PDB entry 3ek6

View 3ek6 on RCSB PDB site
Description: Unique GTP-binding Pocket and Allostery of UMP Kinase from a Gram-Negative Phytopathogen Bacterium
Class: transferase
Keywords: Xanthomonas campestris, UMPK crystal structure, unique GTP binding site, allosteric regulation, ATP-binding, Kinase, Nucleotide-binding, Pyrimidine biosynthesis, Transferase
Deposited on 2008-09-18, released 2008-12-23
The last revision prior to the SCOPe 2.08 freeze date was dated 2011-07-13, with a file datestamp of 2011-05-08.
Experiment type: XRAY
Resolution: 2.34 Å
R-factor: 0.209
AEROSPACI score: 0.34 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: uridylate kinase
    Species: Xanthomonas campestris pv. campestris [TaxId:340]
    Gene: pyrH, XCC1371
    Database cross-references and differences (RAF-indexed):
    • Uniprot P59009 (3-242)
      • expression tag (0-2)
    Domains in SCOPe 2.08: d3ek6a1, d3ek6a2
  • Chain 'B':
    Compound: uridylate kinase
    Species: Xanthomonas campestris pv. campestris [TaxId:340]
    Gene: pyrH, XCC1371
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3ek6b_
  • Chain 'C':
    Compound: uridylate kinase
    Species: Xanthomonas campestris pv. campestris [TaxId:340]
    Gene: pyrH, XCC1371
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3ek6c_
  • Chain 'D':
    Compound: uridylate kinase
    Species: Xanthomonas campestris pv. campestris [TaxId:340]
    Gene: pyrH, XCC1371
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3ek6d_
  • Chain 'E':
    Compound: uridylate kinase
    Species: Xanthomonas campestris pv. campestris [TaxId:340]
    Gene: pyrH, XCC1371
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3ek6e_
  • Chain 'F':
    Compound: uridylate kinase
    Species: Xanthomonas campestris pv. campestris [TaxId:340]
    Gene: pyrH, XCC1371
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3ek6f_
  • Heterogens: HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >3ek6A (A:)
snamselsyrrillklsgealmgdgdygidpkvinrlahevieaqqagaqvalvigggni
frgaglaasgmdrvtgdhmgmlatvinalamqdaleklgakvrvmsaikindvcedfirr
rairhlekgriaifaagtgnpffttdsgaalraieigadlllkatkvdgvydkdpkkhsd
avrydsltydevimqglevmdtaafalardsdlplrifgmsepgvllrilhgaqigtlvq
grs

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >3ek6B (B:)
snamselsyrrillklsgealmgdgdygidpkvinrlahevieaqqagaqvalvigggni
frgaglaasgmdrvtgdhmgmlatvinalamqdaleklgakvrvmsaikindvcedfirr
rairhlekgriaifaagtgnpffttdsgaalraieigadlllkatkvdgvydkdpkkhsd
avrydsltydevimqglevmdtaafalardsdlplrifgmsepgvllrilhgaqigtlvq
grs

    Sequence, based on observed residues (ATOM records): (download) 
    >3ek6B (B:)
mselsyrrillklsgealmgdgdygidpkvinrlahevieaqqagaqvalvigggnifrg
aglaasgmdrvtgdhmgmlatvinalamqdaleklgakvrvmsaikindvcedfirrrai
rhlekgriaifaagtgnpffttdsgaalraieigadlllkatkvdgvydkdpkkhsdavr
ydsltydevimqglevmdtaafalardsdlplrifgmsepgvllrilhgaqigtlvqgrs

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >3ek6C (C:)
snamselsyrrillklsgealmgdgdygidpkvinrlahevieaqqagaqvalvigggni
frgaglaasgmdrvtgdhmgmlatvinalamqdaleklgakvrvmsaikindvcedfirr
rairhlekgriaifaagtgnpffttdsgaalraieigadlllkatkvdgvydkdpkkhsd
avrydsltydevimqglevmdtaafalardsdlplrifgmsepgvllrilhgaqigtlvq
grs

    Sequence, based on observed residues (ATOM records): (download) 
    >3ek6C (C:)
elsyrrillklsgealmgdgdygidpkvinrlahevieaqqagaqvalvigggnifrgag
laasgmdrvtgdhmgmlatvinalamqdaleklgakvrvmsaikindvcedfirrrairh
lekgriaifaagtgnpffttdsgaalraieigadlllkatkvdgvydkdpkkhsdavryd
sltydevimqglevmdtaafalardsdlplrifgmsepgvllrilhgaqigtlvqgrs

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >3ek6D (D:)
snamselsyrrillklsgealmgdgdygidpkvinrlahevieaqqagaqvalvigggni
frgaglaasgmdrvtgdhmgmlatvinalamqdaleklgakvrvmsaikindvcedfirr
rairhlekgriaifaagtgnpffttdsgaalraieigadlllkatkvdgvydkdpkkhsd
avrydsltydevimqglevmdtaafalardsdlplrifgmsepgvllrilhgaqigtlvq
grs

    Sequence, based on observed residues (ATOM records): (download) 
    >3ek6D (D:)
mselsyrrillklsgealmgdgdygidpkvinrlahevieaqqagaqvalvigggnifrg
aglaasgmdrvtgdhmgmlatvinalamqdaleklgakvrvmsaikindvcedfirrrai
rhlekgriaifaagtgnpffttdsgaalraieigadlllkatkvdgvydkdpkkhsdavr
ydsltydevimqglevmdtaafalardsdlplrifgmsepgvllrilhgaqigtlvqgrs

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >3ek6E (E:)
snamselsyrrillklsgealmgdgdygidpkvinrlahevieaqqagaqvalvigggni
frgaglaasgmdrvtgdhmgmlatvinalamqdaleklgakvrvmsaikindvcedfirr
rairhlekgriaifaagtgnpffttdsgaalraieigadlllkatkvdgvydkdpkkhsd
avrydsltydevimqglevmdtaafalardsdlplrifgmsepgvllrilhgaqigtlvq
grs

    Sequence, based on observed residues (ATOM records): (download) 
    >3ek6E (E:)
elsyrrillklsgealmgdgdygidpkvinrlahevieaqqagaqvalvigggnifrgag
laasgmdrvtgdhmgmlatvinalamqdaleklgakvrvmsaikindvcedfirrrairh
lekgriaifaagtgnpffttdsgaalraieigadlllkatkvdgvydkdpkkhsdavryd
sltydevimqglevmdtaafalardsdlplrifgmsepgvllrilhgaqigtlvqgrs

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >3ek6F (F:)
snamselsyrrillklsgealmgdgdygidpkvinrlahevieaqqagaqvalvigggni
frgaglaasgmdrvtgdhmgmlatvinalamqdaleklgakvrvmsaikindvcedfirr
rairhlekgriaifaagtgnpffttdsgaalraieigadlllkatkvdgvydkdpkkhsd
avrydsltydevimqglevmdtaafalardsdlplrifgmsepgvllrilhgaqigtlvq
grs

    Sequence, based on observed residues (ATOM records): (download) 
    >3ek6F (F:)
elsyrrillklsgealmgdgdygidpkvinrlahevieaqqagaqvalvigggnifrgag
laasgmdrvtgdhmgmlatvinalamqdaleklgakvrvmsaikindvcedfirrrairh
lekgriaifaagtgnpffttdsgaalraieigadlllkatkvdgvydkdpkkhsdavryd
sltydevimqglevmdtaafalardsdlplrifgmsepgvllrilhgaqigtlvqgrs