Rosetta 3 - General

	Topic / Topic starter	Replies	Views	Last post
Normal topic	BridgeChainsMover by msardejani » Sun, 2016-08-07 17:32	5	5,080	by smlewis Tue, 2016-08-30 13:47
Normal topic	Maximum Number of Constraints by jurkm » Fri, 2011-06-17 05:23	3	5,077	by jurkm Mon, 2014-04-21 06:47
Normal topic	How to set up options in rosetta by alejandro » Wed, 2011-04-06 02:08	3	5,074	by smlewis Mon, 2014-04-21 06:47
Normal topic	Rosetta documentation by Ashafix » Sat, 2013-08-31 06:50	3	5,072	by Ashafix Mon, 2014-04-21 06:48
Normal topic	Docking tree issues by salvatta » Tue, 2018-07-17 05:57	5	5,063	by salvatta Mon, 2018-09-10 10:04
Normal topic	RosettaMatch in 3.2 by jtmacd » Mon, 2010-12-20 08:04	4	5,054	by jtmacd Mon, 2014-04-21 06:47
Normal topic	What is the total_score that relax outputs? by cossio » Tue, 2014-12-02 13:50	4	5,046	by cossio Thu, 2014-12-04 05:41
Normal topic	Fastrelax energy by Lindsay » Thu, 2014-01-16 21:04	3	5,038	by rmoretti Mon, 2014-04-21 06:48
Normal topic	Flexible backbone design using PSSM by kalicuta » Thu, 2012-07-26 13:38	4	5,019	by rmoretti Mon, 2014-04-21 06:47
Normal topic	rosetta on snow leopard? by nitroamos » Thu, 2009-10-01 17:07	3	5,016	by nitroamos Mon, 2014-04-21 06:47
Normal topic	Relax protocoll short pdb of AAA petide by knutjbj » Wed, 2011-01-26 05:01	5	5,014	by smlewis Mon, 2014-04-21 06:47
Normal topic	Evaluating energies on non-standard rotamer set by pachecoj » Sat, 2014-07-26 16:27	5	5,006	by pachecoj Sat, 2014-08-09 06:33
Normal topic	is it possible to ab initio only a part of a protein? by albumns » Sun, 2011-02-13 08:10	6	5,002	by albumns Mon, 2014-04-21 06:47
Normal topic	ClusterApp hogs way too much memory... by IgaK » Tue, 2009-09-29 00:14	5	4,999	by w107kdk Mon, 2014-04-21 06:47
Normal topic	Modeling only part of the protein structure using ROSETTA by qiongwu » Fri, 2009-05-29 09:08	5	4,983	by smlewis Mon, 2014-04-21 06:47
Normal topic	Rosetta forcefield terms and interpretation by zigeuner » Sat, 2013-05-25 16:59	2	4,975	by rmoretti Mon, 2014-04-21 06:47
Normal topic	Rosetta/PyRosetta on GPU by ac.research » Mon, 2017-11-06 05:18	1	4,957	by rmoretti Mon, 2017-11-06 07:36
Normal topic	what's the difference between recovery and sequence identity by Lindsay » Thu, 2012-04-26 05:46	3	4,934	by smlewis Mon, 2014-04-21 06:47
Normal topic	P(Res \| phi,psi ) by jadolfbr » Thu, 2011-07-21 08:49	5	4,931	by jadolfbr Mon, 2014-04-21 06:47
Normal topic	Updated publications/details on Rosetta score function? by nitroamos » Tue, 2009-10-20 19:48	4	4,928	by rmoretti Mon, 2015-03-30 14:43
Normal topic	how to get reliable results for carbohydrate docking? by albumns » Sun, 2010-09-05 23:12	3	4,918	by smlewis Mon, 2014-04-21 06:47
Normal topic	Error Scoring Application- Illegal attempt to score by samuelrpita » Thu, 2015-08-06 14:45	3	4,917	by rmoretti Wed, 2015-08-12 15:03
Normal topic	restrain multiple portions of proteins with MinMover by Karol » Wed, 2016-09-07 08:29	4	4,885	by rmoretti Thu, 2016-09-08 10:56
Normal topic	Question regarding Mlipo score by DanielK » Tue, 2012-05-29 02:04	4	4,857	by smlewis Mon, 2014-04-21 06:47
Normal topic	an old question by albumns » Sun, 2012-10-28 12:14	4	4,854	by rmoretti Mon, 2014-04-21 06:47
Normal topic	Comparative modeling Error: potential mismatch between sequence from alignment and sequence from PDB! by nzsuzsanna » Wed, 2016-04-27 05:32	4	4,844	by nzsuzsanna Fri, 2016-04-29 04:30
Normal topic	Error running snugdock by SenyorDrew » Tue, 2017-03-14 10:00	5	4,833	by SenyorDrew Wed, 2017-03-29 06:40
Normal topic	Typical relax options not applied in relax.mpi.linuxiccrelease?? by David Weis » Mon, 2017-02-27 11:35	5	4,832	by rmoretti Thu, 2017-08-03 09:01
Normal topic	Does a negative Rosetta dG imply a favorable process? by cossio » Tue, 2014-12-09 05:13	4	4,822	by lanselibai Tue, 2014-12-16 10:48
Normal topic	changing the chain id by aneamtu » Tue, 2018-01-09 00:08	2	4,820	by aneamtu Thu, 2018-01-18 00:56
Normal topic	Atomic refinement with fixed ligand by ahmadkhalifa » Tue, 2018-07-24 10:41	6	4,803	by rmoretti Mon, 2018-08-20 11:45
Normal topic	"CEN" atom in the pdb file by wszjzhang » Wed, 2010-03-17 14:35	3	4,800	by anusmita_sahoo Mon, 2014-04-21 06:47
Normal topic	protocols.jd2.JobDistributor: [ ERROR ] by johnnytam100 » Thu, 2019-04-11 09:30	5	4,798	by jadolfbr Tue, 2019-04-16 09:15
Normal topic	Difference between checkpoint file and PSSM for making fragments by qlj » Fri, 2014-03-21 22:00	1	4,795	by rmoretti Sat, 2014-03-22 11:40
Normal topic	How to dock 3 missing domains onto a multi-domain protein by tevang » Sun, 2011-04-10 15:22	3	4,765	by smlewis Mon, 2014-04-21 06:47
Normal topic	Secondary Structure Relax by ac.research » Sat, 2018-03-17 10:50	5	4,744	by smlewis Wed, 2018-03-21 08:42
Normal topic	Make_fragments.pl database by TiagoGomes » Tue, 2009-10-13 11:31	5	4,744	by matteoferla Wed, 2021-09-29 01:58
Normal topic	rs filter for terms in .sc files by gw » Sat, 2012-08-18 16:20	4	4,738	by gw Mon, 2014-04-21 06:47
Normal topic	Give diferent chain information for a single sequence (comparative modeling) by Martin Floor » Tue, 2013-04-02 08:59	4	4,737	by Martin Floor Mon, 2014-04-21 06:47
Normal topic	Random seed confusion by pardave » Mon, 2012-11-12 09:45	4	4,731	by pardave Mon, 2014-04-21 06:47
Normal topic	Computing energy gradients for side chain minimization by pachecoj » Wed, 2017-03-29 08:03	5	4,731	by pachecoj Wed, 2017-03-29 12:32
Normal topic	abinitio - is there a way to limit number of CPU cores the program uses? by burkheadlab » Mon, 2011-05-09 16:37	1	4,718	by smlewis Mon, 2014-04-21 06:47
Normal topic	Fragment files by exchhattu » Fri, 2009-09-18 01:04	4	4,709	by rmoretti Tue, 2015-01-06 09:58
Normal topic	sign of ddG of mutation by Lindsay » Wed, 2013-11-27 00:25	2	4,708	by Lindsay Mon, 2014-04-21 06:48
Normal topic	short peptide fragment file generation by cheyuk » Mon, 2016-07-11 00:04	4	4,706	by smlewis Wed, 2016-07-13 23:41
Normal topic	Problem with the -dock_ppk flag by lzx32 » Sat, 2011-04-30 00:21	4	4,700	by lzx32 Mon, 2014-04-21 06:47
Normal topic	Ab initio/relax flag file setup by w107kdk » Fri, 2009-08-28 11:49	4	4,698	by w107kdk Mon, 2014-04-21 06:47
Normal topic	Error using InterfaceHoles filter by SenyorDrew » Fri, 2017-04-14 08:55	4	4,686	by SenyorDrew Mon, 2017-07-24 11:06
Normal topic	Identical decoys by aroop » Tue, 2012-09-25 12:50	4	4,684	by smlewis Mon, 2014-04-21 06:47
Normal topic	cluster error by albumns » Thu, 2010-12-16 18:06	4	4,672	by smlewis Mon, 2014-04-21 06:47
Normal topic	UBQ chemically conjugated docking error by cheyuk » Fri, 2015-09-18 06:57	4	4,670	by cheyuk Sun, 2015-09-20 02:08
Normal topic	Error while running MakeRotLib by saxen » Sun, 2016-04-17 22:51	4	4,669	by saxen Mon, 2016-04-25 10:38
Normal topic	Rosetta CM - Ignore Sporadic Errors by Swillard » Wed, 2018-06-13 05:47	6	4,664	by rmoretti Mon, 2018-11-12 14:29
Normal topic	Rosetta releases and revision numbers by ShaneOConnor » Thu, 2011-11-17 13:55	2	4,655	by smlewis Mon, 2014-04-21 06:47
Normal topic	How to make a resfile by dflaher » Fri, 2017-11-03 10:26	3	4,654	by smlewis Wed, 2017-11-08 12:08
Normal topic	Calculating binding affinity by phanvy » Wed, 2014-10-15 23:35	2	4,654	by phanvy Thu, 2014-10-16 18:54
Normal topic	solvation by gw » Wed, 2011-08-31 17:14	4	4,634	by smlewis Mon, 2014-04-21 06:47
Normal topic	Comparing scores by renedominik » Mon, 2012-02-27 05:21	4	4,629	by renedominik Mon, 2014-04-21 06:47
Normal topic	How to automatically position new peptides into the binding site of a enzime, in order to run peptide-protein docking approaches by zaldini » Fri, 2015-01-02 05:53	4	4,626	by zaldini Wed, 2015-01-07 20:35
Normal topic	How can move peptide on cleft of enzyme on Flexpepdock? by phanvy » Thu, 2014-06-05 02:22	4	4,593	by zaldini Fri, 2015-01-02 05:38
Normal topic	Efficient implementation of MPI with protein design programs by zachdebruine » Thu, 2018-06-28 10:41	5	4,581	by smlewis Tue, 2018-07-03 11:22
Normal topic	The vall.jul19.2011.gz Database by ac.research » Fri, 2017-09-01 02:29	4	4,570	by ac.research Mon, 2017-09-04 16:43
Normal topic	Questions about rosetta fragment library ranking and fragment conformation sampling algorithm by mdyini » Thu, 2011-05-19 17:34	3	4,562	by dgront Mon, 2014-04-21 06:47
Normal topic	multiple cst files by logandonaldson » Wed, 2013-03-20 12:16	4	4,533	by logandonaldson Mon, 2014-04-21 06:47
Normal topic	Side-chain packing with multiple chains by pachecoj » Mon, 2014-04-21 16:53	3	4,529	by jadolfbr Mon, 2014-04-21 21:05
Normal topic	cluster error by albumns » Sun, 2011-03-06 03:02	3	4,525	by smlewis Mon, 2014-04-21 06:47
Normal topic	Relax protocol details for Rosetta 3.1 by Matthys » Sun, 2012-01-15 10:00	4	4,517	by rmoretti Mon, 2014-04-21 06:47
Normal topic	How to turn off output of POSE_ENERGIES_TABLE by lah435 » Tue, 2015-02-03 21:21	4	4,512	by jwillis Sat, 2015-02-07 20:40
Normal topic	FlexPepDocking.mpi.linuxgccrelease bails out ERROR: total_residue() != 0 ERROR:: Exit from: src/core/pose/Pose.cc line: 1369 by knutjbj » Thu, 2011-02-03 03:24	2	4,511	by knutjbj Mon, 2014-04-21 06:47
Normal topic	Symmetric abrelax modeling by SenyorDrew » Fri, 2011-02-18 10:14	4	4,492	by IAndre Mon, 2014-04-21 06:47
Normal topic	Determine the weights of score functions by SunH » Thu, 2010-09-02 07:20	3	4,488	by smlewis Mon, 2014-04-21 06:47
Normal topic	How to set the enviroment variable $ROSETTA3, $ $ROSETTA3_DB, $ROSETTA_TOOLS? by Sunyp_IM » Thu, 2017-07-27 01:07	1	4,485	by SenyorDrew Sat, 2017-07-29 09:59
Normal topic	how to do cluster after low resolution protein-protein docking? by albumns » Sat, 2010-11-27 01:17	4	4,485	by albumns Mon, 2014-04-21 06:47
Normal topic	fix backbone design of interface residue by Lindsay » Tue, 2013-12-17 19:23	3	4,482	by rmoretti Mon, 2014-04-21 06:48
Normal topic	unknown constraint function type: AtomPair ? by jiongzhang » Sun, 2012-07-15 02:13	4	4,473	by jiongzhang Mon, 2014-04-21 06:47
Normal topic	Does Rosetta have an app for detecting brakes and clashes in proteins by Anatol » Sat, 2012-09-08 15:48	3	4,465	by smlewis Mon, 2014-04-21 06:47
Normal topic	how to identify selected interface residues by vijayaraj81 » Mon, 2014-03-31 01:40	3	4,462	by rmoretti Tue, 2014-04-01 08:12
Normal topic	Problems with disulphide bonds during KIC by Loki01 » Tue, 2017-11-28 03:11	5	4,460	by Loki01 Thu, 2017-12-14 06:20
Normal topic	The question about protonation of Rosetta by asbelx » Tue, 2017-12-19 05:44	3	4,455	by rmoretti Mon, 2018-01-15 15:34
Normal topic	why energy is positive? by albumns » Tue, 2014-12-23 00:05	3	4,452	by rmoretti Mon, 2015-02-09 11:21
Normal topic	trying to create heme.params by einew » Mon, 2011-02-28 13:33	3	4,445	by einew Mon, 2014-04-21 06:47
Normal topic	Difference between score and silent_score when silent files are combined by justin » Tue, 2012-01-03 06:44	4	4,439	by justin Mon, 2014-04-21 06:47
Normal topic	Error reading new residue .param file by mgrom92 » Tue, 2016-03-22 12:54	2	4,415	by mgrom92 Wed, 2016-03-23 16:45
Normal topic	dG/dsasa , What is the exact meaning? by Apiwat » Sun, 2014-04-13 00:38	2	4,403	by Apiwat Thu, 2014-04-17 09:56
Normal topic	Multiprocessor Execution by starone » Tue, 2016-04-19 20:06	3	4,397	by smlewis Thu, 2016-04-21 16:00
Normal topic	Noncanonical amino acid HIP by Victor » Fri, 2014-01-31 07:45	2	4,394	by Victor Fri, 2014-01-31 10:41
Normal topic	Symmetric local protein docking by efratmas » Tue, 2011-01-11 03:00	3	4,393	by smlewis Mon, 2014-04-21 06:47
Normal topic	run Rosetta under windows prompt by skipper » Fri, 2013-12-20 21:16	3	4,384	by rmoretti Mon, 2014-04-21 06:48
Normal topic	Multi-chain Modelling by Sandy » Sun, 2015-08-09 14:41	2	4,382	by rmoretti Tue, 2015-09-08 10:18
Normal topic	combine_silent ERROR: unknown atom_name: CYS SG by freedman » Mon, 2017-03-06 10:56	5	4,380	by freedman Mon, 2017-03-06 13:24
Normal topic	using defined WATERS in PACKING by ast » Wed, 2012-01-11 09:11	4	4,375	by smlewis Mon, 2014-04-21 06:47
Normal topic	core.scoring.rms_util: WARNING: CA_rmsd out of range... by mdyini » Sat, 2012-02-25 16:14	4	4,375	by mdyini Mon, 2014-04-21 06:47
Normal topic	Unrecognised resiudues when rescoring PDB files generated by enzyme_design under MPI by linucks » Tue, 2018-02-13 03:41	4	4,372	by linucks Fri, 2018-02-23 08:08
Normal topic	Error when running "plot_LHOC.py" by Sunyp_IM » Sun, 2017-08-13 05:54	5	4,363	by smlewis Wed, 2017-08-16 08:30
Normal topic	Unrecognized aa NO3 by JadAbbass » Sun, 2013-07-14 10:48	3	4,357	by JadAbbass Mon, 2014-04-21 06:48
Normal topic	score terms by qlj » Wed, 2013-07-03 08:00	3	4,350	by rmoretti Mon, 2014-04-21 06:48
Normal topic	computer shuts down during autobulding with rosetta by intekhab » Tue, 2011-07-19 01:07	4	4,347	by rmoretti Mon, 2014-04-21 06:47
Normal topic	Memory leak when PDB preparation by Jacky010 » Mon, 2019-05-06 01:28	6	4,336	by Jacky010 Tue, 2019-05-14 01:24
Normal topic	How to integrate Rosetta code to my program? by Lsg » Tue, 2011-06-28 07:18	3	4,314	by smlewis Mon, 2014-04-21 06:47
Normal topic	enzdes error by bo » Tue, 2012-08-21 09:12	4	4,314	by bo Mon, 2014-04-21 06:47

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Rosetta 3 - General

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