PDB entry 6k79

View 6k79 on RCSB PDB site
Description: Glycerol kinase form Thermococcus kodakarensis, complex structure with substrate.
Class: transferase
Keywords: Glycerol, Kinase, ATP, Archaea, TRANSFERASE
Deposited on 2019-06-06, released 2020-06-10
The last revision prior to the SCOPe 2.08 freeze date was dated 2020-06-10, with a file datestamp of 2020-06-05.
Experiment type: XRAY
Resolution: 2.19 Å
R-factor: N/A
AEROSPACI score: 0.26 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: glycerol kinase
    Species: Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) [TaxId:69014]
    Gene: glpK, TK1396
    Database cross-references and differences (RAF-indexed):
    • Uniprot O93623
      • conflict (270)
    Domains in SCOPe 2.08: d6k79a1, d6k79a2
  • Chain 'B':
    Compound: glycerol kinase
    Species: Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) [TaxId:69014]
    Gene: glpK, TK1396
    Database cross-references and differences (RAF-indexed):
    • Uniprot O93623
      • conflict (144)
      • conflict (246)
      • conflict (270)
    Domains in SCOPe 2.08: d6k79b1, d6k79b2
  • Chain 'C':
    Compound: glycerol kinase
    Species: Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) [TaxId:69014]
    Gene: glpK, TK1396
    Database cross-references and differences (RAF-indexed):
    • Uniprot O93623
      • conflict (270)
    Domains in SCOPe 2.08: d6k79c1, d6k79c2
  • Chain 'D':
    Compound: glycerol kinase
    Species: Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) [TaxId:69014]
    Gene: glpK, TK1396
    Database cross-references and differences (RAF-indexed):
    • Uniprot O93623 (0-End)
      • conflict (270)
    Domains in SCOPe 2.08: d6k79d1, d6k79d2
  • Heterogens: PGE, GOL, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >6k79A (A:)
mekfvlsldegttsaraiifdresnihgigqyefpqhyprpgwvehnpeeiwdaqlraik
daiqsariepnqiaaigvtnqrettlvwdkdgkplynaivwqcrrtaemveeikreygtm
ikektglvpdayfsasklkwlldnvpglrekaekgevmfgtvdtfliyrltgehvtdysn
asrtmlfnikkldwddellelfdipesvlpevressevygytkkellgaeipvsgdagdq
qaalfgqaafeagmvkatygtgsfilvntdemvlysdnllttiawglngrvsyalegsif
vtgaavqwlrdgikiikhaseteelatklesnegvyfvpafvglgapywdqfargiiigi
trgtgrehlaratleaiayltrdvvdemeklvqikelrvdggatandflmqfqadilnrk
virpvvkettalgaaylaglavdywadtreiaelwkaerifepkmdektrerlykgwkea
vkramgwakvvdsaksn

    Sequence, based on observed residues (ATOM records): (download) 
    >6k79A (A:)
ekfvlsldegttsaraiifdresnihgigqyefpqhyprpgwvehnpeeiwdaqlraikd
aiqsariepnqiaaigvtnqrettlvwdkdgkplynaivwqcrrtaemveeikreygtmi
kektglvpdayfsasklkwlldnvpglrekaekgevmfgtvdtfliyrltgehvtdysna
srtmlfnikkldwddellelfdipesvlpevressevygytkkellgaeipvsgdagdqq
aalfgqaafeagmvkatygtgsfilvntdemvlysdnllttiawglngrvsyalegsifv
tgaavqwlrdgikiikhaseteelatklesnegvyfvpafvglgapywdqfargiiigit
rgtgrehlaratleaiayltrdvvdemeklvqikelrvdggatandflmqfqadilnrkv
irpvvkettalgaaylaglavdywadtreiaelwkaerifepkmdektrerlykgwkeav
kramgwakvv

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >6k79B (B:)
mekfvlsldegttsaraiifdresnihgigqyefpqhyprpgwvehnpeeiwdaqlraik
daiqsariepnqiaaigvtnqrettlvwdkdgkplynaivwqcrrtaemveeikreygtm
ikektglvpdayfsasklkwlldnlpglrekaekgevmfgtvdtfliyrltgehvtdysn
asrtmlfnikkldwddellelfdipesvlpevressevygytkkellgaeipvsgdagdq
qaalfgeaafeagmvkatygtgsfilvntdemvlysdnllttiawglngrvsyalegsif
vtgaavqwlrdgikiikhaseteelatklesnegvyfvpafvglgapywdqfargiiigi
trgtgrehlaratleaiayltrdvvdemeklvqikelrvdggatandflmqfqadilnrk
virpvvkettalgaaylaglavdywadtreiaelwkaerifepkmdektrerlykgwkea
vkramgwakvvdsaksn

    Sequence, based on observed residues (ATOM records): (download) 
    >6k79B (B:)
ekfvlsldegttsaraiifdresnihgigqyefpqhyprpgwvehnpeeiwdaqlraikd
aiqsariepnqiaaigvtnqrettlvwdkdgkplynaivwqcrrtaemveeikreygtmi
kektglvpdayfsasklkwlldnlpglrekaekgevmfgtvdtfliyrltgehvtdysna
srtmlfnikkldwddellelfdipesvlpevressevygytkkellgaeipvsgdagdqq
aalfgeaafeagmvkatygtgsfilvntdemvlysdnllttiawglngrvsyalegsifv
tgaavqwlrdgikiikhaseteelatklesnegvyfvpafvglgapywdqfargiiigit
rgtgrehlaratleaiayltrdvvdemeklvqikelrvdggatandflmqfqadilnrkv
irpvvkettalgaaylaglavdywadtreiaelwkaerifepkmdektrerlykgwkeav
kramgwakvv

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >6k79C (C:)
mekfvlsldegttsaraiifdresnihgigqyefpqhyprpgwvehnpeeiwdaqlraik
daiqsariepnqiaaigvtnqrettlvwdkdgkplynaivwqcrrtaemveeikreygtm
ikektglvpdayfsasklkwlldnvpglrekaekgevmfgtvdtfliyrltgehvtdysn
asrtmlfnikkldwddellelfdipesvlpevressevygytkkellgaeipvsgdagdq
qaalfgqaafeagmvkatygtgsfilvntdemvlysdnllttiawglngrvsyalegsif
vtgaavqwlrdgikiikhaseteelatklesnegvyfvpafvglgapywdqfargiiigi
trgtgrehlaratleaiayltrdvvdemeklvqikelrvdggatandflmqfqadilnrk
virpvvkettalgaaylaglavdywadtreiaelwkaerifepkmdektrerlykgwkea
vkramgwakvvdsaksn

    Sequence, based on observed residues (ATOM records): (download) 
    >6k79C (C:)
ekfvlsldegttsaraiifdresnihgigqyefpqhyprpgwvehnpeeiwdaqlraikd
aiqsariepnqiaaigvtnqrettlvwdkdgkplynaivwqcrrtaemveeikreygtmi
kektglvpdayfsasklkwlldnvpglrekaekgevmfgtvdtfliyrltgehvtdysna
srtmlfnikkldwddellelfdipesvlpevressevygytkkellgaeipvsgdagdqq
aalfgqaafeagmvkatygtgsfilvntdemvlysdnllttiawglngrvsyalegsifv
tgaavqwlrdgikiikhaseteelatklesnegvyfvpafvglgapywdqfargiiigit
rgtgrehlaratleaiayltrdvvdemeklvqikelrvdggatandflmqfqadilnrkv
irpvvkettalgaaylaglavdywadtreiaelwkaerifepkmdektrerlykgwkeav
kramgwakvv

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >6k79D (D:)
mekfvlsldegttsaraiifdresnihgigqyefpqhyprpgwvehnpeeiwdaqlraik
daiqsariepnqiaaigvtnqrettlvwdkdgkplynaivwqcrrtaemveeikreygtm
ikektglvpdayfsasklkwlldnvpglrekaekgevmfgtvdtfliyrltgehvtdysn
asrtmlfnikkldwddellelfdipesvlpevressevygytkkellgaeipvsgdagdq
qaalfgqaafeagmvkatygtgsfilvntdemvlysdnllttiawglngrvsyalegsif
vtgaavqwlrdgikiikhaseteelatklesnegvyfvpafvglgapywdqfargiiigi
trgtgrehlaratleaiayltrdvvdemeklvqikelrvdggatandflmqfqadilnrk
virpvvkettalgaaylaglavdywadtreiaelwkaerifepkmdektrerlykgwkea
vkramgwakvvdsaksn

    Sequence, based on observed residues (ATOM records): (download) 
    >6k79D (D:)
mekfvlsldegttsaraiifdresnihgigqyefpqhyprpgwvehnpeeiwdaqlraik
daiqsariepnqiaaigvtnqrettlvwdkdgkplynaivwqcrrtaemveeikreygtm
ikektglvpdayfsasklkwlldnvpglrekaekgevmfgtvdtfliyrltgehvtdysn
asrtmlfnikkldwddellelfdipesvlpevressevygytkkellgaeipvsgdagdq
qaalfgqaafeagmvkatygtgsfilvntdemvlysdnllttiawglngrvsyalegsif
vtgaavqwlrdgikiikhaseteelatklesnegvyfvpafvglgapywdqfargiiigi
trgtgrehlaratleaiayltrdvvdemeklvqikelrvdggatandflmqfqadilnrk
virpvvkettalgaaylaglavdywadtreiaelwkaerifepkmdektrerlykgwkea
vkramgwakvv