PROSITE
                 Transcript --------------------------- Transcript
                  3cba K  0 xAxAEAAEKAAKYAAEAAEKAAKAxAx 26
                            | |      9        19    | |
                            | |                    24-O12
                            0-ACE                    26-NH2
                              2-O12                    


Chain L from PDB  Type:PROTEIN  Length:27
                                                          
               SCOP domains --------------------------- SCOP domains
               CATH domains --------------------------- CATH domains
               Pfam domains --------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------- SAPs(SNPs)
                    PROSITE --------------------------- PROSITE
                 Transcript --------------------------- Transcript
                  3cba L  0 xAxAEAAEKAAKYAAEAAEKAAKAxAx 26
                            | |      9        19    | |
                            | |                    24-O12
                            0-ACE                    26-NH2
                              2-O12
   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

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

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3cay