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(-) Description

Title :  X-RAY STRUCTURE OF THE ARCHAEOGLOBUS FULGIDUS METHENYL-TETRAHYDROMETHANOPTERIN CYCLOHYDROLASE
 
Authors :  V. Upadhyay, U. Demmer, E. Warkentin, J. Moll, S. Shima, U. Ermler
Date :  31 Aug 12  (Deposition) - 31 Oct 12  (Release) - 05 Feb 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.52
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Methenyl-Tetrahydromethanopterin, N5-Formyl-Tetrahydromethanopterin, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. Upadhyay, U. Demmer, E. Warkentin, J. Moll, S. Shima, U. Ermler
Structure And Catalytic Mechanism Of N(5), N(10)-Methenyl-Tetrahydromethanopterin Cyclohydrolase.
Biochemistry V. 51 8435 2012
PubMed-ID: 23013430  |  Reference-DOI: 10.1021/BI300777K

(-) Compounds

Molecule 1 - METHENYLTETRAHYDROMETHANOPTERIN CYCLOHYDROLASE
    Chains: A, B, C
    EC Number: 3.5.4.27
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-24A(+)
    Expression System Strain: ROSETTA (DE3) PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: AF_1935, MCH
    Mutation: YES
    Organism Scientific: ARCHAEOGLOBUS FULGIDUS
    Organism Taxid: 224325
    Strain: DSM 4304
    Synonym: METHENYL-H4MPT CYCLOHYDROLASE

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4GVR)

(-) Sites  (0, 0)

(no "Site" information available for 4GVR)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Lys A:118 -Pro A:119
2Lys B:118 -Pro B:119
3Lys C:118 -Pro C:119

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4GVR)

(-) 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:315
                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains d4gvra_ A: automated matches                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhh.eeee.....eeee.......hhhhhhhhhhhhh....eeeeeeeee..eeeeeeeeee.hhhhhhh......eeeee..eeeeee..hhhhhh.hhhhhhhhh.......eeeeee.....hhhhhhhhhhhhh.hhh.eeeeee...hhhhhhhhhhhhhhhhhhhhhhh..hhh.eeeeeeeee......hhhhhhhhhhhhhhhhheeeeee...hhhhhhhhhhhh.....hhhhhhhhhh......hhhhh...eeeeee.....eeeee..hhhhhhhhh.ee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gvr A   1 MLSVNEIAAEIVEDMLDYEEELRIESKKLENGAIVVDCGVNVPGSYDAGIMYTQVCMGGLADVDIVVDTINDVPFAFVTEYTDHPAIACLGSQKAGWQIKVDKYFAMGSGPARALALKPKKTYERIEYEDDADVAVIALEANQLPDEKVMEFIAKECDVDPENVYALVAPTASIVGSVQISGRIVQTAIFKMNEIGYDPKLIVSGAGRCPISPILENDLKAMGSTNDSMMYYGSVFLTVKKYDEILKNVPSCTSRDYGKPFYEIFKAANYDFYKIDPNLFAPAQIAVNDLETGKTYVHGKLNAEVLFQSYQIVLE 315
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310     


Chain B from PDB  Type:PROTEIN  Length:315
                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains d4gvrb_ B: automated matches                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhh.eeee.....eeee.......hhhhhhhhhhhhh....eeeeeeeee..eeeeeeeeee.hhhhhhh......eeeee..eeeeee..hhhhhh.hhhhhhhhh.......eeeeee.....hhhhhhhhhhhhh.hhh.eeeeee...hhhhhhhhhhhhhhhhhhhhhhh..hhh.eeeeeeeee......hhhhhhhhhhhhhhhhheeeeee...hhhhhhhhhhhh.....hhhhhhh.........hhhhh...eeeeee.....eeeee..hhhhhhhhh.ee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gvr B   1 MLSVNEIAAEIVEDMLDYEEELRIESKKLENGAIVVDCGVNVPGSYDAGIMYTQVCMGGLADVDIVVDTINDVPFAFVTEYTDHPAIACLGSQKAGWQIKVDKYFAMGSGPARALALKPKKTYERIEYEDDADVAVIALEANQLPDEKVMEFIAKECDVDPENVYALVAPTASIVGSVQISGRIVQTAIFKMNEIGYDPKLIVSGAGRCPISPILENDLKAMGSTNDSMMYYGSVFLTVKKYDEILKNVPSCTSRDYGKPFYEIFKAANYDFYKIDPNLFAPAQIAVNDLETGKTYVHGKLNAEVLFQSYQIVLE 315
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310     


Chain C from PDB  Type:PROTEIN  Length:315
                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains d4gvrc_ C: automated matches                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhh.eeee.....eeee.......hhhhhhhhhhhhh....eeeeeeeee..eeeeeeeeee.hhhhhhh......eeeee..eeeeee..hhhhhh.hhhhhhhhh.......eeeeee.....hhhhhhhhhhhhh.hhh.eeeeee...hhhhhhhhhhhhhhhhhhhhhhh..hhh.eeeeeeeee......hhhhhhhhhhhhhhhhheeeeee...hhhhhhhhhhhh.....hhhhhhhhh..hhhhhhhhhh...eeeeee.....eeeee..hhhhhhhhh.ee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gvr C   1 MLSVNEIAAEIVEDMLDYEEELRIESKKLENGAIVVDCGVNVPGSYDAGIMYTQVCMGGLADVDIVVDTINDVPFAFVTEYTDHPAIACLGSQKAGWQIKVDKYFAMGSGPARALALKPKKTYERIEYEDDADVAVIALEANQLPDEKVMEFIAKECDVDPENVYALVAPTASIVGSVQISGRIVQTAIFKMNEIGYDPKLIVSGAGRCPISPILENDLKAMGSTNDSMMYYGSVFLTVKKYDEILKNVPSCTSRDYGKPFYEIFKAANYDFYKIDPNLFAPAQIAVNDLETGKTYVHGKLNAEVLFQSYQIVLE 315
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310
   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  (1, 3)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Lys A:118 - Pro A:119   [ RasMol ]  
    Lys B:118 - Pro B:119   [ RasMol ]  
    Lys C:118 - Pro C:119   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        MCH_ARCFU | O28344: 4gvq 4gvs

(-) Related Entries Specified in the PDB File

4gvq 4gvs