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(-) Description

Title :  LIPOMYCES STARKEYI LEVOGLUCOSAN KINASE BOUND TO ADP AND MAGNESIUM.
 
Authors :  J. P. Bacik
Date :  21 Apr 15  (Deposition) - 16 Sep 15  (Release) - 11 Nov 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Sugar Kinase, Atp-Binding, Carbohydrate Metabolism, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. P. Bacik, J. R. Klesmith, T. A. Whitehead, L. R. Jarboe, C. J. Unkefer B. L. Mark, R. Michalczyk
Producing Glucose 6-Phosphate From Cellulosic Biomass: Structural Insights Into Levoglucosan Bioconversion.
J. Biol. Chem. V. 290 26638 2015
PubMed-ID: 26354439  |  Reference-DOI: 10.1074/JBC.M115.674614

(-) Compounds

Molecule 1 - LEVOGLUCOSAN KINASE
    Chains: A, B
    EC Number: 2.7.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Common: OLEAGINOUS YEAST
    Organism Scientific: LIPOMYCES STARKEYI
    Organism Taxid: 29829

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 8)

Asymmetric/Biological Unit (3, 8)
No.NameCountTypeFull Name
1ADP2Ligand/IonADENOSINE-5'-DIPHOSPHATE
2MG4Ligand/IonMAGNESIUM ION
3TRS2Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:22 , THR A:23 , SER A:24 , ASP A:26 , GLY A:188 , GLY A:189 , ASN A:217 , ASP A:221 , TYR A:234 , ASP A:235 , ASP A:237 , GLY A:327 , GLY A:328 , GLY A:329 , TYR A:331 , GLU A:362 , MG A:602 , MG A:603 , HOH A:725 , HOH A:730 , HOH A:805 , HOH A:819 , HOH A:820 , HOH A:835 , HOH A:875 , HOH A:951 , HOH A:996 , HOH A:1057 , HOH A:1138binding site for residue ADP A 601
2AC2SOFTWAREASP A:26 , ADP A:601 , HOH A:730 , HOH A:819 , HOH A:835binding site for residue MG A 602
3AC3SOFTWAREGLU A:362 , ADP A:601 , HOH A:805 , HOH A:896 , HOH A:1057binding site for residue MG A 603
4AC4SOFTWAREARG A:153 , PRO A:165 , ILE A:167 , ASN A:186 , ILE A:190 , ASN A:192 , ASP A:212 , GLU A:362 , HOH A:755 , HOH A:762 , HOH A:780 , HOH A:830 , HOH A:845 , HOH A:896 , HOH A:1027binding site for residue TRS A 604
5AC5SOFTWAREGLY B:22 , THR B:23 , SER B:24 , ASP B:26 , GLY B:188 , GLY B:189 , ASN B:217 , ASP B:221 , TYR B:234 , ASP B:235 , ASP B:237 , GLY B:327 , GLY B:328 , GLY B:329 , TYR B:331 , GLU B:362 , MG B:502 , MG B:503 , HOH B:623 , HOH B:638 , HOH B:648 , HOH B:669 , HOH B:684 , HOH B:770 , HOH B:786 , HOH B:791 , HOH B:875 , HOH B:1006binding site for residue ADP B 501
6AC6SOFTWAREASP B:26 , ADP B:501 , HOH B:638 , HOH B:648 , HOH B:770binding site for residue MG B 502
7AC7SOFTWAREGLU B:362 , ADP B:501 , HOH B:669 , HOH B:875 , HOH B:1012binding site for residue MG B 503
8AC8SOFTWARELEU B:174 , HIS B:176 , GLU B:424 , THR B:435 , ASN B:436 , ASN B:437 , HOH B:622 , HOH B:717 , HOH B:765binding site for residue TRS B 504

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Ala A:164 -Pro A:165
2Pro A:264 -Pro A:265
3Ala B:164 -Pro B:165
4Pro B:264 -Pro B:265

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4ZFV)

(-) 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:436
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeee.....eeeeeeeeeee......eeeeeeeeeeee.hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhh.eeeeeeeeeeee.........eeeee.hhhhhhhhhh..eeehhhhhhhhh.......hhhhhhhhhh.....eeeeee..eeeeeee............eeeeeee.hhhhhhhhhhhh......hhhhhhhhhh..hhhhhhhhh.hhhhhh...........hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh......eeeeehhhhhhhhhhhhhhhhh...eeee.hhhh.hhhhhhhhhhhhhhhhhhhh..................eee...hhhhhhhhhhhh............eeeee..eee........... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4zfv A  10 NVLDFTVLGLNSGTSMDGIDCALCHFYQKTPDAPMEFELLEYGEVPLAQPIKQRVMRMILEDTTSPSELSEVNVILGEHFADAVRQFAAERNVDLSTIDAIASHGQTIWLLSMPEEGQVKSALTMAEGAILASRTGITSITDFRISDQAAGRQGAPLIAFFDALLLHHPTKLRACQNIGGIANVCFIPPDVDGRRTDEYYDFDTGPGNVFIDAVVRHFTNGEQEYDKDGAMGKRGKVDQELVDDFLKMPYFQLDPPKTTGREVFRDTLAHDLIRRAEAKGLSPDDIVATTTRITAQAIVDHYRRYAPSQEIDEIFMCGGGAYNPNIVEFIQQSYPNTKIMMLDEAGVPAGAKEAITFAWQGMEALVGRSIPVPTRVETRQHYVLGKVSPGLNYRSVMKKGMAFGGDAQQLPWVSEMIVKKKGKVITNNWAGSHHHH 445
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439      


Chain B from PDB  Type:PROTEIN  Length:433
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeee.....eeeeeeeeeee......eeeeeeeeeeee.hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhh.eeeeeeeeeeee.........eeeee.hhhhhhhhhh..eeehhhhhhhhh.......hhhhhhhhhh.....eeeeee..eeeeeee............eeeeeee.hhhhhhhhhhhh......hhhhhhhhhh..hhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh......eeeeehhhhhhhhhhhhhhhhh...eeee.hhhh....hhhhhhhhhhhhhhhhh..................eee...hhhhhhhhhhhh............eeeee..eee...hhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4zfv B  10 NVLDFTVLGLNSGTSMDGIDCALCHFYQKTPDAPMEFELLEYGEVPLAQPIKQRVMRMILEDTTSPSELSEVNVILGEHFADAVRQFAAERNVDLSTIDAIASHGQTIWLLSMPEEGQVKSALTMAEGAILASRTGITSITDFRISDQAAGRQGAPLIAFFDALLLHHPTKLRACQNIGGIANVCFIPPDVDGRRTDEYYDFDTGPGNVFIDAVVRHFTNGEQEYDKDGAMGKRGKVDQELVDDFLKMPYFQLDPPKTTGREVFRDTLAHDLIRRAEAKGLSPDDIVATTTRITAQAIVDHYRRYAPSQEIDEIFMCGGGAYNPNIVEFIQQSYPNTKIMMLDEAGVPAGAKEAITFAWQGMEALVGRSIPVPTRVETRQHYVLGKVSPGLNYRSVMKKGMAFGGDAQQLPWVSEMIVKKKGKVITNNWAGSH 442
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439
   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 4ZFV)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

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  4zfv
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  2.7.-.-
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 Related Entries

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UniProtKB/TrEMBL
        B3VI55_LIPST | B3VI55: 4yh5 4zlu 5bsb 5bvc 5tkr

(-) Related Entries Specified in the PDB File

4yh5