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(-) Description

Title :  CRYSTAL STRUCTURE OF A LOOP TRUNCATION VARIANT OF THERMOTOGA MARITIMA ACETYL ESTERASE TM0077 (APO STRUCTURE) AT 2.75 ANGSTROM RESOLUTION
 
Authors :  N. Manoj, M. K. Singh
Date :  07 Jan 16  (Deposition) - 25 May 16  (Release) - 25 May 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.75
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Hydrolase, Carbohydrate Metabolism, Cephalosporin C Deacetylase, Rossmann Fold (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. K. Singh, N. Manoj
An Extended Loop In Ce7 Carbohydrate Esterase Family Is Dispensable For Oligomerization But Required For Activity And Thermostability
J. Struct. Biol. V. 194 434 2016
PubMed-ID: 27085421  |  Reference-DOI: 10.1016/J.JSB.2016.04.008

(-) Compounds

Molecule 1 - CEPHALOSPORIN-C DEACETYLASE
    Chains: A, B, C, D, E, F
    EC Number: 3.1.1.41, 3.1.1.72
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PMH1
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: RIL
    Expression System Vector Type: PLASMID
    Gene: AXEA, TM_0077
    Mutation: YES
    Organism Scientific: THERMOTOGA MARITIMA (STRAIN ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)
    Organism Taxid: 243274
    Other Details: THE CRYSTALLIZED CONSTRUCT IS A TRUNCATED MUTANT CONTAINING A DELETION OF RESIDUE NUMBERS 120-145 OF THE FULL LENGTH PROTEIN.
    Strain: ATCC 43589 / MSB8 / DSM 3109 / JCM 10099
    Synonym: ACETYLXYLAN ESTERASE

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABCDEF

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 5HFN)

(-) Sites  (0, 0)

(no "Site" information available for 5HFN)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5HFN)

(-) Cis Peptide Bonds  (6, 11)

Asymmetric/Biological Unit
No.Residues
1His A:227 -Pro A:228
2His B:227 -Pro B:228
3His C:227 -Pro C:228
4His D:227 -Pro D:228
5His E:227 -Pro E:228
6His F:227 -Pro F:228

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5HFN)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5HFN)

(-) Exons   (0, 0)

(no "Exon" information available for 5HFN)

(-) 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:280
                                                                                                                                                                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhh..........hhhhhhhhhhhhhhh.....eeee.......eeeeeeeee.hhh.eeeeeeeee......eeeeeee....hhhhhhhhhhh..eeeee...hhhhhhhhhhhhhhhhh...eeeeeeeeeeehhhhhhhhhhhhhh....eeeee.....hhhhhhhhh....hhhhhhhhhhh..hhhhhhhhhhh.hhhhhhh.....eeeeee......hhhhhhhhhhhh...eeeeee.......hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hfn A   2 AFFDLPLEELKKYRPERYEEKDFDEFWEETLAESEKFPLDPVFERMESHLKTVEAYDVTFSGYRGQRIKGWLLVPKLEEEKLPCVVQYIGRGFPHDWLFWPSMGYICFVMDTYYRRVFTDAVRAVEAAASFPQVDQERIVIAGGSQGGGIALAVSALSKKAKALLCDVPFLCHFRRAVQLVDTHPYAEITNFLKTHRDKEEIVFRTLSYFDGVNFAARAKIPALFSVGLMDNICPPSTVFAAYNYYAGPKEIRIYPYNNHEGGGSFQAVEQVKFLKKLFE 323
                                    11        21        31        41        51        61        71        81        95       105       115 ||    163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323
                                                                                                                   90|                   117|                                                                                                                                                                       
                                                                                                                    95                    156                                                                                                                                                                       


Chain B from PDB  Type:PROTEIN  Length:278
                                                                                                                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhh........hhhhhhhhhhhhhhh.....eeee.......eeeeeeeee.hhh.eeeeeeeee......eeeeeeee..hhhhhhhhhhh..eeeeee...hhhhhhhhhhhhhhhhh...eeeeeeeeeeehhhhhhhhhhhhhh....eeeee.....hhhhhhhhh....hhhhhhhhhhh..hhhhhhhhhhh.hhhhhhh.....eeeeee......hhhhhhhhhhhh...eeeeee.......hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hfn B   4 FDLPLEELKKYRPERYEEKDFDEFWEETLAESEKFPLDPVFERMESHLKTVEAYDVTFSGYRGQRIKGWLLVPKLEEEKLPCVVQYIRGFPHDWLFWPSMGYICFVMDTRYYRRVFTDAVRAVEAAASFPQVDQERIVIAGGSQGGGIALAVSALSKKAKALLCDVPFLCHFRRAVQLVDTHPYAEITNFLKTHRDKEEIVFRTLSYFDGVNFAARAKIPALFSVGLMDNICPPSTVFAAYNYYAGPKEIRIYPYNNHEGGGSFQAVEQVKFLKKLFE 323
                                    13        23        33        43        53        63        73        83      ||98       108       118|      165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315        
                                                                                                                 90|                   118|                                                                                                                                                                       
                                                                                                                  96                    156                                                                                                                                                                       


Chain C from PDB  Type:PROTEIN  Length:279
                                                                                                                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhh.........hhhhhhhhhhhhhhh.....eeee.......eeeeeeeee.hhh.eeeeeeeee......eeeeeee...hhhhhhhhhhh..eeeee....hhhhhhhhhhhhhhhhh...eeeeeeeeeeehhhhhhhhhhhhhh....eeeee.....hhhhhhhhh....hhhhhhhhhhh..hhhhhhhhhhh.hhhhhhh.....eeeeee......hhhhhhhhhhhh...eeeeee.......hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hfn C   3 FFDLPLEELKKYRPERYEEKDFDEFWEETLAESEKFPLDPVFERMESHLKTVEAYDVTFSGYRGQRIKGWLLVPKLEEEKLPCVVQYIRGFPHDWLFWPSMGYICFVMDTRYYRRVFTDAVRAVEAAASFPQVDQERIVIAGGSQGGGIALAVSALSKKAKALLCDVPFLCHFRRAVQLVDTHPYAEITNFLKTHRDKEEIVFRTLSYFDGVNFAARAKIPALFSVGLMDNICPPSTVFAAYNYYAGPKEIRIYPYNNHEGGGSFQAVEQVKFLKKLFE 323
                                    12        22        32        42        52        62        72        82       |97       107       117||     164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314         
                                                                                                                  90|                   118|                                                                                                                                                                       
                                                                                                                   96                    156                                                                                                                                                                       


Chain D from PDB  Type:PROTEIN  Length:283
                                                                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhh.........hhhhhhhhhhhhhhh.....eeee.......eeeeeeeee.hhh.eeeeeeeee......eeeeeee...hhhhhhhhhhh..eeeee...hhhhhhhhhhhhhhhhh...eeeeeeeeeeehhhhhhhhhhhhhh....eeeee.....hhhhhhhhh....hhhhhhhhhhh..hhhhhhhhhhh.hhhhhhh.....eeeeee......hhhhhhhhhhhh...eeeeee.......hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hfn D  -2 HHHMAFFDLPLEELKKYRPERYEEKDFDEFWEETLAESEKFPLDPVFERMESHLKTVEAYDVTFSGYRGQRIKGWLLVPKLEEEKLPCVVQYIRGFPHDWLFWPSMGYICFVMDTYYRRVFTDAVRAVEAAASFPQVDQERIVIAGGSQGGGIALAVSALSKKAKALLCDVPFLCHFRRAVQLVDTHPYAEITNFLKTHRDKEEIVFRTLSYFDGVNFAARAKIPALFSVGLMDNICPPSTVFAAYNYYAGPKEIRIYPYNNHEGGGSFQAVEQVKFLKKLFE 323
                                     7        17        27        37        47        57        67        77        87  ||   102       112    || 160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320   
                                                                                                                       90|                  117|                                                                                                                                                                       
                                                                                                                        96                   156                                                                                                                                                                       


Chain E from PDB  Type:PROTEIN  Length:279
                                                                                                                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhh.........hhhhhhhhhhhhhhh.....eeee.......eeeeeeeee.hhh.eeeeeeeee......eeeeeee...hhhhhhhhhhh..eeeee...hhhhhhhhhhhhhhhhh...eeeeeeeeeeehhhhhhhhhhhhhh....eeeee.....hhhhhhhhh....hhhhhhhhhhh..hhhhhhhhhhh.hhhhhhh.....eeeeee......hhhhhhhhhhhh...eeeeee.......hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hfn E   2 AFFDLPLEELKKYRPERYEEKDFDEFWEETLAESEKFPLDPVFERMESHLKTVEAYDVTFSGYRGQRIKGWLLVPKLEEEKLPCVVQYIRGFPHDWLFWPSMGYICFVMDTYYRRVFTDAVRAVEAAASFPQVDQERIVIAGGSQGGGIALAVSALSKKAKALLCDVPFLCHFRRAVQLVDTHPYAEITNFLKTHRDKEEIVFRTLSYFDGVNFAARAKIPALFSVGLMDNICPPSTVFAAYNYYAGPKEIRIYPYNNHEGGGSFQAVEQVKFLKKLFE 323
                                    11        21        31        41        51        61        71        81        96       106       116||     164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314         
                                                                                                                   90|                  117|                                                                                                                                                                       
                                                                                                                    96                   156                                                                                                                                                                       


Chain F from PDB  Type:PROTEIN  Length:279
                                                                                                                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhh.........hhhhhhhhhhhhhhh.....eeee.......eeeeeeeee.hhh.eeeeeeeee......eeeeeee....hhhhhhhhhhh..eeeee....hhhhhhhhhhhhhhhhh...eeeeeeeeeeehhhhhhhhhhhhhh....eeeee.....hhhhhhhhh....hhhhhhhhhhh..hhhhhhhhhhh.hhhhhhh.....eeeeee......hhhhhhhhhhhh...eeeeee.......hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hfn F   4 FDLPLEELKKYRPERYEEKDFDEFWEETLAESEKFPLDPVFERMESHLKTVEAYDVTFSGYRGQRIKGWLLVPKLEEEKLPCVVQYIGRGFPHDWLFWPSMGYICFVMDTRYYRRVFTDAVRAVEAAASFPQVDQERIVIAGGSQGGGIALAVSALSKKAKALLCDVPFLCHFRRAVQLVDTHPYAEITNFLKTHRDKEEIVFRTLSYFDGVNFAARAKIPALFSVGLMDNICPPSTVFAAYNYYAGPKEIRIYPYNNHEGGGSFQAVEQVKFLKKLFE 323
                                    13        23        33        43        53        63        73        83      ||97       107       117||     164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314         
                                                                                                                 90|                    118|                                                                                                                                                                       
                                                                                                                  95                     156
   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 5HFN)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5HFN)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5HFN)

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    His A:227 - Pro A:228   [ RasMol ]  
    His B:227 - Pro B:228   [ RasMol ]  
    His C:227 - Pro C:228   [ RasMol ]  
    His D:227 - Pro D:228   [ RasMol ]  
    His E:227 - Pro E:228   [ RasMol ]  
    His F:227 - Pro F:228   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        CAH_THEMA | Q9WXT2: 1vlq 3m81 3m82 3m83 5fdf 5gma 5jib

(-) Related Entries Specified in the PDB File

1vlq 1VLQ CONTAINS THE SAME FULL LENGTH SELENOMETHIONINE PROTEIN IN A DIFFERENT CRYSTAL FORM (APO STRUCTURE)
3m81 3M81 CONTAINS THE SAME FULL LENGTH NATIVE PROTEIN IN A DIFFERENT CRYSTAL FORM (APO STRUCTURE)
3m82 3M82 CONTAINS THE SAME FULL LENGTH NATIVE PROTEIN COMPLEXED WITH AS PMSF INHIBITOR
3m83 3M83 CONTAINS THE SAME FULL LENGTH NATIVE PROTEIN COMPLEXED WITH PARAOXON INHIBITOR
5fdf 5FDF CONTAINS THE FULL LENGTH NATIVE PROTEIN IN A DIFFERENT CRYSTAL FORM (APO STRUCTURE)