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(-) Description

Title :  CRYSTAL STRUCTURE OF MONOCLINIC FORM OF GENOMICALLY ENCODED FOSFOMYCIN RESISTANCE PROTEIN, FOSX, FROM LISTERIA MONOCYTOGENES AT PH 6.5
 
Authors :  K. L. Fillgrove, S. Pakhomova, M. Schaab, M. E. Newcomer, R. N. Armstron
Date :  20 Mar 07  (Deposition) - 17 Jul 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F  (1x)
Biol. Unit 4:  A (1x),B (1x),C (1x),D (1x),E (1x),F (1x)
Keywords :  Fosfomycin Resistance Protein, Mn Binding, Antibiotic Resistance, Metal Binding Protein, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. L. Fillgrove, S. Pakhomova, M. R. Schaab, M. E. Newcomer, R. N. Armstrong
Structure And Mechanism Of The Genomically Encoded Fosfomycin Resistance Protein, Fosx, From Listeria Monocytogenes.
Biochemistry V. 46 8110 2007
PubMed-ID: 17567049  |  Reference-DOI: 10.1021/BI700625P

(-) Compounds

Molecule 1 - GLYOXALASE FAMILY PROTEIN
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET20B(+)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: LISTERIA MONOCYTOGENES
    Organism Taxid: 169963
    Strain: EGD-E

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): AB    
Biological Unit 2 (1x):   CD  
Biological Unit 3 (1x):     EF
Biological Unit 4 (1x): A (1x)B (1x)C (1x)D (1x)E (1x)F (1x)

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2P7M)

(-) Sites  (0, 0)

(no "Site" information available for 2P7M)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2P7M)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2P7M)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2P7M)

(-) PROSITE Motifs  (1, 6)

Asymmetric Unit (1, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1VOCPS51819 Vicinal oxygen chelate (VOC) domain profile.FOSX_LISMO4-122
 
 
 
 
 		  6A:4-122
B:4-122
C:4-122
D:4-122
E:4-122
F:4-122
Biological Unit 1 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1VOCPS51819 Vicinal oxygen chelate (VOC) domain profile.FOSX_LISMO4-122
 
 
 
 
 		  2A:4-122
B:4-122
-
-
-
-
Biological Unit 2 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1VOCPS51819 Vicinal oxygen chelate (VOC) domain profile.FOSX_LISMO4-122
 
 
 
 
 		  2-
-
C:4-122
D:4-122
-
-
Biological Unit 3 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1VOCPS51819 Vicinal oxygen chelate (VOC) domain profile.FOSX_LISMO4-122
 
 
 
 
 		  2-
-
-
-
E:4-122
F:4-122
Biological Unit 4 (1, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1VOCPS51819 Vicinal oxygen chelate (VOC) domain profile.FOSX_LISMO4-122
 
 
 
 
 		  6A:4-122
B:4-122
C:4-122
D:4-122
E:4-122
F:4-122

(-) Exons   (0, 0)

(no "Exon" information available for 2P7M)

(-) 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:127
 aligned with FOSX_LISMO | Q8Y6I2 from UniProtKB/Swiss-Prot  Length:133

    Alignment length:131
                                    10        20        30        40        50        60        70        80        90       100       110       120       130 
           FOSX_LISMO     1 MISGLSHITLIVKDLNKTTTFLREIFNAEEIYSSGDQTFSLSKEKFFLIAGLWICIMEGDSLQEQTYNHIAFRIQSEEVDEYIERIKSLGVEIKPERPRVEGEGRSIYFYDFDNHLFELHAGTLEERLKRY 131
               SCOP domains d2p7ma_ A: automated matches                                                                                                        SCOP domains
               CATH domains 2p7mA00 A:1-131 2,3-Dihydroxybiphe    nyl 1,2-Dioxygenase, domain 1                                                                 CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeee.hhhhhhhhhhhhh..eeeee.----.....eeeeee..eeeeeee..........eeeee.hhhhhhhhhhhhhhh................eeeee.....eeeee..hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---VOC  PDB: A:4-122 UniProt: 4-122                                                                                       --------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2p7m A   1 MISGLSHITLIVKDLNKTTAFLQNIFNAEEIYSS----FSLSKEKFFLIAGLWICIMEGDSLQERTYNHIAFQIQSEEVDEYTERIKALGVEMKPERPRVQGEGRSIYFYDFDNHLFELHAGTLEERLKRY 131
                                    10        20        30   |    40        50        60        70        80        90       100       110       120       130 
                                                            34   39                                                                                            


Chain B from PDB  Type:PROTEIN  Length:122
 aligned with FOSX_LISMO | Q8Y6I2 from UniProtKB/Swiss-Prot  Length:133

    Alignment length:130
                                    10        20        30        40        50        60        70        80        90       100       110       120       130
           FOSX_LISMO     1 MISGLSHITLIVKDLNKTTTFLREIFNAEEIYSSGDQTFSLSKEKFFLIAGLWICIMEGDSLQEQTYNHIAFRIQSEEVDEYIERIKSLGVEIKPERPRVEGEGRSIYFYDFDNHLFELHAGTLEERLKR 130
               SCOP domains d2p7mb_ B: automated matches                                                                                                       SCOP domains
               CATH domains 2p7mB00 B:1-130 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1                                                                    CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeee.hhhhhhhhhhhhhh.eeeeeeeehhhheeeeeeeee..eeeeeee..........eeeeeehhhhhhhhhhhhhh......--------...eeeee.....eeeeee.hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---VOC  PDB: B:4-122 UniProt: 4-122                                                                                       -------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2p7m B   1 MISGLSHITLIVKDLNKTTAFLQNIFNAEEIYSSGDKTFSLSKEKFFLIAGLWICIMEGDSLQERTYNHIAFQIQSEEVDEYTERIKALGVEMK--------EGRSIYFYDFDNHLFELHAGTLEERLKR 130
                                    10        20        30        40        50        60        70        80        90   |     -  |    110       120       130
                                                                                                                        94      103                           


Chain C from PDB  Type:PROTEIN  Length:129
 aligned with FOSX_LISMO | Q8Y6I2 from UniProtKB/Swiss-Prot  Length:133

    Alignment length:129
                                    10        20        30        40        50        60        70        80        90       100       110       120         
           FOSX_LISMO     1 MISGLSHITLIVKDLNKTTTFLREIFNAEEIYSSGDQTFSLSKEKFFLIAGLWICIMEGDSLQEQTYNHIAFRIQSEEVDEYIERIKSLGVEIKPERPRVEGEGRSIYFYDFDNHLFELHAGTLEERLK 129
               SCOP domains d2p7mc_ C: automated matches                                                                                                      SCOP domains
               CATH domains 2p7mC00 C:1-129 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1                                                                   CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeee.hhhhhhhhhhhhhh.eeeeeeeehhhheeeeeeeee..eeeeeee..........eeeee.hhhhhhhhhhhhhhh................eeeee.....eeeee..hhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---VOC  PDB: C:4-122 UniProt: 4-122                                                                                       ------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2p7m C   1 MISGLSHITLIVKDLNKTTAFLQNIFNAEEIYSSGDKTFSLSKEKFFLIAGLWICIMEGDSLQERTYNHIAFQIQSEEVDEYTERIKALGVEMKPERPRVQGEGRSIYFYDFDNHLFELHAGTLEERLK 129
                                    10        20        30        40        50        60        70        80        90       100       110       120         


Chain D from PDB  Type:PROTEIN  Length:125
 aligned with FOSX_LISMO | Q8Y6I2 from UniProtKB/Swiss-Prot  Length:133

    Alignment length:131
                                    10        20        30        40        50        60        70        80        90       100       110       120       130 
           FOSX_LISMO     1 MISGLSHITLIVKDLNKTTTFLREIFNAEEIYSSGDQTFSLSKEKFFLIAGLWICIMEGDSLQEQTYNHIAFRIQSEEVDEYIERIKSLGVEIKPERPRVEGEGRSIYFYDFDNHLFELHAGTLEERLKRY 131
               SCOP domains d2p7md_ D: automated matches                                                                                                        SCOP domains
               CATH domains 2p7mD00 D:1-131 2,3-Dihydroxybipheny      l 1,2-Dioxygenase, domain 1                                                               CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeee.hhhhhhhhhhhhhh.eeee....------.eeeeee..eeeeeee..........eeeeeehhhhhhhhhhhhhh....ee..........eeeeee.....eeeeee.hhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---VOC  PDB: D:4-122 UniProt: 4-122                                                                                       --------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2p7m D   1 MISGLSHITLIVKDLNKTTAFLQNIFNAEEIYSSGD------KEKFFLIAGLWICIMEGDSLQERTYNHIAFQIQSEEVDEYTERIKALGVEMKPERPRVQGEGRSIYFYDFDNHLFELHAGTLEERLKRY 131
                                    10        20        30     |   -  |     50        60        70        80        90       100       110       120       130 
                                                              36     43                                                                                        


Chain E from PDB  Type:PROTEIN  Length:128
 aligned with FOSX_LISMO | Q8Y6I2 from UniProtKB/Swiss-Prot  Length:133

    Alignment length:128
                                    10        20        30        40        50        60        70        80        90       100       110       120        
           FOSX_LISMO     1 MISGLSHITLIVKDLNKTTTFLREIFNAEEIYSSGDQTFSLSKEKFFLIAGLWICIMEGDSLQEQTYNHIAFRIQSEEVDEYIERIKSLGVEIKPERPRVEGEGRSIYFYDFDNHLFELHAGTLEERL 128
               SCOP domains d2p7me_ E: automated matches                                                                                                     SCOP domains
               CATH domains 2p7mE00 E:1-128 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1                                                                  CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeee.hhhhhhhhhhhhh..eeeeeeeehhhheeeeeeeee..eeeeeee..........eeeee.hhhhhhhhhhhhhhhh...............eeeee.....eeeee..hhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---VOC  PDB: E:4-122 UniProt: 4-122                                                                                       ------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2p7m E   1 MISGLSHITLIVKDLNKTTAFLQNIFNAEEIYSSGDKTFSLSKEKFFLIAGLWICIMEGDSLQERTYNHIAFQIQSEEVDEYTERIKALGVEMKPERPRVQGEGRSIYFYDFDNHLFELHAGTLEERL 128
                                    10        20        30        40        50        60        70        80        90       100       110       120        


Chain F from PDB  Type:PROTEIN  Length:130
 aligned with FOSX_LISMO | Q8Y6I2 from UniProtKB/Swiss-Prot  Length:133

    Alignment length:130
                                    10        20        30        40        50        60        70        80        90       100       110       120       130
           FOSX_LISMO     1 MISGLSHITLIVKDLNKTTTFLREIFNAEEIYSSGDQTFSLSKEKFFLIAGLWICIMEGDSLQEQTYNHIAFRIQSEEVDEYIERIKSLGVEIKPERPRVEGEGRSIYFYDFDNHLFELHAGTLEERLKR 130
               SCOP domains d2p7mf_ F: automated matches                                                                                                       SCOP domains
               CATH domains 2p7mF00 F:1-130 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1                                                                    CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeee.hhhhhhhhhhhhhh.eeeeeeeehhhheeeeeeeee..eeeeeee..........eeeeeehhhhhhhhhhhhhhh...ee..........eeeeee.....eeeeee.hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---VOC  PDB: F:4-122 UniProt: 4-122                                                                                       -------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2p7m F   1 MISGLSHITLIVKDLNKTTAFLQNIFNAEEIYSSGDKTFSLSKEKFFLIAGLWICIMEGDSLQERTYNHIAFQIQSEEVDEYTERIKALGVEMKPERPRVQGEGRSIYFYDFDNHLFELHAGTLEERLKR 130
                                    10        20        30        40        50        60        70        80        90       100       110       120       130
   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, 6)

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

(-) CATH Domains  (1, 6)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2P7M)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (FOSX_LISMO | Q8Y6I2)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0046677    response to antibiotic    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antibiotic stimulus. An antibiotic is a chemical substance produced by a microorganism which has the capacity to inhibit the growth of or to kill other microorganisms.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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  2p7m
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 Related Entries

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

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        FOSX_LISMO | Q8Y6I2: 2p7k 2p7l 2p7o 2p7p

(-) Related Entries Specified in the PDB File

2p7k CRYSTAL STRUCTURE OF GENOMICALLY ENCODED FOSFOMYCIN RESISTANCE PROTEIN, FOSX, FROM LISTERIA MONOCYTOGENES (HEXAGONAL FORM)
2p7l CRYSTAL STRUCTURE OF GENOMICALLY ENCODED FOSFOMYCIN RESISTANCE PROTEIN, FOSX, FROM LISTERIA MONOCYTOGENES (MONOCLINIC FORM GROWN AT PH 5.75)
2p7o CRYSTAL STRUCTURE OF GENOMICALLY ENCODED FOSFOMYCIN RESISTANCE PROTEIN, FOSX, FROM LISTERIA MONOCYTOGENES (TETRAGONAL FORM)
2p7p CRYSTAL STRUCTURE OF GENOMICALLY ENCODED FOSFOMYCIN RESISTANCE PROTEIN, FOSX, FROM LISTERIA MONOCYTOGENES COMPLEXED WITH MN(II) AND SULFATE ION
2p7q CRYSTAL STRUCTURE OF E126Q MUTANT OF GENOMICALLY ENCODED FOSFOMYCIN RESISTANCE PROTEIN, FOSX, FROM LISTERIA MONOCYTOGENES COMPLEXED WITH MN(II) AND 1S,2S- DIHYDROXYPROPYLPHOSPHONIC ACID