PDB entry 5z19

View 5z19 on RCSB PDB site
Description: The crystal structure of Ruminococcus gnavus beta-glucuronidase in complex with uronic isofagomine
Class: hydrolase
Keywords: beta-glucuronidase, GH2, HYDROLASE
Deposited on 2017-12-25, released 2018-12-12
The last revision prior to the SCOPe 2.07 freeze date was dated 2018-12-12, with a file datestamp of 2018-12-07.
Experiment type: XRAY
Resolution: 2.5 Å
R-factor: N/A
AEROSPACI score: 0.21 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: beta-glucuronidase
    Species: [Ruminococcus] gnavus [TaxId:33038]
    Gene: uidA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d5z19a1, d5z19a2, d5z19a3
  • Chain 'B':
    Compound: beta-glucuronidase
    Species: [Ruminococcus] gnavus [TaxId:33038]
    Gene: uidA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d5z19b1, d5z19b2, d5z19b3
  • Chain 'C':
    Compound: beta-glucuronidase
    Species: [Ruminococcus] gnavus [TaxId:33038]
    Gene: uidA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d5z19c1, d5z19c2, d5z19c3
  • Chain 'D':
    Compound: beta-glucuronidase
    Species: [Ruminococcus] gnavus [TaxId:33038]
    Gene: uidA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d5z19d1, d5z19d2, d5z19d3
  • Chain 'E':
    Compound: beta-glucuronidase
    Species: [Ruminococcus] gnavus [TaxId:33038]
    Gene: uidA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d5z19e1, d5z19e2, d5z19e3
  • Chain 'F':
    Compound: beta-glucuronidase
    Species: [Ruminococcus] gnavus [TaxId:33038]
    Gene: uidA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d5z19f1, d5z19f2, d5z19f3
  • Heterogens: SJ5, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download)
    >5z19A (A:)
    mhhhhhhssgvdlgtenlyfqsngmleyselypiqneyrmmqsldgmwkfqfdpeeigkk
    sgwenglpapvsmpvpssfadfftdhkerdycgdfwyetefylpaewrnkkiwlrfgsit
    hrgtvycngmeitsheggflpvladistvakpgqvnqvvvkinnelnetslpcgatkiln
    ngrklakpyfdffnysglqrsvwvialpeesvkdysvdyelcgtdalvkyevvttgehpv
    ivrlldaegelvaetegkegilqvanarlwevrnaylyqivilitdgngvldeyrekigi
    rtvriegtkillndrpvylkgfgkhedfpilgrgfhwgivkrdfeclkwtnancfrtshy
    pyaeewyqfadeegfliidevpavgmmrstrnfvaagsgnytyffealtvpellkshiad
    teemitrdknhpsviawslfnepetitdyayeyfkevfaaaetydfqsrpmtgafeknsk
    pelckcyplcdficlnryygwyisggpeieeaeelfrdemdrwkakelnvpfvftefgtd
    tmaglhklpsimwseeyqkeylemnfrvfdsyefvqgelawnfadfqttegimrvdgnhk
    gvftrdrqpkaaavvfkdrwekknelf
    

    Sequence, based on observed residues (ATOM records): (download)
    >5z19A (A:)
    leyselypiqneyrmmqsldgmwkfqfdpeeigkksgwenglpapvsmpvpssfadfftd
    hkerdycgdfwyetefylpaewrnkkiwlrfgsithrgtvycngmeitsheggflpvlad
    istvakpgqvnqvvvkinnelnetslpcgatkilnngrklakpyfdffnysglqrsvwvi
    alpeesvkdysvdyelcgtdalvkyevvttgehpvivrlldaegelvaetegkegilqva
    narlwevrnaylyqivilitdvldeyrekigirtvriegtkillndrpvylkgfgkhedf
    pilgrgfhwgivkrdfeclkwtnancfrtshypyaeewyqfadeegfliidevpavgmmr
    strnfvaagsgnytyffealtvpellkshiadteemitrdknhpsviawslfnepetitd
    yayeyfkevfaaaetydfqsrpmtgafeknskpelckcyplcdficlnryygwyisggpe
    ieeaeelfrdemdrwkakelnvpfvftefgtdtmaglhklpsimwseeyqkeylemnfrv
    fdsyefvqgelawnfadfqttegimrvdgnhkgvftrdrqpkaaavvfkdrwe
    

  • Chain 'B':
    Sequence, based on SEQRES records: (download)
    >5z19B (B:)
    mhhhhhhssgvdlgtenlyfqsngmleyselypiqneyrmmqsldgmwkfqfdpeeigkk
    sgwenglpapvsmpvpssfadfftdhkerdycgdfwyetefylpaewrnkkiwlrfgsit
    hrgtvycngmeitsheggflpvladistvakpgqvnqvvvkinnelnetslpcgatkiln
    ngrklakpyfdffnysglqrsvwvialpeesvkdysvdyelcgtdalvkyevvttgehpv
    ivrlldaegelvaetegkegilqvanarlwevrnaylyqivilitdgngvldeyrekigi
    rtvriegtkillndrpvylkgfgkhedfpilgrgfhwgivkrdfeclkwtnancfrtshy
    pyaeewyqfadeegfliidevpavgmmrstrnfvaagsgnytyffealtvpellkshiad
    teemitrdknhpsviawslfnepetitdyayeyfkevfaaaetydfqsrpmtgafeknsk
    pelckcyplcdficlnryygwyisggpeieeaeelfrdemdrwkakelnvpfvftefgtd
    tmaglhklpsimwseeyqkeylemnfrvfdsyefvqgelawnfadfqttegimrvdgnhk
    gvftrdrqpkaaavvfkdrwekknelf
    

    Sequence, based on observed residues (ATOM records): (download)
    >5z19B (B:)
    leyselypiqneyrmmqsldgmwkfqfdpeeigkksgwenglpapvsmpvpssfadfftd
    hkerdycgdfwyetefylpaewrnkkiwlrfgsithrgtvycngmeitsheggflpvlad
    istvakpgqvnqvvvkinnelnetslpcgatkilnngrklakpyfdffnysglqrsvwvi
    alpeesvkdysvdyelcgtdalvkyevvttgehpvivrlldaegelvaetegkegilqva
    narlwevrnaylyqivilitdgngvldeyrekigirtvriegtkillndrpvylkgfgkh
    edfpilgrgfhwgivkrdfeclkwtnancfrtshypyaeewyqfadeegfliidevpavg
    mmrstrnfvaagsgnytyffealtvpellkshiadteemitrdknhpsviawslfnepet
    itdyayeyfkevfaaaetydfqsrpmtgafeknskpelckcyplcdficlnryygwyisg
    gpeieeaeelfrdemdrwkakelnvpfvftefgtdtmaglhklpsimwseeyqkeylemn
    frvfdsyefvqgelawnfadfqttegimrvdgnhkgvftrdrqpkaaavvfkdrwekkne
    l
    

  • Chain 'C':
    Sequence, based on SEQRES records: (download)
    >5z19C (C:)
    mhhhhhhssgvdlgtenlyfqsngmleyselypiqneyrmmqsldgmwkfqfdpeeigkk
    sgwenglpapvsmpvpssfadfftdhkerdycgdfwyetefylpaewrnkkiwlrfgsit
    hrgtvycngmeitsheggflpvladistvakpgqvnqvvvkinnelnetslpcgatkiln
    ngrklakpyfdffnysglqrsvwvialpeesvkdysvdyelcgtdalvkyevvttgehpv
    ivrlldaegelvaetegkegilqvanarlwevrnaylyqivilitdgngvldeyrekigi
    rtvriegtkillndrpvylkgfgkhedfpilgrgfhwgivkrdfeclkwtnancfrtshy
    pyaeewyqfadeegfliidevpavgmmrstrnfvaagsgnytyffealtvpellkshiad
    teemitrdknhpsviawslfnepetitdyayeyfkevfaaaetydfqsrpmtgafeknsk
    pelckcyplcdficlnryygwyisggpeieeaeelfrdemdrwkakelnvpfvftefgtd
    tmaglhklpsimwseeyqkeylemnfrvfdsyefvqgelawnfadfqttegimrvdgnhk
    gvftrdrqpkaaavvfkdrwekknelf
    

    Sequence, based on observed residues (ATOM records): (download)
    >5z19C (C:)
    leyselypiqneyrmmqsldgmwkfqfdpeeigkksgwenglpapvsmpvpssfadfftd
    hkerdycgdfwyetefylpaewrnkkiwlrfgsithrgtvycngmeitsheggflpvlad
    istvakpgqvnqvvvkinnelnetslpcgatkilnngrklakpyfdffnysglqrsvwvi
    alpeesvkdysvdyelcgtdalvkyevvttgehpvivrlldaegelvaetegkegilqva
    narlwevrnaylyqivilitdgngvldeyrekigirtvriegtkillndrpvylkgfgkh
    edfpilgrgfhwgivkrdfeclkwtnancfrtshypyaeewyqfadeegfliidevpavg
    mmrstrnfvaagsgnytyffealtvpellkshiadteemitrdknhpsviawslfnepet
    itdyayeyfkevfaaaetydfqsrpmtgafeknskpelckcyplcdficlnryygwyisg
    gpeieeaeelfrdemdrwkakelnvpfvftefgtdtmaglhklpsimwseeyqkeylemn
    frvfdsyefvqgelawnfadfqttegimrvdgnhkgvftrdrqpkaaavvfkdrwekkne
    

  • Chain 'D':
    Sequence, based on SEQRES records: (download)
    >5z19D (D:)
    mhhhhhhssgvdlgtenlyfqsngmleyselypiqneyrmmqsldgmwkfqfdpeeigkk
    sgwenglpapvsmpvpssfadfftdhkerdycgdfwyetefylpaewrnkkiwlrfgsit
    hrgtvycngmeitsheggflpvladistvakpgqvnqvvvkinnelnetslpcgatkiln
    ngrklakpyfdffnysglqrsvwvialpeesvkdysvdyelcgtdalvkyevvttgehpv
    ivrlldaegelvaetegkegilqvanarlwevrnaylyqivilitdgngvldeyrekigi
    rtvriegtkillndrpvylkgfgkhedfpilgrgfhwgivkrdfeclkwtnancfrtshy
    pyaeewyqfadeegfliidevpavgmmrstrnfvaagsgnytyffealtvpellkshiad
    teemitrdknhpsviawslfnepetitdyayeyfkevfaaaetydfqsrpmtgafeknsk
    pelckcyplcdficlnryygwyisggpeieeaeelfrdemdrwkakelnvpfvftefgtd
    tmaglhklpsimwseeyqkeylemnfrvfdsyefvqgelawnfadfqttegimrvdgnhk
    gvftrdrqpkaaavvfkdrwekknelf
    

    Sequence, based on observed residues (ATOM records): (download)
    >5z19D (D:)
    leyselypiqneyrmmqsldgmwkfqfdpeeigkksgwenglpapvsmpvpssfadfftd
    hkerdycgdfwyetefylpaewrnkkiwlrfgsithrgtvycngmeitsheggflpvlad
    istvakpgqvnqvvvkinnelnetslpcgatkilnngrklakpyfdffnysglqrsvwvi
    alpeesvkdysvdyelcgtdalvkyevvttgehpvivrlldaegelvaetegkegilqva
    narlwevrnaylyqivilitdgngvldeyrekigirtvriegtkillndrpvylkgfgkh
    edfpilgrgfhwgivkrdfeclkwtnancfrtshypyaeewyqfadeegfliidevpavg
    mmrstrnfvaagsgnytyffealtvpellkshiadteemitrdknhpsviawslfnepet
    itdyayeyfkevfaaaetydfqsrpmtgafeknskpelckcyplcdficlnryygwyisg
    gpeieeaeelfrdemdrwkakelnvpfvftefgtdtmaglhklpsimwseeyqkeylemn
    frvfdsyefvqgelawnfadfqttegimrvdgnhkgvftrdrqpkaaavvfkdrwe
    

  • Chain 'E':
    Sequence, based on SEQRES records: (download)
    >5z19E (E:)
    mhhhhhhssgvdlgtenlyfqsngmleyselypiqneyrmmqsldgmwkfqfdpeeigkk
    sgwenglpapvsmpvpssfadfftdhkerdycgdfwyetefylpaewrnkkiwlrfgsit
    hrgtvycngmeitsheggflpvladistvakpgqvnqvvvkinnelnetslpcgatkiln
    ngrklakpyfdffnysglqrsvwvialpeesvkdysvdyelcgtdalvkyevvttgehpv
    ivrlldaegelvaetegkegilqvanarlwevrnaylyqivilitdgngvldeyrekigi
    rtvriegtkillndrpvylkgfgkhedfpilgrgfhwgivkrdfeclkwtnancfrtshy
    pyaeewyqfadeegfliidevpavgmmrstrnfvaagsgnytyffealtvpellkshiad
    teemitrdknhpsviawslfnepetitdyayeyfkevfaaaetydfqsrpmtgafeknsk
    pelckcyplcdficlnryygwyisggpeieeaeelfrdemdrwkakelnvpfvftefgtd
    tmaglhklpsimwseeyqkeylemnfrvfdsyefvqgelawnfadfqttegimrvdgnhk
    gvftrdrqpkaaavvfkdrwekknelf
    

    Sequence, based on observed residues (ATOM records): (download)
    >5z19E (E:)
    leyselypiqneyrmmqsldgmwkfqfdpeeigkksgwenglpapvsmpvpssfadfftd
    hkerdycgdfwyetefylpaewrnkkiwlrfgsithrgtvycngmeitsheggflpvlad
    istvakpgqvnqvvvkinnelnetslpcgatkilnngrklakpyfdffnysglqrsvwvi
    alpeesvkdysvdyelcgtdalvkyevvttgehpvivrlldaegelvaetegkegilqva
    narlwevrnaylyqivilitdgngvldeyrekigirtvriegtkillndrpvylkgfgkh
    edfpilgrgfhwgivkrdfeclkwtnancfrtshypyaeewyqfadeegfliidevpavg
    mmrstrnfvaagsgnytyffealtvpellkshiadteemitrdknhpsviawslfnepet
    itdyayeyfkevfaaaetydfqsrpmtgafeknskpelckcyplcdficlnryygwyisg
    gpeieeaeelfrdemdrwkakelnvpfvftefgtdtmaglhklpsimwseeyqkeylemn
    frvfdsyefvqgelawnfadfqttegimrvdgnhkgvftrdrqpkaaavvfkdrwek
    

  • Chain 'F':
    Sequence, based on SEQRES records: (download)
    >5z19F (F:)
    mhhhhhhssgvdlgtenlyfqsngmleyselypiqneyrmmqsldgmwkfqfdpeeigkk
    sgwenglpapvsmpvpssfadfftdhkerdycgdfwyetefylpaewrnkkiwlrfgsit
    hrgtvycngmeitsheggflpvladistvakpgqvnqvvvkinnelnetslpcgatkiln
    ngrklakpyfdffnysglqrsvwvialpeesvkdysvdyelcgtdalvkyevvttgehpv
    ivrlldaegelvaetegkegilqvanarlwevrnaylyqivilitdgngvldeyrekigi
    rtvriegtkillndrpvylkgfgkhedfpilgrgfhwgivkrdfeclkwtnancfrtshy
    pyaeewyqfadeegfliidevpavgmmrstrnfvaagsgnytyffealtvpellkshiad
    teemitrdknhpsviawslfnepetitdyayeyfkevfaaaetydfqsrpmtgafeknsk
    pelckcyplcdficlnryygwyisggpeieeaeelfrdemdrwkakelnvpfvftefgtd
    tmaglhklpsimwseeyqkeylemnfrvfdsyefvqgelawnfadfqttegimrvdgnhk
    gvftrdrqpkaaavvfkdrwekknelf
    

    Sequence, based on observed residues (ATOM records): (download)
    >5z19F (F:)
    leyselypiqneyrmmqsldgmwkfqfdpeeigkksgwenglpapvsmpvpssfadfftd
    hkerdycgdfwyetefylpaewrnkkiwlrfgsithrgtvycngmeitsheggflpvlad
    istvakpgqvnqvvvkinnelnetslpcgatkilnngrklakpyfdffnysglqrsvwvi
    alpeesvkdysvdyelcgtdalvkyevvttgehpvivrlldaegelvaetegkegilqva
    narlwevrnaylyqivilitdgngvldeyrekigirtvriegtkillndrpvylkgfgkh
    edfpilgrgfhwgivkrdfeclkwtnancfrtshypyaeewyqfadeegfliidevpavg
    mmrstrnfvaagsgnytyffealtvpellkshiadteemitrdknhpsviawslfnepet
    itdyayeyfkevfaaaetydfqsrpmtgafeknskpelckcyplcdficlnryygwyisg
    gpeieeaeelfrdemdrwkakelnvpfvftefgtdtmaglhklpsimwseeyqkeylemn
    frvfdsyefvqgelawnfadfqttegimrvdgnhkgvftrdrqpkaaavvfkdrwekkne