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PDBsum entry 8hms
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PDB id:
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Transferase
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Title:
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Crystal structure of pkm2 mutant c474s
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Structure:
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Pyruvate kinase pkm. Chain: a, b, c, d. Synonym: cytosolic thyroid hormone-binding protein,cthbp,opa- interacting protein 3,oip-3,pyruvate kinase 2/3,pyruvate kinase muscle isozyme,threonine-protein kinase pkm2,thyroid hormone-binding protein 1,thbp1,tumor m2-pk,tyrosine-protein kinase pkm2,p58. Engineered: yes. Mutation: yes
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Source:
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Homo sapiens. Human. Organism_taxid: 9606. Gene: pkm, oip3, pk2, pk3, pkm2. Expressed in: escherichia coli. Expression_system_taxid: 562
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Resolution:
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2.10Å
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R-factor:
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0.205
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R-free:
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0.238
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Authors:
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S.Upadhyay,A.Kumar,A.K.Patel
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Key ref:
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S.Upadhyay
et al.
Structural and mechanistic insights into cancer patient-Derived mutations in pyruvate kinase muscle i 2.
To be published,
.
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Date:
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05-Dec-22
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Release date:
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11-Jan-23
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PROCHECK
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Headers
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References
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P14618
(KPYM_HUMAN) -
Pyruvate kinase PKM from Homo sapiens
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Seq:
Struc:
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531 a.a.
512 a.a.*
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Key: |
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PfamA domain |
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Secondary structure |
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*
PDB and UniProt seqs differ
at 1 residue position (black
cross)
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Enzyme class 2:
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E.C.2.7.10.2
- non-specific protein-tyrosine kinase.
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Reaction:
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L-tyrosyl-[protein] + ATP = O-phospho-L-tyrosyl-[protein] + ADP + H+
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L-tyrosyl-[protein]
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+
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ATP
Bound ligand (Het Group name = )
matches with 71.43% similarity
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=
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O-phospho-L-tyrosyl-[protein]
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+
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ADP
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+
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H(+)
Bound ligand (Het Group name = )
matches with 42.86% similarity
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Enzyme class 3:
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E.C.2.7.11.1
- non-specific serine/threonine protein kinase.
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Reaction:
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1.
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L-seryl-[protein] + ATP = O-phospho-L-seryl-[protein] + ADP + H+
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2.
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L-threonyl-[protein] + ATP = O-phospho-L-threonyl-[protein] + ADP + H+
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L-seryl-[protein]
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+
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ATP
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=
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O-phospho-L-seryl-[protein]
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+
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ADP
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+
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H(+)
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L-threonyl-[protein]
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+
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ATP
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=
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O-phospho-L-threonyl-[protein]
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+
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ADP
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+
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H(+)
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Enzyme class 4:
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E.C.2.7.1.40
- pyruvate kinase.
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Reaction:
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pyruvate + ATP = phosphoenolpyruvate + ADP + H+
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pyruvate
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+
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ATP
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=
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phosphoenolpyruvate
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+
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ADP
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+
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H(+)
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Note, where more than one E.C. class is given (as above), each may
correspond to a different protein domain or, in the case of polyprotein
precursors, to a different mature protein.
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Molecule diagrams generated from .mol files obtained from the
KEGG ftp site
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Links
