Isopeptide bond: Difference between revisions
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In July, 2021, use of these records is inconsistent. Sometimes one is used, sometimes the other, sometimes some isopeptide bonds are in REMARK 500 CLOSE CONTACTS and other isopeptide bonds in the same model are in LINK records ([[5i6a]]), and sometimes isopeptide bonds that are present are not documented in either kind of record (e.g. [[1fma]] in July, 2021). In | In July, 2021, use of these records is inconsistent. Sometimes one is used, sometimes the other, sometimes some isopeptide bonds are in REMARK 500 CLOSE CONTACTS and other isopeptide bonds in the same model are in LINK records ([[5i6a]]), and sometimes isopeptide bonds that are present are not documented in either kind of record (e.g. [[1fma]] in July, 2021). In 2021, the [[wwPDB]] is considering remediation to properly annotate all isopeptide bonds<ref name="annotation">Remediation of the PDB database to guarantee proper annotation of all isopeptide bonds was discussed with Rachel Kramer Green of the RCSB in June, 2021.</ref>. See example PDB IDs below. | ||
Here is an example of the relevant REMARK 500 records from [[2xi9]]. The lines with ATM1=NZ are isopeptide bonds; those with ATM1=SG are [[Thioester protein crosslinks|thioester bonds]].<pre> | Here is an example of the relevant REMARK 500 records from [[2xi9]]. The lines with ATM1=NZ are isopeptide bonds; those with ATM1=SG are [[Thioester protein crosslinks|thioester bonds]].<pre> | ||
