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(-) Description

Title :  CRYSTAL STRUCTURE OF STREPTOCOCCUS PNEUMONIAE NANC, COMPLEX WITH OSELTAMIVIR CARBOXYLATE
 
Authors :  C. D. Owen, P. Lukacik, J. A. Potter, M. Walsh, G. L. Taylor
Date :  20 Mar 15  (Deposition) - 23 Sep 15  (Release) - 25 Nov 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Sialidase, Neuraminidase, Oseltamivir, Cbm40, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. D. Owen, P. Lukacik, J. A. Potter, O. Sleator, G. L. Taylor, M. A. Wals
Streptococcus Pneumoniae Nanc: Structural Insights Into The Specificity And Mechanism Of A Sialidase That Produces A Sialidase Inhibitor.
J. Biol. Chem. V. 290 27736 2015
PubMed-ID: 26370075  |  Reference-DOI: 10.1074/JBC.M115.673632

(-) Compounds

Molecule 1 - NEURAMINIDASE C
    Chains: A, B
    EC Number: 3.2.1.18
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET21B
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 83-740
    Gene: NANC, SPG_1219
    Organism Scientific: STREPTOCOCCUS PNEUMONIAE
    Organism Taxid: 1313
    Strain: G54

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 12)

Asymmetric Unit (3, 12)
No.NameCountTypeFull Name
1EDO1Ligand/Ion1,2-ETHANEDIOL
2G392Ligand/Ion(3R,4R,5S)-4-(ACETYLAMINO)-5-AMINO-3-(PENTAN-3-YLOXY)CYCLOHEX-1-ENE-1-CARBOXYLIC ACID
3GOL9Ligand/IonGLYCEROL
Biological Unit 1 (3, 7)
No.NameCountTypeFull Name
1EDO1Ligand/Ion1,2-ETHANEDIOL
2G391Ligand/Ion(3R,4R,5S)-4-(ACETYLAMINO)-5-AMINO-3-(PENTAN-3-YLOXY)CYCLOHEX-1-ENE-1-CARBOXYLIC ACID
3GOL5Ligand/IonGLYCEROL
Biological Unit 2 (2, 5)
No.NameCountTypeFull Name
1EDO-1Ligand/Ion1,2-ETHANEDIOL
2G391Ligand/Ion(3R,4R,5S)-4-(ACETYLAMINO)-5-AMINO-3-(PENTAN-3-YLOXY)CYCLOHEX-1-ENE-1-CARBOXYLIC ACID
3GOL4Ligand/IonGLYCEROL

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:290 , ARG A:309 , ASP A:315 , ASP A:372 , PHE A:396 , TYR A:533 , TYR A:553 , SER A:582 , ARG A:600 , ARG A:662 , TYR A:695 , TRP A:716 , GOL A:802 , HOH A:911 , HOH A:917binding site for residue G39 A 801
02AC2SOFTWAREASP A:315 , SER A:715 , G39 A:801 , HOH A:903 , HOH A:917 , HOH A:1003binding site for residue GOL A 802
03AC3SOFTWAREASP A:449 , ASN A:451 , GLY A:453 , HIS A:485 , ASN A:487 , HOH A:1025binding site for residue GOL A 803
04AC4SOFTWAREARG A:173 , SER A:176 , ALA A:205 , ASN A:206 , THR A:208 , LEU A:276 , LYS A:724 , ASN A:725 , VAL A:726binding site for residue GOL A 804
05AC5SOFTWAREASP A:315 , PHE A:316 , LEU A:317 , ASN A:318 , GLY A:366 , GLY A:367 , THR A:369 , MET A:390 , PRO A:391 , GLY A:393 , VAL A:394binding site for residue GOL A 805
06AC6SOFTWARELYS A:209 , GLU A:212 , GLU A:352 , LYS A:724binding site for residue GOL A 806
07AC7SOFTWAREPRO A:348 , GLN A:465binding site for residue EDO A 807
08AC8SOFTWAREARG B:290 , ASP B:315 , ASP B:372 , TYR B:533 , TYR B:553 , SER B:582 , ARG B:600 , ARG B:662 , TYR B:695 , TRP B:716 , HOH B:921 , HOH B:1015binding site for residue G39 B 801
09AC9SOFTWAREARG B:173 , SER B:176 , ALA B:205 , ASN B:206 , THR B:208 , LYS B:724 , ASN B:725 , VAL B:726binding site for residue GOL B 802
10AD1SOFTWARELYS B:209 , VAL B:211 , GLU B:212 , GLU B:352 , LYS B:724binding site for residue GOL B 803
11AD2SOFTWAREARG B:290 , ASP B:315 , PHE B:316 , SER B:715 , HOH B:921 , HOH B:942 , HOH B:997binding site for residue GOL B 804
12AD3SOFTWAREASP B:315 , PHE B:316 , LEU B:317 , ASN B:318 , GLY B:366 , GLY B:367 , PRO B:391 , GLY B:393 , VAL B:394binding site for residue GOL B 805

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4YW5)

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Phe A:316 -Leu A:317
2Glu A:471 -Asn A:472
3Asn A:473 -Lys A:474
4Phe B:316 -Leu B:317
5Glu B:471 -Asn B:472
6Asn B:473 -Lys B:474

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4YW5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4YW5)

(-) Exons   (0, 0)

(no "Exon" information available for 4YW5)

(-) 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:659
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeee...eehhhhhh.......eeeeeeeee......eeeeeee.........eeeeee.....eeeeeee....eeeeeee......ee..ee..eeeeeeee....eeeeee..eeeeeee.....hhhhh....eeee..eee..eee...eeeeeeeeee....hhhhhhhhhh..hhhhh...........eeeeeeeee.....eeeeeeee..........eeeeeeee..........eeee................hhhhh......eeeeeeeee.....eeeeeeee...............eeee..eeeeeeee.......eee....eeee....eeeeeee.....eee..ee.eeeeeeeee....eeeeeeeeeee.........ee.....eeeeeee..........ee............ee..ee.ee......eeeeee...eeeeeee.......eeeeee........eeeeeee..eeeeee.......eeeee..........ee.............eeee.........eeeeee..........eeeeeee.....eeeeeeee..........eeeee.....eeeee......hhhhh.......eeeehhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yw5 A  83 ETPVLEKNNVTLTGGGENVTKELKDKFTSGDFTVVIKYNQSSEKGLQALFGISNSKPGQQNSYVDVFLRDNGELGMEARDTSSNKNNLVSRPASVWGKYKQEAVTNTVAVVADSVKKTYSLYANGTKVVEKKVDNFLNIKDIKGIDYYMLGGVKRAGKTAFGFNGTLENIKFFNSALDEETVKKMTTNAVTGHLIYTANDTTGSNYFRIPVLYTFSNGRVFSSIDARYGGTHDFLNKINIATSYSDDNGKTWTKPKLTLAFDDFAPVPLEWPREVGGRDLQISGGATYIDSVIVEKKNKQVLMFADVMPAGVSFREATRKDSGYKQIDGNYYLKLRKQGDTDYNYTIRENGTVYDDRTNRPTEFSVDKNFGIKQNGNYLTVEQYSVSFENNKKTEYRNGTKVHMNIFYKDALFKVVPTNYIAYISSNDHGESWSAPTLLPPIMGLNRNAPYLGPGRGIIESSTGRILIPSYTGKESAFIYSDDNGASWKVKVVPLPSSWSAEAQFVELSPGVIQAYMRTNNGKIAYLTSKDAGTTWSAPEYLKFVSNPSYGTQLSIINYSQLIDGKKAVILSTPNSTNGRKHGQIWIGLINDDNTIDWRYHHDVDYSNYGYSYSTLTELPNHEIGLMFEKFDSWSRNELHMKNVVPYITFKIEDLKKNL 741
                                    92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       682       692       702       712       722       732         


Chain B from PDB  Type:PROTEIN  Length:659
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeee...ee.hhhh........eeeeeeeee......eeeeeee.........eeeeee.....eeeeeee....eeeeeee......ee..ee..eeeeeeee....eeeeee..eeeeeee.....hhhhh....eeee..eee..eee...eeeeeeeeee....hhhhhhhhh...hhhhh...........eeeeeeeee.....eeeeeeee..........eeeeeeee..........eeee................hhhhh......eeeeeeeee.....eeeeeeee...............eeee..eeeeeeee.......eee....eeee....eeeeeee.....eee..ee.eeeeeeee......eeeeeeeeee.........ee.....eeeeeee..........ee............ee..ee.ee......eeeeee...eeeeeee.......eeeeee........eeeeeee..eeeeee.......eeeee..........ee.............eeee.........eeeeeee........eeeeeeee.....eeeeeeee..........eeeee.....eeeee......hhhhh.......eeeehhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yw5 B  83 ETPVLEKNNVTLTGGGENVTKELKDKFTSGDFTVVIKYNQSSEKGLQALFGISNSKPGQQNSYVDVFLRDNGELGMEARDTSSNKNNLVSRPASVWGKYKQEAVTNTVAVVADSVKKTYSLYANGTKVVEKKVDNFLNIKDIKGIDYYMLGGVKRAGKTAFGFNGTLENIKFFNSALDEETVKKMTTNAVTGHLIYTANDTTGSNYFRIPVLYTFSNGRVFSSIDARYGGTHDFLNKINIATSYSDDNGKTWTKPKLTLAFDDFAPVPLEWPREVGGRDLQISGGATYIDSVIVEKKNKQVLMFADVMPAGVSFREATRKDSGYKQIDGNYYLKLRKQGDTDYNYTIRENGTVYDDRTNRPTEFSVDKNFGIKQNGNYLTVEQYSVSFENNKKTEYRNGTKVHMNIFYKDALFKVVPTNYIAYISSNDHGESWSAPTLLPPIMGLNRNAPYLGPGRGIIESSTGRILIPSYTGKESAFIYSDDNGASWKVKVVPLPSSWSAEAQFVELSPGVIQAYMRTNNGKIAYLTSKDAGTTWSAPEYLKFVSNPSYGTQLSIINYSQLIDGKKAVILSTPNSTNGRKHGQIWIGLINDDNTIDWRYHHDVDYSNYGYSYSTLTELPNHEIGLMFEKFDSWSRNELHMKNVVPYITFKIEDLKKNL 741
                                    92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       682       692       702       712       722       732
   Legend:   → Mismatch (orange background)
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  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 4YW5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4YW5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4YW5)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4YW5)

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 Related Entries

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UniProtKB/TrEMBL
        A0A0H2UQE4_S | A0A0H2UQE4: 4yw1 4yw2 4yw3 4yz1 4yz2 4yz3 4yz4 4yz5

(-) Related Entries Specified in the PDB File

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