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(-) Description

Title :  CRYSTAL STRUCTURE OF DIMERIC CHLORITE DISMUTASE FROM CYANOTHECE SP. PCC7425 (PH 8.5)
 
Authors :  D. Puehringer, I. Schaffner, G. Mlynek, C. Obinger, K. Djinovic-Carug
Date :  31 May 16  (Deposition) - 21 Jun 17  (Release) - 21 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.55
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Chlorite Dismutase, Cyanobacteria, Heme, Ferredoxin-Like Fold, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. Schaffner, G. Mlynek, N. Flego, D. Puehringer, J. Libiseller-Egger, L. Coates, S. Hofbauer, M. Bellei, P. G. Furtmueller, G. Battistuzzi, G. Smulevich, K. Djinovic-Carugo C. Obinger
Crystal Structure Of Dimeric Chlorite Dismutase From Cyanothece Sp. Pcc7425 (Ph 8. 5)
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - CHLORITE DISMUTASE
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: GOLD
    Gene: CYAN7425_1434
    Organism Scientific: CYANOTHECE SP. (STRAIN PCC 7425 / ATCC 29141)
    Organism Taxid: 395961

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 12)

Asymmetric Unit (4, 12)
No.NameCountTypeFull Name
1HEM4Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
2MPD2Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
3MRD2Ligand/Ion(4R)-2-METHYLPENTANE-2,4-DIOL
4OH4Ligand/IonHYDROXIDE ION
Biological Unit 1 (3, 4)
No.NameCountTypeFull Name
1HEM2Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
2MPD1Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
3MRD1Ligand/Ion(4R)-2-METHYLPENTANE-2,4-DIOL
4OH-1Ligand/IonHYDROXIDE ION
Biological Unit 2 (3, 4)
No.NameCountTypeFull Name
1HEM2Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
2MPD1Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
3MRD1Ligand/Ion(4R)-2-METHYLPENTANE-2,4-DIOL
4OH-1Ligand/IonHYDROXIDE ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELEU A:77 , ARG A:128 , TRP A:144 , HOH A:322binding site for residue MRD A 201
02AC2SOFTWAREILE A:59 , ARG A:60 , TYR A:61 , ALA A:62 , ILE A:90 , LYS A:92 , PHE A:108 , HIS A:114 , THR A:115 , GLY A:118 , ARG A:127 , PHE A:141 , PHE A:145 , LEU A:158 , LEU A:159 , MET A:162 , TRP A:168 , OH A:203 , HOH A:327 , HOH A:328 , HOH A:364 , HOH A:370binding site for residue HEM A 202
03AC3SOFTWAREARG A:127 , HEM A:202 , HOH A:305 , HOH A:356binding site for residue OH A 203
04AC4SOFTWARELEU B:77 , ARG B:128 , TRP B:144 , HOH B:304binding site for residue MPD B 201
05AC5SOFTWAREILE B:59 , ARG B:60 , TYR B:61 , ALA B:62 , LYS B:92 , TRP B:96 , PHE B:108 , HIS B:114 , THR B:115 , GLY B:118 , LEU B:122 , ARG B:127 , LEU B:129 , PHE B:141 , THR B:143 , PHE B:145 , LEU B:158 , LEU B:159 , MET B:162 , TRP B:168 , OH B:203 , HOH B:308 , HOH B:328 , HOH B:357 , HOH B:379binding site for residue HEM B 202
06AC6SOFTWAREHEM B:202 , HOH B:352binding site for residue OH B 203
07AC7SOFTWARETYR C:5 , LEU C:77 , ARG C:128 , TRP C:144 , HOH C:318binding site for residue MRD C 201
08AC8SOFTWAREILE C:59 , ARG C:60 , TYR C:61 , ALA C:62 , LEU C:70 , LYS C:92 , PHE C:108 , HIS C:114 , THR C:115 , GLY C:118 , ARG C:127 , PHE C:141 , PHE C:145 , LEU C:158 , MET C:162 , TRP C:168 , OH C:203 , HOH C:307 , HOH C:335 , HOH C:341 , HOH C:355binding site for residue HEM C 202
09AC9SOFTWAREHEM C:202 , HOH C:343binding site for residue OH C 203
10AD1SOFTWARETYR D:5 , ILE D:36 , LEU D:77 , ARG D:128 , TRP D:144 , HOH D:315binding site for residue MPD D 201
11AD2SOFTWAREILE D:59 , ARG D:60 , TYR D:61 , ALA D:62 , LEU D:70 , LYS D:92 , TRP D:96 , PHE D:108 , HIS D:114 , THR D:115 , GLY D:118 , ARG D:127 , PHE D:141 , PHE D:145 , LEU D:158 , MET D:162 , TRP D:168 , OH D:203 , HOH D:319 , HOH D:346 , HOH D:391 , HOH D:418binding site for residue HEM D 202
12AD3SOFTWAREHEM D:202 , HOH D:338binding site for residue OH D 203

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5K8Z)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Leu A:122 -Pro A:123
2Leu B:122 -Pro B:123
3Leu C:122 -Pro C:123
4Leu D:122 -Pro D:123

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5K8Z)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5K8Z)

(-) Exons   (0, 0)

(no "Exon" information available for 5K8Z)

(-) 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:181
                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee....eeeeeeeeee........eeeeee...........eeeeee.......hhhhhhhhhhhh.........eeeeeeeeehhhhhhhhhhhhhhhhh...hhhhhhhh.....eeeeee.hhhh....eeeeeeehhhhhhhhhhhhhhhhh.hhhh.eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5k8z A   2 NNRYSFIGGRTGQWQVVKIRNVLGPGLQLVEKVNILNGAVAEIPLDSAWRLQGFASNIRYAIRTELEALQAVQPMLNRAEAILAVLIPIKKSAQWWEMAQDERRDIFERESHHTAVGLEYLPGVARRLLHCRDLGEEFDFLTWFEFAPEHSSAFNELLLRMRASKEWEYVEREVEVWLKRL 182
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181 


Chain B from PDB  Type:PROTEIN  Length:181
                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee....eeeeeeeeee........eeeee............eeeeee.......hhhhhhhhhhhh.........eeeeeeeeehhhhhhhhhhhhhhhhh...hhhhhhhhh....eeeeee.hhhh....eeeeeeehhhhhhhhhhhhhhhhh.hhhh.eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5k8z B   2 NNRYSFIGGRTGQWQVVKIRNVLGPGLQLVEKVNILNGAVAEIPLDSAWRLQGFASNIRYAIRTELEALQAVQPMLNRAEAILAVLIPIKKSAQWWEMAQDERRDIFERESHHTAVGLEYLPGVARRLLHCRDLGEEFDFLTWFEFAPEHSSAFNELLLRMRASKEWEYVEREVEVWLKRL 182
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181 


Chain C from PDB  Type:PROTEIN  Length:181
                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee....eeeeeeeeee........eeeeee...........eeeeee.......hhhhhhhhhhhh.........eeeeeeeeehhhhhhhhhhhhhhhhh...hhhhhhhh.....eeeeee.hhhh....eeeeeeehhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5k8z C   2 NNRYSFIGGRTGQWQVVKIRNVLGPGLQLVEKVNILNGAVAEIPLDSAWRLQGFASNIRYAIRTELEALQAVQPMLNRAEAILAVLIPIKKSAQWWEMAQDERRDIFERESHHTAVGLEYLPGVARRLLHCRDLGEEFDFLTWFEFAPEHSSAFNELLLRMRASKEWEYVEREVEVWLKRL 182
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181 


Chain D from PDB  Type:PROTEIN  Length:181
                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee....eeeeeeeeee........eeeee..........eeeeeeee.......hhhhhhhhhhhh.........eeeeeeeeehhhhhhhhhhhhhhhhh...hhhhhhhh.....eeeeee.hhhh....eeeeeeehhhhhhhhhhhhhhhhh.hhhh.eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5k8z D   2 NNRYSFIGGRTGQWQVVKIRNVLGPGLQLVEKVNILNGAVAEIPLDSAWRLQGFASNIRYAIRTELEALQAVQPMLNRAEAILAVLIPIKKSAQWWEMAQDERRDIFERESHHTAVGLEYLPGVARRLLHCRDLGEEFDFLTWFEFAPEHSSAFNELLLRMRASKEWEYVEREVEVWLKRL 182
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181
   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

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5K8Z)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5K8Z)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5K8Z)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 5K8Z)

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