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(-) Description

Title :  BACTERIAL TRNA(HIS) GUANYLYLTRANSFERASE (THG1)-LIKE PROTEIN IN COMPLEX WITH GTP
 
Authors :  S. J. Hyde, B. S. Rao, B. E. Eckenroth, J. E. Jackman, S. Doublie
Date :  29 Apr 13  (Deposition) - 14 Aug 13  (Release) - 14 Aug 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.95
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Polymerase-Like Catalytic Domain, Transferase, Atp Binding, Gtp Binding, Trna Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. J. Hyde, B. S. Rao, B. E. Eckenroth, J. E. Jackman, S. Doublie
Structural Studies Of A Bacterial Trna(His) Guanylyltransferase (Thg1)-Like Protein, With Nucleotide In The Activation And Nucleotidyl Transfer Sites.
Plos One V. 8 67465 2013
PubMed-ID: 23844012  |  Reference-DOI: 10.1371/JOURNAL.PONE.0067465

(-) Compounds

Molecule 1 - THG1-LIKE UNCHARACTERIZED PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: RBTH_06728
    Organism Scientific: BACILLUS THURINGIENSIS
    Organism Taxid: 339854

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 19)

Asymmetric/Biological Unit (2, 19)
No.NameCountTypeFull Name
1GTP8Ligand/IonGUANOSINE-5'-TRIPHOSPHATE
2MG11Ligand/IonMAGNESIUM ION

(-) Sites  (19, 19)

Asymmetric Unit (19, 19)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:30 , GLY A:31 , ALA A:32 , HIS A:33 , PHE A:34 , HIS A:35 , THR A:38 , ALA A:42 , PRO A:44 , ASP A:46 , LEU A:49 , SER A:74 , ASP A:75 , MG A:302 , MG A:303 , MG A:304 , LYS D:209BINDING SITE FOR RESIDUE GTP A 301
02AC2SOFTWAREASP A:30 , GLY A:31 , ASP A:75 , GTP A:301BINDING SITE FOR RESIDUE MG A 302
03AC3SOFTWAREASP A:30 , ASP A:75 , GTP A:301BINDING SITE FOR RESIDUE MG A 303
04AC4SOFTWAREGTP A:301 , GTP B:301 , HOH B:402BINDING SITE FOR RESIDUE MG A 304
05AC5SOFTWAREARG A:28 , ARG A:131 , MG A:304 , GLY B:5 , ASP B:6 , LYS B:9 , ARG B:16 , LYS B:99 , HOH B:402 , LYS D:209 , ASN D:210BINDING SITE FOR RESIDUE GTP B 301
06AC6SOFTWAREASP B:30 , GLY B:31 , HIS B:33 , PHE B:34 , HIS B:35 , THR B:38 , ALA B:42 , PRO B:44 , SER B:74 , ASP B:75 , MG B:304 , MG B:305 , MG B:306BINDING SITE FOR RESIDUE GTP B 302
07AC7SOFTWAREGLY A:5 , ASP A:6 , ARG A:16 , LYS A:99 , ARG B:28 , ARG B:131 , MG B:306BINDING SITE FOR RESIDUE GTP B 303
08AC8SOFTWAREASP B:30 , GLY B:31 , ASP B:75 , GTP B:302BINDING SITE FOR RESIDUE MG B 304
09AC9SOFTWAREASP B:30 , ASP B:75 , GTP B:302BINDING SITE FOR RESIDUE MG B 305
10BC1SOFTWAREGTP B:302 , GTP B:303BINDING SITE FOR RESIDUE MG B 306
11BC2SOFTWAREASP C:30 , GLY C:31 , ALA C:32 , HIS C:33 , PHE C:34 , HIS C:35 , THR C:38 , ALA C:42 , SER C:74 , ASP C:75 , MG C:303 , MG C:304BINDING SITE FOR RESIDUE GTP C 301
12BC3SOFTWAREARG C:28 , ARG C:131 , ARG C:147 , MG C:305 , LYS D:9 , ARG D:16 , LYS D:99BINDING SITE FOR RESIDUE GTP C 302
13BC4SOFTWAREASP C:30 , GLY C:31 , ASP C:75 , GTP C:301BINDING SITE FOR RESIDUE MG C 303
14BC5SOFTWAREASP C:30 , ASP C:75 , GTP C:301BINDING SITE FOR RESIDUE MG C 304
15BC6SOFTWAREARG C:131 , GTP C:302BINDING SITE FOR RESIDUE MG C 305
16BC7SOFTWAREASP D:30 , GLY D:31 , HIS D:33 , PHE D:34 , HIS D:35 , THR D:38 , ALA D:42 , LEU D:49 , SER D:74 , ASP D:75 , MG D:303 , MG D:304BINDING SITE FOR RESIDUE GTP D 301
17BC8SOFTWAREARG C:16 , ARG D:131BINDING SITE FOR RESIDUE GTP D 302
18BC9SOFTWAREASP D:30 , GLY D:31 , ASP D:75 , GTP D:301 , MG D:304BINDING SITE FOR RESIDUE MG D 303
19CC1SOFTWAREASP D:30 , ASP D:75 , GTP D:301 , MG D:303BINDING SITE FOR RESIDUE MG D 304

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4KGK)

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Lys A:43 -Pro A:44
2Lys B:43 -Pro B:44
3Ala B:162 -Asn B:163
4Lys C:43 -Pro C:44
5Lys D:43 -Pro D:44

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4KGK)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4KGK)

(-) Exons   (0, 0)

(no "Exon" information available for 4KGK)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:210
                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhh..........eeeeeee.hhhhhh.......hhhhhhhhhhhhhhhhh....eeeeeee..eeeeee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhheeeeeee...eeeeee.........hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4kgk A   3 SIGDRMKRYENAYRIKLPERMPVIVRIDGAHFHTYTKGCAKPFDQDLAEAFWETCKYLAQNIMGAKLVYHQSDEISILITNYDKLTTQSWFENNLQKIASVSASMATAKFNEVMREKYPDKPLATFDGRAQVLPQDEVANYFIWRQQDASKNSISMVAQANFPHWNDLPVWQKRGICIIKEFYLRSRWSVDHETPIISKDREYVEQFVYL 239
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162   ||  194       204  ||   219       229       239
                                                                                                                                                                                             166|               207|                          
                                                                                                                                                                                              189                213                          


Chain B from PDB  Type:PROTEIN  Length:218
                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhh..........eeeeeee.hhhhhh.......hhhhhhhhhhhhhhhhh....eeeeeee..eeeeee.........hhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhh......hhhhhhheeeeeeee....eeeeeee.........hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kgk B   2 DSIGDRMKRYENAYRIKLPERMPVIVRIDGAHFHTYTKGCAKPFDQDLAEAFWETCKYLAQNIMGAKLVYHQSDEISILITNYDKLTTQSWFENNLQKIASVSASMATAKFNEVMREPLATFDGRAQVLPQDEVANYFIWRQQDASKNSISMVAQANLNGKDMQDKLINWNDLPVWQKRGICIIKEFYEKNLRSRWSVDHETPIISKDREYVEQFVYL 239
                                    11        21        31        41        51        61        71        81        91       101       111      |126       136       146       156      |174      |189       199       209||     221       231        
                                                                                                                                              118|                                    163|      181|                    210|                          
                                                                                                                                               124                                     172       187                     213                          


Chain C from PDB  Type:PROTEIN  Length:208
                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh..........eeeeeee.hhhhhh.......hhhhhhhhhhhhhhhhhhh..eeeeeee..eeeeee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........eeeeeee...eeeeee.........hhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kgk C   3 SIGDRMKRYENAYRIKLPERMPVIVRIDGAHFHTYTKGCAKPFDQDLAEAFWETCKYLAQNIMGAKLVYHQSDEISILITNYDKLTTQSWFENNLQKIASVSASMATAKFNEVMREKYPDKPLATFDGRAQVLPQDEVANYFIWRQQDASKNSISMVAQANFPNDLPVWQKRGICIIKEFYLRSRWSVDHETPIISKDREYVEQFVYL 239
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162  ||   196       206||     221       231        
                                                                                                                                                                                            165|              207|                          
                                                                                                                                                                                             190               213                          


Chain D from PDB  Type:PROTEIN  Length:210
                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhh..........eeeeeeeehhhhhh.......hhhhhhhhhhhhhhhhhhh..eeeeeee..eeeeee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhh........eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhheeeeeee.....eeeee..........hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4kgk D   2 DSIGDRMKRYENAYRIKLPERMPVIVRIDGAHFHTYTKGCAKPFDQDLAEAFWETCKYLAQNIMGAKLVYHQSDEISILITNYDKLTTQSWFENNLQKIASVSASMATAKFNEVMREKYPDKPLATFDGRAQVLPQDEVANYFIWRQQDASKNSISMVAQINWNDLPVWQKRGICIIKEFYEKNRSRWSVDHETPIISKDREYVEQFVYL 239
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161|      196       206   ||  219       229       239
                                                                                                                                                                                         161|                    210|                         
                                                                                                                                                                                          187                     214
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4KGK)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4KGK)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4KGK)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

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        Q3F0V8_BACTI | Q3F0V8: 4kgm

(-) Related Entries Specified in the PDB File

4kgm