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(-) Description

Title :  CRYSTAL STRUCTURE OF PENICILLIN V ACYLASE FROM BACILLUS SUBTILIS
 
Authors :  C. G. Suresh, P. Rathinaswamy, A. V. Pundle, A. A. Prabhune, H. Sivarama J. A. Brannigan, G. G. Dodson
Date :  31 Jan 07  (Deposition) - 15 Jan 08  (Release) - 16 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Biol. Unit 2:  A  (2x)
Biol. Unit 3:  B  (2x)
Keywords :  Ntn-Hydrolase, Penicillin V Acylase, Conjugated Bile Acid Hydrolase, Choloylglycine Hydrolase, Bacillus Subtilis, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. G. Suresh, P. Rathinaswamy, A. V. Pundle, A. A. Prabhune, H. Sivaraman, J. A. Brannigan, G. G. Dodson
Crystal Structure Of Penicillin V Acylase From Bacillus Subtilis
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PENICILLIN V ACYLASE
    Chains: A, B
    EC Number: 3.5.1.11
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET26B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: YXEI
    Organism Scientific: BACILLUS SUBTILIS
    Organism Taxid: 1423
    Strain: IG20

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB
Biological Unit 2 (2x): A 
Biological Unit 3 (2x):  B

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2OQC)

(-) Sites  (0, 0)

(no "Site" information available for 2OQC)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2OQC)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ser A:176 -Pro A:177
2Ser B:176 -Pro B:177

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2OQC)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2OQC)

(-) Exons   (0, 0)

(no "Exon" information available for 2OQC)

(-) 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:317
 aligned with Q2HPP6_BACIU | Q2HPP6 from UniProtKB/TrEMBL  Length:328

    Alignment length:327
                                    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       
         Q2HPP6_BACIU     2 CTSLTLETADRKHVLARTMDFAFQLGTEVILYPRRYSWNSEADGRAHQTQYAFIGMGRKLGNILFADGINESGLSCAALYFPGYAEYEKTIREDTVHIVPHEFVTWVLSVCQSLEDVKEKIRSLTIVEKKLDLLDTVLPLHWILSDRTGRNLTIEPRADGLKVYDNQPGVMTNSPDFIWHVTNLQQYTGIRPKQLESKEMGGLALSAFGQGLGTVGLPGDYTPPSRFVRAVYLKEHLEPAADETKGVTAAFQILANMTIPKGAVITEEDEIHYTQYTSVMCNETGNYYFHHYDNRQIQKVNLFHEDLDCLEPKVFSAKAEESIHELN 328
               SCOP domains d2oqca_ A: automated matches                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee.....eeeeeeeee......eeeee....eee......eee....eeeeeee...eee.eeee....eeeeee...............eeehhhhhhhhhhhhh.hhhhhhhhh..eee....hhhhh....eeeeee.....eeeeeee..eeeeee....ee....hhhhhhhhhhhhh........----------....hhhhh......hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhh................eeeeeeeee....eeeeee..eeeeeeee.hhh.......eee............ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2oqc A   1 CTSLTLETADRKHVLARTMDFAFQLGTEVILYPRRYSWNSEADGRAHQTQYAFIGMGRKLGNILFADGINESGLSCAALYFPGYAEYEKTIREDTVHIVPHEFVTWVLSVCQSLEDVKEKIRSLTIVEKKLDLLDTVLPLHWILSDRTGRNLTIEPRADGLKVYDNQPGVMTNSPDFIWHVTNLQQYTGIRPKQLE----------AFGQGLGTVGLPGDYTPPSRFVRAVYLKEHLEPAADETKGVTAAFQILANMTIPKGAVITEEDEIHYTQYTSVMCNETGNYYFHHYDNRQIQKVNLFHEDLDCLEPKVFSAKAEESIHELN 329
                                    10        20        30        40||      51        61  ||    72        82        92       102       112       122       132       142       152       162       172       182       192     |   -      |212       222       232       242       252       262       272       282       292       302       312       322       
                                                                   41|                   64|                                                                                                                                 198        209                                                                                                                        
                                                                    43                    66                                                                                                                                                                                                                                                                       


Chain A from PDB  Type:PROTEIN  Length:317
 aligned with YXEI_BACSU | P54948 from UniProtKB/Swiss-Prot  Length:328

    Alignment length:327
                                    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       
           YXEI_BACSU     2 CTSLTLETADRKHVLARTMDFAFQLGTEVILYPRRYSWNSEADGRAHQTQYAFIGMGRKLGNILFADGINESGLSCAALYFPGYAEYEKTIREDTVHIVPHEFVTWVLSVCQSLEDVKEKIRSLTIVEKKLDLLDTVLPLHWILSDRTGRNLTIEPRADGLKVYDNQPGVMTNSPDFIWHVTNLQQYTGIRPKQLESKEMGGLALSAFGQGLGTVGLPGDYTPPSRFVRAVYLKEHLEPAADETKGVTAAFQILANMTIPKGAVITEEDEIHYTQYTSVMCNETGNYYFHHYDNRQIQKVNLFHEDLDCLEPKVFSAKAEESIHELN 328
               SCOP domains d2oqca_ A: automated matches                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee.....eeeeeeeee......eeeee....eee......eee....eeeeeee...eee.eeee....eeeeee...............eeehhhhhhhhhhhhh.hhhhhhhhh..eee....hhhhh....eeeeee.....eeeeeee..eeeeee....ee....hhhhhhhhhhhhh........----------....hhhhh......hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhh................eeeeeeeee....eeeeee..eeeeeeee.hhh.......eee............ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2oqc A   1 CTSLTLETADRKHVLARTMDFAFQLGTEVILYPRRYSWNSEADGRAHQTQYAFIGMGRKLGNILFADGINESGLSCAALYFPGYAEYEKTIREDTVHIVPHEFVTWVLSVCQSLEDVKEKIRSLTIVEKKLDLLDTVLPLHWILSDRTGRNLTIEPRADGLKVYDNQPGVMTNSPDFIWHVTNLQQYTGIRPKQLE----------AFGQGLGTVGLPGDYTPPSRFVRAVYLKEHLEPAADETKGVTAAFQILANMTIPKGAVITEEDEIHYTQYTSVMCNETGNYYFHHYDNRQIQKVNLFHEDLDCLEPKVFSAKAEESIHELN 329
                                    10        20        30        40||      51        61  ||    72        82        92       102       112       122       132       142       152       162       172       182       192     |   -      |212       222       232       242       252       262       272       282       292       302       312       322       
                                                                   41|                   64|                                                                                                                                 198        209                                                                                                                        
                                                                    43                    66                                                                                                                                                                                                                                                                       


Chain B from PDB  Type:PROTEIN  Length:317
 aligned with Q2HPP6_BACIU | Q2HPP6 from UniProtKB/TrEMBL  Length:328

    Alignment length:327
                                    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       
         Q2HPP6_BACIU     2 CTSLTLETADRKHVLARTMDFAFQLGTEVILYPRRYSWNSEADGRAHQTQYAFIGMGRKLGNILFADGINESGLSCAALYFPGYAEYEKTIREDTVHIVPHEFVTWVLSVCQSLEDVKEKIRSLTIVEKKLDLLDTVLPLHWILSDRTGRNLTIEPRADGLKVYDNQPGVMTNSPDFIWHVTNLQQYTGIRPKQLESKEMGGLALSAFGQGLGTVGLPGDYTPPSRFVRAVYLKEHLEPAADETKGVTAAFQILANMTIPKGAVITEEDEIHYTQYTSVMCNETGNYYFHHYDNRQIQKVNLFHEDLDCLEPKVFSAKAEESIHELN 328
               SCOP domains d2oqcb_ B: automated matches                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) CBAH-2oqcB01 B:1-317                                                                                                                                                                                                                                                                                                       ------------ Pfam domains (1)
           Pfam domains (2) CBAH-2oqcB02 B:1-317                                                                                                                                                                                                                                                                                                       ------------ Pfam domains (2)
         Sec.struct. author ..eeeee.....eeeeeeeee......eeeee....eee......eee....eeeeeee...eee.eeee....eeeeee...............eeehhhhhhhhhhhhh.hhhhhhhhh..eee....hhhhh....eeeeee.....eeeeeee..eeeeee....ee....hhhhhhhhhhhhh........----------....hhhhh......hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh..............eeeeeeeee....eeeeee..eeeeeeee.hhh.......eee............ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2oqc B   1 CTSLTLETADRKHVLARTMDFAFQLGTEVILYPRRYSWNSEADGRAHQTQYAFIGMGRKLGNILFADGINESGLSCAALYFPGYAEYEKTIREDTVHIVPHEFVTWVLSVCQSLEDVKEKIRSLTIVEKKLDLLDTVLPLHWILSDRTGRNLTIEPRADGLKVYDNQPGVMTNSPDFIWHVTNLQQYTGIRPKQLE----------AFGQGLGTVGLPGDYTPPSRFVRAVYLKEHLEPAADETKGVTAAFQILANMTIPKGAVITEEDEIHYTQYTSVMCNETGNYYFHHYDNRQIQKVNLFHEDLDCLEPKVFSAKAEESIHELN 329
                                    10        20        30        40||      51        61  ||    72        82        92       102       112       122       132       142       152       162       172       182       192     |   -      |212       222       232       242       252       262       272       282       292       302       312       322       
                                                                   41|                   64|                                                                                                                                 198        209                                                                                                                        
                                                                    43                    66                                                                                                                                                                                                                                                                       


Chain B from PDB  Type:PROTEIN  Length:317
 aligned with YXEI_BACSU | P54948 from UniProtKB/Swiss-Prot  Length:328

    Alignment length:327
                                    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       
           YXEI_BACSU     2 CTSLTLETADRKHVLARTMDFAFQLGTEVILYPRRYSWNSEADGRAHQTQYAFIGMGRKLGNILFADGINESGLSCAALYFPGYAEYEKTIREDTVHIVPHEFVTWVLSVCQSLEDVKEKIRSLTIVEKKLDLLDTVLPLHWILSDRTGRNLTIEPRADGLKVYDNQPGVMTNSPDFIWHVTNLQQYTGIRPKQLESKEMGGLALSAFGQGLGTVGLPGDYTPPSRFVRAVYLKEHLEPAADETKGVTAAFQILANMTIPKGAVITEEDEIHYTQYTSVMCNETGNYYFHHYDNRQIQKVNLFHEDLDCLEPKVFSAKAEESIHELN 328
               SCOP domains d2oqcb_ B: automated matches                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) CBAH-2oqcB01 B:1-317                                                                                                                                                                                                                                                                                                       ------------ Pfam domains (1)
           Pfam domains (2) CBAH-2oqcB02 B:1-317                                                                                                                                                                                                                                                                                                       ------------ Pfam domains (2)
         Sec.struct. author ..eeeee.....eeeeeeeee......eeeee....eee......eee....eeeeeee...eee.eeee....eeeeee...............eeehhhhhhhhhhhhh.hhhhhhhhh..eee....hhhhh....eeeeee.....eeeeeee..eeeeee....ee....hhhhhhhhhhhhh........----------....hhhhh......hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh..............eeeeeeeee....eeeeee..eeeeeeee.hhh.......eee............ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2oqc B   1 CTSLTLETADRKHVLARTMDFAFQLGTEVILYPRRYSWNSEADGRAHQTQYAFIGMGRKLGNILFADGINESGLSCAALYFPGYAEYEKTIREDTVHIVPHEFVTWVLSVCQSLEDVKEKIRSLTIVEKKLDLLDTVLPLHWILSDRTGRNLTIEPRADGLKVYDNQPGVMTNSPDFIWHVTNLQQYTGIRPKQLE----------AFGQGLGTVGLPGDYTPPSRFVRAVYLKEHLEPAADETKGVTAAFQILANMTIPKGAVITEEDEIHYTQYTSVMCNETGNYYFHHYDNRQIQKVNLFHEDLDCLEPKVFSAKAEESIHELN 329
                                    10        20        30        40||      51        61  ||    72        82        92       102       112       122       132       142       152       162       172       182       192     |   -      |212       222       232       242       252       262       272       282       292       302       312       322       
                                                                   41|                   64|                                                                                                                                 198        209                                                                                                                        
                                                                    43                    66
   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, 2)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2OQC)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: NTN (93)

(-) Gene Ontology  (3, 5)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (YXEI_BACSU | P54948)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0016811    hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides    Catalysis of the hydrolysis of any non-peptide carbon-nitrogen bond in a linear amide.

Chain A,B   (Q2HPP6_BACIU | Q2HPP6)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0016811    hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides    Catalysis of the hydrolysis of any non-peptide carbon-nitrogen bond in a linear amide.
    GO:0008953    penicillin amidase activity    Catalysis of the reaction: penicillin + H2O = a carboxylate + 6-aminopenicillanate.

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 Related Entries

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