Structure of PDB 6tth Chain D

Receptor sequence
>6tthD (length=410) Species: 9606 (Homo sapiens) [Search protein sequence]
MADTFLEHMCRLDIDSPPITARNTGIICTIGPASRSVETLKEMIKSGMNV
ARLNFSHGTHEYHAETIKNVRTATESFASDPILYRPVAVALDTKGPLPAV
SEKDIQDLKFGVEQDVDMVFASFIRKASDVHEVRKVLGEKGKNIKIISKI
ENHEGVRRFDEILEASDGIMVARGDLGIEIPAEKVFLAQKMMIGRCNRAG
KPVICATQMLESMIKKPRPTRAEGSDVANAVLDGADCIMLSGETAKGDYP
LEAVRMQHLIAREAEAAIYHLQLFEELRRLAPITSDPTEATAVGAVEASF
KCCSGAIIVLTKSGRSAHQVARYRPRAPIIAVTRNPQTARQAHLYRGIFP
VLCKDPVQEAWAEDVDLRVNFAMNVGKARGFFKKGDVVIVLTGWRPGSGF
TNTMRVVPVP
3D structure
PDB6tth Fragment-based drug discovery using cryo-EM.
ChainD
Resolution2.6 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) R73 K270 T328
Catalytic site (residue number reindexed from 1) R52 K149 T207
Enzyme Commision number 2.7.10.2: non-specific protein-tyrosine kinase.
2.7.11.1: non-specific serine/threonine protein kinase.
2.7.1.40: pyruvate kinase.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 THR D R43 N44 N70 H464 I469 F470 R22 N23 N49 H343 I348 F349
BS02 FBP D K433 S434 S437 R489 G514 R516 P517 G518 S519 G520 F521 K312 S313 S316 R368 G393 R395 P396 G397 S398 G399 F400
Gene Ontology
Molecular Function
GO:0000287 magnesium ion binding
GO:0003723 RNA binding
GO:0003729 mRNA binding
GO:0003824 catalytic activity
GO:0004713 protein tyrosine kinase activity
GO:0004743 pyruvate kinase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016301 kinase activity
GO:0023026 MHC class II protein complex binding
GO:0030955 potassium ion binding
GO:0045296 cadherin binding
GO:0046872 metal ion binding
Biological Process
GO:0006096 glycolytic process
GO:0006417 regulation of translation
GO:0012501 programmed cell death
GO:0016310 phosphorylation
GO:0032869 cellular response to insulin stimulus
GO:0061621 canonical glycolysis
GO:1903672 positive regulation of sprouting angiogenesis
GO:2000767 positive regulation of cytoplasmic translation
Cellular Component
GO:0005576 extracellular region
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0005791 rough endoplasmic reticulum
GO:0005829 cytosol
GO:0005929 cilium
GO:0031982 vesicle
GO:0034774 secretory granule lumen
GO:0062023 collagen-containing extracellular matrix
GO:0070062 extracellular exosome
GO:1903561 extracellular vesicle
GO:1904813 ficolin-1-rich granule lumen

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:6tth, PDBe:6tth, PDBj:6tth
PDBsum6tth
PubMed31877353
UniProtP14618|KPYM_HUMAN Pyruvate kinase PKM (Gene Name=PKM)

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