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Rosetta 3 - Applications

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Normal topic Creating model of 89-90 residues by ab initio methodology-help
by krlitros87 » Sun, 2014-05-25 12:12
1
1,954 by rmoretti
Mon, 2014-05-26 09:29
Normal topic Membrane ab-initio modelling of a beta-strand
by hzhekova » Mon, 2019-06-10 14:22
1
1,202 by rmoretti
Mon, 2019-06-24 14:39
Normal topic density scoring
by Tianyang89 » Sat, 2020-08-29 04:54
1
1,194 by danpf
Sun, 2020-08-30 22:23
Normal topic Files for Spatial Constraints
by Derek » Tue, 2016-04-12 01:00
1
1,643 by Derek
Wed, 2016-04-27 01:31
Normal topic Partial Active Site Design for a Novel Substrate
by Derek » Wed, 2017-05-17 19:41
1
1,452 by rmoretti
Thu, 2017-05-18 13:51
Normal topic Calbur vs Energy Based Clustering
by Swillard » Sun, 2018-07-01 13:24
1
1,551 by rmoretti
Fri, 2018-08-03 08:26
Normal topic kcenters_clustering_of_fragments
by bjharris » Mon, 2019-07-01 16:16
1
1,173 by bjharris
Wed, 2020-07-01 23:25
Normal topic number of structures in homology modeling for cluster analysis
by pdbb » Fri, 2013-04-12 08:52
1
2,363 by smlewis
Mon, 2014-04-21 06:47
Normal topic ddg_monomer "ERROR: seqpos >= 1"
by cossio » Fri, 2015-10-02 12:20
1
1,951 by rmoretti
Fri, 2015-10-02 12:30
Normal topic manually defining CDRs in antibody modelling
by gard.nelson » Fri, 2020-07-10 13:31
1
944 by brspurri
Wed, 2021-01-20 08:11
Normal topic ProteinInterfaceMS
by rbjacob » Wed, 2018-10-24 11:31
1
1,185 by rmoretti
Wed, 2018-11-21 15:10
Normal topic polymer docking using rosetta scripts
by syntekabio2019 » Fri, 2020-11-27 01:51
1
832 by rmoretti
Fri, 2020-11-27 10:47
Normal topic docking with constraints
by talavera » Tue, 2013-05-07 01:50
1
3,716 by rmoretti
Mon, 2014-04-21 06:47
Normal topic FloppyTail options error
by DmitriiN » Fri, 2016-11-11 02:54
1
1,560 by smlewis
Fri, 2016-11-11 08:33
Normal topic LoopModeler mover unable to determine cut point
by gszwabowski » Mon, 2020-06-01 13:12
1
1,148 by matteoferla
Thu, 2020-07-02 07:27
Normal topic PDB moves after relaxing
by Hr13b » Fri, 2018-07-27 13:12
1
1,145 by smlewis
Fri, 2018-07-27 13:32
Normal topic can remodel add loops in one chain in multichain PDB structure?
by ksteczk » Fri, 2020-05-01 06:26
1
1,048 by matteoferla
Mon, 2020-05-04 01:43
Normal topic Binding energy contribution broken down by residue
by brspurri » Tue, 2013-07-23 12:47
1
2,532 by rmoretti
Mon, 2014-04-21 06:48
Normal topic InterfaceAnalyzer -resfile
by gw » Wed, 2011-11-02 16:01
1
2,603 by smlewis
Mon, 2014-04-21 06:47
Normal topic cluster error
by sudhar » Fri, 2011-06-17 05:58
1
2,608 by rmoretti
Mon, 2014-04-21 06:47
Normal topic score_jd2 errors out with: ERROR: [ERROR] Error opening RBSeg file 'batch_000065_000059'
by sn » Fri, 2017-03-24 12:26
1
1,539 by rmoretti
Fri, 2017-03-24 13:39
Normal topic protein interction design
by Negarsardar » Wed, 2019-05-15 12:01
1
1,173 by rmoretti
Wed, 2019-07-10 09:24
Normal topic get an increased energy after energy minimization when using different score functions for repacking and energy minimization
by xinmiaohe » Fri, 2020-02-07 11:59
1
1,041 by xinmiaohe
Fri, 2020-02-07 13:52
Normal topic ArchiveManager -- spinning down
by Marius1987 » Fri, 2016-12-23 03:10
1
1,536 by smlewis
Fri, 2016-12-23 07:04
Normal topic Abinitio error: std::out_of_range: basic_string
by Harley Worthy » Tue, 2017-10-31 15:20
1
1,847 by Harley Worthy
Thu, 2017-11-02 08:53
Normal topic how to "rescore" the models using lowest energy model from rosetta run as native, for RMSD vs Score plot?
by Danielsebas » Tue, 2019-09-24 03:51
1
1,217 by smlewis
Tue, 2019-09-24 12:43
Normal topic Ab-initio modeling on part of the protein
by xiayanlawrence » Thu, 2013-12-19 07:45
1
3,133 by rmoretti
Mon, 2014-04-21 06:48
Normal topic latest version of rosetta unable to build models
by pramod » Mon, 2014-11-03 11:31
1
2,417 by rmoretti
Tue, 2014-11-04 10:33
Normal topic RosettaRemodel: ERROR: 'Replacing' an atom which doesn't currently exist.
by kamau » Fri, 2017-12-01 08:42
1
1,388 by kamau
Wed, 2017-12-13 14:31
Normal topic Adding 'virtual' residues for N- and C-terminal optimisation
by Derek Smith » Thu, 2014-08-14 23:18
1
2,022 by jadolfbr
Fri, 2014-10-31 09:00
Normal topic Adding positional restraints to pure RNA system in DRRAFTER and rna_denovo
by zharmad » Fri, 2019-08-23 01:16
1
1,049 by everyday847
Fri, 2019-08-23 04:08
Normal topic How to calculate dG?
by yperez » Mon, 2012-10-22 07:28
1
2,605 by smlewis
Mon, 2014-04-21 06:47
Normal topic Protein-DNA Docking using RosettaScripts?
by brspurri » Fri, 2013-06-07 09:06
1
4,083 by rmoretti
Mon, 2014-04-21 06:48
Normal topic RosettaCM/hybridize
by kywei » Wed, 2021-04-28 09:56
1
696 by vmulligan
Wed, 2021-04-28 12:59
Normal topic VH-VL Orientation in antibody
by sujigeorge1979 » Mon, 2019-06-17 01:23
1
1,362 by jeliazkov
Mon, 2019-06-17 06:03
Normal topic hybrid approach - comparative and ab initio modelling
by eprates » Wed, 2019-03-20 11:58
1
1,150 by rmoretti
Fri, 2019-03-29 09:45
Normal topic Rosetta Remodel - Error in core::conformation::Conformation::residue(): The sequence position requested was 0.
by daniloboskovic » Fri, 2019-11-08 08:24
1
2,108 by Payne
Tue, 2022-06-21 07:25
Normal topic Loopmodel with DNA has no energy score
by Nicky_Learning_... » Sun, 2015-05-10 19:31
1
1,989 by rmoretti
Mon, 2015-05-25 12:30
Normal topic FloppyTail vs. Remodel for linkers
by attesor » Mon, 2014-07-07 08:36
1
2,004 by smlewis
Mon, 2014-07-07 11:58
Normal topic AbinitioRelax Disulfide Bonds are not being retained
by brspurri » Wed, 2011-09-28 13:55
1
3,997 by parmef
Mon, 2014-04-21 06:47
Normal topic Error in Loop modeling and other queries
by ashu4487 » Wed, 2016-05-11 18:23
1
1,923 by rmoretti
Fri, 2016-06-17 10:15
Normal topic "Angle constraint: 0-length bonds" error
by purvi24 » Sun, 2019-07-28 10:09
1
1,225 by rmoretti
Mon, 2019-08-26 12:49
Normal topic Instructing design scripts to use noncanonical AA instead of canonical
by zcrook » Tue, 2014-11-25 10:43
1
1,813 by rmoretti
Wed, 2014-11-26 07:51
Normal topic Modeling the structure of camel single domain antibody
by Sunyp_IM » Mon, 2018-01-08 00:34
1
1,889 by Sunyp_IM
Mon, 2018-01-08 00:55
Normal topic Usage of the TaskOperations "RestrictToCDRsAndNeighbors"
by johnnytam100 » Wed, 2019-04-10 02:58
1
1,243 by rmoretti
Wed, 2019-07-10 10:10
Normal topic Remodel: the pose does not have residue with chain=H, PDBnum=114
by lanselibai » Wed, 2019-12-25 13:35
1
1,580 by lanselibai
Fri, 2019-12-27 09:38
Normal topic Should I be stripping water molecules from my input structure for Rosetta Design?
by chrisHKL » Wed, 2021-03-24 14:22
1
746 by smlewis
Wed, 2021-03-24 14:59
Normal topic Disulfidize- "Extra content at the end of the document"
by ldlamini » Tue, 2022-05-17 02:37
1
504 by rmoretti
Tue, 2022-05-17 07:29
Normal topic Loop modeling: KIC with fragments producing unusual models
by kamau » Mon, 2015-06-01 12:06
1
1,957 by rmoretti
Sat, 2015-06-20 20:07
Normal topic RosettaMatch outputs
by mwfranklin » Tue, 2016-10-11 11:46
1
1,880 by rmoretti
Fri, 2016-10-14 08:56
Normal topic Problem passing a list of PDB files to minimize_with_cst
by dolevrahat » Sun, 2018-11-18 16:13
1
1,428 by rmoretti
Wed, 2018-11-21 15:31
Normal topic Ligand docking at specific orientation
by ShiranBZ » Mon, 2020-04-13 20:46
1
899 by matteoferla
Mon, 2020-05-04 02:02
Normal topic Old Knotfind algorithm
by Martin Floor » Thu, 2022-09-22 07:28
1
466 by rmoretti
Fri, 2022-09-23 09:38
Normal topic Docking on mpi.
by Pernille » Mon, 2014-07-28 08:40
1
2,627 by rmoretti
Mon, 2014-08-04 14:51
Normal topic score application
by Hongtham » Tue, 2014-12-23 06:38
1
1,686 by rmoretti
Fri, 2015-01-02 11:06
Normal topic Membrane Abinitio modeling
by bharat_46010 » Mon, 2017-03-13 22:39
1
1,429 by benhardy
Wed, 2020-09-30 04:24
Normal topic missing atom number 5 atom name CB
by ajaniharesh » Fri, 2019-04-26 12:08
1
1,453 by rmoretti
Fri, 2019-04-26 12:13
Normal topic fixing sequence during grafting in antibody_designer
by COM » Fri, 2020-01-24 11:38
1
1,061 by jadolfbr
Tue, 2020-01-28 09:13
Normal topic molfile_to_params script error
by pablogalazdavison » Tue, 2015-07-07 21:22
1
2,154 by rmoretti
Tue, 2015-07-14 14:59
Normal topic Threading with Ligand
by ekwan » Thu, 2018-12-06 15:10
1
1,224 by rmoretti
Fri, 2019-03-29 13:21
Normal topic Error with RosettaAntibodyDesign when running antibody_designer.linuxgccrelease
by bdzhh » Tue, 2019-09-17 17:02
1
1,123 by jadolfbr
Thu, 2019-09-19 08:53
Normal topic Symmetric docking with multiple chains as asymmetric unit
by sarah29 » Tue, 2013-11-05 20:24
1
2,920 by rmoretti
Mon, 2014-04-21 06:48
Normal topic error mesages from RosettaDock
by AlanZhao » Mon, 2011-03-21 11:42
1
2,270 by smlewis
Mon, 2014-04-21 06:47
Normal topic how to run my openmp programe in rosetta3.3?
by lihowe » Mon, 2012-02-27 23:43
1
2,150 by smlewis
Mon, 2014-04-21 06:47
Normal topic Constraint generator
by Alison_Yajie » Wed, 2020-06-17 20:14
1
894 by Alison_Yajie
Wed, 2020-06-17 20:35
Normal topic Ligand Docking with ARLS
by cam11 » Thu, 2016-06-23 09:34
1
1,841 by rmoretti
Thu, 2016-06-23 10:55
Normal topic Error Interface analyser
by jrcf » Thu, 2017-06-22 12:55
1
1,535 by smlewis
Thu, 2017-06-22 13:31
Normal topic Relaxing protein-RNA complexes
by rkirchdo » Fri, 2018-08-03 08:50
1
1,298 by rmoretti
Fri, 2018-08-24 11:28
Normal topic Problem with AtomPair constraint
by jarek » Tue, 2012-10-09 07:28
1
2,112 by smlewis
Mon, 2014-04-21 06:47
Normal topic ROSETTALIGAND: How to prepare data to plot ROC curves using rosettaligand docking result???
by Ryhon Wang » Mon, 2016-01-04 22:36
1
2,704 by rmoretti
Tue, 2016-01-05 08:35
Normal topic Mutating phosphorylated residues to "canonical" residues and vice versa
by ValentinaSora » Mon, 2019-05-20 05:58
1
1,717 by rmoretti
Wed, 2019-07-10 09:22
Normal topic remodel ERROR: unrecognized mm_atom_type_name RGU
by daniloboskovic » Sat, 2020-02-22 11:55
1
1,044 by daniloboskovic
Tue, 2020-02-25 08:28
Normal topic Antibody Docking application
by Maryam_tabasinezhad » Sat, 2015-09-05 09:58
1
2,051 by jadolfbr
Wed, 2015-09-09 12:35
Normal topic Modelling at defined pH - for pmutscan - pH:mode not working
by cagfa1 » Tue, 2022-03-15 04:05
1
579 by Rituparna_Saman...
Wed, 2022-03-23 11:21
Normal topic error--rosetta fragment‐based refinement protocol for refinement against EM density
by gsuchunli » Mon, 2016-07-25 13:35
1
2,073 by gsuchunli
Mon, 2016-07-25 13:56
Normal topic MPdocking I_sc
by jrcf » Mon, 2017-07-31 16:10
1
1,571 by rmoretti
Thu, 2017-08-03 09:29
Normal topic Membrane Abinitio modeling error
by jkyan007 » Thu, 2020-10-29 03:30
1
837 by noahC_noahDo
Tue, 2020-11-17 10:35
Normal topic Representing Cross-linked nitrogens
by jjlee2 » Sat, 2011-11-26 18:42
1
2,183 by smlewis
Mon, 2014-04-21 06:47
Normal topic score_jd2.linuxgccrelease documentation
by fglaser » Mon, 2011-08-01 04:08
1
3,584 by smlewis
Mon, 2014-04-21 06:47
Normal topic Relax with a ligand is messing up the coordinates of the ligand
by brspurri » Sat, 2015-01-24 12:39
1
2,540 by rmoretti
Mon, 2015-01-26 12:15
Normal topic Difference between movemap and -pivot_residues
by aloshbau » Wed, 2016-02-24 13:21
1
1,859 by rmoretti
Wed, 2016-02-24 14:39
Normal topic weights for pH_protocol
by fmerino » Wed, 2017-04-26 07:14
1
1,717 by rmoretti
Thu, 2017-04-27 07:10
Normal topic broker domain insertion
by dhirajks » Sun, 2018-05-06 12:55
1
1,280 by rmoretti
Fri, 2018-05-18 12:28
Normal topic The relax qustion of Rosetta VIP
by asbelx » Mon, 2019-06-10 07:52
1
1,094 by rmoretti
Mon, 2019-06-24 14:42
Normal topic Help with enzyme design files
by Wenithor » Thu, 2021-04-29 10:33
1
691 by rmoretti
Thu, 2021-04-29 10:44
Normal topic Fastrelax problem
by Pernille » Tue, 2014-06-17 08:59
1
1,828 by Pernille
Fri, 2014-06-20 00:17
Normal topic 'standard.wts' does not exist
by almeida85 » Mon, 2020-09-14 02:26
1
915 by rmoretti
Mon, 2020-09-14 06:36
Normal topic Rosetta DNA - Protein-DNA scoring function and binding energy
by tanoramb » Tue, 2012-05-08 14:00
1
4,216 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta Holes
by zsun12 » Wed, 2015-09-30 11:40
1
3,501 by rmoretti
Mon, 2015-10-12 15:20
Normal topic Rosetta scripts crash in CM workflow
by jlburkhead » Tue, 2019-12-03 22:55
1
1,282 by danpf
Fri, 2020-02-21 18:37
Normal topic Problem with mpirun/mpiexec
by ahansel » Fri, 2020-07-10 08:37
1
2,821 by rmoretti
Fri, 2020-07-10 09:59
Normal topic Comparative Modeling Tutorial
by code_Monkey » Thu, 2021-03-04 12:35
1
711 by rmoretti
Fri, 2021-03-05 09:35
Normal topic Pepspec error
by almeida85 » Mon, 2022-05-02 04:07
1
465 by almeida85
Mon, 2022-05-02 05:05
Normal topic fold and dock protocol not working
by ytao » Mon, 2012-11-26 15:33
1
2,169 by smlewis
Mon, 2014-04-21 06:47
Normal topic submit_NGK.py not creating output files
by nkato2 » Wed, 2013-08-28 23:37
1
2,251 by rmoretti
Mon, 2014-04-21 06:48
Normal topic why is talaris2014 scoring fuction not used with ligand docking?
by banshee » Fri, 2016-09-09 01:19
1
1,809 by rmoretti
Fri, 2016-09-09 07:47
Normal topic creating a model using a base pdb and extending a chain
by rlwoltz » Fri, 2013-07-12 15:35
1
2,409 by nawsad
Mon, 2014-04-21 06:48
Normal topic rosetta 3.3 - antibody
by ron amon » Mon, 2014-07-21 00:44
1
2,157 by rmoretti
Mon, 2014-07-21 10:51
Normal topic References where Rosetta is used to compute ddG of binding after mutation?
by cossio » Tue, 2015-03-17 05:13
1
2,523 by rmoretti
Wed, 2015-03-25 11:33
Normal topic how to pick fragments for a transmembrane protein
by tevang » Mon, 2012-05-28 06:52
1
1,993 by tevang
Mon, 2014-04-21 06:47
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