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(-) Description

Title :  FEGLYMYCIN P65 CRYSTAL FORM
 
Authors :  G. Bunkoczi, L. Vertesy, G. M. Sheldrick
Date :  08 Sep 04  (Deposition) - 08 Mar 05  (Release) - 12 Jul 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.10
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,F  (1x)
Biol. Unit 3:  D,E  (1x)
Keywords :  Antiviral, Anti Hiv, Antibacterial, Antibiotic (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. Bunkoczi, L. Vertesy, G. M. Sheldrick
The Antiviral Antibiotic Feglymycin: First Direct Methods Solution Of A 1000Plus Equal-Atom Structure
Angew. Chem. Int. Ed. Engl. V. 44 1340 2005
PubMed-ID: 15674989  |  Reference-DOI: 10.1002/ANIE.200461933

(-) Compounds

Molecule 1 - FEGLYMYCIN
    Atcc: DSM 11171
    Chains: A, B, C, D, E, F
    Organism Scientific: STREPTOMYCES SP.
    Organism Taxid: 1931
    Other Details: GERMAN COLLECTION OF MICROORGANISMS (DSM)

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): AB    
Biological Unit 2 (1x):   C  F
Biological Unit 3 (1x):    DE 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 96)

Asymmetric Unit (5, 96)
No.NameCountTypeFull Name
1D3P30Mod. Amino Acid(2R)-AMINO(3,5-DIHYDROXYPHENYL)ACETIC ACID
2D4P18Mod. Amino Acid(2S)-AMINO(4-HYDROXYPHENYL)ACETIC ACID
3EDO37Ligand/Ion1,2-ETHANEDIOL
4EOH5Ligand/IonETHANOL
5GHP6Mod. Amino Acid(2R)-AMINO(4-HYDROXYPHENYL)ETHANOIC ACID
Biological Unit 1 (5, 39)
No.NameCountTypeFull Name
1D3P10Mod. Amino Acid(2R)-AMINO(3,5-DIHYDROXYPHENYL)ACETIC ACID
2D4P6Mod. Amino Acid(2S)-AMINO(4-HYDROXYPHENYL)ACETIC ACID
3EDO18Ligand/Ion1,2-ETHANEDIOL
4EOH3Ligand/IonETHANOL
5GHP2Mod. Amino Acid(2R)-AMINO(4-HYDROXYPHENYL)ETHANOIC ACID
Biological Unit 2 (4, 23)
No.NameCountTypeFull Name
1D3P10Mod. Amino Acid(2R)-AMINO(3,5-DIHYDROXYPHENYL)ACETIC ACID
2D4P6Mod. Amino Acid(2S)-AMINO(4-HYDROXYPHENYL)ACETIC ACID
3EDO5Ligand/Ion1,2-ETHANEDIOL
4EOH-1Ligand/IonETHANOL
5GHP2Mod. Amino Acid(2R)-AMINO(4-HYDROXYPHENYL)ETHANOIC ACID
Biological Unit 3 (5, 34)
No.NameCountTypeFull Name
1D3P10Mod. Amino Acid(2R)-AMINO(3,5-DIHYDROXYPHENYL)ACETIC ACID
2D4P6Mod. Amino Acid(2S)-AMINO(4-HYDROXYPHENYL)ACETIC ACID
3EDO14Ligand/Ion1,2-ETHANEDIOL
4EOH2Ligand/IonETHANOL
5GHP2Mod. Amino Acid(2R)-AMINO(4-HYDROXYPHENYL)ETHANOIC ACID

(-) Sites  (18, 18)

Asymmetric Unit (18, 18)
No.NameEvidenceResiduesDescription
01AC1SOFTWARED4P B:7 , D3P B:8BINDING SITE FOR RESIDUE EOH A 1016
02AC2SOFTWAREGHP A:1 , D4P D:5 , D3P D:6BINDING SITE FOR RESIDUE EOH A 1017
03AC3SOFTWARED4P A:7BINDING SITE FOR RESIDUE EOH E 1014
04AC4SOFTWAREGHP E:1 , D4P F:5BINDING SITE FOR RESIDUE EOH E 1015
05AC5SOFTWARED3P A:6 , GHP D:1 , EDO D:107BINDING SITE FOR RESIDUE EOH E 1016
06AC6SOFTWAREVAL A:3 , D3P A:10 , D4P A:11 , VAL B:3 , D4P B:11 , D3P C:10 , D4P C:11 , HOH E:205 , D3P F:4 , D4P F:11 , HOH F:106 , HOH B:215 , HOH B:201BINDING SITE FOR CHAIN G OF RESIDUES 1001 TO 1010
07AC7SOFTWARED3P A:10 , D4P A:11 , VAL B:3 , D4P B:11 , D3P C:10 , D4P C:11 , HOH E:205 , D3P F:4 , D4P F:11 , HOH F:106 , EDO B:105 , HOH B:215 , HOH B:201BINDING SITE FOR CHAIN G OF RESIDUES 1003 TO 1009
08AC8SOFTWAREGHP A:1 , D3P A:6 , D4P A:7 , GHP D:1 , D3P D:4 , D4P D:5 , D3P D:6 , D4P D:7 , PHE E:12BINDING SITE FOR CHAIN H OF RESIDUES 1001 TO 1008
09AC9SOFTWARED3P C:4 , D4P C:5 , HOH C:1103 , D3P D:4 , D4P D:5 , HOH D:208 , VAL E:9 , VAL F:9BINDING SITE FOR CHAIN I OF RESIDUES 1001 TO 1005
10BC1SOFTWAREVAL C:3 , D3P C:4 , D3P D:10 , D4P D:11 , VAL E:3 , D3P E:10 , D4P E:11 , HOH E:206 , D3P F:10 , D4P F:11BINDING SITE FOR CHAIN J OF RESIDUES 1001 TO 1006
11BC2SOFTWARED4P A:5 , D3P A:6 , GHP D:1 , EOH D:101 , EDO D:112BINDING SITE FOR CHAIN K OF RESIDUES 1001 TO 1005
12BC3SOFTWARED3P A:2 , D3P A:4 , D4P A:5 , D3P B:10 , HOH B:213 , D3P D:2 , D3P D:4 , D4P F:5 , EDO D:106 , HOH D:209BINDING SITE FOR CHAIN L OF RESIDUES 1001 TO 1006
13BC4SOFTWAREEOH A:101 , HOH A:209 , HOH A:201 , HOH A:205 , HOH A:203 , HOH A:207 , HOH A:206 , HOH A:210 , HOH A:204 , HOH A:202 , HOH A:208 , GHP B:1 , D3P B:2 , VAL B:3 , D3P B:4 , D4P B:5 , D3P B:6 , D4P B:7 , D3P B:8 , VAL B:9 , D3P B:10 , D4P B:11 , PHE B:12 , ASP B:13 , HOH B:204 , GHP C:1 , GHP D:1 , D3P D:2 , VAL D:3 , D3P D:4 , D4P D:5 , EOH A:102 , EOH D:101 , VAL F:3 , HOH F:101 , EDO A:103 , EDO A:104 , EDO A:105 , EDO A:106 , EDO A:107 , EDO A:108 , EDO B:105 , EDO A:109 , EDO A:110 , EDO A:111 , EDO A:113 , EDO A:114 , EDO A:115 , EDO A:116 , EDO D:106 , EDO D:108 , EDO D:110 , EDO D:112 , EDO D:113BINDING SITE FOR CHAIN A OF FEGLYMYCIN
14BC5SOFTWAREGHP A:1 , D3P A:2 , VAL A:3 , D3P A:4 , D4P A:5 , D3P A:6 , D4P A:7 , D3P A:8 , VAL A:9 , D3P A:10 , D4P A:11 , PHE A:12 , ASP A:13 , EOH B:101 , HOH A:206 , HOH A:204 , HOH A:202 , HOH B:203 , HOH B:211 , HOH B:209 , HOH B:210 , HOH B:202 , HOH B:212 , HOH B:208 , HOH B:206 , HOH B:204 , HOH B:213 , HOH B:207 , HOH B:205 , GHP C:1 , D3P C:2 , VAL C:3 , D4P C:5 , D4P C:11 , D3P E:2 , D3P E:4 , HOH E:204 , D3P F:2 , EDO B:102 , EDO B:103 , EDO A:103 , EDO A:107 , EDO A:108 , EDO B:105 , HOH B:201 , EDO D:110 , EDO D:111BINDING SITE FOR CHAIN B OF FEGLYMYCIN
15BC6SOFTWAREPHE A:12 , GHP B:1 , D3P B:2 , VAL B:3 , D4P B:5 , HOH C:1102 , HOH C:1109 , HOH C:1104 , HOH C:1105 , HOH C:1103 , HOH C:1108 , HOH C:1101 , HOH C:1107 , HOH C:1106 , D4P D:11 , D3P E:2 , GHP F:1 , D3P F:2 , VAL F:3 , D3P F:4 , D4P F:5 , D3P F:6 , D4P F:7 , D3P F:8 , VAL F:9 , D3P F:10 , D4P F:11 , PHE F:12 , ASP F:13 , HOH F:103 , HOH F:102 , EDO A:103 , EDO A:104 , EDO A:105 , EDO C:1004 , EDO C:1005 , EDO D:102 , EDO D:103BINDING SITE FOR CHAIN C OF FEGLYMYCIN
16BC7SOFTWAREGHP A:1 , D3P A:2 , VAL A:3 , D3P A:4 , D4P A:5 , EOH A:101 , VAL C:3 , HOH D:202 , HOH D:204 , HOH D:201 , HOH D:208 , HOH D:203 , HOH D:206 , HOH D:207 , HOH D:205 , GHP E:1 , D3P E:2 , VAL E:3 , D3P E:4 , D4P E:5 , D3P E:6 , D4P E:7 , D3P E:8 , VAL E:9 , D3P E:10 , D4P E:11 , PHE E:12 , ASP E:13 , EOH D:101 , HOH E:203 , HOH E:208 , HOH E:212 , EDO A:110 , EDO A:111 , EDO A:112 , EDO A:113 , EDO A:114 , EDO A:115 , EDO C:1001 , EDO C:1002 , EDO C:1003 , EDO C:1004 , EDO C:1005 , EDO D:102 , EDO D:103 , EDO D:104 , EDO D:106 , EDO D:107 , EDO D:109 , EDO D:113BINDING SITE FOR CHAIN D OF FEGLYMYCIN
17BC8SOFTWARED3P B:2 , D3P B:4 , HOH B:203 , D3P C:2 , HOH C:1109 , HOH C:1101 , GHP D:1 , D3P D:2 , VAL D:3 , D3P D:4 , D4P D:5 , D3P D:6 , D4P D:7 , D3P D:8 , VAL D:9 , D3P D:10 , D4P D:11 , PHE D:12 , ASP D:13 , HOH D:205 , EOH E:101 , HOH E:202 , HOH E:204 , HOH E:205 , HOH E:210 , HOH E:211 , HOH E:203 , HOH E:208 , HOH E:201 , HOH E:206 , HOH E:212 , HOH E:207 , HOH E:209 , GHP F:1 , D3P F:2 , VAL F:3 , D4P F:5 , EDO A:114 , EDO C:1003 , EDO E:103 , EDO D:103 , EDO D:104BINDING SITE FOR CHAIN E OF FEGLYMYCIN
18BC9SOFTWARED4P A:11 , D3P B:2 , GHP C:1 , D3P C:2 , VAL C:3 , D3P C:4 , D4P C:5 , D3P C:6 , D4P C:7 , D3P C:8 , VAL C:9 , D3P C:10 , D4P C:11 , PHE C:12 , ASP C:13 , HOH C:1102 , HOH C:1106 , GHP E:1 , D3P E:2 , VAL E:3 , EOH E:101 , HOH F:103 , HOH F:102 , HOH F:104 , HOH F:105 , HOH F:101 , HOH F:106 , EDO A:103 , EDO A:104 , EDO A:108 , EDO C:1005 , EDO D:103 , EDO D:105 , EDO D:112BINDING SITE FOR CHAIN F OF FEGLYMYCIN

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1W7Q)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1W7Q)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1W7Q)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1W7Q)

(-) Exons   (0, 0)

(no "Exon" information available for 1W7Q)

(-) 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:13
                                            
               SCOP domains ------------- SCOP domains
               CATH domains ------------- CATH domains
               Pfam domains ------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------- SAPs(SNPs)
                    PROSITE ------------- PROSITE
                 Transcript ------------- Transcript
                  1w7q A  1 xxVxxxxxVxxFD 13
                            || |||||10|  
                            || ||||| 11-D4P
                            1-GHP||| |   
                             2-D3P|| |   
                               4-D3P |   
                                5-D4P|   
                                 6-D3P   
                                  7-D4P  
                                   8-D3P 
                                    10-D3P


Chain B from PDB  Type:PROTEIN  Length:13
                                            
               SCOP domains ------------- SCOP domains
               CATH domains ------------- CATH domains
               Pfam domains ------------- Pfam domains
         Sec.struct. author .eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------- SAPs(SNPs)
                    PROSITE ------------- PROSITE
                 Transcript ------------- Transcript
                  1w7q B  1 xxVxxxxxVxxFD 13
                            || |||||10|  
                            || ||||| 11-D4P
                            1-GHP||| |   
                             2-D3P|| |   
                               4-D3P |   
                                5-D4P|   
                                 6-D3P   
                                  7-D4P  
                                   8-D3P 
                                    10-D3P


Chain C from PDB  Type:PROTEIN  Length:13
                                            
               SCOP domains ------------- SCOP domains
               CATH domains ------------- CATH domains
               Pfam domains ------------- Pfam domains
         Sec.struct. author .eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------- SAPs(SNPs)
                    PROSITE ------------- PROSITE
                 Transcript ------------- Transcript
                  1w7q C  1 xxVxxxxxVxxFD 13
                            || |||||10|  
                            || ||||| 11-D4P
                            1-GHP||| |   
                             2-D3P|| |   
                               4-D3P |   
                                5-D4P|   
                                 6-D3P   
                                  7-D4P  
                                   8-D3P 
                                    10-D3P


Chain D from PDB  Type:PROTEIN  Length:13
                                            
               SCOP domains ------------- SCOP domains
               CATH domains ------------- CATH domains
               Pfam domains ------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------- SAPs(SNPs)
                    PROSITE ------------- PROSITE
                 Transcript ------------- Transcript
                  1w7q D  1 xxVxxxxxVxxFD 13
                            || |||||10|  
                            || ||||| 11-D4P
                            1-GHP||| |   
                             2-D3P|| |   
                               4-D3P |   
                                5-D4P|   
                                 6-D3P   
                                  7-D4P  
                                   8-D3P 
                                    10-D3P


Chain E from PDB  Type:PROTEIN  Length:13
                                            
               SCOP domains ------------- SCOP domains
               CATH domains ------------- CATH domains
               Pfam domains ------------- Pfam domains
         Sec.struct. author .eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------- SAPs(SNPs)
                    PROSITE ------------- PROSITE
                 Transcript ------------- Transcript
                  1w7q E  1 xxVxxxxxVxxFD 13
                            || |||||10|  
                            || ||||| 11-D4P
                            1-GHP||| |   
                             2-D3P|| |   
                               4-D3P |   
                                5-D4P|   
                                 6-D3P   
                                  7-D4P  
                                   8-D3P 
                                    10-D3P


Chain F from PDB  Type:PROTEIN  Length:13
                                            
               SCOP domains ------------- SCOP domains
               CATH domains ------------- CATH domains
               Pfam domains ------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------- SAPs(SNPs)
                    PROSITE ------------- PROSITE
                 Transcript ------------- Transcript
                  1w7q F  1 xxVxxxxxVxxFD 13
                            || |||||10|  
                            || ||||| 11-D4P
                            1-GHP||| |   
                             2-D3P|| |   
                               4-D3P |   
                                5-D4P|   
                                 6-D3P   
                                  7-D4P  
                                   8-D3P 
                                    10-D3P
   Legend:   → Mismatch (orange background)
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  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 1W7Q)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1W7Q)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1W7Q)

(-) Gene Ontology  (0, 0)

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 Related Entries

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(-) Related Entries Specified in the PDB File

1w7r CRYSTAL STRUCTURE OF FEGLYMYCIN. SPACE GROUP P64