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(-) Description

Title :  CRYSTAL STRUCUTRE OF BOVINE MITOCHONDRIAL PEROXIREDOXIN III
 
Authors :  Z. Cao, D. P. Mcgow, C. Shepherd, J. G. Lindsay
Date :  29 Aug 13  (Deposition) - 04 Mar 15  (Release) - 06 May 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F,G,H,I,J,K,L
Keywords :  Catenane, Dodecamer, Peroxiredoxin, Oxidoreductase, Thioredoxin Fold, Mitochondrial (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. Cao, D. P. Mcgow, C. Shepherd, J. G. Lindsay
Improved Catenated Structures Of Bovine Peroxiredoxin Iii F190L Reveal Details Of Ring-Ring Interactions And A Novel Conformational State.
Plos One V. 10 23303 2015
PubMed-ID: 25906064  |  Reference-DOI: 10.1371/JOURNAL.PONE.0123303

(-) Compounds

Molecule 1 - THIOREDOXIN-DEPENDENT PEROXIDE REDUCTASE, MITOCHONDRIAL
    Chains: A, B, C, D, E, F, G, H, I, J, K, L
    EC Number: 1.11.1.15
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET 14
    Expression System Strain: BL21(DE3) PLYSS
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 63-257
    Gene: AOP1, PRDX3
    Mutation: YES
    Organism Common: BOVINE,COW,DOMESTIC CATTLE,DOMESTIC COW
    Organism Scientific: BOS TAURUS
    Organism Taxid: 9913
    Synonym: ANTIOXIDANT PROTEIN 1, AOP-1, PEROXIREDOXIN-3, PROTEIN SP- 22

 Structural Features

(-) Chains, Units

  123456789101112
Asymmetric/Biological Unit : ABCDEFGHIJKL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric/Biological Unit (2, 5)
No.NameCountTypeFull Name
1CIT3Ligand/IonCITRIC ACID
2PO42Ligand/IonPHOSPHATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:136 , SER A:138 , ARG A:146 , GLU A:150 , HIS B:136 , SER B:138 , ARG B:146 , SER B:147 , GLU B:150 , THR B:151BINDING SITE FOR RESIDUE CIT B 201
2AC2SOFTWAREHIS C:136 , SER C:138 , GLU C:150 , THR C:151 , LEU C:154 , HIS D:136 , SER D:138 , SER D:147 , THR D:151 , LEU D:154BINDING SITE FOR RESIDUE CIT C 201
3AC3SOFTWAREHIS G:136 , SER G:138 , ARG G:146 , GLU G:150 , HIS H:136 , SER H:138 , ARG H:146 , SER H:147 , GLU H:150 , THR H:151BINDING SITE FOR RESIDUE CIT H 201
4AC4SOFTWAREGLN J:6BINDING SITE FOR RESIDUE PO4 J 201
5AC5SOFTWAREGLU K:67BINDING SITE FOR RESIDUE PO4 K 201

(-) SS Bonds  (9, 9)

Asymmetric/Biological Unit
No.Residues
1A:47 -B:168
2C:47 -D:168
3C:168 -D:47
4E:47 -F:168
5G:47 -H:168
6I:47 -J:168
7I:168 -J:47
8K:47 -L:168
9K:168 -L:47

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4MH3)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4MH3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4MH3)

(-) Exons   (0, 0)

(no "Exon" information available for 4MH3)

(-) Sequences/Alignments

Asymmetric/Biological 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:166
                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeeeee..eeeeee.hhhh..eeeeee.........hhhhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhh.hhhhh.......eeee...hhhhhhh..ee....ee.eeeeee.....eeeeeee......hhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mh3 A   1 APAVTQHAPYFKGTAVVSGEFKEISLDDFKGKYLVLFFYPLDFTFVCPTEIIAFSDKASEFHDVNCEVVAVSVDSHFSHLAWINTPRKNGGLGHMNIALLSDLTKQISRDYGVLLEGPGLALRGLFIIDPNGVIKHLSVNDLPVGRSVEETLRLVKAFQFVEAHGE 166
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160      


Chain B from PDB  Type:PROTEIN  Length:168
                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..........eeeeee..eeeeee.hhhh..eeeeee.........hhhhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhh.hhhhh.......eeee...hhhhhhh..ee....ee.eeeeee.....eeeeeee......hhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4mh3 B   2 PAVTQHAPYFKGTAVVSGEFKEISLDDFKGKYLVLFFYPLDFTFVCPTEIIAFSDKASEFHDVNCEVVAVSVDSHFSHLAWINTPRKNGGLGHMNIALLSDLTKQISRDYGVLLEGPGLALRGLFIIDPNGVIKHLSVNDLPVGRSVEETLRLVKAFQFVEAHGEVCP 169
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161        


Chain C from PDB  Type:PROTEIN  Length:169
                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eeeeee..eeeeee.hhhh..eeeeee.........hhhhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhhhhhhhh.......eeee...hhhhhhh..ee....ee.eeeeee.....eeeeeee......hhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mh3 C   2 PAVTQHAPYFKGTAVVSGEFKEISLDDFKGKYLVLFFYPLDFTFVCPTEIIAFSDKASEFHDVNCEVVAVSVDSHFSHLAWINTPRKNGGLGHMNIALLSDLTKQISRDYGVLLEGPGLALRGLFIIDPNGVIKHLSVNDLPVGRSVEETLRLVKAFQFVEAHGEVCPA 170
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161         


Chain D from PDB  Type:PROTEIN  Length:168
                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..........eeeeee..eeeeee.hhhh..eeeeee.........hhhhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhh.hhhhh.......eeee...hhhhhhh..ee....ee.eeeeee.....eeeeeee......hhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4mh3 D   2 PAVTQHAPYFKGTAVVSGEFKEISLDDFKGKYLVLFFYPLDFTFVCPTEIIAFSDKASEFHDVNCEVVAVSVDSHFSHLAWINTPRKNGGLGHMNIALLSDLTKQISRDYGVLLEGPGLALRGLFIIDPNGVIKHLSVNDLPVGRSVEETLRLVKAFQFVEAHGEVCP 169
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161        


Chain E from PDB  Type:PROTEIN  Length:164
                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eeeeee..eeeeee.hhhh..eeeeee.........hhhhhhhhhhhhhhhhh.eeeeeee..hhhhhhhhhh.hhhhh.......eeee...hhhhhhh..ee....ee.eeeeee.....eeeeeee......hhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mh3 E   2 PAVTQHAPYFKGTAVVSGEFKEISLDDFKGKYLVLFFYPLDFTFVCPTEIIAFSDKASEFHDVNCEVVAVSVDSHFSHLAWINTPRKNGGLGHMNIALLSDLTKQISRDYGVLLEGPGLALRGLFIIDPNGVIKHLSVNDLPVGRSVEETLRLVKAFQFVEAHG 165
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161    


Chain F from PDB  Type:PROTEIN  Length:168
                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...........eeeeee..eeeeee.hhhh..eeeeee.........hhhhhhhhhhhhhhhhh.eeeeeee..hhhhhhhhhh.hhhhh.......eeee...hhhhhhh..ee....ee.eeeeee.....eeeeeee......hhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4mh3 F   1 APAVTQHAPYFKGTAVVSGEFKEISLDDFKGKYLVLFFYPLDFTFVCPTEIIAFSDKASEFHDVNCEVVAVSVDSHFSHLAWINTPRKNGGLGHMNIALLSDLTKQISRDYGVLLEGPGLALRGLFIIDPNGVIKHLSVNDLPVGRSVEETLRLVKAFQFVEAHGEVC 168
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160        


Chain G from PDB  Type:PROTEIN  Length:168
                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............eeeeee..eeeeee.hhhh..eeeeee.........hhhhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhh.hhhhh.......eeee...hhhhhhh..ee....ee.eeeeee.....eeeeeee......hhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4mh3 G   0 PAPAVTQHAPYFKGTAVVSGEFKEISLDDFKGKYLVLFFYPLDFTFVCPTEIIAFSDKASEFHDVNCEVVAVSVDSHFSHLAWINTPRKNGGLGHMNIALLSDLTKQISRDYGVLLEGPGLALRGLFIIDPNGVIKHLSVNDLPVGRSVEETLRLVKAFQFVEAHGEV 167
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159        


Chain H from PDB  Type:PROTEIN  Length:167
                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eeeeee..eeeeee.hhhh..eeeeee.........hhhhhhhhhhhhhhhhh.eeeeeee..hhhhhhhhhh.hhhhh.......eeee...hhhhhhh..ee....ee.eeeeee.....eeeeeee......hhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mh3 H   2 PAVTQHAPYFKGTAVVSGEFKEISLDDFKGKYLVLFFYPLDFTFVCPTEIIAFSDKASEFHDVNCEVVAVSVDSHFSHLAWINTPRKNGGLGHMNIALLSDLTKQISRDYGVLLEGPGLALRGLFIIDPNGVIKHLSVNDLPVGRSVEETLRLVKAFQFVEAHGEVC 168
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       


Chain I from PDB  Type:PROTEIN  Length:167
                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eeeeee..eeeeee.hhhh..eeeeee.........hhhhhhhhhhhhhhhhh.eeeeeee..hhhhhhhhhh.hhhhh.......eeee...hhhhhhh..ee....ee.eeeeee.....eeeeeee......hhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mh3 I   2 PAVTQHAPYFKGTAVVSGEFKEISLDDFKGKYLVLFFYPLDFTFVCPTEIIAFSDKASEFHDVNCEVVAVSVDSHFSHLAWINTPRKNGGLGHMNIALLSDLTKQISRDYGVLLEGPGLALRGLFIIDPNGVIKHLSVNDLPVGRSVEETLRLVKAFQFVEAHGEVC 168
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       


Chain J from PDB  Type:PROTEIN  Length:166
                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee....eeeeee..eeeeee.hhhh..eeeeee.........hhhhhhhhhhhhhhhhh.eeeeeee..hhhhhhhhhh.hhhhh.......eeee...hhhhhhh..ee....ee.eeeeee....eeeeeeee......hhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mh3 J   4 VTQHAPYFKGTAVVSGEFKEISLDDFKGKYLVLFFYPLDFTFVCPTEIIAFSDKASEFHDVNCEVVAVSVDSHFSHLAWINTPRKNGGLGHMNIALLSDLTKQISRDYGVLLEGPGLALRGLFIIDPNGVIKHLSVNDLPVGRSVEETLRLVKAFQFVEAHGEVCP 169
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163      


Chain K from PDB  Type:PROTEIN  Length:168
                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...........eeeeee..eeeeee.hhhh..eeeeee.........hhhhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhh.hhhhh.......eeee...hhhhhhh..ee....ee.eeeeee.....eeeeeee......hhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4mh3 K   1 APAVTQHAPYFKGTAVVSGEFKEISLDDFKGKYLVLFFYPLDFTFVCPTEIIAFSDKASEFHDVNCEVVAVSVDSHFSHLAWINTPRKNGGLGHMNIALLSDLTKQISRDYGVLLEGPGLALRGLFIIDPNGVIKHLSVNDLPVGRSVEETLRLVKAFQFVEAHGEVC 168
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160        


Chain L from PDB  Type:PROTEIN  Length:167
                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eeeeee..eeeeee.hhhh..eeeeee.........hhhhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhh.hhhhh.......eeee...hhhhhhh..ee....ee.eeeeee.....eeeeeee......hhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mh3 L   2 PAVTQHAPYFKGTAVVSGEFKEISLDDFKGKYLVLFFYPLDFTFVCPTEIIAFSDKASEFHDVNCEVVAVSVDSHFSHLAWINTPRKNGGLGHMNIALLSDLTKQISRDYGVLLEGPGLALRGLFIIDPNGVIKHLSVNDLPVGRSVEETLRLVKAFQFVEAHGEVC 168
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161
   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 4MH3)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4MH3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4MH3)

(-) Gene Ontology  (36, 36)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        PRDX3_BOVIN | P35705: 1zye 4mh2

(-) Related Entries Specified in the PDB File

1zye F190L MUTANT OXIDISED
4mh2