We apologize for Proteopedia being slow to respond. For the past two years, a new implementation of Proteopedia has been being built. Soon, it will replace this 18-year old system. All existing content will be moved to the new system at a date that will be announced here.

Non-Standard Residue

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Line 9: Line 9:
Although phosphoserine and phosphothreonine are given as non-standard residues SEP and TPO in [[1bkx]], and alternative convention may also be followed. For example, phosophserine and phosphothreonine in [[1apm]] are given as standard residues SER and THR in ATOM records plus PO3 groups in HETATM records.
Although phosphoserine and phosphothreonine are given as non-standard residues SEP and TPO in [[1bkx]], and alternative convention may also be followed. For example, phosophserine and phosphothreonine in [[1apm]] are given as standard residues SER and THR in ATOM records plus PO3 groups in HETATM records.
-
The former scheme of designating modified standard nucleotides with plus signs (+A, +C, +G, +I, +T, +U) was discontinued in the PDB remediation project, effective August 1, 2007.
+
The former scheme of designating modified standard nucleotides with plus signs (+A, +C, +G, +I, +T, +U) was discontinued in the PDB remediation project, effective August 1, 2007. The unremdiated files can still be obtained, see [[Getting Unremediated PDB Files]].
 +
 
 +
See also [[Standard Residues]]

Revision as of 02:52, 30 December 2008

Any residue of protein or nucleic acid that is not included in the list of Standard Residues is considered Non-Standard. The atomic coordinates for atoms in non-standard residues are given in records of type HETATM in the PDB file format.

Examples:

  • SEP and TPO in 1bkx
  • 1MA, 2MG, 5MC, 5MU, 7MG, H2U, M2G, OMC, OMG, PSU, and YG in 1evv
  • MSE in 2ab5

Although phosphoserine and phosphothreonine are given as non-standard residues SEP and TPO in 1bkx, and alternative convention may also be followed. For example, phosophserine and phosphothreonine in 1apm are given as standard residues SER and THR in ATOM records plus PO3 groups in HETATM records.

The former scheme of designating modified standard nucleotides with plus signs (+A, +C, +G, +I, +T, +U) was discontinued in the PDB remediation project, effective August 1, 2007. The unremdiated files can still be obtained, see Getting Unremediated PDB Files.

See also Standard Residues

Proteopedia Page Contributors and Editors (what is this?)

Eric Martz, Wayne Decatur, Jaime Prilusky

Retrieved from "http://52.214.119.220/wiki/index.php/Non-Standard_Residue"
Personal tools