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(-) Description

Title :  LIPOMYCES STARKEYI LEVOGLUCOSAN KINASE BOUND TO ADP AND MANGANESE
 
Authors :  J. P. Bacik
Date :  26 Feb 15  (Deposition) - 16 Sep 15  (Release) - 11 Nov 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
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, 7)

Asymmetric/Biological Unit (3, 7)
No.NameCountTypeFull Name
1ADP2Ligand/IonADENOSINE-5'-DIPHOSPHATE
2MN4Ligand/IonMANGANESE (II) ION
3TRS1Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
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 , MN A:602 , MN A:603 , HOH A:724 , HOH A:728 , HOH A:810 , HOH A:875 , HOH A:894 , HOH A:916binding site for residue ADP A 601
2AC2SOFTWAREGLU A:362 , ADP A:601 , HOH A:724 , HOH A:1060 , HOH A:1086binding site for residue MN A 602
3AC3SOFTWAREASP A:26 , ADP A:601 , HOH A:726 , HOH A:728 , HOH A:810binding site for residue MN A 603
4AC4SOFTWAREGLY 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 , MN B:502 , MN B:503 , HOH B:620 , HOH B:648 , HOH B:665 , HOH B:688 , HOH B:781 , HOH B:794 , HOH B:883binding site for residue ADP B 501
5AC5SOFTWAREGLU B:362 , ADP B:501 , HOH B:648 , HOH B:937 , HOH B:969binding site for residue MN B 502
6AC6SOFTWAREASP B:26 , ADP B:501 , HOH B:620 , HOH B:650 , HOH B:688binding site for residue MN B 503
7AC7SOFTWARELEU B:174 , HIS B:176 , GLU B:424 , THR B:435 , ASN B:436 , ASN B:437 , HOH B:607 , HOH B:675 , HOH B:717binding site for residue TRS B 504

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4YH5)

(-) 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 4YH5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4YH5)

(-) Exons   (0, 0)

(no "Exon" information available for 4YH5)

(-) 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:430
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeee.....eeeeeeeeeee......eeeeeeeeeeee.hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh.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
                 4yh5 A  11 VLDFTVLGLNSGTSMDGIDCALCHFYQKTPDAPMEFELLEYGEVPLAQPIKQRVMRMILEDTTSPSELSEVNVILGEHFADAVRQFAAERNVDLSTIDAIASHGQTIWLLSMPEEGQVKSALTMAEGAILASRTGITSITDFRISDQAAGRQGAPLIAFFDALLLHHPTKLRACQNIGGIANVCFIPPDVDGRRTDEYYDFDTGPGNVFIDAVVRHFTNGEQEYDKDGAMGKRGKVDQELVDDFLKMPYFQLDPPKTTGREVFRDTLAHDLIRRAEAKGLSPDDIVATTTRITAQAIVDHYRRYAPSQEIDEIFMCGGGAYNPNIVEFIQQSYPNTKIMMLDEAGVPAGAKEAITFAWQGMEALVGRSIPVPTRVETRQHYVLGKVSPGLNYRSVMKKGMAFGGDAQQLPWVSEMIVKKKGKVITNNWAG 440
                                    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       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440


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..hhhhhhhhh.hhhhhh...........hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh......eeeeehhhhhhhhhhhhhhhhh...eeee.hhhh....hhhhhhhhhhhhhhhhh..................eee...hhhhhhhhhhhh............eeeee..eee...hhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yh5 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 4YH5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4YH5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4YH5)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

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  2.7.-.-
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 Related Entries

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

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

(-) Related Entries Specified in the PDB File

4zfv