PDB entry 7jhh

View 7jhh on RCSB PDB site
Description: cryo-em structure of atp-bound fully inactive ampk in complex with fab and nanobody
Deposited on 2020-07-20, released 2021-07-21
The last revision was dated 2021-12-15, with a file datestamp of 2021-12-10.
Experiment type: EM
Resolution: 3.92 Å
R-factor: N/A
AEROSPACI score: 0.14 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: 5'-amp-activated protein kinase catalytic subunit alpha-1
    Species: Homo sapiens [TaxId:9606]
    Gene: Prkaa1, Ampk1
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: 5'-amp-activated protein kinase subunit beta-2
    Species: Homo sapiens [TaxId:9606]
    Gene: PRKAB2
    Database cross-references and differences (RAF-indexed):
    • Uniprot O43741 (0-197)
      • conflict (0)
      • conflict (124-125)
  • Chain 'G':
    Compound: 5'-amp-activated protein kinase subunit gamma-1
    Species: Homo sapiens [TaxId:9606]
    Gene: Prkag1
    Database cross-references and differences (RAF-indexed):
    • Uniprot P54619 (2-305)
      • expression tag (0-1)
  • Chain 'H':
    Compound: Fab heavy chain
    Species: synthetic construct, synthetic [TaxId:32630]
    Database cross-references and differences (RAF-indexed):
    • PDB 7JHH (0-236)
  • Chain 'L':
    Compound: Fab light chain
    Species: synthetic construct, synthetic [TaxId:32630]
    Database cross-references and differences (RAF-indexed):
    • PDB 7JHH (0-214)
  • Chain 'M':
    Compound: maltodextrin-binding protein
    Species: Escherichia coli K-12 [TaxId:83333]
    Gene: malE
    Database cross-references and differences (RAF-indexed):
    • Uniprot C3SHQ8 (1-367)
      • initiating methionine (0)
      • conflict (83-84)
      • conflict (240)
      • expression tag (368-372)
  • Chain 'N':
    Compound: Nanobody
    Species: synthetic construct, synthetic [TaxId:32630]
    Database cross-references and differences (RAF-indexed):
    • PDB 7JHH (0-158)
  • Heterogens: ADP, AMP, ATP, GLC

PDB Chain Sequences:
This PDB entry is not classified in SCOPe 2.08, so the chain sequences below are not included in the ASTRAL sequence sets.

  • Chain 'A':
    Sequence, based on SEQRES records:
    >7jhhA (A:)
vkighyilgdtlgvgtfgkvkvgkheltghkvavkilnrqkirsldvvgkirreiqnlkl
frhphiiklyqvistpsdifmvmeyvsggelfdyickngrldekesrrlfqqilsgvdyc
hrhmvvhrdlkpenvlldahmnakiadfglsnmmsdgeflrtscgspnyaapevisgrly
agpevdiwssgvilyallcgtlpfdddhvptlfkkicdgifytpqylnpsvisllkhmlq
vdpmkratikdirehewfkqdlpkylfpedpsysstmiddealkevcekfecseeevlsc
lynrnhqdplavayhliidnrrimneakdfylatsppdsflddhhltrphpervpflvae
tprarhtldelnpqkskhqgvrkakwhlgirsqsrpndimaevcraikqldyewkvvnpy
ylrvrrknpvtstyskmslqlyqvdsrtylldfrsiddeltprpgshtieffemcanlik
ilaq

    Sequence, based on observed residues (ATOM records):
    >7jhhA (A:)
vkighyilgdtlgvgtfgkvkvgkheltghkvavkilnrqkirsldvvgkirreiqnlkl
frhphiiklyqvistpsdifmvmeyvsggelfdyickngrldekesrrlfqqilsgvdyc
hrhmvvhrdlkpenvlldahmnakiadfglsnmmsdgeflrtscgspnyaapevisgrly
agpevdiwssgvilyallcgtlpfdddhvptlfkkicdgifytpqylnpsvisllkhmlq
vdpmkratikdirehewfkqdlpkylfpedpshqgvrkakwhlgirsqsrpndimaevcr
aikqldyewkvvnpyylrvrrknpvtstyskmslqlyqvdsrtylldfrsiddeltprpg
shtieffemcanlikilaq

  • Chain 'B':
    Sequence, based on SEQRES records:
    >7jhhB (B:)
marptvirwseggkevfisgsfnnwstkiplikshndfvaildlpegehqykffvdgqwv
hdpsepvvtsqlgtinnlihvkksdfevfdalkldsmessetscrdlsssppgpygqemy
afrsaarfksppilpphllqvilnkdtniscdpallpepnhvmlnhlyalsikdsvmvls
athrykkkyvttllykpi

    Sequence, based on observed residues (ATOM records):
    >7jhhB (B:)
dlsssppgpygqemyafrsaarfksppilpphllqvilnkdtniscdpallpepnhvmln
hlyalsikdsvmvlsathrykkkyvttllykpi

  • Chain 'G':
    Sequence, based on SEQRES records:
    >7jhhG (G:)
mgsnnsvytsfmkshrcydliptssklvvfdtslqvkkaffalvtngvraaplwdskkqs
fvgmltitdfinilhryyksalvqiyeleehkietwrevylqdsfkplvcispnaslfda
vsslirnkihrlpvidpesgntlyilthkrilkflklfitefpkpefmsksleelqigty
aniamvrtttpvyvalgifvqhrvsalpvvdekgrvvdiyskfdvinlaaektynnldvs
vtkalqhrshyfegvlkcylhetletiinrlveaevhrlvvvdendvvkgivslsdilqa
lvltgg

    Sequence, based on observed residues (ATOM records):
    >7jhhG (G:)
nnsvytsfmkshrcydliptssklvvfdtslqvkkaffalvtngvraaplwdskkqsfvg
mltitdfinilhryyksalvqiyeleehkietwrevylqdsfkplvcispnaslfdavss
lirnkihrlpvidpesgntlyilthkrilkflklfitefpkpefmsksleelqigtyani
amvrtttpvyvalgifvqhrvsalpvvdekgrvvdiyskfdvinlaaektynnldvsvtk
alqhrshyfegvlkcylhetletiinrlveaevhrlvvvdendvvkgivslsdilqalvl

  • Chain 'H':
    Sequence, based on SEQRES records:
    >7jhhH (H:)
eisevqlvesggglvqpggslrlscaasgfniyyysihwvrqapgkglewvasiypysgs
tsyadsvkgrftisadtskntaylqmnslraedtavyycaryypyfisyyskmeamdywg
qgtlvtvssastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvh
tfpavlqssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkkvepkscdktht

    Sequence, based on observed residues (ATOM records):
    >7jhhH (H:)
evqlvesggglvqpggslrlscaasgfniyyysihwvrqapgkglewvasiypysgstsy
adsvkgrftisadtskntaylqmnslraedtavyycaryypyfisyyskmeamdywgqgt
lvtvssastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtfp
avlqssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkkvepks

  • Chain 'L':
    Sequence, based on SEQRES records:
    >7jhhL (L:)
sdiqmtqspsslsasvgdrvtitcrasqsvssavawyqqkpgkapklliysasslysgvp
srfsgsrsgtdftltisslqpedfatyycqqsssgpitfgqgtkveikrtvaapsvfifp
psdsqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstl
tlskadyekhkvyacevthqglsspvtksfnrgec

    Sequence, based on observed residues (ATOM records):
    >7jhhL (L:)
qmtqspsslsasvgdrvtitcrasqsvssavawyqqkpgkapklliysasslysgvpsrf
sgsrsgtdftltisslqpedfatyycqqsssgpitfgqgtkveikrtvaapsvfifppsd
sqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstltls
kadyekhkvyacevthqglsspvtksfnrge

  • Chain 'M':
    Sequence, based on SEQRES records:
    >7jhhM (M:)
makieegklviwingdkgynglaevgkkfekdtgikvtvehpdkleekfpqvaatgdgpd
iifwahdrfggyaqsgllaeitpaaafqdklypftwdavryngkliaypiavealsliyn
kdllpnppktweeipaldkelkakgksalmfnlqepyftwpliaadggyafkyengkydi
kdvgvdnagakagltflvdliknkhmnadtdysiaeaafnkgetamtingpwawsnidts
avnygvtvlptfkgqpskpfvgvlsaginaaspnkelakeflenylltdegleavnkdkp
lgavalksyeeelakdpriaatmenaqkgeimpnipqmsafwyavrtavinaasgrqtvd
ealkdaqtnaaef

    Sequence, based on observed residues (ATOM records):
    >7jhhM (M:)
gklviwingdkgynglaevgkkfekdtgikvtvehpdkleekfpqvaatgdgpdiifwah
drfggyaqsgllaeitpaaafqdklypftwdavryngkliaypiavealsliynkdllpn
ppktweeipaldkelkakgksalmfnlqepyftwpliaadggyafkyengkydikdvgvd
nagakagltflvdliknkhmnadtdysiaeaafnkgetamtingpwawsnidtsavnygv
tvlptfkgqpskpfvgvlsaginaaspnkelakeflenylltdegleavnkdkplgaval
ksyeeelakdpriaatmenaqkgeimpnipqmsafwyavrtavinaasgrqtvdealkda
qtnaaef

  • Chain 'N':
    Sequence, based on SEQRES records:
    >7jhhN (N:)
mkyllptaaagllllaaqpamamhhhhhhgenlyfqgsqvqlqesggglvqpggslrlsc
aasgrtisryamswfrqapgkerefvavarrsgdgafyadsvqgrftvsrddakntvylq
mnslkpedtavyycaidsdtfysgsydywgqgtqvtvss

    Sequence, based on observed residues (ATOM records):
    >7jhhN (N:)
qvqlqesggglvqpggslrlscaasgrtisryamswfrqapgkerefvavarrsgdgafy
adsvqgrftvsrddakntvylqmnslkpedtavyycaidsdtfysgsydywgqgtqvtvs