Unusual sequence numbering: Difference between revisions
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==Not Monotonic== | ==Not Monotonic== | ||
[[Image:Sequence-not-monotonic-4zwj.png|frame|Excerpt from PDB file 4zwj showing non-monotonic sequence numbering in chain A.]] | [[Image:Sequence-not-monotonic-4zwj.png|frame|Excerpt from PDB file 4zwj showing non-monotonic sequence numbering in chain A.]] | ||
Rarely, sequence numbers do not increase monotonically from N to C terminus. An example<ref>Thanks to Rachel Kramer Green of [[RCSB]] for this example.</ref> is [http://firstglance.jmol.org/fg.htm?mol=4zwj 4zwj] ([[4zwj]]). In this chimeric protein, chain A is numbered 1002-1161 continuing 1-326 continuing 2012-2361. That is, there are sudden jumps in numbering of consecutive amino acids: 1161 to 1, and 326 to 2012. At right is an excerpt from the ATOM records of the [[PDB file]] for 4zwj chain A. | Rarely, sequence numbers do not increase monotonically from N to C terminus. An example<ref>Thanks to Rachel Kramer Green of [[RCSB]] for this example.</ref> is [http://firstglance.jmol.org/fg.htm?mol=4zwj 4zwj] ([[4zwj]]). In this chimeric protein, chain A is numbered 1002-1161 continuing 1-326 continuing 2012-2361. That is, there are sudden jumps in numbering of consecutive amino acids: 1161 to 1, and 326 to 2012. At right is an excerpt from the ATOM records of the [[PDB file]] for 4zwj chain A. Below is a snapshot of the non-monotonic numbering. | ||
<center> | <center> | ||
<table width=350><tr><td>[[Image:Not-monotonic-3sn6.png]]</td></tr><tr><td>Eight amino acids from 4zwj displayed with sequence numbers in FirstGlance in Jmol.<ref name="how2">Display 4zwj in FirstGlance in Jmol. Click ''Find'' and enter ''chain=A and (1-3,1160-1161,281-283)''. Click ''Isolate'' and check ''Atoms with Halos''. Zoom in. In the left center after "Halos around:" click ''Change'', and then ''Clear Halos''. Check ''Sequence numbers'' (near the bottom of the upper left panel).</ref> | <table width=350><tr><td>[[Image:Not-monotonic-3sn6.png]]</td></tr><tr><td>Eight amino acids from 4zwj displayed with sequence numbers in FirstGlance in Jmol.<ref name="how2">Display 4zwj in FirstGlance in Jmol. Click ''Find'' and enter ''chain=A and (1-3,1160-1161,281-283)''. Click ''Isolate'' and check ''Atoms with Halos''. Zoom in. In the left center after "Halos around:" click ''Change'', and then ''Clear Halos''. Check ''Sequence numbers'' (near the bottom of the upper left panel).</ref> Tyr 1161 is peptide-bonded N-terminal to Met 1. Cys 2 is disulfide-bonded to Cys 282.</td></tr></table> | ||
</center> | </center> | ||
