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(-) Description

Title :  CRYSTAL STRUCTURE OF THE CATALYTIC MODULE OF A FAMILY 98 GLYCOSIDE HYDROLASE FROM STREPTOCOCCUS PNEUMONIAE SP3-BS71 (SP3GH98) IN COMPLEX WITH THE A-LEWISY PENTASACCHARIDE BLOOD GROUP ANTIGEN.
 
Authors :  M. A. Higgins, G. E. Whitworth, N. El Warry, M. Randriantsoa, E. Samain, R. D. Burke, D. J. Vocadlo, A. B. Boraston
Date :  30 Jun 09  (Deposition) - 14 Jul 09  (Release) - 28 Nov 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Blood Group, Antigen, Fucose Utilization, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. A. Higgins, G. E. Whitworth, N. El Warry, M. Randriantsoa, E. Samain, R. D. Burke, D. J. Vocadlo, A. B. Boraston
Differential Recognition And Hydrolysis Of Host Carbohydrate-Antigens By Streptococcus Pneumoniae Family 98 Glycoside Hydrolases.
J. Biol. Chem. V. 284 26161 2009
PubMed-ID: 19608744  |  Reference-DOI: 10.1074/JBC.M109.024067

(-) Compounds

Molecule 1 - FUCOLECTIN-RELATED PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: BL21 STAR (DE3)
    Expression System Taxid: 469008
    Fragment: CATALYTIC MODULE, RESIDUES 423-1005
    Mutation: YES
    Organism Scientific: STREPTOCOCCUS PNEUMONIAE
    Organism Taxid: 406556
    Strain: SP3-BS71
    Synonym: GLYCOSIDE HYDROLASE

 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  (4, 10)

Asymmetric Unit (4, 10)
No.NameCountTypeFull Name
1A2G2Ligand/IonN-ACETYL-2-DEOXY-2-AMINO-GALACTOSE
2FUC4Ligand/IonALPHA-L-FUCOSE
3GAL2Ligand/IonBETA-D-GALACTOSE
4NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
Biological Unit 1 (4, 5)
No.NameCountTypeFull Name
1A2G1Ligand/IonN-ACETYL-2-DEOXY-2-AMINO-GALACTOSE
2FUC2Ligand/IonALPHA-L-FUCOSE
3GAL1Ligand/IonBETA-D-GALACTOSE
4NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
Biological Unit 2 (4, 5)
No.NameCountTypeFull Name
1A2G1Ligand/IonN-ACETYL-2-DEOXY-2-AMINO-GALACTOSE
2FUC2Ligand/IonALPHA-L-FUCOSE
3GAL1Ligand/IonBETA-D-GALACTOSE
4NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETYR A:440 , HIS A:479 , THR A:523 , THR A:557 , GLU A:710 , GAL A:2007 , NAG A:2008 , FUC A:2009 , A2G A:2010 , HOH A:3447 , HOH A:3448BINDING SITE FOR RESIDUE FUC A2006
02AC2SOFTWARETHR A:626 , TRP A:659 , TYR A:662 , GLU A:663 , FUC A:2006 , NAG A:2008 , FUC A:2009 , A2G A:2010 , HOH A:3449BINDING SITE FOR RESIDUE GAL A2007
03AC3SOFTWARETYR A:560 , TRP A:561 , FUC A:2006 , GAL A:2007 , FUC A:2009 , HOH A:3104 , HOH A:3179BINDING SITE FOR RESIDUE NAG A2008
04AC4SOFTWARETYR A:530 , FUC A:2006 , GAL A:2007 , NAG A:2008 , A2G A:2010 , HOH A:3051 , HOH A:3450BINDING SITE FOR RESIDUE FUC A2009
05AC5SOFTWAREASP A:481 , TRP A:659 , GLU A:710 , HIS A:711 , PRO A:712 , LYS A:929 , FUC A:2006 , GAL A:2007 , FUC A:2009 , HOH A:3212 , HOH A:3451 , HOH A:3452 , HOH A:3453BINDING SITE FOR RESIDUE A2G A2010
06AC6SOFTWARETYR B:440 , HIS B:479 , THR B:523 , THR B:557 , GLU B:710 , GAL B:2007 , NAG B:2008 , FUC B:2009 , A2G B:2010 , HOH B:3512 , HOH B:3513BINDING SITE FOR RESIDUE FUC B2006
07AC7SOFTWARETHR B:626 , TRP B:659 , TYR B:662 , GLU B:663 , FUC B:2006 , NAG B:2008 , FUC B:2009 , A2G B:2010 , HOH B:3514BINDING SITE FOR RESIDUE GAL B2007
08AC8SOFTWARETYR B:560 , TRP B:561 , GLU B:663 , FUC B:2006 , GAL B:2007 , FUC B:2009 , HOH B:3187BINDING SITE FOR RESIDUE NAG B2008
09AC9SOFTWAREALA B:524 , TYR B:530 , FUC B:2006 , GAL B:2007 , NAG B:2008 , A2G B:2010 , HOH B:3048 , HOH B:3077 , HOH B:3515 , HOH B:3516 , HOH B:3517BINDING SITE FOR RESIDUE FUC B2009
10BC1SOFTWAREASP B:481 , TRP B:659 , GLU B:710 , HIS B:711 , PRO B:712 , LYS B:929 , FUC B:2006 , GAL B:2007 , FUC B:2009 , HOH B:3230 , HOH B:3518 , HOH B:3519 , HOH B:3520 , HOH B:3521BINDING SITE FOR RESIDUE A2G B2010

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2WMK)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Glu A:710 -His A:711
2Thr A:799 -Asp A:800
3Glu B:710 -His B:711

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2WMK)

(-) 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:572
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eeeeeee.hhhhhhh.........hhhhhhhhh...hhh.eeeeee........hhhhhhhhhhhhhhhhh............eeeeeee.hhh...hhhhhhhhhhhhhhhhhh..eeeeeee........hhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhh.....hhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhhhhhhhh....eeeeeee.hhhhhh..............hhhhhh...hhhhhhhhhhhhhh....eeeeehhhhhhee..eehhhhhhhhhhhhhhhhhh...hhhhhhhh..eeee.hhhhhhhhhhhh.....................ee........eeee..hhhhhhhhhhhhhhhhhh........eeeee..eeeee.........eeeeeee..eeeeeee....eeeeeee..eeeeeee.....hhhhhh...hhhhhhh....hhhhhhhhhhhhh.........eeeeeeee......eeeeeee........eeeeehhhheeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2wmk A  422 VDKRREINNEHPLLMMPLYANGEEFNQGKYTFWGGDTLTGKWENIPDDLKPYTVIQLHPDDLPKRDGAARDFYEHMLEEAAKYVNPKTGKNEPIPVILTVYTAGNMPYYTSAHWLSTSWIDKMYQKYPNLHGIFSTANYWIWANDIENKAADYLKVSAKNGGYFIWAEQNNGSAIEKAFGKNGKIAFQKSVDKYWKNLIFMFKNTPAAEGNDSTTESYMKGLWLSNHTYQWGGLMDTWKWYETGKWKLFASGNIGKSQGDRQWLTEPESMLGEEALGVYLNGGVVYNFEHPAYTYGVNNKESLLFSEVIKEFFRYVIAHPAPSKEKVLEDTKVFIHGDYSNKGNGKFFVNVNTDREQTPLYMTGRYNVIPAIPGVLKTDIQIKEITSPEFSSTQARKEYLNKLYPMNYEGDIFAQKLDNRWFVYNYKVNENVKQTGKLKFNSLEMNVEFEPHTYGIFERISNGLKVNLNNFRTNKDSLWSNAQDANQAKKLPQLTKKGAIKWIEEHYIKDTQFGEKRVTKIVLRGIDKLPTIHSLSGTNNSYDQPSLNFDQKNHMVTITINSNGNLEFELHF 1005
                                   431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631       641       651       661       671       681       691       701       711       721       731       741       751       761       771       781       791       813       823       833       843       853       863       873       883       893       903       913       923       933       943       953       963       973       983       993      1003  
                                                                                                                                                                                                                                                                                                                                                                                                                    800|                                                                                                                                                                                                
                                                                                                                                                                                                                                                                                                                                                                                                                     813                                                                                                                                                                                                


Chain B from PDB  Type:PROTEIN  Length:573
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eeeeeee.hhhhhh..........hhhhhhhhh...hhh.eeeeee........hhhhhhhhhhhhhhhh.............eeeeeee.hhh...hhhhhhhhhhhhhhhhhh..eeeeeee........hhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhh.....hhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhhhhhhhh....eeeeeee.hhhhhh..............hhhhhh...hhhhhhhhhhhhhh....eeeeehhhhhhee..eehhhhhhhhhhhhhhhhhh...hhhhhhhh..eeee.hhhhhhhhhhh......................ee.........eeee..hhhhhhhhhhhhhhhhhh........eeeee..eeeee.........eeeeeee..eeeeeee....eeeeeee..eeeeeee.....hhhhhh...hhhhhhh....hhhhhhhhhhhhh.........eeeeeeee......eeeeeee........eeeeehhh.eeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2wmk B  422 VDKRREINNEHPLLMMPLYANGEEFNQGKYTFWGGDTLTGKWENIPDDLKPYTVIQLHPDDLPKRDGAARDFYEHMLEEAAKYVNPKTGKNEPIPVILTVYTAGNMPYYTSAHWLSTSWIDKMYQKYPNLHGIFSTANYWIWANDIENKAADYLKVSAKNGGYFIWAEQNNGSAIEKAFGKNGKIAFQKSVDKYWKNLIFMFKNTPAAEGNDSTTESYMKGLWLSNHTYQWGGLMDTWKWYETGKWKLFASGNIGKSQGDRQWLTEPESMLGEEALGVYLNGGVVYNFEHPAYTYGVNNKESLLFSEVIKEFFRYVIAHPAPSKEKVLEDTKVFIHGDYSNKGNGKFFVNVNTDREQTPLYMTGRYNVIPAIPGVLKTDRIQIKEITSPEFSSTQARKEYLNKLYPMNYEGDIFAQKLDNRWFVYNYKVNENVKQTGKLKFNSLEMNVEFEPHTYGIFERISNGLKVNLNNFRTNKDSLWSNAQDANQAKKLPQLTKKGAIKWIEEHYIKDTQFGEKRVTKIVLRGIDKLPTIHSLSGTNNSYDQPSLNFDQKNHMVTITINSNGNLEFELHF 1005
                                   431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631       641       651       661       671       681       691       701       711       721       731       741       751       761       771       781       791       812       822       832       842       852       862       872       882       892       902       912       922       932       942       952       962       972       982       992      1002   
                                                                                                                                                                                                                                                                                                                                                                                                                    800|                                                                                                                                                                                                 
                                                                                                                                                                                                                                                                                                                                                                                                                     812
   Legend:   → Mismatch (orange background)
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  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 2WMK)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

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  Cis Peptide Bonds
    Glu A:710 - His A:711   [ RasMol ]  
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  2wmk
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2wmi CRYSTAL STRUCTURE OF THE CATALYTIC MODULE OF A FAMILY 98 GLYCOSIDE HYDROLASE FROM STREPTOCOCCUS PNEUMONIAE SP3-BS71 IN COMPLEX WITH THE A-TRISACCHARIDE BLOOD GROUP ANTIGEN
2wmj CRYSTAL STRUCTURE OF THE CATALYTIC MODULE OF A FAMILY 98 GLYCOSIDE HYDROLASE FROM STREPTOCOCCUS PNEUMONIAE SP3-BS71 (SP3GH98) IN COMPLEX WITH THE B-TRISACCHARIDE BLOOD GROUP ANTIGEN.