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(-) Description

Title :  CRYSTAL STRUCTURE OF FOUR-HELIX BUNDLE MODEL DI-CO(II)-DF1-L13A (FORM II)
 
Authors :  L. Di Costanzo, S. Geremia
Date :  27 Mar 03  (Deposition) - 06 Apr 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F  (1x)
Biol. Unit 4:  A,B,C,D,E,F  (1x)
Keywords :  Alpha-Helical Bundle, Protein Design, De Novo Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  S. Geremia, L. Di Costanzo, L. Randaccio, D. E. Engel, A. Lombardi, F. Nastri, W. F. Degrado
Response Of A Designed Metalloprotein To Changes In Metal Ion Coordination, Exogenous Ligands, And Active Site Volume Determined By X-Ray Crystallography.
J. Am. Chem. Soc. V. 127 17266 2005
PubMed-ID: 16332076  |  Reference-DOI: 10.1021/JA054199X
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - FOUR-HELIX BUNDLE MODEL DI-CO(II)-DF1-L13A (FORM II)
    ChainsA, B, C, D, E, F
    EngineeredYES
    Other DetailsTHIS PROTEIN WAS CHEMICALLY SYNTHESIZED.
    SynonymDI-CO(II)-DF1-L13A (FORM II)
    SyntheticYES

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit ABCDEF
Biological Unit 1 (1x)AB    
Biological Unit 2 (1x)  CD  
Biological Unit 3 (1x)    EF
Biological Unit 4 (1x)ABCDEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 19)

Asymmetric Unit (3, 19)
No.NameCountTypeFull Name
1ACE6Mod. Amino AcidACETYL GROUP
2CO7Ligand/IonCOBALT (II) ION
3NH26Mod. Amino AcidAMINO GROUP
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1ACE2Mod. Amino AcidACETYL GROUP
2CO-1Ligand/IonCOBALT (II) ION
3NH22Mod. Amino AcidAMINO GROUP
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
1ACE2Mod. Amino AcidACETYL GROUP
2CO-1Ligand/IonCOBALT (II) ION
3NH22Mod. Amino AcidAMINO GROUP
Biological Unit 3 (2, 4)
No.NameCountTypeFull Name
1ACE2Mod. Amino AcidACETYL GROUP
2CO-1Ligand/IonCOBALT (II) ION
3NH22Mod. Amino AcidAMINO GROUP
Biological Unit 4 (2, 12)
No.NameCountTypeFull Name
1ACE6Mod. Amino AcidACETYL GROUP
2CO-1Ligand/IonCOBALT (II) ION
3NH26Mod. Amino AcidAMINO GROUP

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:10 , GLU A:36 , HIS A:39 , GLU B:36BINDING SITE FOR RESIDUE CO A 101
2AC2SOFTWAREGLU A:36 , GLU B:10 , GLU B:36 , HIS B:39BINDING SITE FOR RESIDUE CO B 102
3AC3SOFTWAREGLU C:10 , GLU C:36 , HIS C:39 , GLU D:36 , CO D:104BINDING SITE FOR RESIDUE CO C 103
4AC4SOFTWAREGLU C:36 , CO C:103 , GLU D:10 , GLU D:36 , HIS D:39BINDING SITE FOR RESIDUE CO D 104
5AC5SOFTWAREGLU E:10 , GLU E:36 , HIS E:39 , GLU F:36BINDING SITE FOR RESIDUE CO E 105
6AC6SOFTWAREGLU E:36 , GLU F:10 , GLU F:36 , HIS F:39BINDING SITE FOR RESIDUE CO F 106
7AC7SOFTWAREGLU A:37 , GLU C:19BINDING SITE FOR RESIDUE CO C 107

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1OVV)

(-) 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 d1ovva_ A: Artificial diiron protein               SCOP domains
               CATH domains -1ovvA00 A: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
                  1ovv A  0 xDYLRELLKLELQAIKQYREALEYVKLPVLAKILEDEEKHIEWLETILGx 49
                            |        9        19        29        39        49
                            |                                               49-NH2
                            0-ACE                                             

Chain B from PDB  Type:PROTEIN  Length:50
                                                                                 
               SCOP domains d1ovvb_ B: Artificial diiron protein               SCOP domains
               CATH domains -1ovvB00 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
                  1ovv B  0 xDYLRELLKLELQAIKQYREALEYVKLPVLAKILEDEEKHIEWLETILGx 49
                            |        9        19        29        39        49
                            |                                               49-NH2
                            0-ACE                                             

Chain C from PDB  Type:PROTEIN  Length:50
                                                                                 
               SCOP domains d1ovvc_ C: Artificial diiron protein               SCOP domains
               CATH domains -1ovvC00 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
                  1ovv C  0 xDYLRELLKLELQAIKQYREALEYVKLPVLAKILEDEEKHIEWLETILGx 49
                            |        9        19        29        39        49
                            |                                               49-NH2
                            0-ACE                                             

Chain D from PDB  Type:PROTEIN  Length:50
                                                                                 
               SCOP domains d1ovvd_ D: Artificial diiron protein               SCOP domains
               CATH domains -1ovvD00 D: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
                  1ovv D  0 xDYLRELLKLELQAIKQYREALEYVKLPVLAKILEDEEKHIEWLETILGx 49
                            |        9        19        29        39        49
                            |                                               49-NH2
                            0-ACE                                             

Chain E from PDB  Type:PROTEIN  Length:50
                                                                                 
               SCOP domains d1ovve_ E: Artificial diiron protein               SCOP domains
               CATH domains -1ovvE00 E: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
                  1ovv E  0 xDYLRELLKLELQAIKQYREALEYVKLPVLAKILEDEEKHIEWLETILGx 49
                            |        9        19        29        39        49
                            |                                               49-NH2
                            0-ACE                                             

Chain F from PDB  Type:PROTEIN  Length:50
                                                                                 
               SCOP domains d1ovvf_ F: Artificial diiron protein               SCOP domains
               CATH domains -1ovvF00 F: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
                  1ovv F  0 xDYLRELLKLELQAIKQYREALEYVKLPVLAKILEDEEKHIEWLETILGx 49
                            |        9        19        29        39        49
                            |                                               49-NH2
                            0-ACE                                             

   Legend:   → Mismatch (orange background)
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    → 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, 6)

Asymmetric Unit

(-) CATH Domains  (1, 6)

Asymmetric Unit

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

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

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 Related Entries

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(-) Related Entries Specified in the PDB File

1ec5 DI-ZN-DF1-L13
1jm0 DI-MN(II)-DF1-L13A-FI
1jmb DI-MN(II)-DF1-L13A-FII
1lt1 DI-MN(II)-DF1-L13G
1ovr CRYSTAL STRUCTURE OF FOUR-HELIX BUNDLE MODEL DI-MN(II)-DF1- L13
1ovu CRYSTAL STRUCTURE OF FOUR-HELIX BUNDLE MODEL DI-CO(II)-DF1- L13A (FORM I)