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(-) Description

Title :  SLIDING HELIX INDUCED CHANGE OF COORDINATION GEOMETRY IN A MODEL DI-MN(II) PROTEIN
 
Authors :  L. Di Costanzo, S. Geremia
Date :  20 May 02  (Deposition) - 20 May 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.91
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F  (1x)
Biol. Unit 4:  G,H  (1x)
Keywords :  Alpha-Helical Bundle, Protein Design, Sliding Helix, De Novo Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  W. F. Degrado, L. Di Costanzo, S. Geremia, A. Lombardi, V. Pavone, L. Randaccio
Sliding Helix And Change Of Coordination Geometry In A Model Di-Mnii Protein
Angew. Chem. Int. Ed. Engl. V. 42 417 2003
PubMed-ID: 12569505  |  Reference-DOI: 10.1002/ANIE.200390127
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - L13G-DF1
    ChainsA, B, C, D, E, F, G, H
    EngineeredYES
    Other DetailsTHIS PEPTIDE WAS CHEMICALLY SYNTHETIZED.
    SyntheticYES

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit ABCDEFGH
Biological Unit 1 (1x)AB      
Biological Unit 2 (1x)  CD    
Biological Unit 3 (1x)    EF  
Biological Unit 4 (1x)      GH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 28)

Asymmetric Unit (3, 28)
No.NameCountTypeFull Name
1ACE8Mod. Amino AcidACETYL GROUP
2MN12Ligand/IonMANGANESE (II) ION
3NH28Mod. Amino AcidAMINO GROUP
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1ACE2Mod. Amino AcidACETYL GROUP
2MN-1Ligand/IonMANGANESE (II) ION
3NH22Mod. Amino AcidAMINO GROUP
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
1ACE2Mod. Amino AcidACETYL GROUP
2MN-1Ligand/IonMANGANESE (II) ION
3NH22Mod. Amino AcidAMINO GROUP
Biological Unit 3 (2, 4)
No.NameCountTypeFull Name
1ACE2Mod. Amino AcidACETYL GROUP
2MN-1Ligand/IonMANGANESE (II) ION
3NH22Mod. Amino AcidAMINO GROUP
Biological Unit 4 (2, 4)
No.NameCountTypeFull Name
1ACE2Mod. Amino AcidACETYL GROUP
2MN-1Ligand/IonMANGANESE (II) ION
3NH22Mod. Amino AcidAMINO GROUP

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLU A:10 , GLU A:36 , HIS A:39 , HOH A:1111 , GLU B:36 , MN B:1102BINDING SITE FOR RESIDUE MN A 1101
02AC2SOFTWAREGLU A:36 , MN A:1101 , HOH A:1111 , GLU B:10 , GLU B:36 , HIS B:39BINDING SITE FOR RESIDUE MN B 1102
03AC3SOFTWAREGLU C:10 , GLU C:36 , HIS C:39 , GLU D:36 , MN D:1104 , HOH D:1112BINDING SITE FOR RESIDUE MN C 1103
04AC4SOFTWAREGLU C:36 , MN C:1103 , GLU D:10 , GLU D:36 , HIS D:39 , HOH D:1112BINDING SITE FOR RESIDUE MN D 1104
05AC5SOFTWAREGLU E:10 , GLU E:36 , HIS E:39 , GLU F:36 , MN F:1106 , HOH F:1107BINDING SITE FOR RESIDUE MN E 1105
06AC6SOFTWAREGLU E:36 , MN E:1105 , GLU F:10 , GLU F:36 , HIS F:39 , HOH F:1107BINDING SITE FOR RESIDUE MN F 1106
07AC7SOFTWAREGLU G:10 , GLU G:36 , HIS G:39 , GLU H:36 , HOH H:1109BINDING SITE FOR RESIDUE MN G 1107
08AC8SOFTWAREGLU G:36 , HOH G:1108 , GLU H:10 , GLU H:36 , HIS H:39BINDING SITE FOR RESIDUE MN H 1108
09AC9SOFTWAREASP B:35 , HOH B:1113 , HOH B:1114 , ASP C:1 , HOH C:1110 , HOH C:1111BINDING SITE FOR RESIDUE MN C 1109
10BC1SOFTWAREGLU A:19 , HOH A:1112 , HOH A:1113 , HOH A:1114 , HOH A:1115 , HOH A:1116BINDING SITE FOR RESIDUE MN A 1110
11BC2SOFTWAREHOH B:1115 , GLN D:16 , GLU D:19 , HOH D:1113 , HOH D:1114 , HOH D:1115BINDING SITE FOR RESIDUE MN D 1111
12BC3SOFTWAREGLU B:19 , HOH B:1116 , HOH B:1117 , HOH H:1110 , HOH H:1111 , HOH H:1112BINDING SITE FOR RESIDUE MN B 1112

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1LT1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1LT1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1LT1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1LT1)

(-) Exons   (0, 0)

(no "Exon" information available for 1LT1)

(-) 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:50
                                                                                 
               SCOP domains d1lt1a_ A: Artificial diiron protein               SCOP domains
               CATH domains -1lt1A00 A:1-48 Immunoglobulin FC, subunit C     - CATH domains
               Pfam domains -------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------- Transcript
                  1lt1 A  0 xDYLRELLKLELQGIKQYREALEYVKLPVLAKILEDEEKHIEWLETILGx 49
                            |        9        19        29        39        49
                            |                                               49-NH2
                            0-ACE                                             

Chain B from PDB  Type:PROTEIN  Length:50
                                                                                 
               SCOP domains d1lt1b_ B: Artificial diiron protein               SCOP domains
               CATH domains -1lt1B00 B:1-48 Immunoglobulin FC, subunit C     - CATH domains
               Pfam domains -------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------- Transcript
                  1lt1 B  0 xDYLRELLKLELQGIKQYREALEYVKLPVLAKILEDEEKHIEWLETILGx 49
                            |        9        19        29        39        49
                            |                                               49-NH2
                            0-ACE                                             

Chain C from PDB  Type:PROTEIN  Length:50
                                                                                 
               SCOP domains d1lt1c_ C: Artificial diiron protein               SCOP domains
               CATH domains -1lt1C00 C:1-48 Immunoglobulin FC, subunit C     - CATH domains
               Pfam domains -------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------- Transcript
                  1lt1 C  0 xDYLRELLKLELQGIKQYREALEYVKLPVLAKILEDEEKHIEWLETILGx 49
                            |        9        19        29        39        49
                            |                                               49-NH2
                            0-ACE                                             

Chain D from PDB  Type:PROTEIN  Length:50
                                                                                 
               SCOP domains d1lt1d_ D: Artificial diiron protein               SCOP domains
               CATH domains -1lt1D00 D:1-48 Immunoglobulin FC, subunit C     - CATH domains
               Pfam domains -------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------- Transcript
                  1lt1 D  0 xDYLRELLKLELQGIKQYREALEYVKLPVLAKILEDEEKHIEWLETILGx 49
                            |        9        19        29        39        49
                            |                                               49-NH2
                            0-ACE                                             

Chain E from PDB  Type:PROTEIN  Length:50
                                                                                 
               SCOP domains d1lt1e_ E: Artificial diiron protein               SCOP domains
               CATH domains -1lt1E00 E:1-48 Immunoglobulin FC, subunit C     - CATH domains
               Pfam domains -------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------- Transcript
                  1lt1 E  0 xDYLRELLKLELQGIKQYREALEYVKLPVLAKILEDEEKHIEWLETILGx 49
                            |        9        19        29        39        49
                            |                                               49-NH2
                            0-ACE                                             

Chain F from PDB  Type:PROTEIN  Length:50
                                                                                 
               SCOP domains d1lt1f_ F: Artificial diiron protein               SCOP domains
               CATH domains -1lt1F00 F:1-48 Immunoglobulin FC, subunit C     - CATH domains
               Pfam domains -------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------- Transcript
                  1lt1 F  0 xDYLRELLKLELQGIKQYREALEYVKLPVLAKILEDEEKHIEWLETILGx 49
                            |        9        19        29        39        49
                            |                                               49-NH2
                            0-ACE                                             

Chain G from PDB  Type:PROTEIN  Length:50
                                                                                 
               SCOP domains d1lt1g_ G: Artificial diiron protein               SCOP domains
               CATH domains -1lt1G00 G:1-48 Immunoglobulin FC, subunit C     - CATH domains
               Pfam domains -------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------- Transcript
                  1lt1 G  0 xDYLRELLKLELQGIKQYREALEYVKLPVLAKILEDEEKHIEWLETILGx 49
                            |        9        19        29        39        49
                            |                                               49-NH2
                            0-ACE                                             

Chain H from PDB  Type:PROTEIN  Length:50
                                                                                 
               SCOP domains d1lt1h_ H: Artificial diiron protein               SCOP domains
               CATH domains -1lt1H00 H:1-48 Immunoglobulin FC, subunit C     - CATH domains
               Pfam domains -------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------- Transcript
                  1lt1 H  0 xDYLRELLKLELQGIKQYREALEYVKLPVLAKILEDEEKHIEWLETILGx 49
                            |        9        19        29        39        49
                            |                                               49-NH2
                            0-ACE                                             

   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  (1, 8)

Asymmetric Unit

(-) CATH Domains  (1, 8)

Asymmetric Unit

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1LT1)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1LT1)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

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(-) Related Entries Specified in the PDB File

1ec5 1EC5 CONTAINS THE SAME PROTEIN WITH MUTANT A13L AND COMPLEXED WITH ZINC.
1jm0 1JM0 CONTAINS THE SAME PROTEIN COMPLEXED WITH MANGANESE (FORM I).
1jmb 1JMB CONTAINS THE SAME PROTEIN COMPLEXED WITH MANGANESE (FORM II).