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(-) Description

Title :  CRYSTAL STRUCTURE OF NON-HEME IRON OXYGENASE ORFP IN COMPLEX WITH FE AND L-CANAVANINE
 
Authors :  C. Y. Chang, Y. C. Liu, S. Y. Lyu, C. C. Wu, T. L. Li
Date :  05 Aug 13  (Deposition) - 25 Jun 14  (Release) - 25 Jun 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.92
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Hydroxylase, Fe Binding, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Y. Chang, S. Y. Lyu, Y. C. Liu, N. S. Hsu, C. C. Wu, C. F. Tang, K. H. Lin, J. Y. Ho, C. J. Wu, M. D. Tsai, T. L. Li
Biosynthesis Of Streptolidine Involved Two Unexpected Intermediates Produced By A Dihydroxylase And A Cyclase Through Unusual Mechanisms.
Angew. Chem. Int. Ed. Engl. V. 53 1943 2014
PubMed-ID: 24505011  |  Reference-DOI: 10.1002/ANIE.201307989

(-) Compounds

Molecule 1 - L-ARGININE BETA-HYDROXYLASE
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: STREPTOMYCES LAVENDULAE
    Organism Taxid: 58340

 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  (2, 6)

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
1FE4Ligand/IonFE (III) ION
2GGB2Ligand/IonL-CANAVANINE
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1FE-1Ligand/IonFE (III) ION
2GGB-1Ligand/IonL-CANAVANINE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1FE-1Ligand/IonFE (III) ION
2GGB2Ligand/IonL-CANAVANINE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:154 , GLU A:156 , HIS A:303 , HOH A:759BINDING SITE FOR RESIDUE FE A 401
2AC2SOFTWAREHIS B:154 , GLU B:156 , HIS B:303 , HOH B:515 , HOH B:614 , HOH B:732BINDING SITE FOR RESIDUE FE B 401
3AC3SOFTWAREHIS C:154 , GLU C:156 , HIS C:303 , GGB C:402BINDING SITE FOR RESIDUE FE C 401
4AC4SOFTWAREGLN C:123 , GLN C:142 , LEU C:143 , GLY C:144 , HIS C:154 , GLU C:156 , ASP C:208 , SER C:210 , ASP C:255 , PHE C:258 , ARG C:321 , FE C:401 , HOH C:615 , HOH C:663 , HOH C:707BINDING SITE FOR RESIDUE GGB C 402
5AC5SOFTWAREHIS D:154 , GLU D:156 , HIS D:303 , GGB D:402BINDING SITE FOR RESIDUE FE D 401
6AC6SOFTWAREGLN D:123 , GLN D:142 , LEU D:143 , GLY D:144 , HIS D:154 , GLU D:156 , ASP D:208 , SER D:210 , ASP D:255 , PHE D:258 , ARG D:321 , FE D:401 , HOH D:614 , HOH D:671BINDING SITE FOR RESIDUE GGB D 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4M2F)

(-) Cis Peptide Bonds  (5, 5)

Asymmetric Unit
No.Residues
1Arg A:96 -Pro A:97
2Arg B:96 -Pro B:97
3Phe B:227 -Ala B:228
4Arg C:96 -Pro C:97
5Arg D:96 -Pro D:97

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4M2F)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4M2F)

(-) Exons   (0, 0)

(no "Exon" information available for 4M2F)

(-) 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:336
                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...ee.hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh..hhhhhhhhhhhhhhh...eeeee....hhhhhh..............hhhhhhhhhhhhhhhheeeee..hhhhh.eeee..hhhhh...........eeee...........eeeeeeee......eeeee.hhhhhhhhhhhhhh....ee..hhhhhhhhh...hhhhhhhhhhhhhhhhhh.....eeee..eeee..hhh.ee....hhhhhhhhhhhhhhhhhhheee......eeeee...eeeee............eeeeeeee.hhhhhhhhh......ee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4m2f A   9 TPSYSLTPAEASAVAELTLELAAAYGSFGDPVLLRDLPRLAARLPEGVQDFLREFKLADRHGHTVIRGHDFDQRRIGPTPDHWRGRVRPGPEFPEELLLMLYSALLGEPFGWATQQDGHLVHDIFPIRSHENDQLGMGSKQLLTWHTEDAFHPYRSDYLILGALRNPDHVPTTVGELDLSSLSAEDIDVLFEPRYHIAPDESHLPKNNTIATEEEAARFATIQRMIDERPLGPLLYGSRLDPYMRLDPYFTSVPQDDTDARRAYDALFKVVDSGMREVVADQGDVLFIDNHRAVHGRLPFQARYDGTDRWLKRVCVTSDLRRSREMRATSATRLLG 344
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338      


Chain B from PDB  Type:PROTEIN  Length:313
                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh..hhhhhhhhhhhhhhh...eeeee....hhhhhh..............hhhhhhhhhhhhhhhheeeee..hhhhh..eee........................eeeeeeee......eeeee.hhhhhhhhhhhhhh....ee.......................eee....eee..hhh.ee....hhhhhhhhhhhhhhhhhhheee......eeeee...eeee.............eeeeeeee.hhhhhhhhh......ee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4m2f B   9 TPSYSLTPAEASAVAELTLELAAAYGSFGDPVLLRDLPRLAARLPEGVQDFLREFKLADRHGHTVIRGHDFDQRRIGPTPDHWRGRVRPGPEFPEELLLMLYSALLGEPFGWATQQDGHLVHDIFPIRSHKQLLTWHTEDAFHPYRSDYLILGALRNPDHVPTTVGELDLSSLSAEDIDVLFEPRYHIAPDESARFATIQRMIDERPLGPLLYGSRLDPYMRLDPYFTSVPQDDTDARRAYDALFKVVDSGMREVVADQGDVLFIDNHRAVHGRLPFQARYDGTDRWLKRVCVTSDLRRSREMRATSATRLLG 344
                                    18        28        38        48        58        68        78        88        98       108       118       128       138|      157       167       177       187       197       207  ||   231       241       251       261       271       281       291       301       311       321       331       341   
                                                                                                                                                           138|                                                           210|                                                                                                                       
                                                                                                                                                            148                                                            225                                                                                                                       


Chain C from PDB  Type:PROTEIN  Length:336
                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eee.hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh..hhhhhhhhhhhhhhh...eeeee....hhhhhh..............hhhhhhhhhhhhhhhheeeee..hhhhh.eeee..hhhhh...........eeee...........eeeeeeee.....eeeee.......hhhhhhhhh....ee..hhhhhhhhh..........hhhhhhhhhhh.....ee......ee..hhh.ee....hhhhhhhhhhhhhhhhhh.eeee.....eeeee....eeee............eeeeeeee.hhhhhhhhh......ee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4m2f C   9 TPSYSLTPAEASAVAELTLELAAAYGSFGDPVLLRDLPRLAARLPEGVQDFLREFKLADRHGHTVIRGHDFDQRRIGPTPDHWRGRVRPGPEFPEELLLMLYSALLGEPFGWATQQDGHLVHDIFPIRSHENDQLGMGSKQLLTWHTEDAFHPYRSDYLILGALRNPDHVPTTVGELDLSSLSAEDIDVLFEPRYHIAPDESHLPKNNTIATEEEAARFATIQRMIDERPLGPLLYGSRLDPYMRLDPYFTSVPQDDTDARRAYDALFKVVDSGMREVVADQGDVLFIDNHRAVHGRLPFQARYDGTDRWLKRVCVTSDLRRSREMRATSATRLLG 344
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338      


Chain D from PDB  Type:PROTEIN  Length:336
                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eee.hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh..hhhhhhhhhhhhhhh...eeeee....hhhhhh..............hhhhhhhhhhhhhhhheeeee..hhhhh.eeee..hhhhh...........eeee...........eeeeeeee.....eeeee..hhhhhhhhhhhhhh....ee..hhhhhhhhh..........hhhhhhhhhhh.....eeee..eeee..hhh.ee....hhhhhhhhhhhhhhhhhh.eeee.....eeeee....eeee............eeeeeeee.hhhhhhhhh......ee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4m2f D   9 TPSYSLTPAEASAVAELTLELAAAYGSFGDPVLLRDLPRLAARLPEGVQDFLREFKLADRHGHTVIRGHDFDQRRIGPTPDHWRGRVRPGPEFPEELLLMLYSALLGEPFGWATQQDGHLVHDIFPIRSHENDQLGMGSKQLLTWHTEDAFHPYRSDYLILGALRNPDHVPTTVGELDLSSLSAEDIDVLFEPRYHIAPDESHLPKNNTIATEEEAARFATIQRMIDERPLGPLLYGSRLDPYMRLDPYFTSVPQDDTDARRAYDALFKVVDSGMREVVADQGDVLFIDNHRAVHGRLPFQARYDGTDRWLKRVCVTSDLRRSREMRATSATRLLG 344
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338
   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 4M2F)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4M2F)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4M2F)

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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        G9MBV2_STRLA | G9MBV2: 4m23 4m25 4m26 4m27 4m2c 4m2e 4m2g 4m2i 4ne0

(-) Related Entries Specified in the PDB File

4m23 4m25 4m26 4m27 4m2c 4m2e 4m2g 4m2i 4m2j 4m2k 4m2m