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Structure paper

TitleStructural basis for the substrate specificity of Helix pomatia AMP deaminase and a chimeric ADGF adenosine deaminase.
Journal, issue, pagesJ. Biol. Chem., Vol. 301, Page 110357-110357, Year 2025
Publish dateMar 18, 2025 (structure data deposition date)
AuthorsKaur, G. / Horton, J.R. / Tzertzinis, G. / Zhou, J. / Schildkraut, I. / Cheng, X.
External linksJ. Biol. Chem. / PubMed:40505866
MethodsX-ray diffraction
Resolution1.56 - 3.28 Å
Structure data

PDB-9nte:
Helix pomatia AMP deaminase (HPAMPD) apoenzyme
Method: X-RAY DIFFRACTION / Resolution: 1.75 Å

PDB-9ntf:
Helix pomatia AMP deaminase (HPAMPD) with unknown density in the active site
Method: X-RAY DIFFRACTION / Resolution: 1.56 Å

PDB-9ntg:
Helix pomatia AMP deaminase (HPAMPD) in complex with Pentostatin
Method: X-RAY DIFFRACTION / Resolution: 1.63 Å

PDB-9nth:
Helix pomatia AMP deaminase (HPAMPD) in complex with Pentostatin monophosphate (PMP)
Method: X-RAY DIFFRACTION / Resolution: 1.61 Å

PDB-9nti:
Chimeric Adenosine deaminase growth factor (ADGF) apoenzyme
Method: X-RAY DIFFRACTION / Resolution: 3 Å

PDB-9ntj:
Chimeric Adenosine deaminase growth factor (ADGF) in complex with pentostatin
Method: X-RAY DIFFRACTION / Resolution: 3.28 Å

PDB-9ntk:
Chimeric Adenosine deaminase growth factor (ADGF) in complex with pentostatin monophosphate
Method: X-RAY DIFFRACTION / Resolution: 2.53 Å

Chemicals

ChemComp-EDO:
1,2-ETHANEDIOL

ChemComp-NAG:
2-acetamido-2-deoxy-beta-D-glucopyranose

ChemComp-BTB:
2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL / pH buffer*YM

ChemComp-GOL:
GLYCEROL

ChemComp-PEG:
DI(HYDROXYETHYL)ETHER

ChemComp-ZN:
Unknown entry

ChemComp-PGE:
TRIETHYLENE GLYCOL

ChemComp-HOH:
WATER

ChemComp-PO4:
PHOSPHATE ION

ChemComp-ACT:
ACETATE ION

ChemComp-DCF:
2'-DEOXYCOFORMYCIN / anticancer*YM

PDB-1cdw:
HUMAN TBP CORE DOMAIN COMPLEXED WITH DNA

Source
  • helix pomatia (Roman snail)
  • aplysia californica (California sea hare)
KeywordsHYDROLASE / Helix pomatia AMP deaminase (HPAMPD); Hydrolase; Adenosine 5'-monophosphate deaminase / Helix pomatia AMP deaminase (HPAMPD); Hydrolase; Inosine 5'-monophosphate / Helix pomatia AMP deaminase (HPAMPD); Hydrolase; Pentostatin; Deoxycoformycin; Adenosine 5'-monophosphate deaminase / Helix pomatia AMP deaminase (HPAMPD); adenosine deaminase 2 (ADA2); Hydrolase; ADENOSINE 5'-MONOPHOSPHATE DEAMINASE; Deoxycoformycin / Chimeric Adenosine deaminase growth factor (ADGF) apoenzyme; Hydrolase; Adenosine deaminase / Chimeric Adenosine deaminase growth factor (ADGF) apoenzyme; Hydrolase; Adenosine deaminase; Pentostatin; 2'-deoxycoformycin / Chimeric Adenosine deaminase growth factor (ADGF) apoenzyme; Hydrolase; Adenosine deaminase; Pentostatin mono phosphate; Deoxycoformycin 5' phosphate

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