PDB entry 2v9d

View 2v9d on RCSB PDB site
Description: Crystal Structure of YagE, a prophage protein belonging to the dihydrodipicolinic acid synthase family from E. coli K12
Class: lyase
Keywords: dihydrodipicolinic acid synthase, n-acetyl neuraminate lyase, nal, lyase, dhdps, prophage
Deposited on 2007-08-23, released 2008-03-04
The last revision prior to the SCOPe 2.08 freeze date was dated 2019-11-06, with a file datestamp of 2019-11-01.
Experiment type: XRAY
Resolution: 2.15 Å
R-factor: N/A
AEROSPACI score: 0.27 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: yage
    Species: Escherichia coli [TaxId:83333]
    Database cross-references and differences (RAF-indexed):
    • PDB 2V9D
    • Uniprot P75682 (Start-326)
    Domains in SCOPe 2.08: d2v9da_
  • Chain 'B':
    Compound: yage
    Species: Escherichia coli [TaxId:83333]
    Database cross-references and differences (RAF-indexed):
    • PDB 2V9D
    • Uniprot P75682 (Start-326)
    Domains in SCOPe 2.08: d2v9db_
  • Chain 'C':
    Compound: yage
    Species: Escherichia coli [TaxId:83333]
    Database cross-references and differences (RAF-indexed):
    • PDB 2V9D
    • Uniprot P75682 (Start-326)
    Domains in SCOPe 2.08: d2v9dc_
  • Chain 'D':
    Compound: yage
    Species: Escherichia coli [TaxId:83333]
    Database cross-references and differences (RAF-indexed):
    • PDB 2V9D
    • Uniprot P75682 (Start-326)
    Domains in SCOPe 2.08: d2v9dd_
  • Heterogens: HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >2v9dA (A:)
mgsshhhhhhsagenlyfqgqqgdlmpqsalftgiippvstiftadgqldkpgtaalidd
likagvdglfflgsggefsqlgaeerkaiarfaidhvdrrvpvligtggtnaretielsq
haqqagadgivvinpyywkvseanliryfeqvadsvtlpvmlynfpaltgqdltpalvkt
ladsrsniigikdtidsvahlrsmihtvkgahphftvlcgyddhlfntlllggdgaisas
gnfapqvsvnllkawrdgdvakaagyhqtllqipqmyqldtpfvnvikeaivlcgrpvst
hvlppaspldeprkaqlktllqqlklccgrtrappppplrsgc

    Sequence, based on observed residues (ATOM records): (download) 
    >2v9dA (A:)
alftgiippvstiftadgqldkpgtaaliddlikagvdglfflgsggefsqlgaeerkai
arfaidhvdrrvpvligtggtnaretielsqhaqqagadgivvinpyywkvseanliryf
eqvadsvtlpvmlynfpaltgqdltpalvktladsrsniigikdtidsvahlrsmihtvk
gahphftvlcgyddhlfntlllggdgaisasgnfapqvsvnllkawrdgdvakaagyhqt
llqipqmyqldtpfvnvikeaivlcgrpvsthvlppaspldeprkaqlktllqqlklc

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >2v9dB (B:)
mgsshhhhhhsagenlyfqgqqgdlmpqsalftgiippvstiftadgqldkpgtaalidd
likagvdglfflgsggefsqlgaeerkaiarfaidhvdrrvpvligtggtnaretielsq
haqqagadgivvinpyywkvseanliryfeqvadsvtlpvmlynfpaltgqdltpalvkt
ladsrsniigikdtidsvahlrsmihtvkgahphftvlcgyddhlfntlllggdgaisas
gnfapqvsvnllkawrdgdvakaagyhqtllqipqmyqldtpfvnvikeaivlcgrpvst
hvlppaspldeprkaqlktllqqlklccgrtrappppplrsgc

    Sequence, based on observed residues (ATOM records): (download) 
    >2v9dB (B:)
alftgiippvstiftadgqldkpgtaaliddlikagvdglfflgsggefsqlgaeerkai
arfaidhvdrrvpvligtggtnaretielsqhaqqagadgivvinpyywkvseanliryf
eqvadsvtlpvmlynfpaltgqdltpalvktladsrsniigikdtidsvahlrsmihtvk
gahphftvlcgyddhlfntlllggdgaisasgnfapqvsvnllkawrdgdvakaagyhqt
llqipqmyqldtpfvnvikeaivlcgrpvsthvlppaspldeprkaqlktllqqlklc

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >2v9dC (C:)
mgsshhhhhhsagenlyfqgqqgdlmpqsalftgiippvstiftadgqldkpgtaalidd
likagvdglfflgsggefsqlgaeerkaiarfaidhvdrrvpvligtggtnaretielsq
haqqagadgivvinpyywkvseanliryfeqvadsvtlpvmlynfpaltgqdltpalvkt
ladsrsniigikdtidsvahlrsmihtvkgahphftvlcgyddhlfntlllggdgaisas
gnfapqvsvnllkawrdgdvakaagyhqtllqipqmyqldtpfvnvikeaivlcgrpvst
hvlppaspldeprkaqlktllqqlklccgrtrappppplrsgc

    Sequence, based on observed residues (ATOM records): (download) 
    >2v9dC (C:)
alftgiippvstiftadgqldkpgtaaliddlikagvdglfflgsggefsqlgaeerkai
arfaidhvdrrvpvligtggtnaretielsqhaqqagadgivvinpyywkvseanliryf
eqvadsvtlpvmlynfpaltgqdltpalvktladsrsniigikdtidsvahlrsmihtvk
gahphftvlcgyddhlfntlllggdgaisasgnfapqvsvnllkawrdgdvakaagyhqt
llqipqmyqldtpfvnvikeaivlcgrpvsthvlppaspldeprkaqlktllqqlklc

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >2v9dD (D:)
mgsshhhhhhsagenlyfqgqqgdlmpqsalftgiippvstiftadgqldkpgtaalidd
likagvdglfflgsggefsqlgaeerkaiarfaidhvdrrvpvligtggtnaretielsq
haqqagadgivvinpyywkvseanliryfeqvadsvtlpvmlynfpaltgqdltpalvkt
ladsrsniigikdtidsvahlrsmihtvkgahphftvlcgyddhlfntlllggdgaisas
gnfapqvsvnllkawrdgdvakaagyhqtllqipqmyqldtpfvnvikeaivlcgrpvst
hvlppaspldeprkaqlktllqqlklccgrtrappppplrsgc

    Sequence, based on observed residues (ATOM records): (download) 
    >2v9dD (D:)
alftgiippvstiftadgqldkpgtaaliddlikagvdglfflgsggefsqlgaeerkai
arfaidhvdrrvpvligtggtnaretielsqhaqqagadgivvinpyywkvseanliryf
eqvadsvtlpvmlynfpaltgqdltpalvktladsrsniigikdtidsvahlrsmihtvk
gahphftvlcgyddhlfntlllggdgaisasgnfapqvsvnllkawrdgdvakaagyhqt
llqipqmyqldtpfvnvikeaivlcgrpvsthvlppaspldeprkaqlktllqqlklc