PDB entry 6k78

View 6k78 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: 2.3 Å
R-factor: N/A
AEROSPACI score: 0.24 (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 (144)
      • conflict (246)
      • conflict (270)
    Domains in SCOPe 2.08: d6k78a1, d6k78a2
  • 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 (270)
    Domains in SCOPe 2.08: d6k78b1, d6k78b2
  • 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 (0-End)
      • conflict (270)
    Domains in SCOPe 2.08: d6k78c1, d6k78c2
  • 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): Domains in SCOPe 2.08: d6k78d1
  • Heterogens: PGE, GOL, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >6k78A (A:)
mekfvlsldegttsaraiifdresnihgigqyefpqhyprpgwvehnpeeiwdaqlraik
daiqsariepnqiaaigvtnqrettlvwdkdgkplynaivwqcrrtaemveeikreygtm
ikektglvpdayfsasklkwlldnlpglrekaekgevmfgtvdtfliyrltgehvtdysn
asrtmlfnikkldwddellelfdipesvlpevressevygytkkellgaeipvsgdagdq
qaalfgeaafeagmvkatygtgsfilvntdemvlysdnllttiawglngrvsyalegsif
vtgaavqwlrdgikiikhaseteelatklesnegvyfvpafvglgapywdqfargiiigi
trgtgrehlaratleaiayltrdvvdemeklvqikelrvdggatandflmqfqadilnrk
virpvvkettalgaaylaglavdywadtreiaelwkaerifepkmdektrerlykgwkea
vkramgwakvvdsaksn

    Sequence, based on observed residues (ATOM records): (download) 
    >6k78A (A:)
ekfvlsldegttsaraiifdresnihgigqyefpqhyprpgwvehnpeeiwdaqlraikd
aiqsariepnqiaaigvtnqrettlvwdkdgkplynaivwqcrrtaikregtmikektgl
vpdayfsasklkwlldnlpglrekaekgevmfgtvdtfliyrltgehvtdysnasrtmlf
nikkldwddellelfdipesvlpevressevygytkkellgaeipvsgdagdqqaalfge
aafeagmvkatygtgsfilvntdemvlysdnllttiawglngrvsyalegsifvtgaavq
wlrdgikiikhaseteelatklesnegvyfvpafvglgapywdqfargiiigitrgtgre
hlaratleaiayltrdvvdemeklvqikelrvdggatandflmqfqadilnrkvirpvvk
ettalgaaylaglavdywadtreiaelwkaerifepkmdektrerlykgwkeavkramgw
akvv

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >6k78B (B:)
mekfvlsldegttsaraiifdresnihgigqyefpqhyprpgwvehnpeeiwdaqlraik
daiqsariepnqiaaigvtnqrettlvwdkdgkplynaivwqcrrtaemveeikreygtm
ikektglvpdayfsasklkwlldnvpglrekaekgevmfgtvdtfliyrltgehvtdysn
asrtmlfnikkldwddellelfdipesvlpevressevygytkkellgaeipvsgdagdq
qaalfgqaafeagmvkatygtgsfilvntdemvlysdnllttiawglngrvsyalegsif
vtgaavqwlrdgikiikhaseteelatklesnegvyfvpafvglgapywdqfargiiigi
trgtgrehlaratleaiayltrdvvdemeklvqikelrvdggatandflmqfqadilnrk
virpvvkettalgaaylaglavdywadtreiaelwkaerifepkmdektrerlykgwkea
vkramgwakvvdsaksn

    Sequence, based on observed residues (ATOM records): (download) 
    >6k78B (B:)
ekfvlsldegttsaraiifdresnihgigqyefpqhyprpgwvehnpeeiwdaqlraikd
aiqsariepnqiaaigvtnqrettlvwdkdgkplynaivwqcrrtaemveeikreygtmi
kektglvpdayfsasklkwlldnvpglrekaekgevmfgtvdtfliyrltgehvtdysna
srtmlfnikkldwddellelfdipesvlpevressevygytkkellgaeipvsgdagdqq
aalfgqaafeagmvkatygtgsfilvntdemvlysdnllttiawglngrvsyalegsifv
tgaavqwlrdgikiikhaseteelatklesnegvyfvpafvglgapywdqfargiiigit
rgtgrehlaratleaiayltrdvvdemeklvqikelrvdggatandflmqfqadilnrkv
irpvvkettalgaaylaglavdywadtreiaelwkaerifepkmdektrerlykgwkeav
kramgwakvv

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >6k78C (C:)
mekfvlsldegttsaraiifdresnihgigqyefpqhyprpgwvehnpeeiwdaqlraik
daiqsariepnqiaaigvtnqrettlvwdkdgkplynaivwqcrrtaemveeikreygtm
ikektglvpdayfsasklkwlldnvpglrekaekgevmfgtvdtfliyrltgehvtdysn
asrtmlfnikkldwddellelfdipesvlpevressevygytkkellgaeipvsgdagdq
qaalfgqaafeagmvkatygtgsfilvntdemvlysdnllttiawglngrvsyalegsif
vtgaavqwlrdgikiikhaseteelatklesnegvyfvpafvglgapywdqfargiiigi
trgtgrehlaratleaiayltrdvvdemeklvqikelrvdggatandflmqfqadilnrk
virpvvkettalgaaylaglavdywadtreiaelwkaerifepkmdektrerlykgwkea
vkramgwakvvdsaksn

    Sequence, based on observed residues (ATOM records): (download) 
    >6k78C (C:)
mekfvlsldegttsaraiifdresnihgigqyefpqhyprpgwvehnpeeiwdaqlraik
daiqsariepnqiaaigvtnqrettlvwdkdgkplynaivwqcrrtaemveeikygtmik
ektglvpdayfsasklkwlldnvpglrekaekvmfgtvdtfliyrltgehvtdysnasrt
mlfnikkldwddellelfdipesvlpevressevygytkkellgaeipvsgdagdqqaal
fgqaafeagmvkatygtgsfilvntdemvlysdnllttiawglngrvsyalegsifvtga
avqwlrdgikiikhaseteelatklesnegvyfvpafvglgapywdqfargiiigitrgt
grehlaratleaiayltrdvvdemeklvqikelrvdggatandflmqfqadilnrkvirp
vvkettalgaaylaglavdywadtreiaelwkaerifepkmdektrerlykgwkeavkra
mgwakvvd

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >6k78D (D:)
mekfvlsldegttsaraiifdresnihgigqyefpqhyprpgwvehnpeeiwdaqlraik
daiqsariepnqiaaigvtnqrettlvwdkdgkplynaivwqcrrtaemveeikreygtm
ikektglvpdayfsasklkwlldnvpglrekaekgevmfgtvdtfliyrltgehvtdysn
asrtmlfnikkldwddellelfdipesvlpevressevygytkkellgaeipvsgdagdq
qaalfgqaafeagmvkatygtgsfilvntdemvlysdnllttiawglngrvsyalegsif
vtgaavqwlrdgikiikhaseteelatklesnegvyfvpafvglgapywdqfargiiigi
trgtgrehlaratleaiayltrdvvdemeklvqikelrvdggatandflmqfqadilnrk
virpvvkettalgaaylaglavdywadtreiaelwkaerifepkmdektrerlykgwkea
vkramgwakvvdsaksn

    Sequence, based on observed residues (ATOM records): (download) 
    >6k78D (D:)
mekfvlsldegttsaraiifdresnihgigqyefpqvehnpeeiwdaqlraikdaiqsar
iepnqiaaigvtnqrettlnaivwlvpdayftvdtfliyrltvtdysnasrtmlfnikkl
dwlfdivressevygytkkaeipvsgdagdqqaalfgqaafeagmvkatygtgsfilvnt
dmvlysdnllttiawglngrvsyalegsifvtgaavqwlrdgikiikhaseteelatkle
snegvyfvpafvglgapywdqfargiiigitrgtgrehlaratleaiayltrdvvdemek
lvqikelrvdggatandflmqfqadilnrkvirpvvkettalgaaylaglavdywadtre
iaelwkaerifepkmdektrerlykgwkeavkramgwakvvds