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(-) Description

Title :  THE CRYSTAL STRUCTURE OF A DIACYLGLYCEROL KINASES FROM BACILLUS ANTHRACIS STR. STERNE
 
Authors :  K. Tan, R. Zhang, X. Xu, H. Cui, S. Peterson, A. Savchenko, W. F. Anderson A. Joachimiak, Center For Structural Genomics Of Infectious D (Csgid)
Date :  18 May 11  (Deposition) - 01 Jun 11  (Release) - 01 Jun 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Biol. Unit 5:  A,B,C,D  (1x)
Keywords :  Diacylglycerol Kinases, Structural Genomics, The Center For Structural Genomics Of Infectious Diseases, Csgid, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  K. Tan, R. Zhang, X. Xu, H. Cui, S. Peterson, A. Savchenko, W. F. Anderson, A. Joachimiak
The Crystal Structure Of A Diacylglycerol Kinases From Bacillus Anthracis Str. Sterne
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - DIACYLGLYCEROL KINASE
    ChainsA, B, C, D
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidP15TV LIC
    Expression System StrainBL21
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneBAS4713, BA_5075, GBAA_5075
    Organism CommonANTHRAX,ANTHRAX BACTERIUM
    Organism ScientificBACILLUS ANTHRACIS
    Organism Taxid260799
    StrainSTERNE

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit ABCD
Biological Unit 1 (1x)A   
Biological Unit 2 (1x) B  
Biological Unit 3 (1x)  C 
Biological Unit 4 (1x)   D
Biological Unit 5 (1x)ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 8)

Asymmetric Unit (1, 8)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1MSE2Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1MSE2Mod. Amino AcidSELENOMETHIONINE
Biological Unit 3 (1, 2)
No.NameCountTypeFull Name
1MSE2Mod. Amino AcidSELENOMETHIONINE
Biological Unit 4 (1, 2)
No.NameCountTypeFull Name
1MSE2Mod. Amino AcidSELENOMETHIONINE
Biological Unit 5 (1, 8)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 3S40)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3S40)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Thr A:280 -Pro A:281
2Thr B:280 -Pro B:281
3Thr C:280 -Pro C:281
4Thr D:280 -Pro D:281

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3S40)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3S40)

(-) Exons   (0, 0)

(no "Exon" information available for 3S40)

(-) 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:272
 aligned with Q81KC6_BACAN | Q81KC6 from UniProtKB/TrEMBL  Length:300

    Alignment length:298
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292        
         Q81KC6_BACAN     3 KTKFEKVLLIVNPKAGQGDLHTNLTKIVPPLAAAFPDLHILHTKEQGDATKYCQEFASKVDLIIVFGGDGTVFECTNGLAPLEIRPTLAIIPGGTCNDFSRTLGVPQNIAEAAKLITKEHVKPVDVAKANGQHFLNFWGIGLVSEVSNNIDAEEKAKLGKIGYYLSTIRTVKNAETFPVKITYDGQVYEDEAVLVMVGNGEYLGGIPSFIPNVKCDDGTLDIFVVKSTGIQAFKDYIGKKLFEDSNENDIFHVKAKSIHIETEEEKEVDTDGESSLHTPCQIELLQGHFTMIYNPAVV 300
               SCOP domains d3s40a_ A: automated matches                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeee.......hhhhhhhhhhhhhhhhh.eeeeee....hhhhhhhhhhh....eeeeeehhhhhhhhhhhhh......eeeeee....hhhhhhh....hhhhhhhhhh...eeeeeeeee..eee..eeee.------------------hhhhhh...------..eeeeeee..eeeeeeeeeeeee...ee..ee............eeeeeee..hhhhhhhhh............eeeeee.eeeeee....eeee.--..ee..eeeeeeeeeeeee...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3s40 A   3 KTKFEKVLLIVNPKAGQGDLHTNLTKIVPPLAAAFPDLHILHTKEQGDATKYCQEFASKVDLIIVFGGDGTVFECTNGLAPLEIRPTLAIIPGGTCNDFSRTLGVPQNIAEAAKLITKEHVKPVDVAKANGQHFLNFWGIG------------------KIGYYLSTI------ETFPVKITYDGQVYEDEAVLVmVGNGEYLGGIPSFIPNVKCDDGTLDIFVVKSTGIQAFKDYIGKKLFEDSNENDIFHVKAKSIHIETEEEKEVDTD--SSLHTPCQIELLQGHFTmIYNPAVV 300
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142|        -       162       | -    |  182       192     | 202       212       222       232       242       252       262       272|  |   282       292|       
                                                                                                                                                                      143                162     170    177                  198-MSE                                                                    273  |              293-MSE   
                                                                                                                                                                                                                                                                                                           276                        

Chain B from PDB  Type:PROTEIN  Length:293
 aligned with Q81KC6_BACAN | Q81KC6 from UniProtKB/TrEMBL  Length:300

    Alignment length:299
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291         
         Q81KC6_BACAN     2 TKTKFEKVLLIVNPKAGQGDLHTNLTKIVPPLAAAFPDLHILHTKEQGDATKYCQEFASKVDLIIVFGGDGTVFECTNGLAPLEIRPTLAIIPGGTCNDFSRTLGVPQNIAEAAKLITKEHVKPVDVAKANGQHFLNFWGIGLVSEVSNNIDAEEKAKLGKIGYYLSTIRTVKNAETFPVKITYDGQVYEDEAVLVMVGNGEYLGGIPSFIPNVKCDDGTLDIFVVKSTGIQAFKDYIGKKLFEDSNENDIFHVKAKSIHIETEEEKEVDTDGESSLHTPCQIELLQGHFTMIYNPAVV 300
               SCOP domains d3s40b_ B: automated matches                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeee.......hhhhhhhhhhhhhhhhh.eeeeee....hhhhhhhhhhh....eeeeeehhhhhhhhhhhhh......eeeeee....hhhhhhh....hhhhhhhhhhhh.eeeeeeeee..eee..eeee.......hhhhhhhhhhhhhhhhhhhh....-....eeeeeee...eeeeeeeeeeee...ee..ee............eeeeeee..hhhhhhhhhhhh....-----.eeeee.eeeeee.................eeeeeeeeeeeee...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3s40 B   2 TKTKFEKVLLIVNPKAGQGDLHTNLTKIVPPLAAAFPDLHILHTKEQGDATKYCQEFASKVDLIIVFGGDGTVFECTNGLAPLEIRPTLAIIPGGTCNDFSRTLGVPQNIAEAAKLITKEHVKPVDVAKANGQHFLNFWGIGLVSEVSNNIDAEEKAKLGKIGYYLSTIRTV-NAETFPVKITYDGQVYEDEAVLVmVGNGEYLGGIPSFIPNVKCDDGTLDIFVVKSTGIQAFKDYIGKKLFED-----IFHVKAKSIHIETEEEKEVDTDGESSLHTPCQIELLQGHFTmIYNPAVV 300
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171 | |   181       191      |201       211       221       231       241    |    -|      261       271       281       291 |       
                                                                                                                                                                                                     173 |                    198-MSE                                         246   252                                      293-MSE   
                                                                                                                                                                                                       175                                                                                                                             

Chain C from PDB  Type:PROTEIN  Length:287
 aligned with Q81KC6_BACAN | Q81KC6 from UniProtKB/TrEMBL  Length:300

    Alignment length:298
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292        
         Q81KC6_BACAN     3 KTKFEKVLLIVNPKAGQGDLHTNLTKIVPPLAAAFPDLHILHTKEQGDATKYCQEFASKVDLIIVFGGDGTVFECTNGLAPLEIRPTLAIIPGGTCNDFSRTLGVPQNIAEAAKLITKEHVKPVDVAKANGQHFLNFWGIGLVSEVSNNIDAEEKAKLGKIGYYLSTIRTVKNAETFPVKITYDGQVYEDEAVLVMVGNGEYLGGIPSFIPNVKCDDGTLDIFVVKSTGIQAFKDYIGKKLFEDSNENDIFHVKAKSIHIETEEEKEVDTDGESSLHTPCQIELLQGHFTMIYNPAVV 300
               SCOP domains d3s40c_ C: automated matches                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeee.......hhhhhhhhhhhhhhhhh.eeeeee....hhhhhhhhhhh....eeeeeehhhhhhhhhhhhh......eeeeee....hhhhhhh....hhhhhhhhhhh..eeeeeeeee..eee..eeee.---------hhhhhhhhhhhhhhhhhhhhh--...eeeeeee..eeeeeeeeeeeee...ee..ee............eeeeeee..hhhhhhhhhhh...........eeeee.eeeeee......ee.........eeeeeeeeeeeee...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3s40 C   3 KTKFEKVLLIVNPKAGQGDLHTNLTKIVPPLAAAFPDLHILHTKEQGDATKYCQEFASKVDLIIVFGGDGTVFECTNGLAPLEIRPTLAIIPGGTCNDFSRTLGVPQNIAEAAKLITKEHVKPVDVAKANGQHFLNFWGIG---------DAEEKAKLGKIGYYLSTIRTV--AETFPVKITYDGQVYEDEAVLVmVGNGEYLGGIPSFIPNVKCDDGTLDIFVVKSTGIQAFKDYIGKKLFEDSNENDIFHVKAKSIHIETEEEKEVDTDGESSLHTPCQIELLQGHFTmIYNPAVV 300
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142|        -|      162       172|  |   182       192     | 202       212       222       232       242       252       262       272       282       292|       
                                                                                                                                                                      143       153                 173  |                   198-MSE                                                                                        293-MSE   
                                                                                                                                                                                                       176                                                                                                                            

Chain D from PDB  Type:PROTEIN  Length:264
 aligned with Q81KC6_BACAN | Q81KC6 from UniProtKB/TrEMBL  Length:300

    Alignment length:298
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292        
         Q81KC6_BACAN     3 KTKFEKVLLIVNPKAGQGDLHTNLTKIVPPLAAAFPDLHILHTKEQGDATKYCQEFASKVDLIIVFGGDGTVFECTNGLAPLEIRPTLAIIPGGTCNDFSRTLGVPQNIAEAAKLITKEHVKPVDVAKANGQHFLNFWGIGLVSEVSNNIDAEEKAKLGKIGYYLSTIRTVKNAETFPVKITYDGQVYEDEAVLVMVGNGEYLGGIPSFIPNVKCDDGTLDIFVVKSTGIQAFKDYIGKKLFEDSNENDIFHVKAKSIHIETEEEKEVDTDGESSLHTPCQIELLQGHFTMIYNPAVV 300
               SCOP domains d3s40d_ D: automated matches                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----DAGK_cat-3s40D01 D:8-134                                                                                                       ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) -----DAGK_cat-3s40D02 D:8-134                                                                                                       ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (2)
           Pfam domains (3) -----DAGK_cat-3s40D03 D:8-134                                                                                                       ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (3)
           Pfam domains (4) -----DAGK_cat-3s40D04 D:8-134                                                                                                       ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (4)
         Sec.struct. author ......eeeee.......hhhhhhhhhhhhhhhhh.eeeeee....hhhhhhhhhhh....eeeeeehhhhhhhhhhhhh......eeeeee....hhhhhhh....hhhhhhhhhh...eeeeeeeee..eee..eeee...---------------..hhhhhhh------...eeeeeee.-.eeeeeeeeeeee...ee..ee............eeeeeee..hhhhhhhhh------------.eeeee.eeeeee......ee.........eeeeeeeeeeeee...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3s40 D   3 KTKFEKVLLIVNPKAGQGDLHTNLTKIVPPLAAAFPDLHILHTKEQGDATKYCQEFASKVDLIIVFGGDGTVFECTNGLAPLEIRPTLAIIPGGTCNDFSRTLGVPQNIAEAAKLITKEHVKPVDVAKANGQHFLNFWGIGLV---------------GKIGYYLST------AETFPVKITYD-QVYEDEAVLVmVGNGEYLGGIPSFIPNVKCDDGTLDIFVVKSTGIQAFKDYI------------IFHVKAKSIHIETEEEKEVDTDGESSLHTPCQIELLQGHFTmIYNPAVV 300
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142  |      -       162      |  -   |   182   | | 192     | 202       212       222       232      |  -       252       262       272       282       292|       
                                                                                                                                                                        145             161     169    176       186 |       198-MSE                                  239          252                                      293-MSE   
                                                                                                                                                                                                                   188                                                                                                                

   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, 4)

Asymmetric Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3S40)

(-) Pfam Domains  (1, 4)

Asymmetric Unit
(-)
Clan: PFK (5)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (Q81KC6_BACAN | Q81KC6)
molecular function
    GO:0003951    NAD+ kinase activity    Catalysis of the reaction: ATP + NAD(+) = ADP + 2 H(+) + NADP(+).
    GO:0016301    kinase activity    Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0003674    molecular_function    Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.
biological process
    GO:0008150    biological_process    Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0016310    phosphorylation    The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.

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 Related Entries

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

UniProtKB/TrEMBL
        Q81KC6_BACAN | Q81KC63t5p 4wrr

(-) Related Entries Specified in the PDB File

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