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(-) Description

Title :  STRUCTURE OF HYDROXYETHYLTHIAZOLE KINASE THIM FROM STAPHYLOCOCCUS AUREUS IN COMPLEX WITH SUBSTRATE ANALOG 2-(2-METHYL-1H-IMIDAZOLE-1-YL)ETHANOL
 
Authors :  M. Kuenz, J. Drebes, B. Windshuegel, H. Cang, C. Wrenger, C. Betzel
Date :  09 Jul 15  (Deposition) - 23 Mar 16  (Release) - 23 Mar 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.62
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B,C  (1x)
Biol. Unit 2:  D,E,F  (1x)
Keywords :  Bacterial Thiamine Biosynthesis, Hydroxyethylthiazole Kinase, Substrate Analog, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Drebes, M. Kunz, B. Windshugel, A. G. Kikhney, I. B. Muller, R. J. Eberle, D. Oberthur, H. Cang, D. I. Svergun, M. Perbandt, C. Betzel, C. Wrenger
Structure Of Thim From Vitamin B1 Biosynthetic Pathway Of Staphylococcus Aureus - Insights Into A Novel Pro-Drug Approach Addressing Mrsa Infections.
Sci Rep V. 6 22871 2016
PubMed-ID: 26960569  |  Reference-DOI: 10.1038/SREP22871

(-) Compounds

Molecule 1 - HYDROXYETHYLTHIAZOLE KINASE
    Chains: A, B, C, E, D, F
    EC Number: 2.7.1.50
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PASK-IBA3
    Expression System Taxid: 469008
    Expression System Vector: BLR
    Expression System Vector Type: PLASMID
    Gene: THIM, SAR2181
    Organism Scientific: STAPHYLOCOCCUS AUREUS SUBSP. AUREUS MRSA252
    Organism Taxid: 282458
    Synonym: 4-METHYL-5-BETA-HYDROXYETHYLTHIAZOLE KINASE,THZ KINASE

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): ABC   
Biological Unit 2 (1x):    DEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 11)

Asymmetric Unit (2, 11)
No.NameCountTypeFull Name
151F6Ligand/Ion2-(2-METHYL-1H-IMIDAZOL-1-YL)ETHANOL
2MG5Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
151F3Ligand/Ion2-(2-METHYL-1H-IMIDAZOL-1-YL)ETHANOL
2MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (1, 3)
No.NameCountTypeFull Name
151F3Ligand/Ion2-(2-METHYL-1H-IMIDAZOL-1-YL)ETHANOL
2MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREPRO A:37 , ALA A:38 , MET A:39 , GLY C:61 , THR C:186 , CYS C:190binding site for residue 51F A 301
02AC2SOFTWAREHOH A:402 , HOH A:426 , HOH A:459binding site for residue MG A 302
03AC3SOFTWAREASN A:19 , GLY A:61 , THR A:186 , CYS A:190 , HOH A:470 , PRO B:37 , MET B:39binding site for residue 51F B 301
04AC4SOFTWAREHOH B:406 , HOH B:484binding site for residue MG B 302
05AC5SOFTWAREASN B:19 , GLY B:61 , THR B:186 , CYS B:190 , PRO C:37 , MET C:39binding site for residue 51F C 301
06AC6SOFTWAREASP C:88 , GLY C:116 , GLU C:120binding site for residue MG C 302
07AC7SOFTWARELEU C:57 , ASN C:59 , ASP C:88 , CYS C:190 , GLY C:193binding site for residue MG C 303
08AC8SOFTWAREPRO E:37 , ALA E:38 , MET E:39 , GLY F:61 , THR F:186 , CYS F:190binding site for residue 51F E 301
09AC9SOFTWAREASP E:88 , GLU E:120 , HOH E:452binding site for residue MG E 302
10AD1SOFTWAREPRO D:37 , MET D:39 , GLY E:61 , VAL E:90 , THR E:186 , CYS E:190binding site for residue 51F D 301
11AD2SOFTWAREGLY D:61 , THR D:186 , CYS D:190 , PRO F:37 , MET F:39binding site for residue 51F D 302

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5CGE)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5CGE)

(-) 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:255
                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhh.eeeee....hhhhhhhhhhhh..eee...hhhhhhhhhhhh.eeeee....hhhhhhhhhhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhhhhh...eeeeehhhhhhhhh.....hhhhhhhhhhhhhh.eeeee...eeeee..eeeee...hhhhhhh.hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh.eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5cge A   1 MNYLNNIRIENPLTICYTNDVVKNFTANGLLSIGASPAMSEAPEEAEEFYKVAQALLINIGTLTAQNEQDIIAIAQTANEAGLPIVFDPVAVGASTYRKQFCKLLLKSAKVSVIKGNASEILALIDDTATLDAVTIAKKAYAIYKTAIVITGKEDVIVQGDKAIVLANGSPLLARVTGAGCLLGGIIAGFLFRETEPDIEALIEAVSVFNIAAEVAAENENCGGPGTFSPLLLDTLYHLNETTYQQRIRIQEVEE 264
                                    10        20        30        40        50        60        70        80        90       100       110       120       130|      149       159       169       179       189       199       209       219       229       239       249       259     
                                                                                                                                                           130|                                                                                                                            
                                                                                                                                                            140                                                                                                                            


Chain B from PDB  Type:PROTEIN  Length:262
                                                                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh.eeeee....hhhhhhhhhhhh..eee...hhhhhhhhhhhh.eeeee....hhhhhhhhhhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhhhhh...eeeeehhhhhhhhhhh............hhhhhhhhhhhhhh.eeeee...eeeee..eeeee...hhhhhhh.hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh.eee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5cge B   1 MNYLNNIRIENPLTICYTNDVVKNFTANGLLSIGASPAMSEAPEEAEEFYKVAQALLINIGTLTAQNEQDIIAIAQTANEAGLPIVFDPVAVGASTYRKQFCKLLLKSAKVSVIKGNASEILALIDDTATMKGTDSDANLDAVTIAKKAYAIYKTAIVITGKEDVIVQGDKAIVLANGSPLLARVTGAGCLLGGIIAGFLFRETEPDIEALIEAVSVFNIAAEVAAENENCGGPGTFSPLLLDTLYHLNETTYQQRIRIQEV 262
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260  


Chain C from PDB  Type:PROTEIN  Length:250
                                                                                                                                                                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh.eeeee....hhhhhhhhhhhhh.eee...hhhhhhhhhhh..eeeee....hhhhhhhhhhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhhhhh...eeeeehhhhhhhhhh.hhhhhhhhhhhhhh.eeeee...eeeee..eeeee...hhhhhhh.hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh.eee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5cge C   1 MNYLNNIRIENPLTICYTNDVVKNFTANGLLSIGASPAMSEAPEEAEEFYKVAQALLINIGTLTAQNEQDIIAIAQTANEAGLPIVFDPVAVGASTYRKQFCKLLLKSAKVSVIKGNASEILALIDDLDAVTIAKKAYAIYKTAIVITGKEDVIVQGDKAIVLANGSPLLARVTGAGCLLGGIIAGFLFRETEPDIEALIEAVSVFNIAAEVAAENENCGGPGTFSPLLLDTLYHLNETTYQQRIRIQEV 262
                                    10        20        30        40        50        60        70        80        90       100       110       120      |142       152       162       172       182       192       202       212       222       232       242       252       262
                                                                                                                                                        127|                                                                                                                          
                                                                                                                                                         140                                                                                                                          


Chain D from PDB  Type:PROTEIN  Length:245
                                                                                                                                                                                                                                                                                     
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh.eeeee....hhhhhhhhhhhhh.eee...hhhhhhhhhhhh.eeeee....hhhhhhhhhhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhhhhh...eeeeehhhhhhhhh.hhhhhhhhhhhhh.eeeee...eeeee..eeeee...hhhhhhh.hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5cge D   1 MNYLNNIRIENPLTICYTNDVVKNFTANGLLSIGASPAMSEAPEEAEEFYKVAQALLINIGTLTAQNEQDIIAIAQTANEAGLPIVFDPVAVGASTYRKQFCKLLLKSAKVSVIKGNASEILALIDDAVTIAKKAYAIYKTAIVITGKEDVIVQGDKAIVLANGSPLLARVTGAGCLLGGIIAGFLFRETEPDIEALIEAVSVFNIAAEVAAENENCGGPGTFSPLLLDTLYHLNETTYQQRIRI 259
                                    10        20        30        40        50        60        70        80        90       100       110       120     ||144       154       164       174       184       194       204       214       224       234       244       254     
                                                                                                                                                       126|                                                                                                                      
                                                                                                                                                        141                                                                                                                      


Chain E from PDB  Type:PROTEIN  Length:267
                                                                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh.eeeee....hhhhhhhhhhhh..eee...hhhhhhhhhhhh.eeeee....hhhhhhhhhhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhhhhh...eeeeehhhhhhhhh............hhhhhhhhhhhhhh.eeeee...eeeee..eeeee...hhhhhhh.hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh.eeeeee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5cge E   1 MNYLNNIRIENPLTICYTNDVVKNFTANGLLSIGASPAMSEAPEEAEEFYKVAQALLINIGTLTAQNEQDIIAIAQTANEAGLPIVFDPVAVGASTYRKQFCKLLLKSAKVSVIKGNASEILALIDDTATMKGTDSNLDAVTIAKKAYAIYKTAIVITGKEDVIVQGDKAIVLANGSPLLARVTGAGCLLGGIIAGFLFRETEPDIEALIEAVSVFNIAAEVAAENENCGGPGTFSPLLLDTLYHLNETTYQQRIRIQEVEENLYFQ 269
                                    10        20        30        40        50        60        70        80        90       100       110       120       130     ||142       152       162       172       182       192       202       212       222       232       242       252       262       
                                                                                                                                                                 136|                                                                                                                                  
                                                                                                                                                                  139                                                                                                                                  


Chain F from PDB  Type:PROTEIN  Length:255
                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh.eeeee....hhhhhhhhhhhh..eee...hhhhhhhhhhhh.eeeee....hhhhhhhhhhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhhhhh...eeeeehhhhhhhhhhh......hhhhhhhhhhhhhh.eeeee...eeeee..eeeee...hhhhhhh.hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh.ee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5cge F   1 MNYLNNIRIENPLTICYTNDVVKNFTANGLLSIGASPAMSEAPEEAEEFYKVAQALLINIGTLTAQNEQDIIAIAQTANEAGLPIVFDPVAVGASTYRKQFCKLLLKSAKVSVIKGNASEILALIDDTATMKGLDAVTIAKKAYAIYKTAIVITGKEDVIVQGDKAIVLANGSPLLARVTGAGCLLGGIIAGFLFRETEPDIEALIEAVSVFNIAAEVAAENENCGGPGTFSPLLLDTLYHLNETTYQQRIRIQE 261
                                    10        20        30        40        50        60        70        80        90       100       110       120       130  ||   146       156       166       176       186       196       206       216       226       236       246       256     
                                                                                                                                                              133|                                                                                                                         
                                                                                                                                                               140
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5CGE)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (10, 10)

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 Related Entries

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

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        THIM_STAAR | Q6GEY3: 5cga 5cm5 5coj

(-) Related Entries Specified in the PDB File

5cga 5CGA CONTAINS THE SAME PROTEIN WITH DIFFERENT SUBSTRATE ANALOG.