# Error: Radius array is \<= 0 for the residue: ARG ,atom: O1

**URL:** <https://ask.bioexcel.eu/t/error-radius-array-is-0-for-the-residue-arg-atom-o1/2863>\
**Category:** PRODIGY\
**Created:** [March 24, 2021, 9:34am UTC](https://ask.bioexcel.eu/t/error-radius-array-is-0-for-the-residue-arg-atom-o1/2863 "2021-03-24T09:34:15Z")\
**Posts on this page:** 7\
**Page:** 1

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**Author:** ![atiqurrahamansikder](https://avatars.discourse-cdn.com/v4/letter/a/ad7895/32.png) [@atiqurrahamansikder](https://ask.bioexcel.eu/u/atiqurrahamansikder)\
**Post date:** [March 24, 2021, 9:34am UTC](https://ask.bioexcel.eu/t/error-radius-array-is-0-for-the-residue-arg-atom-o1/2863/1 "2021-03-24T09:34:16Z")

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I am facing this error while doing my job!  
What should I do?

Running Prodigy for structure sol\_1  
ERROR:  
[!] Error when running freesasa:  
[!] Error: Radius array is \<= 0 for the residue: ARG ,atom: O1

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**Author:** ![amjjbonvin](https://dub1.discourse-cdn.com/flex013/user_avatar/ask.bioexcel.eu/amjjbonvin/32/23_2.png) [@amjjbonvin](https://ask.bioexcel.eu/u/amjjbonvin)\
**Post date:** [March 24, 2021, 9:45am UTC](https://ask.bioexcel.eu/t/error-radius-array-is-0-for-the-residue-arg-atom-o1/2863/2 "2021-03-24T09:45:29Z")

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Correct your atom naming to follow PDB standard, i.e. O1 → O, O2 → OXT …

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**Author:** ![atiqurrahamansikder](https://avatars.discourse-cdn.com/v4/letter/a/ad7895/32.png) [@atiqurrahamansikder](https://ask.bioexcel.eu/u/atiqurrahamansikder)\
**Post date:** [March 24, 2021, 4:41pm UTC](https://ask.bioexcel.eu/t/error-radius-array-is-0-for-the-residue-arg-atom-o1/2863/3 "2021-03-24T16:41:13Z")

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Should change for only ARG residue? or every residue where naming is incorrect.

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**Author:** ![amjjbonvin](https://dub1.discourse-cdn.com/flex013/user_avatar/ask.bioexcel.eu/amjjbonvin/32/23_2.png) [@amjjbonvin](https://ask.bioexcel.eu/u/amjjbonvin)\
**Post date:** [March 24, 2021, 7:07pm UTC](https://ask.bioexcel.eu/t/error-radius-array-is-0-for-the-residue-arg-atom-o1/2863/4 "2021-03-24T19:07:37Z")

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All I am afraid…

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**Author:** ![xiaobingzi](https://avatars.discourse-cdn.com/v4/letter/x/bbe5ce/32.png) [@xiaobingzi](https://ask.bioexcel.eu/u/xiaobingzi)\
**Post date:** [August 1, 2021, 8:22am UTC](https://ask.bioexcel.eu/t/error-radius-array-is-0-for-the-residue-arg-atom-o1/2863/5 "2021-08-01T08:22:41Z")

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Sir，Error: Radius array is \<= 0 for the residue: LEU ,atom: OC1，what could i do？

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**Author:** ![amjjbonvin](https://dub1.discourse-cdn.com/flex013/user_avatar/ask.bioexcel.eu/amjjbonvin/32/23_2.png) [@amjjbonvin](https://ask.bioexcel.eu/u/amjjbonvin)\
**Post date:** [August 1, 2021, 8:39am UTC](https://ask.bioexcel.eu/t/error-radius-array-is-0-for-the-residue-arg-atom-o1/2863/6 "2021-08-01T08:39:04Z")

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Do you mean CD1? Let has no OC1 atom…

When editing your pdb make sure to respect the column alignments

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<div class="post-metadata">

**Author:** ![xiaobingzi](https://avatars.discourse-cdn.com/v4/letter/x/bbe5ce/32.png) [@xiaobingzi](https://ask.bioexcel.eu/u/xiaobingzi)\
**Post date:** [August 1, 2021, 2:47pm UTC](https://ask.bioexcel.eu/t/error-radius-array-is-0-for-the-residue-arg-atom-o1/2863/7 "2021-08-01T14:47:50Z")

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sir, it was from my job, and it shew  
Running Prodigy for structure 500000 - 0  
ERROR:  
[!] Error when running freesasa:  
[!] Error: Radius array is \<= 0 for the residue: LEU ,atom: OC1