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(-) Description

Title :  CRYSTAL STRUCTURE OF LPQW
 
Authors :  Z. Marland, J. Rossjohn
Date :  25 Apr 06  (Deposition) - 18 Jul 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Keywords :  Substrate-Binding Protein Scaffold, Biosynthetic Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. Marland, T. Beddoe, L. Zaker-Tabrizi, I. S. Lucet, R. Brammananth, J. C. Whisstock, M. C. Wilce, R. L. Coppel, P. K. Crellin, J. Rossjohn
Hijacking Of A Substrate-Binding Protein Scaffold For Use In Mycobacterial Cell Wall Biosynthesis
J. Mol. Biol. V. 359 983 2006
PubMed-ID: 16698034  |  Reference-DOI: 10.1016/J.JMB.2006.04.012
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - LPQW
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Plasmid: PET28B
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: ECTODOMAIN
    Gene: LPQW
    Organism Scientific: MYCOBACTERIUM SMEGMATIS STR. MC2 155
    Organism Taxid: 246196
    Strain: MC2155

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): A  
Biological Unit 2 (1x):  B 
Biological Unit 3 (1x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2GRV)

(-) Sites  (0, 0)

(no "Site" information available for 2GRV)

(-) SS Bonds  (3, 3)

Asymmetric Unit
No.Residues
1A:463 -A:525
2B:463 -B:525
3C:463 -C:525

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2GRV)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2GRV)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2GRV)

(-) Exons   (0, 0)

(no "Exon" information available for 2GRV)

(-) 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:516
 aligned with LPQW_MYCS2 | A0R2I8 from UniProtKB/Swiss-Prot  Length:627

    Alignment length:575
                                    61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621     
           LPQW_MYCS2    52 APTQIIMAIDSIGPGFNPHLLSDQSPVNAAIASLVLPSSFRPVPDPTSPTGSRWELDTTLLESAEVTNENPFTVTYKIRPEAQWTDNAPIAADDYWYLWRQMVSQPGVVDPAGYDLITGVQSVEGGKQAVVTFSQPYPAWRELFNDILPAHIVKDIPGGFGAGLARAMPVTGGQFRVETIDPQRDEILLARNDRFWSVPAKPDLVLFRRGGAPAALADSIRNGDTQVAQVHGGAATFAQLSAIPDVRTARIVTPRVMQLTLRAQQPKLADPQVRKAILGLIDVDLLASVGAGDDNTVTLAQAQVRSPSDPGYVPTAPPAMTRDDALELLRDAGYVSEPVPPPDNTADDPPPDNGRERIVKDGVPLTIVLGVASNDPTSVAVANTAADQLRNVGIDASVLALDPVALYGDALVNNRVDAVVGWRQAGGDLATVLASRYGCRALEATPVATAVPGPATTTSQAPTTTTTTTPPATTTPTPTAPIPAPESGELVQAPSNITGICDRSIQPRIDAALDGTDDIADVIQAVEPRLWNMATVLPILQDTTIVAAGPSVQNVSLTGAVPVGIVGDAGDWTKT 626
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee..........hhhhhhhhhhhhhhhhh...eeeee.......eeeee....eeeeeeee....eeeeee............hhhhhhhhhhhhhhh.......hhh.eeeeeee....eeeeee.....hhhhh.....hhhhhh...hhhhhh...........eeeeeee....eeeeee............eeeeee..hhhhhhhhhhh....eeee..hhhhhhhhhh....eeeeeeeeeeeeeee...hhhhhhhhhhhhhhhh.hhhhhhhhhhh.....ee.....................hhhhhhhhhhhh..eee.....------------..eeee..ee.eeeeeee..hhhhhhhhhhhhhhhhhh..eeeeeeehhhhhhhh........eeeeeee...hhhhhhhhhhh......-----------------------------------------------..........hhhhhhhhhhhhh...hhhhhhhhhhhhhhhh..eeeeeeeeeeeee...ee..............hhhhhee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2grv A  25 APTQIIMAIDSIGPGFNPHLLSDQSPVNAAIASLVLPSSFRPVPDPTSPTGSRWELDTTLLESAEVTQENPFTVTYKIRPEAQWTDNAPIAADDYWYLWRQMVSQPGVVDPAGYDLITGVQSVEGGKQAVVTFSQPYPAWRELFNDILPAHIVKDIPGGFGAGLARAMPVTGGQFRVETIDPQRDEILLARNDRFWSVPAKPDLVLFRRGGAPAALADSIRNGDTQVAQVHGGAATFAQLSAIPDVRTARIVTPRVMQLTLRAQQPKLADPQVRKAILGLIDVDLLASVGAGDDNTVTLAQAQVRSPSDPGYVPTAPPAMTRDDALELLRDAGYVSEPVPPP------------RERIVKDGVPLTIVLGVASNDPTSVAVANTAADQLRNVGIDASVLALDPVALYGDALVNNRVDAVVGWRQAGGDLATVLASRYGCRALEA-----------------------------------------------QAPSNITGICDRSIQPRIDAALDGTDDIADVIQAVEPRLWNMATVLPILQDTTIVAAGPSVQNVSLTGAVPVGIVGDAGDWTKT 599
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364 |       -    |  384       394       404       414       424       434       444       454       464   |     -         -         -         -         - |     524       534       544       554       564       574       584       594     
                                                                                                                                                                                                                                                                                                                                                                               366          379                                                                                      468                                             516                                                                                   


Chain B from PDB  Type:PROTEIN  Length:509
 aligned with LPQW_MYCS2 | A0R2I8 from UniProtKB/Swiss-Prot  Length:627

    Alignment length:575
                                    61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621     
           LPQW_MYCS2    52 APTQIIMAIDSIGPGFNPHLLSDQSPVNAAIASLVLPSSFRPVPDPTSPTGSRWELDTTLLESAEVTNENPFTVTYKIRPEAQWTDNAPIAADDYWYLWRQMVSQPGVVDPAGYDLITGVQSVEGGKQAVVTFSQPYPAWRELFNDILPAHIVKDIPGGFGAGLARAMPVTGGQFRVETIDPQRDEILLARNDRFWSVPAKPDLVLFRRGGAPAALADSIRNGDTQVAQVHGGAATFAQLSAIPDVRTARIVTPRVMQLTLRAQQPKLADPQVRKAILGLIDVDLLASVGAGDDNTVTLAQAQVRSPSDPGYVPTAPPAMTRDDALELLRDAGYVSEPVPPPDNTADDPPPDNGRERIVKDGVPLTIVLGVASNDPTSVAVANTAADQLRNVGIDASVLALDPVALYGDALVNNRVDAVVGWRQAGGDLATVLASRYGCRALEATPVATAVPGPATTTSQAPTTTTTTTPPATTTPTPTAPIPAPESGELVQAPSNITGICDRSIQPRIDAALDGTDDIADVIQAVEPRLWNMATVLPILQDTTIVAAGPSVQNVSLTGAVPVGIVGDAGDWTKT 626
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee..........hhhhhhhhhhhhhhhhh...eeeee.......eeeee....eeeeeeee....eeeeee............hhhhhhhhhhhhhhh.......hhh.eeeeeee....eeeeee.....hhhhh.....hhhhhh...hhhhhh...........eeeeeee....eeeeee............eeeeee..hhhhhhhhhhh....eeee..hhhhhhhhhh....eeeeeeeeeeeeeee...hhhhhhhhhhhhhhhh.hhhhhhhhhhh............................hhhhhhhhhhhhh.eee.----------------..eeee..ee.eeeeeee..hhhhhhhhhhhhhhhhh...eeeeeeehhhhhhhhhhhh....eeeeeee...hhhhhhhhhhh....--------------------------------------------------............hhhhhhhhhh...hhhhhhhhhhhhhhhh..eeeeeeeeeeeee...ee...........hhhhhhhhee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2grv B  25 APTQIIMAIDSIGPGFNPHLLSDQSPVNAAIASLVLPSSFRPVPDPTSPTGSRWELDTTLLESAEVTQENPFTVTYKIRPEAQWTDNAPIAADDYWYLWRQMVSQPGVVDPAGYDLITGVQSVEGGKQAVVTFSQPYPAWRELFNDILPAHIVKDIPGGFGAGLARAMPVTGGQFRVETIDPQRDEILLARNDRFWSVPAKPDLVLFRRGGAPAALADSIRNGDTQVAQVHGGAATFAQLSAIPDVRTARIVTPRVMQLTLRAQQPKLADPQVRKAILGLIDVDLLASVGAGDDNTVTLAQAQVRSPSDPGYVPTAPPAMTRDDALELLRDAGYVSEP----------------RERIVKDGVPLTIVLGVASNDPTSVAVANTAADQLRNVGIDASVLALDPVALYGDALVNNRVDAVVGWRQAGGDLATVLASRYGCRAL--------------------------------------------------APSNITGICDRSIQPRIDAALDGTDDIADVIQAVEPRLWNMATVLPILQDTTIVAAGPSVQNVSLTGAVPVGIVGDAGDWTKT 599
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       | -         -    |  384       394       404       414       424       434       444       454       464 |       -         -         -         -         -  |    524       534       544       554       564       574       584       594     
                                                                                                                                                                                                                                                                                                                                                                           362              379                                                                                    466                                                517                                                                                  


Chain C from PDB  Type:PROTEIN  Length:511
 aligned with LPQW_MYCS2 | A0R2I8 from UniProtKB/Swiss-Prot  Length:627

    Alignment length:575
                                    61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621     
           LPQW_MYCS2    52 APTQIIMAIDSIGPGFNPHLLSDQSPVNAAIASLVLPSSFRPVPDPTSPTGSRWELDTTLLESAEVTNENPFTVTYKIRPEAQWTDNAPIAADDYWYLWRQMVSQPGVVDPAGYDLITGVQSVEGGKQAVVTFSQPYPAWRELFNDILPAHIVKDIPGGFGAGLARAMPVTGGQFRVETIDPQRDEILLARNDRFWSVPAKPDLVLFRRGGAPAALADSIRNGDTQVAQVHGGAATFAQLSAIPDVRTARIVTPRVMQLTLRAQQPKLADPQVRKAILGLIDVDLLASVGAGDDNTVTLAQAQVRSPSDPGYVPTAPPAMTRDDALELLRDAGYVSEPVPPPDNTADDPPPDNGRERIVKDGVPLTIVLGVASNDPTSVAVANTAADQLRNVGIDASVLALDPVALYGDALVNNRVDAVVGWRQAGGDLATVLASRYGCRALEATPVATAVPGPATTTSQAPTTTTTTTPPATTTPTPTAPIPAPESGELVQAPSNITGICDRSIQPRIDAALDGTDDIADVIQAVEPRLWNMATVLPILQDTTIVAAGPSVQNVSLTGAVPVGIVGDAGDWTKT 626
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee..........hhhhhhhhhhhhhhhhh...eeeee.......eeeee....eeeeeeee....eeeeee............hhhhhhhhhhhhhhh.......hhh.eeeeeee....eeeeee.....hhhhh.....hhhhhh...hhhhhh...........eeeeeee....eeeeee............eeeeee..hhhhhhhhhhh....eeee..hhhhhhhhhh....eeeeeeeeeeeeeee...hhhhhhhhhhhhhhhhhhhhhhhhhhhh.....ee.....................hhhhhhhhhhhh..eee..---------------..eeee..ee.eeeeeee..hhhhhhhhhhhhhhhhhh..eeeeeeehhhhhhhh........eeeeeee...hhhhhhhhhhh....-------------------------------------------------..........hhhhhhhhhhhhh...hhhhhhhhhhhhhhhh..eeeeeeeeeeeee...ee..............hhhhhee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2grv C  25 APTQIIMAIDSIGPGFNPHLLSDQSPVNAAIASLVLPSSFRPVPDPTSPTGSRWELDTTLLESAEVTQENPFTVTYKIRPEAQWTDNAPIAADDYWYLWRQMVSQPGVVDPAGYDLITGVQSVEGGKQAVVTFSQPYPAWRELFNDILPAHIVKDIPGGFGAGLARAMPVTGGQFRVETIDPQRDEILLARNDRFWSVPAKPDLVLFRRGGAPAALADSIRNGDTQVAQVHGGAATFAQLSAIPDVRTARIVTPRVMQLTLRAQQPKLADPQVRKAILGLIDVDLLASVGAGDDNTVTLAQAQVRSPSDPGYVPTAPPAMTRDDALELLRDAGYVSEPV---------------RERIVKDGVPLTIVLGVASNDPTSVAVANTAADQLRNVGIDASVLALDPVALYGDALVNNRVDAVVGWRQAGGDLATVLASRYGCRAL-------------------------------------------------QAPSNITGICDRSIQPRIDAALDGTDDIADVIQAVEPRLWNMATVLPILQDTTIVAAGPSVQNVSLTGAVPVGIVGDAGDWTKT 599
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354        |-         -    |  384       394       404       414       424       434       444       454       464 |       -         -         -         -         - |     524       534       544       554       564       574       584       594     
                                                                                                                                                                                                                                                                                                                                                                            363             379                                                                                    466                                               516
   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 2GRV)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2GRV)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2GRV)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C   (LPQW_MYCS2 | A0R2I8)
biological process
    GO:0009247    glycolipid biosynthetic process    The chemical reactions and pathways resulting in the formation of glycolipid, a class of 1,2-di-O-acylglycerols joined at oxygen 3 by a glycosidic linkage to a carbohydrate part (usually a mono-, di- or tri-saccharide).
    GO:0006629    lipid metabolic process    The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids.
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
    GO:0046488    phosphatidylinositol metabolic process    The chemical reactions and pathways involving phosphatidylinositol, any glycophospholipid in which a sn-glycerol 3-phosphate residue is esterified to the 1-hydroxyl group of 1D-myo-inositol.
    GO:0008654    phospholipid biosynthetic process    The chemical reactions and pathways resulting in the formation of phospholipids, any lipid containing phosphoric acid as a mono- or diester.

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