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(-) Description

Title :  CRYSTAL STRUCTURE OF ECTD FROM S. ALASKENSIS WITH 2-OXOGLUTARATE AND 5-HYDROXYECTOINE
 
Authors :  A. Hoeppner, N. Widderich, E. Bremer, S. H. Smits
Date :  17 Apr 14  (Deposition) - 10 Sep 14  (Release) - 12 Nov 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.64
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Jelly-Roll Or Cupin Fold, Ectoine Hydroxylase, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Hoppner, N. Widderich, M. Lenders, E. Bremer, S. H. Smits
Crystal Structure Of The Ectoine Hydroxylase, A Snapshot Of The Active Site.
J. Biol. Chem. V. 289 29570 2014
PubMed-ID: 25172507  |  Reference-DOI: 10.1074/JBC.M114.576769

(-) Compounds

Molecule 1 - ECTOINE HYDROXYLASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: SALA_2952
    Organism Scientific: SPHINGOPYXIS ALASKENSIS RB2256
    Organism Taxid: 317655
    Strain: DSM 13593 / LMG 18877 / RB2256

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric/Biological Unit (3, 6)
No.NameCountTypeFull Name
16CS2Ligand/Ion(4S,5S)-5-HYDROXY-2-METHYL-1,4,5,6-TETRAHYDROPYRIMIDINE-4-CARBOXYLIC ACID
2AKG2Ligand/Ion2-OXOGLUTARIC ACID
3FE2Ligand/IonFE (III) ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:144 , ASP A:146 , HIS A:245 , AKG A:402 , 6CS A:403BINDING SITE FOR RESIDUE FE A 401
2AC2SOFTWAREASN A:131 , LYS A:133 , PHE A:141 , HIS A:245 , PHE A:260 , FE A:401 , HOH A:508BINDING SITE FOR RESIDUE AKG A 402
3AC3SOFTWAREGLN A:127 , ARG A:129 , PHE A:141 , HIS A:144 , ASP A:146 , ARG A:280 , FE A:401 , HOH A:508BINDING SITE FOR RESIDUE 6CS A 403
4AC4SOFTWAREHIS B:144 , ASP B:146 , HIS B:245 , AKG B:402 , 6CS B:403BINDING SITE FOR RESIDUE FE B 401
5AC5SOFTWAREARG B:129 , ASN B:131 , PHE B:141 , HIS B:144 , ASP B:146 , HIS B:245 , SER B:247 , ARG B:256 , PHE B:260 , FE B:401BINDING SITE FOR RESIDUE AKG B 402
6AC6SOFTWAREGLN B:127 , ARG B:129 , HIS B:144 , ASP B:146 , TRP B:150 , ARG B:280 , FE B:401BINDING SITE FOR RESIDUE 6CS B 403

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4Q5O)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Lys A:278 -Pro A:279
2Arg A:287 -Gly A:288
3Lys B:278 -Pro B:279
4Arg B:287 -Gly B:288

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4Q5O)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4Q5O)

(-) Exons   (0, 0)

(no "Exon" information available for 4Q5O)

(-) 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:282
                                                                                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .............eee................hhhhhhhhhhhheeee....hhhhhhhhhhhhhhhhhh........eee......eeeeehhhhhhhhhhhhh.hhhhhhhhhhhhh..eeeeeeeeeee.......eeeehhhhhhhhh.......eeeeeee...........ee..hhh.eee.....hhhhhhhhhhhhh..........eeeee....eee........eeeeeeeeee.hhh................................ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4q5o A   2 QDLYPSRQRADAEMRPRLDPVVHSEWTNDAPISARQAAAFDRDGYIVLEDIFSADEVAFLQKAAGNLLADPAALDADTIVTEPQSNEIRSIFEIHAQSPVMARLAADARLADVARFLLGDEVYIHQSRLNYKPGFKGREFYWHSDFETWHVEDGMPRMRALSMSVLLAENTPHNGPLMVIPGSHRTYLTCGVPDEESLAELAHRHGIVAPTGKPGTVILFDCNLMHGSNGNITPFPRANAFLVYNAVSNRLEKPFGVEKPRPWFLARRGEPAALRVERGPLV 301
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191|      219       229       239       249       259       269       279       289       299  
                                                                                                                                                                                                                       191|                                                                                           
                                                                                                                                                                                                                        210                                                                                           


Chain B from PDB  Type:PROTEIN  Length:282
                                                                                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .............eee................hhhhhhhhhhhheeee....hhhhhhhhhhhhhhhhhh....hhh.eee......eeee......hhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeee.......eeeeehhhhhhhh.......eeeeeee...........ee..hhh.eee.....hhhhhhhhhhhhh..........eeeee...eeee........eeeeeeeeee.hhh................................ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4q5o B   2 QDLYPSRQRADAEMRPRLDPVVHSEWTNDAPISARQAAAFDRDGYIVLEDIFSADEVAFLQKAAGNLLADPAALDADTIVTEPQSNEIRSIFEIHAQSPVMARLAADARLADVARFLLGDEVYIHQSRLNYKPGFKGREFYWHSDFETWHVEDGMPRMRALSMSVLLAENTPHNGPLMVIPGSHRTYLTCGVPDEESLAELAHRHGIVAPTGKPGTVILFDCNLMHGSNGNITPFPRANAFLVYNAVSNRLEKPFGVEKPRPWFLARRGEPAALRVERGPLV 301
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191|      219       229       239       249       259       269       279       289       299  
                                                                                                                                                                                                                       191|                                                                                           
                                                                                                                                                                                                                        210
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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 4Q5O)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4Q5O)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4Q5O)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Arg A:287 - Gly A:288   [ RasMol ]  
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    Lys A:278 - Pro A:279   [ RasMol ]  
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 Related Entries

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UniProtKB/TrEMBL
        Q1GNW5_SPHAL | Q1GNW5: 4mhr 4mhu

(-) Related Entries Specified in the PDB File

4mhr 4mhu 4nmi