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(-) Description

Title :  CRYSTAL STRUCTURES OF HUMAN PEROXIREDOXIN 6 IN SULFINIC ACID STATE
 
Authors :  K. H. Kim, W. T. Lee, E. E. Kim
Date :  30 May 16  (Deposition) - 13 Jul 16  (Release) - 10 Aug 16  (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)
Keywords :  Prx6, 1-Cys Prx, Catalytic Site, Oxidation, Reduction, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. H. Kim, W. T. Lee, E. E. Kim
Crystal Structures Of Human Peroxiredoxin 6 In Different Oxidation States
Biochem. Biophys. Res. Commun. V. 477 717 2016
PubMed-ID: 27353378  |  Reference-DOI: 10.1016/J.BBRC.2016.06.125

(-) Compounds

Molecule 1 - PEROXIREDOXIN-6
    Chains: A, B, C, D, E, F
    EC Number: 1.11.1.15
    Engineered: YES
    Expression System: ESCHERICHIA COLI-PICHIA PASTORIS SHUTTLE VECTOR PPPARG4
    Expression System Taxid: 1182032
    Gene: PRDX6, AOP2, KIAA0106
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 6)

Asymmetric Unit (1, 6)
No.NameCountTypeFull Name
1CSD6Mod. Amino Acid3-SULFINOALANINE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1CSD2Mod. Amino Acid3-SULFINOALANINE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1CSD2Mod. Amino Acid3-SULFINOALANINE
Biological Unit 3 (1, 2)
No.NameCountTypeFull Name
1CSD2Mod. Amino Acid3-SULFINOALANINE

(-) Sites  (0, 0)

(no "Site" information available for 5B6N)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5B6N)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Glu E:93 -Pro E:94

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5B6N)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5B6N)

(-) Exons   (0, 0)

(no "Exon" information available for 5B6N)

(-) 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:221
                                                                                                                                                                                                                                                             
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeee..eeeehhhhhh..eeeee.......hhhhhhhhhhhhhhhhhhh..eeeeee...hhhhhhhhhhhhhhhh...........ee....hhhhhhh..eeeeee.....eee.eeeeee.....eeeeeee......hhhhhhhhhhhhhhh....ee..........eee......hhhhhhh....ee..........eee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5b6n A   4 GLLLGDVAPNFEANTTVGRIRFHDFLGDSWGILFSHPRDFTPVcTTELGRAAKLAPEFAKRNVKLIALSIDSVEDHLAWSKDINAYNCEEPTEKLPFPIIDDRNRELAILLGMLDPAEKDEKGMPVTARVVFVFGPDKKLKLSILYPATTGRNFDEILRVVISLQLTAEKRVATPVDWKDGDSVMVLPTIPEEEAKKLFPKGVFTKELPSGKKYLRYTPQP 224
                                    13        23        33        43   |    53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223 
                                                                      47-CSD                                                                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:221
                                                                                                                                                                                                                                                             
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeee..eeeehhhhhh..eeeee......hhhhhhhhhhhhhhhhhhhhh.eeeeeee..hhhhhhhhhhhhhhhh...........eee....hhhhhh..eeeeee.....eee.eeeeee.....eeeeeee......hhhhhhhhhhhhhhhh...ee..........eee....hhhhhhh......ee..........eee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5b6n B   4 GLLLGDVAPNFEANTTVGRIRFHDFLGDSWGILFSHPRDFTPVcTTELGRAAKLAPEFAKRNVKLIALSIDSVEDHLAWSKDINAYNCEEPTEKLPFPIIDDRNRELAILLGMLDPAEKDEKGMPVTARVVFVFGPDKKLKLSILYPATTGRNFDEILRVVISLQLTAEKRVATPVDWKDGDSVMVLPTIPEEEAKKLFPKGVFTKELPSGKKYLRYTPQP 224
                                    13        23        33        43   |    53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223 
                                                                      47-CSD                                                                                                                                                                             


Chain C from PDB  Type:PROTEIN  Length:217
                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeee..eeeehhhhhh..eeeeee.....hhhhhhhhhhhhhhhhhhhh..eeeeee...hhhhhhhhhhhhhhhh...........ee.............eeeeee.....eee.eeeeee.....eeeeeee......hhhhhhhhhhhhhh.....ee...........ee....hhhhhhhh................... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5b6n C   4 GLLLGDVAPNFEANTTVGRIRFHDFLGDSWGILFSHPRDFTPVcTTELGRAAKLAPEFAKRNVKLIALSIDSVEDHLAWSKDINAYNCEEPTEKLPFPIIDDRNRELAILLGMLDPAEKDEKGMPVTARVVFVFGPDKKLKLSILYPATTGRNFDEILRVVISLQLTAEKRVATPVDWKDGDSVMVLPTIPEEEAKKLFPKGVFTKELKYLRYTPQP 224
                                    13        23        33        43   |    53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       217       
                                                                      47-CSD                                                                                                                                                             211|        
                                                                                                                                                                                                                                          216        


Chain D from PDB  Type:PROTEIN  Length:213
                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........................eeeeee........hhhhhhhhhhhhhhhh...eeeeeee...hhhhhhhhhhhh........eee...hhhhhhhh.................eeeee.....eeeeee..........hhhhhhhhhhhhhhh.ee..........eee....hhhhhhhhh....ee..........eee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5b6n D   6 LLGDVAPNFEANTTVGRIRFHDFLGDSWGILFSHPRDFTPVcTTELGRAAKLAPEFAKRNVKLIALSIDSVEDHLAWSKDINAYNKLPFPIIDDRNRELAILLGMLDPAEKDEKGMPVTARVVFVFGPDKKLKLSILYPATTGRNFDEILRVVISLQLTAEKRVATPVDWKDGDSVMVLPTIPEEEAKKLFPKGVFTKELPSGKKYLRYTPQP 224
                                    15        25        35        45 |      55        65        75        85    || 101       111       121       131       141       151       161       171       181       191       201       211       221   
                                                                    47-CSD                                     90|                                                                                                                               
                                                                                                                97                                                                                                                               


Chain E from PDB  Type:PROTEIN  Length:221
                                                                                                                                                                                                                                                             
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....................hhhhhh...eeeee......hhhhhhhhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhhhhhhh...........eee...........................eeeeee.....eeeeeee......hhhhhhhhhhhhhhhhh..ee..........eee....hhhhhhhhh....ee..........eee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5b6n E   4 GLLLGDVAPNFEANTTVGRIRFHDFLGDSWGILFSHPRDFTPVcTTELGRAAKLAPEFAKRNVKLIALSIDSVEDHLAWSKDINAYNCEEPTEKLPFPIIDDRNRELAILLGMLDPAEKDEKGMPVTARVVFVFGPDKKLKLSILYPATTGRNFDEILRVVISLQLTAEKRVATPVDWKDGDSVMVLPTIPEEEAKKLFPKGVFTKELPSGKKYLRYTPQP 224
                                    13        23        33        43   |    53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223 
                                                                      47-CSD                                                                                                                                                                             


Chain F from PDB  Type:PROTEIN  Length:223
                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............ee....ee.........eeeeee.....hhhhhhhhhhhhhhhhhhhh..eeeeee...hhhhhhhhhhhhh..............ee....hhhhhhh.................eeeeee.....eeeeeee......hhhhhhhhhhhhhhhhhh.ee..........eee....hhhhhhhhh....ee..........eee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5b6n F   2 PGGLLLGDVAPNFEANTTVGRIRFHDFLGDSWGILFSHPRDFTPVcTTELGRAAKLAPEFAKRNVKLIALSIDSVEDHLAWSKDINAYNCEEPTEKLPFPIIDDRNRELAILLGMLDPAEKDEKGMPVTARVVFVFGPDKKLKLSILYPATTGRNFDEILRVVISLQLTAEKRVATPVDWKDGDSVMVLPTIPEEEAKKLFPKGVFTKELPSGKKYLRYTPQP 224
                                    11        21        31        41     |  51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221   
                                                                        47-CSD
   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  (0, 0)

(no "SCOP Domain" information available for 5B6N)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5B6N)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5B6N)

(-) Gene Ontology  (23, 23)

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