[modeller_usage] keeping original residue numbers in final model
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Subject: [modeller_usage] keeping original residue numbers in final model
From: "Mauricio Carrillo Tripp" <>
Date: Wed, 22 Oct 2008 15:31:32 -0700
Hi, I'm new in Modeller (9v4) and I haven't been able to find an answer to the following question anywhere I've looked:
Is there a way to keep the original target's residue numbering in the final model instead of having them sequentially numbered
starting at 1?
As an example, this is my target's sequence (NOTE: "-" are not gaps, are missing/unknown residues): >P1;1s58 SEQUENCE:1s58.ali : 19 :A: 554 :A:::0.00:0.00 ------------------NPVKSMWSEGATFSANSVTCTFSRQFLIPYDP EHHYKVFSPAASSCHNASGKEAKVCTITPIMGYSTPWRYLDFNALNLFFS PLEFQHLIENYGSIAPDALTVTISEIAVKDVTDKTGGGVQVTDSATGRLC MLVDHEYKYPYVLGQGQDTLAPELPIWVYFPPQYAYLTVGDVNTQGISGD SKKLASEESAFYVLEHSSFQLLGTGGTATMSYKFPPVPPENLEGCSQHFY EMYNPLYGSRLGVPDTLGGDPKFRSLTHEDHAIQPQNFMPGPLVNSVSTK -------------TGLSTGTSQNTRISLRPGPVSQPYHHWDTDKYVTGIN AISHGQTTYGNAEDKEYQQGVGRFPNEKEQLKQLQGLNMHTYFPNKGTQQ YTDQIERPLMVGSVWNRRALHYESQLWSKIPNLDDSFKTQFAALGGWGLH QPPPQIFLKILPQSGPIGGIKSMGITTLVQYAVGIMTVTMTFKLGPRKAT GRWNPQPGVYPPHAAGHLPYVLYDPTATDAKQHHRHGYEKPEELWTAKSR VHPL *
The final model's PDB starts with residue number 1 and ends
with residue number 523 (number of residues in the sequence). What I would like to get is a model's PDB starting at residue 19, jumping from residue 300 to residue 314 and so, ending at residue 554.
Thanks in advance for any pointers!
-- 0 | Mauricio Carrillo Tripp, PhD / | Department of Molecular Biology, TPC6 0 | The Scripps Research Institute
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