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Rosetta 3 - General

Topic / Topic startersort ascending Replies Views Last post
Normal topic clustering PDBs from docking
by jbujons » Wed, 2024-04-24 08:34 		3
 259 by rmoretti
Thu, 2024-06-20 13:35
Normal topic clustering ligand binding mood by ligand RMSD
by rohi » Tue, 2021-01-26 21:11 		1
 1,581 by brownbp1
Tue, 2021-02-09 12:12
Normal topic Clustering error - Help, please
by karolcia1010 » Wed, 2020-06-17 11:19 		0
 965 by karolcia1010
Wed, 2020-06-17 11:19
Normal topic Clustering and Protein Preparation for docking
by MRH » Sun, 2013-08-25 22:01 		1
 3,521 by rmoretti
Mon, 2014-04-21 06:48
Normal topic ClusterApp hogs way too much memory...
by IgaK » Tue, 2009-09-29 00:14 		5
 5,172 by w107kdk
Mon, 2014-04-21 06:47
Normal topic cluster results
by albumns » Sun, 2010-07-18 23:59 		0
 1,502 by albumns
Mon, 2014-04-21 06:47
Normal topic cluster pdb structures questions
by ritacc18 » Thu, 2013-03-28 19:20 		5
 7,297 by ritacc18
Mon, 2014-04-21 06:47
Normal topic cluster input_score_filter
by lj269 » Thu, 2011-09-01 15:29 		2
 3,146 by attesor
Fri, 2014-10-31 04:23
Normal topic Cluster gdtmm vs. rmsd
by brspurri » Thu, 2012-04-19 08:20 		1
 3,632 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Cluster gdtmm vs. rmsd
by brspurri » Thu, 2012-04-19 08:19 		2
 4,054 by rmoretti
Mon, 2014-04-21 06:47
Normal topic cluster error
by albumns » Sun, 2011-03-06 03:02 		3
 4,620 by smlewis
Mon, 2014-04-21 06:47
Normal topic cluster error
by albumns » Thu, 2010-12-16 18:06 		4
 4,785 by smlewis
Mon, 2014-04-21 06:47
Normal topic Cluster Error
by justin » Mon, 2010-04-26 00:06 		2
 3,016 by justin
Mon, 2014-04-21 06:47
Normal topic Cluster decoys after running PlexPepDock
by phanvy » Thu, 2014-06-19 06:03 		1
 2,269 by nawsad
Fri, 2014-06-20 02:48
Normal topic Cluster application, How does it sort decoys by energy?
by Apiwat » Wed, 2014-04-16 01:52 		2
 3,038 by Apiwat
Thu, 2014-04-17 09:56
Normal topic clean_pdb_keep_ligand.py IndexError
by to-qinbin@163.com » Sat, 2022-09-10 04:04 		1
 903 by rmoretti
Mon, 2022-09-12 06:58
Normal topic clean_pdb.py
by duz » Wed, 2021-03-24 13:36 		2
 2,482 by duz
Thu, 2021-04-01 09:34
Normal topic Clarify ProteinInterfaceDesign “randomness”
by tsztain » Wed, 2019-02-27 09:41 		3
 2,529 by rmoretti
Sat, 2019-03-30 12:12
Normal topic Citing Rosetta3.0
by ctaylor » Fri, 2009-10-09 11:42 		1
 5,272 by smlewis
Mon, 2014-04-21 06:47
Normal topic Chi values for side chains when switching from centroid mode
by MarkW » Fri, 2015-07-03 04:43 		2
 2,808 by MarkW
Fri, 2015-07-03 15:36
Normal topic Checkpoints in Rosetta
by exchhattu » Mon, 2009-10-19 17:47 		2
 3,183 by exchhattu
Mon, 2014-04-21 06:47
Normal topic changing the chain id
by aneamtu » Tue, 2018-01-09 00:08 		2
 4,994 by aneamtu
Thu, 2018-01-18 00:56
Normal topic Changing Monte Carlo temperature for relax
by jruhym » Thu, 2012-02-02 15:18 		1
 2,614 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Changing amino acid profile while keeping the backbone conformation between 2 protein structures (need help)
by seamoon » Wed, 2023-05-24 07:46 		0
 424 by seamoon
Wed, 2023-05-24 07:46
Normal topic Change the number of residues on pdb file!
by phanvy » Tue, 2014-04-15 23:26 		3
 10,869 by rmoretti
Mon, 2015-02-09 09:09
Normal topic Change in binding energy after mutation in interface?
by cossio » Mon, 2014-12-01 06:27 		9
 11,687 by rmoretti
Thu, 2015-04-30 16:25
Normal topic change DOF of NH3 group in N terminus
by SergeyP » Wed, 2016-02-03 02:22 		3
 3,895 by SergeyP
Thu, 2016-02-04 00:07
Normal topic Chain specific flags
by helenah » Mon, 2020-10-19 03:31 		5
 3,254 by rmoretti
Fri, 2020-11-06 08:04
Normal topic Chain name being read as residue
by MarkusAurelius » Mon, 2021-03-22 11:19 		2
 1,499 by MarkusAurelius
Mon, 2021-03-29 09:06
Normal topic Centroid disulfide score weights
by vasek » Wed, 2014-01-22 23:34 		0
 1,652 by vasek
Mon, 2014-04-21 06:48
Normal topic CDR Cluster Constrained Relax Equivalent
by SenyorDrew » Wed, 2016-04-27 08:04 		3
 3,602 by SenyorDrew
Tue, 2016-06-14 06:43
Normal topic Cartesian_ddG mutfile error
by paulbo » Mon, 2024-02-05 01:25 		0
 452 by paulbo
Mon, 2024-02-05 01:25
Normal topic Cannot use SimpleMetrics
by Vedasheersh » Sun, 2018-06-10 23:38 		5
 4,153 by smlewis
Tue, 2018-06-12 10:54
Normal topic Cannot run binaries after successful compilation
by ac.research » Mon, 2017-08-14 02:56 		6
 7,555 by ac.research
Fri, 2017-08-18 00:57
Normal topic Cannot Open Resfile
by csvajda » Fri, 2022-03-04 13:39 		3
 1,774 by csvajda
Mon, 2022-03-07 07:46
Normal topic Cannot create cst files from upl files
by road runner » Wed, 2015-11-11 22:07 		2
 2,880 by road runner
Tue, 2015-12-01 10:08
Normal topic Canceling jobs - RosettaDock5.0
by katie » Tue, 2024-04-09 12:30 		0
 164 by katie
Tue, 2024-04-09 12:30
Normal topic Can't read constraint type
by allan.ferrari » Fri, 2015-08-28 12:33 		2
 2,978 by allan.ferrari
Mon, 2015-09-21 21:54
Hot topic Can't make NCAA's and D-aminoacids work
by jarek » Fri, 2012-10-26 09:10 		26
 25,601 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Can't find the source code of FlexPepDock protocol in Rosetta3.1
by SunH » Thu, 2010-09-16 06:28 		2
 2,918 by barak
Mon, 2014-04-21 06:47
Normal topic can't access rosetta commercial license download via given URL from CoMotion
by y_atsmonraz » Tue, 2023-02-14 11:04 		8
 2,193 by rmoretti
Thu, 2023-02-16 13:48
Normal topic Can rosetta model cyclic peptide?
by Apiwat » Fri, 2014-02-07 02:08 		1
 2,697 by rmoretti
Tue, 2014-02-11 06:24
Normal topic Can Rosetta generate proteins with sidechains ?
by wszjzhang » Fri, 2010-01-08 08:26 		1
 2,317 by smlewis
Mon, 2014-04-21 06:47
Normal topic can not find a residue type that matches the residue HIS_P:NtermProteinFull
by tarsis » Wed, 2017-04-05 08:51 		1
 2,801 by rmoretti
Fri, 2017-04-14 08:37
Normal topic Can I use the relax mode application for removing clashes in a membrane protein homology model?
by doranhen » Thu, 2012-12-20 05:45 		2
 3,096 by doranhen
Mon, 2014-04-21 06:47
Normal topic Can I use next generation KIC with fragments?
by Loki01 » Thu, 2017-12-07 06:19 		1
 1,670 by Loki01
Wed, 2017-12-13 05:27
Normal topic Can I thread a two chained structure in RosettaCM?
by ahmadkhalifa » Mon, 2018-01-08 09:41 		3
 3,591 by aaxx
Wed, 2019-11-06 01:44
Normal topic Can i start again the job ?
by byin » Thu, 2011-09-15 01:19 		6
 5,635 by byin
Mon, 2014-04-21 06:47
Normal topic Can I compare binding affinity of different ligands using Rosetta?
by zg148119@ohio.edu » Sun, 2020-12-06 11:30 		4
 3,526 by nannemdp
Fri, 2021-02-05 06:49
Normal topic Can Fold-and-dock protocol applied to membrane proteins
by justin » Thu, 2011-07-21 00:14 		9
 9,629 by wangyr
Mon, 2014-04-21 06:47
Normal topic Can anyone become a Rosetta developer?
by cossio » Thu, 2015-01-22 05:10 		4
 6,203 by cossio
Thu, 2015-01-29 11:50
Normal topic Calling a Rosetta xml script in a Python script gives fail to validate error
by ahmadkhalifa » Tue, 2018-03-06 08:00 		3
 4,448 by rmoretti
Mon, 2018-03-19 12:35
Normal topic Calibur-linux binary or source code availability?
by jasnyderjr » Sat, 2016-12-10 23:36 		2
 2,964 by jadolfbr
Sun, 2016-12-11 10:53
Normal topic Calibur not listing cluster members
by Swillard » Sun, 2018-07-01 13:07 		2
 2,498 by benhardy
Fri, 2021-05-07 07:22
Normal topic Calculating shape complementarity of ligand and protein
by varunmc99 » Tue, 2023-01-17 11:29 		1
 812 by rmoretti
Mon, 2023-02-06 14:42
Normal topic Calculating SAP score using RosettaScripts
by varunmc99 » Fri, 2023-05-12 11:03 		2
 1,051 by varunmc99
Fri, 2023-05-12 11:49
Normal topic Calculating binding affinity
by phanvy » Wed, 2014-10-15 23:35 		2
 4,782 by phanvy
Thu, 2014-10-16 18:54
Normal topic calculated ddG_bind converges to zero
by fukamitka » Mon, 2013-06-24 20:32 		6
 6,271 by fukamitka
Mon, 2014-04-21 06:48
Normal topic calculate RMSD (RNA modelling)
by obdulia » Tue, 2016-07-05 01:58 		5
 6,333 by obdulia
Wed, 2016-07-13 09:11
Normal topic calculate low-resolution total docking score for a input pdb
by jasnyderjr » Fri, 2015-12-11 23:08 		3
 4,019 by rmoretti
Wed, 2015-12-16 11:22
Normal topic Calculate ddG in mutation scan of a homodimer
by zachdebruine » Thu, 2018-02-01 10:02 		1
 1,877 by rmoretti
Mon, 2018-02-05 15:44
Normal topic calcium metal nomenclature: Rosetta_cm confusing HETATM CA (calcium) with ATOM CA (alpha-carbon)
by rlwoltz » Tue, 2021-08-03 23:26 		0
 1,116 by rlwoltz
Tue, 2021-08-03 23:26
Normal topic Ca-RMSD
by jrcf » Mon, 2016-02-29 16:39 		2
 3,379 by jrcf
Tue, 2016-05-03 17:40
Normal topic C-term amidation
by tttt » Tue, 2021-03-02 07:46 		4
 3,126 by tatsiana.bylund
Mon, 2022-01-24 07:58
Normal topic Building Rosetta Problem: Processor architecture unsupported?
by jalfaro » Tue, 2010-03-23 05:48 		1
 3,014 by reddybg
Mon, 2014-04-21 06:47
Normal topic Building Rosetta PROBLEM
by nunesjulioc » Fri, 2010-02-26 06:03 		1
 2,063 by smlewis
Mon, 2014-04-21 06:47
Normal topic Building Rosetta 3.1 for cs-Rosetta
by zdn3023 » Fri, 2010-02-26 14:31 		2
 3,126 by zdn3023
Mon, 2014-04-21 06:47
Normal topic building a 77 aa long protein fragment
by tevang » Sat, 2010-02-20 11:37 		8
 7,769 by gsmurphy
Mon, 2014-04-21 06:47
Normal topic build rosetta by cross-platform compiler
by jarod » Fri, 2010-05-07 21:49 		1
 2,071 by smlewis
Mon, 2014-04-21 06:47
Normal topic build parallel version of Rosetta
by atfrank » Tue, 2009-10-06 22:33 		2
 3,883 by smlewis
Mon, 2014-04-21 06:47
Normal topic build local user guide
by coomteng@gmail.com » Wed, 2018-03-28 13:55 		3
 2,906 by coomteng@gmail.com
Wed, 2018-03-28 14:58
Normal topic BUG REPORT: MySql column protocol.protocol_id must have the AUTO_INCREMENT flag set
by pedro.guillem » Wed, 2020-05-13 18:31 		0
 946 by pedro.guillem
Wed, 2020-06-24 04:42
Normal topic Bug in LoopMover_Refine_Backrub.cc ?
by SunH » Wed, 2010-12-15 00:08 		1
 2,254 by smlewis
Mon, 2014-04-21 06:47
Normal topic Bug in Loop Modeling
by dseelig » Thu, 2010-09-23 05:55 		2
 2,915 by smlewis
Mon, 2014-04-21 06:47
Normal topic Bug in cluster?
by nitroamos » Mon, 2011-11-21 12:53 		1
 2,380 by smlewis
Mon, 2014-04-21 06:47
Normal topic BridgeChainsMover
by msardejani » Sun, 2016-08-07 17:32 		5
 5,232 by smlewis
Tue, 2016-08-30 13:47
Normal topic Blast error for rosetta antibody: No argument value given for Query file
by dngusdnr1 » Tue, 2021-06-08 17:32 		1
 1,190 by taylorjones
Wed, 2021-06-09 16:30
Normal topic Biopython error in mac os x
by vinodh » Tue, 2012-06-12 12:23 		3
 4,436 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Binding energy calculation
by SunH » Thu, 2010-12-09 19:29 		3
 6,160 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Bind a Ligand to RNA
by hdavis9 » Wed, 2010-07-14 09:07 		3
 3,341 by smlewis
Mon, 2014-04-21 06:47
Normal topic Binary silent Output file reading problem
by wlzhang » Sun, 2014-04-20 17:47 		1
 2,474 by wlzhang
Sun, 2014-04-20 18:17
Normal topic Better minimization with Rosetta
by Elijah_Hix » Wed, 2021-07-28 13:53 		1
 1,213 by matteoferla
Mon, 2021-08-09 01:53
Normal topic best_ifaceE.py error
by rosa » Fri, 2013-07-12 08:35 		7
 6,971 by rosa
Mon, 2014-04-21 06:48
Normal topic benchmark for rosetta3.1
by anusmita_sahoo » Tue, 2010-05-04 22:05 		0
 1,570 by anusmita_sahoo
Mon, 2014-04-21 06:47
Normal topic Basic help with Protein-DNA and Protein-Protein modeling and engineering
by Robert Evans » Sat, 2013-08-17 12:21 		2
 3,960 by Robert Evans
Mon, 2014-04-21 06:48
Normal topic backrub score different from calculated score
by attesor » Wed, 2014-04-09 07:34 		3
 3,900 by rmoretti
Thu, 2014-04-10 07:38
Normal topic backrub and design
by jtmacd » Thu, 2009-06-04 08:44 		1
 2,332 by jtmacd
Mon, 2014-04-21 06:47
Normal topic backbone-independent density
by SergeyP » Sun, 2016-03-20 04:57 		2
 2,707 by SergeyP
Thu, 2016-05-05 02:07
Normal topic B1_SampleSegment1.sh from RosettaES tutorial crashes
by ab » Tue, 2017-07-04 08:42 		12
 9,818 by brandon.frenz
Sat, 2017-07-08 13:49
Normal topic Available of some protocals mentioned in publications
by SunH » Mon, 2013-09-09 20:47 		1
 2,217 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Atom_.cc line 304
by fred » Thu, 2014-09-11 12:04 		1
 2,228 by rmoretti
Fri, 2014-09-12 09:11
Normal topic AtomTree::torsion_angle() can't find dof! in match and enzdes
by petrikigor » Fri, 2012-10-19 09:49 		1
 2,719 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Atomic refinement with fixed ligand
by ahmadkhalifa » Tue, 2018-07-24 10:41 		6
 5,026 by rmoretti
Mon, 2018-08-20 11:45
Normal topic Are 100 structures the maximum generated when using homology_with_end_extension (broker protocol)?
by thaisarns » Fri, 2020-02-21 05:46 		1
 1,381 by sheehajh
Fri, 2020-02-21 12:41
Normal topic Applying dihedral constraints to TRP dipeptide minimization. ACE/NME termni.
by reoverstreet » Mon, 2022-07-11 14:39 		1
 941 by matteoferla
Wed, 2022-07-20 10:33
Normal topic Anyone here knows what is the protocol capture archive???????!!
by MajorID » Thu, 2011-06-02 01:50 		12
 12,724 by rmoretti
Fri, 2015-04-24 12:15
Normal topic Any general way to generate .params file for beta and gamma NCAA?
by wwwmrzkwww » Wed, 2023-04-26 12:35 		0
 455 by wwwmrzkwww
Wed, 2023-04-26 12:35
Normal topic Antigen-antibody modeling
by aastha.pal » Mon, 2022-06-27 09:34 		0
 594 by aastha.pal
Mon, 2022-06-27 09:34
Normal topic Antibody Modeling Question
by rbehan » Fri, 2016-02-05 13:57 		1
 1,965 by jadolfbr
Fri, 2016-02-05 15:32
Normal topic Antibody homology modeling fails after blastp
by sunhwan » Sat, 2017-02-18 11:25 		7
 6,334 by sunhwan
Mon, 2017-02-27 11:02