Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Biol.Unit 1 - manually
(-)Asym.Unit - manually
(-)Asymmetric Unit
(-)Asym. Unit - sites
(-)Biological Unit 1
(-)Biol. Unit 1 - sites
(-)Biological Unit 2
(-)Biological Unit 3
collapse expand < >
Image Biol.Unit 1 - manually
Biol.Unit 1 - manually  (Jmol Viewer)
Image Asym.Unit - manually
Asym.Unit - manually  (Jmol Viewer)
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Asym. Unit - sites
Asym. Unit - sites  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biol. Unit 1 - sites
Biol. Unit 1 - sites  (Jmol Viewer)
Image Biological Unit 2
Biological Unit 2  (Jmol Viewer)
Image Biological Unit 3
Biological Unit 3  (Jmol Viewer)

(-) Description

Title :  THE CRYSTAL STRUCTURE OF THE FIRST ENZYME OF PANTOTHENATE BIOSYNTHETIC PATHWAY, KETOPANTOATE HYDROXYMETHYLTRANSFERASE FROM MYCOBACTERIUM TUBERCULOSIS SHOWS A DECAMERIC ASSEMBLY AND TERMINAL HELIX-SWAPPING
 
Authors :  B. N. Chaudhuri, M. R. Sawaya, C. Y. Kim, G. S. Waldo, M. S. Park, T. C. Terw T. O. Yeates, Tb Structural Genomics Consortium (Tbsgc)
Date :  03 Apr 03  (Deposition) - 15 Jul 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym. Unit :  A,B,C,D,E
Biol. Unit 1:  A,B,C,D,E  (2x)
Biol. Unit 2:  C (1x),E (1x)
Biol. Unit 3:  A (1x),D (1x)
Keywords :  Domain Swapping, Structural Genomics, Psi, Protein Structure Initiative, Tb Structural Genomics Consortium, Tbsgc, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. N. Chaudhuri, M. R. Sawaya, C. Y. Kim, G. S. Waldo, M. S. Park, T. C. Terwilliger, T. O. Yeates
The Crystal Structure Of The First Enzyme In The Pantothenate Biosynthetic Pathway, Ketopantoate Hydroxymethyltransferase, From M. Tuberculosis
Structure V. 11 753 2003
PubMed-ID: 12842039  |  Reference-DOI: 10.1016/S0969-2126(03)00106-0

(-) Compounds

Molecule 1 - KETOPANTOATE HYDROXYMETHYLTRANSFERASE
    Chains: A, B, C, D, E
    EC Number: 2.1.2.11
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: PANB
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 1773
    Synonym: 3-METHYL-2-OXOBUTANOATE HYDROXYMETHYLTRANSFERASE;
PANB

 Structural Features

(-) Chains, Units

  12345
Asymmetric Unit : ABCDE
Biological Unit 1 (2x): ABCDE
Biological Unit 2 (1x):   C (1x) E (1x)
Biological Unit 3 (1x): A (1x)  D (1x) 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 5)

Asymmetric Unit (1, 5)
No.NameCountTypeFull Name
1MG5Ligand/IonMAGNESIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:62 , GLU A:133 , HOH A:914 , HOH A:928BINDING SITE FOR RESIDUE MG A 901
2AC2SOFTWAREASP B:62 , GLU B:133 , HOH B:911 , HOH B:920BINDING SITE FOR RESIDUE MG B 902
3AC3SOFTWAREASP C:62 , GLU C:133 , HOH C:914 , HOH C:922BINDING SITE FOR RESIDUE MG C 903
4AC4SOFTWAREASP D:62 , GLU D:133 , HOH D:917 , HOH D:923BINDING SITE FOR RESIDUE MG D 904
5AC5SOFTWAREASP E:62 , GLU E:133 , HOH E:924BINDING SITE FOR RESIDUE MG E 905

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1OY0)

(-) Cis Peptide Bonds  (5, 5)

Asymmetric Unit
No.Residues
1Phe A:274 -Pro A:275
2Phe B:274 -Pro B:275
3Phe C:274 -Pro C:275
4Phe D:274 -Pro D:275
5Phe E:274 -Pro E:275

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1OY0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1OY0)

(-) Exons   (0, 0)

(no "Exon" information available for 1OY0)

(-) 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:248
 aligned with PANB_MYCTO | P9WIL6 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:262
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277  
           PANB_MYCTO    18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTPQSVNTLGGFRVQGRGDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
               SCOP domains d1oy0a_ A: Ketopantoate hydroxymethyltransferase PanB                                                                                                                                                                                                                  SCOP domains
               CATH domains 1oy0A00 A:18-279 Phosphoenolpyruvate-binding domains                                                                                                                                                                                                                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhh..eeeee..hhhhhhhhhh....eeee..hhhhhh.........hhhhhhhhhhhhhhhh...eeeee........hhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhh..eeeeee...--------------hhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhh...eeee.......eeeehhhhhh...............hhhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oy0 A  18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTP--------------GDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157  |      -       177       187       197       207       217       227       237       247       257       267       277  
                                                                                                                                                                        160            175                                                                                                        


Chain A from PDB  Type:PROTEIN  Length:248
 aligned with PANB_MYCTU | P9WIL7 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:262
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277  
           PANB_MYCTU    18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTPQSVNTLGGFRVQGRGDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
               SCOP domains d1oy0a_ A: Ketopantoate hydroxymethyltransferase PanB                                                                                                                                                                                                                  SCOP domains
               CATH domains 1oy0A00 A:18-279 Phosphoenolpyruvate-binding domains                                                                                                                                                                                                                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhh..eeeee..hhhhhhhhhh....eeee..hhhhhh.........hhhhhhhhhhhhhhhh...eeeee........hhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhh..eeeeee...--------------hhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhh...eeee.......eeeehhhhhh...............hhhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oy0 A  18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTP--------------GDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157  |      -       177       187       197       207       217       227       237       247       257       267       277  
                                                                                                                                                                        160            175                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:248
 aligned with PANB_MYCTO | P9WIL6 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:262
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277  
           PANB_MYCTO    18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTPQSVNTLGGFRVQGRGDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
               SCOP domains d1oy0b_ B: Ketopantoate hydroxymethyltransferase PanB                                                                                                                                                                                                                  SCOP domains
               CATH domains 1oy0B00 B:18-279 Phosphoenolpyruvate-binding domains                                                                                                                                                                                                                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhh..eeeee..hhhhhhhhhh....eeee..hhhhhh.........hhhhhhhhhhhhhhhh...eeeee........hhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhh..eeeeee...--------------hhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhh...eeee.......eeeehhhhhh...............hhhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oy0 B  18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTP--------------GDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157  |      -       177       187       197       207       217       227       237       247       257       267       277  
                                                                                                                                                                        160            175                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:248
 aligned with PANB_MYCTU | P9WIL7 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:262
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277  
           PANB_MYCTU    18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTPQSVNTLGGFRVQGRGDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
               SCOP domains d1oy0b_ B: Ketopantoate hydroxymethyltransferase PanB                                                                                                                                                                                                                  SCOP domains
               CATH domains 1oy0B00 B:18-279 Phosphoenolpyruvate-binding domains                                                                                                                                                                                                                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhh..eeeee..hhhhhhhhhh....eeee..hhhhhh.........hhhhhhhhhhhhhhhh...eeeee........hhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhh..eeeeee...--------------hhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhh...eeee.......eeeehhhhhh...............hhhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oy0 B  18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTP--------------GDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157  |      -       177       187       197       207       217       227       237       247       257       267       277  
                                                                                                                                                                        160            175                                                                                                        


Chain C from PDB  Type:PROTEIN  Length:248
 aligned with PANB_MYCTO | P9WIL6 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:262
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277  
           PANB_MYCTO    18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTPQSVNTLGGFRVQGRGDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
               SCOP domains d1oy0c_ C: Ketopantoate hydroxymethyltransferase PanB                                                                                                                                                                                                                  SCOP domains
               CATH domains 1oy0C00 C:18-279 Phosphoenolpyruvate-binding domains                                                                                                                                                                                                                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhh..eeeee..hhhhhhhhhh....eeee..hhhhhh.........hhhhhhhhhhhhhhhh...eeeee........hhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhh..eeeeee...--------------hhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhh...eeee.......eeeehhhhhh...............hhhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oy0 C  18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTP--------------GDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157  |      -       177       187       197       207       217       227       237       247       257       267       277  
                                                                                                                                                                        160            175                                                                                                        


Chain C from PDB  Type:PROTEIN  Length:248
 aligned with PANB_MYCTU | P9WIL7 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:262
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277  
           PANB_MYCTU    18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTPQSVNTLGGFRVQGRGDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
               SCOP domains d1oy0c_ C: Ketopantoate hydroxymethyltransferase PanB                                                                                                                                                                                                                  SCOP domains
               CATH domains 1oy0C00 C:18-279 Phosphoenolpyruvate-binding domains                                                                                                                                                                                                                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhh..eeeee..hhhhhhhhhh....eeee..hhhhhh.........hhhhhhhhhhhhhhhh...eeeee........hhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhh..eeeeee...--------------hhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhh...eeee.......eeeehhhhhh...............hhhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oy0 C  18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTP--------------GDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157  |      -       177       187       197       207       217       227       237       247       257       267       277  
                                                                                                                                                                        160            175                                                                                                        


Chain D from PDB  Type:PROTEIN  Length:248
 aligned with PANB_MYCTO | P9WIL6 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:262
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277  
           PANB_MYCTO    18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTPQSVNTLGGFRVQGRGDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
               SCOP domains d1oy0d_ D: Ketopantoate hydroxymethyltransferase PanB                                                                                                                                                                                                                  SCOP domains
               CATH domains 1oy0D00 D:18-279 Phosphoenolpyruvate-binding domains                                                                                                                                                                                                                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhh..eeeee..hhhhhhhhhh....eeee..hhhhhh.........hhhhhhhhhhhhhhhh...eeeee........hhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhh..eeeeee...--------------hhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhh...eeee.......eeeehhhhhh...............hhhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oy0 D  18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTP--------------GDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157  |      -       177       187       197       207       217       227       237       247       257       267       277  
                                                                                                                                                                        160            175                                                                                                        


Chain D from PDB  Type:PROTEIN  Length:248
 aligned with PANB_MYCTU | P9WIL7 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:262
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277  
           PANB_MYCTU    18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTPQSVNTLGGFRVQGRGDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
               SCOP domains d1oy0d_ D: Ketopantoate hydroxymethyltransferase PanB                                                                                                                                                                                                                  SCOP domains
               CATH domains 1oy0D00 D:18-279 Phosphoenolpyruvate-binding domains                                                                                                                                                                                                                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhh..eeeee..hhhhhhhhhh....eeee..hhhhhh.........hhhhhhhhhhhhhhhh...eeeee........hhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhh..eeeeee...--------------hhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhh...eeee.......eeeehhhhhh...............hhhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oy0 D  18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTP--------------GDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157  |      -       177       187       197       207       217       227       237       247       257       267       277  
                                                                                                                                                                        160            175                                                                                                        


Chain E from PDB  Type:PROTEIN  Length:248
 aligned with PANB_MYCTO | P9WIL6 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:262
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277  
           PANB_MYCTO    18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTPQSVNTLGGFRVQGRGDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
               SCOP domains d1oy0e_ E: Ketopantoate hydroxymethyltransferase PanB                                                                                                                                                                                                                  SCOP domains
               CATH domains 1oy0E00 E:18-279 Phosphoenolpyruvate-binding domains                                                                                                                                                                                                                   CATH domains
           Pfam domains (1) -Pantoate_transf-1oy0E01 E:19-278                                                                                                                                                                                                                                    - Pfam domains (1)
           Pfam domains (2) -Pantoate_transf-1oy0E02 E:19-278                                                                                                                                                                                                                                    - Pfam domains (2)
           Pfam domains (3) -Pantoate_transf-1oy0E03 E:19-278                                                                                                                                                                                                                                    - Pfam domains (3)
           Pfam domains (4) -Pantoate_transf-1oy0E04 E:19-278                                                                                                                                                                                                                                    - Pfam domains (4)
           Pfam domains (5) -Pantoate_transf-1oy0E05 E:19-278                                                                                                                                                                                                                                    - Pfam domains (5)
         Sec.struct. author ....hhhhhhhhhhhh..eeeee..hhhhhhhhhh....eeee..hhhhhh.........hhhhhhhhhhhhhhhh...eeeee........hhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhh..eeeeee...--------------hhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhh...eeee.......eeeehhhhhh...............hhhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oy0 E  18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTP--------------GDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157  |      -       177       187       197       207       217       227       237       247       257       267       277  
                                                                                                                                                                        160            175                                                                                                        


Chain E from PDB  Type:PROTEIN  Length:248
 aligned with PANB_MYCTU | P9WIL7 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:262
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277  
           PANB_MYCTU    18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTPQSVNTLGGFRVQGRGDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
               SCOP domains d1oy0e_ E: Ketopantoate hydroxymethyltransferase PanB                                                                                                                                                                                                                  SCOP domains
               CATH domains 1oy0E00 E:18-279 Phosphoenolpyruvate-binding domains                                                                                                                                                                                                                   CATH domains
           Pfam domains (1) -Pantoate_transf-1oy0E01 E:19-278                                                                                                                                                                                                                                    - Pfam domains (1)
           Pfam domains (2) -Pantoate_transf-1oy0E02 E:19-278                                                                                                                                                                                                                                    - Pfam domains (2)
           Pfam domains (3) -Pantoate_transf-1oy0E03 E:19-278                                                                                                                                                                                                                                    - Pfam domains (3)
           Pfam domains (4) -Pantoate_transf-1oy0E04 E:19-278                                                                                                                                                                                                                                    - Pfam domains (4)
           Pfam domains (5) -Pantoate_transf-1oy0E05 E:19-278                                                                                                                                                                                                                                    - Pfam domains (5)
         Sec.struct. author ....hhhhhhhhhhhh..eeeee..hhhhhhhhhh....eeee..hhhhhh.........hhhhhhhhhhhhhhhh...eeeee........hhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhh..eeeeee...--------------hhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhh...eeee.......eeeehhhhhh...............hhhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oy0 E  18 RTKIRTHHLQRWKADGHKWAMLTAYDYSTARIFDEAGIPVLLVGDSAANVVYGYDTTVPISIDELIPLVRGVVRGAPHALVVADLPFGSYEAGPTAALAAATRFLKDGGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTP--------------GDAAEQTIADAIAVAEAGAFAVVMEMVPAELATQITGKLTIPTVGIGAGPNCDGQVLVWQDMAGFSGAKTARFVKRYADVGGELRRAAMQYAQEVAGGVFPADEH 279
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157  |      -       177       187       197       207       217       227       237       247       257       267       277  
                                                                                                                                                                        160            175
   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, 5)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 5)

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

(-) Pfam Domains  (1, 5)

Asymmetric Unit
(-)
Clan: PK_TIM (63)

(-) Gene Ontology  (9, 15)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E   (PANB_MYCTO | P9WIL6)
molecular function
    GO:0003864    3-methyl-2-oxobutanoate hydroxymethyltransferase activity    Catalysis of the reaction: 5,10-methylenetetrahydrofolate + 3-methyl-2-oxobutanoate = tetrahydrofolate + 2-dehydropantoate.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0015940    pantothenate biosynthetic process    The chemical reactions and pathways resulting in the formation of pantothenate, the anion of pantothenic acid. It is a B complex vitamin that is a constituent of coenzyme A and is distributed ubiquitously in foods.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Chain A,B,C,D,E   (PANB_MYCTU | P9WIL7)
molecular function
    GO:0003864    3-methyl-2-oxobutanoate hydroxymethyltransferase activity    Catalysis of the reaction: 5,10-methylenetetrahydrofolate + 3-methyl-2-oxobutanoate = tetrahydrofolate + 2-dehydropantoate.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0000287    magnesium ion binding    Interacting selectively and non-covalently with magnesium (Mg) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0040007    growth    The increase in size or mass of an entire organism, a part of an organism or a cell.
    GO:0015940    pantothenate biosynthetic process    The chemical reactions and pathways resulting in the formation of pantothenate, the anion of pantothenic acid. It is a B complex vitamin that is a constituent of coenzyme A and is distributed ubiquitously in foods.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    MG  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Phe A:274 - Pro A:275   [ RasMol ]  
    Phe B:274 - Pro B:275   [ RasMol ]  
    Phe C:274 - Pro C:275   [ RasMol ]  
    Phe D:274 - Pro D:275   [ RasMol ]  
    Phe E:274 - Pro E:275   [ RasMol ]  
 
Biological Units
  Complete Structure
    Biological Unit 1  [ Jena3D ]
    Biological Unit 2  [ Jena3D ]
    Biological Unit 3  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym. Unit PNG format | Asym. Unit - sites PNG format | Biol. Unit 1 PNG format | Biol. Unit 1 - sites PNG format | Biol. Unit 2 PNG format | Biol. Unit 3 PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  1oy0
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  PANB_MYCTO | P9WIL6
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
  PANB_MYCTU | P9WIL7
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  2.1.2.11
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  PANB_MYCTO | P9WIL6
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)
  PANB_MYCTU | P9WIL7
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

(no "Entries Sharing at Least One Protein Chain" available for 1OY0)

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1OY0)