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(-) Description

Title :  CRYSTAL STRUCTURE OF METHENYLTETRAHYDROMETHANOPTERIN CYCLOHYDROLASE FROM METHANOBREVIBACTER RUMINANTIUM
 
Authors :  V. Carbone, L. R. Schofield, A. K. Beattie, A. J. Sutherland-Smith, R. S
Date :  10 Jun 12  (Deposition) - 24 Jul 13  (Release) - 24 Jul 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.37
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Methanogenesis, Hydrolysis, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. Carbone, L. R. Schofield, A. K. Beattie, A. J. Sutherland-Smith, R. S. Ronimus
The Crystal Structure Of Methenyltetrahydromethanopterin Cyclohydrolase From Methanobrevibacter Ruminantium: Implications For Substrate Binding Of N5-Formyl-5, 6, 7, 8-Tetrahydro-Methanopterin
To Be Published 2012
PubMed: search

(-) Compounds

Molecule 1 - METHENYLTETRAHYDROMETHANOPTERIN CYCLOHYDROLASE
    Chains: A, B, C
    EC Number: 3.5.4.27
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET151D
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: MCH, MRU_1619
    Organism Scientific: METHANOBREVIBACTER RUMINANTIUM
    Organism Taxid: 634498
    Strain: ATCC 35063 / DSM 1093 / JCM 13430 / M1
    Synonym: METHENYL-H4MPT CYCLOHYDROLASE

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 5)
No.NameCountTypeFull Name
1EEE2Ligand/IonETHYL ACETATE
2IPA3Ligand/IonISOPROPYL ALCOHOL

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:96 , LYS A:285 , PHE A:288 , HOH A:651BINDING SITE FOR RESIDUE EEE A 401
2AC2SOFTWAREILE A:182 , ARG A:185 , GLU A:188 , ASN A:189 , ASN A:229 , HOH A:603 , HOH A:665BINDING SITE FOR RESIDUE IPA A 402
3AC3SOFTWARELYS B:96 , GLU B:188 , TYR B:192 , IPA B:402 , IPA B:403 , HOH B:568BINDING SITE FOR RESIDUE EEE B 401
4AC4SOFTWAREEEE B:401 , HOH B:849BINDING SITE FOR RESIDUE IPA B 402
5AC5SOFTWAREARG B:185 , GLU B:188 , ASN B:189 , ASN B:229 , EEE B:401BINDING SITE FOR RESIDUE IPA B 403

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Lys A:120 -Pro A:121
2Lys B:120 -Pro B:121
3Lys C:120 -Pro C:121

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4FIO)

(-) 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:321
                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains d4fioa_ A: automated matches                                                                                                                                                                                                                                                                                                      SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhh......eeee.....eeee.......hhhhhhhhhhhhh....eeeee............eeeeee.hhhhhhh......eeeee..eeeeee..hhhhhh.hhhhhhhhh.......eeeeee.....hhhhhhhhhhhhh.hhh.eeeeee...hhhhhhhhhhhhhhhhhhhhhhh...hhh.eeeeeeeee......hhhhhhhhhhhhhhhhheeeeee......hhhhhhhhhhhhhh.....hhhhhhhhh..hhhhhhhhhh...eeeeee.....eeeee..hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fio A   1 MVSVNLEAKKTVDVMIEKADDLNIAVSKLENGATVIDCGVNVAGSFKAGELYTKVCLGGLADVGISIPGDLSEKFALPSVKIKTDFPAISTLGAQKAGWSVSVGDFFALGSGPARALSLKPAETYEEIDYKDEADLAILTLEADVLPGEDVAQYIADECGVDVANVFLLVAPTASLVGSIQIAGRVVENGTYKMLEFLKFDVKKVVHAAGIAPIAPIDPDGLKAMGKTNDAVLFGGRTYYYVKSEEGDDIAAVAAQLPSSAADGYGKPFFDVFKDAGFDFYQIDKGMFAPAEVVINDLTTGKLYKEGFVNAELLKKSFGIE 321
                                    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       320 


Chain B from PDB  Type:PROTEIN  Length:320
                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains d4fiob_ B: automated matches                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh.eeee.....eeee.......hhhhhhhhhhhhh....eeeee............eeeeee.hhhhhhh......eeeee..eeeeee..hhhhhh.hhhhhhhhh.......eeeeee.....hhhhhhhhhhhhh.hhh.eeeeee...hhhhhhhhhhhhhhhhhhhhhhh...hhh.eeeeeeeee......hhhhhhhhhhhhhhhhheeeeee......hhhhhhhhhhhhhh.....hhhhhhhhh..hhhhhhhhhh...eeeeee.....eeeee..hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fio B   2 VSVNLEAKKTVDVMIEKADDLNIAVSKLENGATVIDCGVNVAGSFKAGELYTKVCLGGLADVGISIPGDLSEKFALPSVKIKTDFPAISTLGAQKAGWSVSVGDFFALGSGPARALSLKPAETYEEIDYKDEADLAILTLEADVLPGEDVAQYIADECGVDVANVFLLVAPTASLVGSIQIAGRVVENGTYKMLEFLKFDVKKVVHAAGIAPIAPIDPDGLKAMGKTNDAVLFGGRTYYYVKSEEGDDIAAVAAQLPSSAADGYGKPFFDVFKDAGFDFYQIDKGMFAPAEVVINDLTTGKLYKEGFVNAELLKKSFGIE 321
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321


Chain C from PDB  Type:PROTEIN  Length:319
                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains d4fioc_ C: automated matches                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh.eeee.....eeee.......hhhhhhhhhhhhh....eeeee............eeeeee.hhhhhhh......eeeee..eeeeee..hhhhhh.hhhhhhhh........eeeeee.....hhhhhhhhhhhhh.hhh.eeeeee...hhhhhhhhhhhhhhhhhhhhhhh...hhh.eeeeeeeee......hhhhhhhhhhhhhhhhheeeeee......hhhhhhhhhhhhhh.....hhhhhhhhh..hhhhhhhhhh...eeeeee.....eeeee..hhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fio C   2 VSVNLEAKKTVDVMIEKADDLNIAVSKLENGATVIDCGVNVAGSFKAGELYTKVCLGGLADVGISIPGDLSEKFALPSVKIKTDFPAISTLGAQKAGWSVSVGDFFALGSGPARALSLKPAETYEEIDYKDEADLAILTLEADVLPGEDVAQYIADECGVDVANVFLLVAPTASLVGSIQIAGRVVENGTYKMLEFLKFDVKKVVHAAGIAPIAPIDPDGLKAMGKTNDAVLFGGRTYYYVKSEEGDDIAAVAAQLPSSAADGYGKPFFDVFKDAGFDFYQIDKGMFAPAEVVINDLTTGKLYKEGFVNAELLKKSFGI 320
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311
   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 4FIO)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)

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1qlm STRUCTURALY RELATED ENZYME