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Rosetta 3 - Applications

Topic / Topic starter Replies Viewssort ascending Last post
Normal topic Structure prediction using true distance and angle constraint
by maruhuang » Wed, 2019-08-21 02:29
4
1,335 by maruhuang
Thu, 2019-09-26 18:52
Normal topic Generating non-redundat dataset for loop models
by dario.corrada » Wed, 2016-03-09 03:00
1
1,331 by smlewis
Wed, 2016-03-09 04:11
Normal topic Rosetta Remodel - Error in core::conformation::Conformation::residue(): The sequence position requested was 0.
by daniloboskovic » Fri, 2019-11-08 08:24
0
1,330 by daniloboskovic
Fri, 2019-11-08 08:27
Normal topic Alanine Scanning for 1 Protein (no interface)
by mags33 » Fri, 2019-10-25 10:08
2
1,328 by mags33
Wed, 2019-11-06 09:35
Normal topic Docking prepack vs. relax
by David Weis » Tue, 2017-02-21 05:37
1
1,323 by smlewis
Tue, 2017-02-21 07:58
Normal topic Fast relax not working
by eyong123 » Fri, 2017-04-21 06:06
1
1,321 by rmoretti
Fri, 2017-04-21 07:41
Normal topic Design with limited number of aminoacids at given position
by sdh_h » Sun, 2016-12-04 03:44
1
1,319 by smlewis
Thu, 2016-12-08 15:50
Normal topic Rosetta make_fragments.pl error?
by Danielsebas » Mon, 2019-09-02 07:51
3
1,315 by Danielsebas
Thu, 2019-09-05 03:35
Normal topic Model two domain protein
by sn » Sat, 2017-05-06 13:21
1
1,307 by rmoretti
Mon, 2017-05-15 08:54
Normal topic Speed problem when running RosettaLigand ligand docking
by Nicole Deng » Tue, 2019-10-08 04:29
2
1,300 by Nicole Deng
Tue, 2020-11-03 19:07
Normal topic Membrane protein protocol on PyRosetta
by jlapin » Sat, 2018-07-28 14:41
2
1,295 by jlapin
Wed, 2018-08-01 07:15
Normal topic Domain insertion with Non-CAA
by mwfranklin » Mon, 2017-01-16 12:30
0
1,290 by mwfranklin
Mon, 2017-01-16 12:30
Normal topic Mutating phosphorylated residues to "canonical" residues and vice versa
by ValentinaSora » Mon, 2019-05-20 05:58
1
1,287 by rmoretti
Wed, 2019-07-10 09:22
Normal topic Does it make sense if I do backrub after sequence design?
by johnnytam100 » Thu, 2019-08-15 05:15
3
1,282 by johnnytam100
Fri, 2019-08-16 00:20
Normal topic Helical Symmetry Axis
by Sandy » Tue, 2016-05-31 18:48
0
1,281 by Sandy
Tue, 2016-05-31 18:48
Normal topic Write error during saving of PDB-file after working with it in the Rosetta through Unix terminal
by Corvin » Thu, 2019-04-25 01:20
2
1,281 by Corvin
Wed, 2019-06-12 00:04
Normal topic Using different number of 9-mers (UPDATED)
by JadAbbass » Mon, 2017-08-28 07:20
1
1,274 by rmoretti
Mon, 2017-09-04 10:33
Normal topic How to use MHC Epitope energy (mhc_epitope) to deimmunize a protein structure?
by Sunyp_IM » Sun, 2020-11-08 08:07
5
1,272 by Brahm Yachnin
Wed, 2020-11-18 17:21
Normal topic FloppyTail options error
by DmitriiN » Fri, 2016-11-11 02:54
1
1,269 by smlewis
Fri, 2016-11-11 08:33
Normal topic Place ligand in a pocket
by sn » Fri, 2017-09-15 12:53
1
1,266 by rmoretti
Fri, 2017-09-15 13:11
Normal topic Pepspec options
by shaunmk » Mon, 2015-04-27 02:33
0
1,258 by shaunmk
Mon, 2015-04-27 02:33
Normal topic Rosetta failed in making score.fsc
by josdee » Sun, 2017-02-05 21:58
1
1,254 by smlewis
Mon, 2017-02-06 06:57
Normal topic RosettaAntibody3 is failing with "Error: no input sequences were specified!"
by brspurri » Sun, 2020-08-16 16:16
4
1,253 by brspurri
Tue, 2020-08-18 09:57
Normal topic ArchiveManager -- spinning down
by Marius1987 » Fri, 2016-12-23 03:10
1
1,252 by smlewis
Fri, 2016-12-23 07:04
Normal topic Template/Input length mismatch error during RosettaCM
by marinok » Mon, 2020-05-04 13:12
4
1,251 by marinok
Mon, 2020-05-11 12:48
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
1,244 by rmoretti
Fri, 2017-03-24 13:39
Normal topic How to write down a connection between ligand's atom and metal ion from enzyme?
by Corvin » Mon, 2021-02-15 06:54
7
1,243 by aloshbau
Mon, 2021-03-01 20:06
Normal topic Model monomer to fit cryo density map of a filament
by BuddySphinx » Wed, 2018-12-12 18:58
2
1,241 by BuddySphinx
Sun, 2018-12-30 16:49
Normal topic Error Interface analyser
by jrcf » Thu, 2017-06-22 12:55
1
1,240 by smlewis
Thu, 2017-06-22 13:31
Normal topic Calbur vs Energy Based Clustering
by Swillard » Sun, 2018-07-01 13:24
1
1,240 by rmoretti
Fri, 2018-08-03 08:26
Normal topic MPdocking I_sc
by jrcf » Mon, 2017-07-31 16:10
1
1,239 by rmoretti
Thu, 2017-08-03 09:29
Normal topic "Make_fragments.pl" can't connect to dependencies links
by Corvin » Wed, 2019-09-04 23:54
2
1,239 by Corvin
Thu, 2019-10-10 01:12
Normal topic Choosing weight file for interface design?
by johnnytam100 » Tue, 2019-05-07 00:47
2
1,231 by johnnytam100
Tue, 2019-05-21 22:33
Normal topic mpirun docking_protocol
by NanB » Mon, 2020-08-03 11:38
1
1,229 by ssrb
Fri, 2020-08-14 09:18
Normal topic Enzyme Design FlexBB Protocol Bug: DNA/RNA handling
by kettner » Fri, 2019-06-14 14:16
1
1,228 by rmoretti
Mon, 2019-06-24 13:46
Normal topic Repeatability of DDG calculation
by jennifer » Wed, 2015-04-08 05:29
0
1,227 by jennifer
Wed, 2015-04-08 05:29
Normal topic Filter for fixed-bb design using RosettaScript?
by chrisHKL » Fri, 2020-02-28 19:47
4
1,223 by vmulligan
Mon, 2020-03-02 13:40
Normal topic ddG calculations to study point mutations
by N.Chopra » Fri, 2018-12-07 12:36
1
1,222 by jeliazkov
Fri, 2018-12-07 12:51
Normal topic UnfoldedStateEnergyCalculator MPI Error
by colin.walsh.brown » Mon, 2017-11-13 09:43
1
1,221 by smlewis
Mon, 2017-11-13 10:43
Normal topic ddg_monomer: if MPI executable is reproducible and efficient?
by lanselibai » Sun, 2015-01-11 09:48
0
1,219 by lanselibai
Sun, 2015-01-11 10:50
Normal topic protein interface design
by Negarsardar » Tue, 2019-05-28 07:04
2
1,215 by Negarsardar
Thu, 2019-05-30 23:46
Normal topic docking parse error
by dave » Tue, 2018-12-04 08:41
1
1,198 by rmoretti
Tue, 2018-12-04 08:55
Normal topic GrowLigand
by allan.ferrari » Sat, 2019-10-19 05:32
2
1,196 by allan.ferrari
Tue, 2019-11-05 16:52
Normal topic Relax multiple PDB files with MPI, jd2, and a pdblist on TACC Stampede2
by AJVincelli » Sat, 2018-07-14 13:14
1
1,186 by AJVincelli
Sun, 2018-11-25 11:29
Normal topic ligand_docking_error
by Alison_Yajie » Mon, 2020-04-20 12:27
3
1,183 by YuFei
Sat, 2020-05-30 00:12
Normal topic dssp
by MA » Thu, 2017-10-05 09:34
1
1,175 by rmoretti
Tue, 2017-10-10 09:54
Normal topic Snugdock_error
by luicui » Thu, 2017-02-09 21:06
1
1,168 by smlewis
Thu, 2017-02-09 21:50
Normal topic Fragment library (vall file) from Robetta?
by alex » Sun, 2017-02-19 08:12
0
1,168 by alex
Sun, 2017-02-19 08:12
Normal topic Using residue patches in AbinitioRelax
by kent » Fri, 2018-11-02 11:19
1
1,165 by rmoretti
Wed, 2018-11-21 15:40
Normal topic Transmembrane helix fold-and-dock?
by sarah_b » Tue, 2020-05-12 02:09
3
1,163 by jkleman
Tue, 2020-05-19 15:02
Normal topic When using "screening job files" in small molecule-docking I get: Residue type already exists in the cache Error
by Martin Floor » Thu, 2020-09-17 06:01
4
1,162 by Martin Floor
Tue, 2020-09-22 00:48
Normal topic sequence design to enhance Fc / Fc-g Receptor binding
by jarod » Tue, 2017-05-23 09:00
1
1,162 by jadolfbr
Thu, 2017-06-01 10:00
Normal topic Partial Active Site Design for a Novel Substrate
by Derek » Wed, 2017-05-17 19:41
1
1,162 by rmoretti
Thu, 2017-05-18 13:51
Normal topic Membrane Abinitio modeling
by bharat_46010 » Mon, 2017-03-13 22:39
1
1,161 by benhardy
Wed, 2020-09-30 04:24
Normal topic blast database error
by jessye » Sun, 2017-12-03 23:59
1
1,160 by smlewis
Mon, 2017-12-04 12:18
Normal topic reporting bugs? (erraser in rosetta 3.10)
by meyer » Fri, 2018-12-14 09:40
2
1,151 by everyday847
Fri, 2019-03-29 13:13
Normal topic "Install_dependencies.pl" gives "Aborted" when downloading "nr" database?
by Danielsebas » Sat, 2019-09-14 08:53
3
1,150 by danpf
Mon, 2019-09-16 09:51
Normal topic Finding lowest energy structure among generated structures
by Marius1987 » Sun, 2016-04-10 11:38
0
1,132 by Marius1987
Sun, 2016-04-10 12:09
Normal topic clean_pdb not working
by Andre Serobian » Thu, 2020-07-23 04:48
3
1,127 by rmoretti
Tue, 2020-07-28 08:24
Normal topic Docking protein complexes when constrained by oligomer symmetry
by msk » Tue, 2014-06-03 11:09
0
1,126 by msk
Tue, 2014-06-03 11:09
Normal topic splitfile.py
by saladi » Fri, 2018-03-30 10:31
1
1,125 by rmoretti
Tue, 2018-04-10 15:34
Normal topic relax and movemap
by Alison_Yajie » Wed, 2020-05-20 21:27
3
1,124 by smlewis
Thu, 2020-05-21 21:05
Normal topic De novo structure building with medium resolution map
by BuddySphinx » Tue, 2019-07-02 09:07
2
1,118 by BuddySphinx
Tue, 2019-07-02 12:03
Normal topic Loop modeling/closure for many structures
by sn » Mon, 2017-03-06 11:25
1
1,112 by rmoretti
Mon, 2017-03-06 12:39
Normal topic remodel: what are the exact meanings of notations for secondary structure?
by lanselibai » Sat, 2015-01-17 04:53
0
1,108 by lanselibai
Sat, 2015-01-17 07:57
Normal topic Fusing C-terminal or N-terminal segments onto proteins using Remodel
by achambe » Mon, 2016-01-04 11:26
0
1,102 by achambe
Mon, 2016-01-04 11:26
Normal topic is it necessary to always run relax before any Rosetta
by mainzer » Fri, 2019-04-12 01:35
1
1,101 by rmoretti
Wed, 2019-07-10 09:47
Normal topic cm_scripts
by sn » Wed, 2018-02-14 11:00
1
1,101 by rmoretti
Wed, 2018-02-21 15:21
Normal topic RosettaScript Segmentation Fault (crash log attached)
by chrisHKL » Thu, 2020-03-05 07:21
2
1,101 by chrisHKL
Thu, 2020-03-05 09:11
Normal topic radius of gyration as constrain
by dhirajks » Sat, 2018-05-05 23:00
1
1,099 by smlewis
Mon, 2018-05-07 11:42
Normal topic Building loop extensions in a membrane protein with Remodel
by benhardy » Tue, 2020-06-02 08:21
2
1,096 by benhardy
Sun, 2020-09-20 11:15
Normal topic Trouble running MPI docking protocol, please help!
by Rob_Barringer » Tue, 2020-08-18 06:40
2
1,096 by Rob_Barringer
Fri, 2020-09-25 05:45
Normal topic "make" error in "pdb2vall/structure_profile_scripts/DEPTH-CLONE-2.8.7"
by Danielsebas » Mon, 2019-09-02 08:14
2
1,088 by Danielsebas
Sun, 2019-09-08 02:08
Normal topic RosettaRemodel: ERROR: 'Replacing' an atom which doesn't currently exist.
by kamau » Fri, 2017-12-01 08:42
1
1,083 by kamau
Wed, 2017-12-13 14:31
Normal topic RosettaCM: An internal error has occurred when "Running the Hybridize mover"
by haom » Mon, 2020-06-15 05:56
4
1,082 by haom
Tue, 2020-06-16 05:55
Normal topic error: Unable to open weights/patch file in using ddg_monomer.linuxgccrelease
by xinmiaohe » Thu, 2020-01-30 22:09
1
1,081 by xinmiaohe
Fri, 2020-01-31 08:23
Normal topic What is a rational minimal value for the "-nstruct" option
by Sunyp_IM » Fri, 2020-05-22 01:28
3
1,071 by nannemdp
Sun, 2020-05-24 14:46
Normal topic Surface Docking Crash (continued)
by dkozuch » Tue, 2017-09-12 06:18
1
1,069 by rmoretti
Tue, 2017-10-10 10:08
Normal topic RosettaMatch
by xingqing326 » Mon, 2019-07-22 13:14
1
1,064 by rmoretti
Mon, 2019-08-26 12:57
Normal topic Rosetta fragment tools installation error
by Danielsebas » Thu, 2019-08-29 02:17
2
1,062 by Danielsebas
Sun, 2019-09-01 02:38
Normal topic Question about fastsaxs and saxs_score
by orionshih » Thu, 2019-06-13 02:30
2
1,062 by orionshih
Wed, 2019-06-26 03:54
Normal topic Problem passing a list of PDB files to minimize_with_cst
by dolevrahat » Sun, 2018-11-18 16:13
1
1,060 by rmoretti
Wed, 2018-11-21 15:31
Normal topic antibody modeling error
by mxp » Mon, 2019-09-16 18:29
2
1,055 by mxp
Mon, 2019-09-23 01:40
Normal topic PEPSPEC
by Neeraj » Wed, 2018-01-03 02:24
1
1,054 by Andre Serobian
Wed, 2020-07-08 04:44
Normal topic ProteinInterfaceDesign algorithm questions
by tsztain » Mon, 2019-02-18 14:10
1
1,052 by rmoretti
Sun, 2019-08-25 19:15
Normal topic How to run partial_thread in RosettaCM when residure are more than 9999?
by lanselibai » Mon, 2020-05-11 22:43
2
1,042 by lanselibai
Tue, 2020-05-12 20:25
Normal topic Comparative modeling of metalloproteins
by ctqwong » Sun, 2020-07-12 13:51
3
1,041 by ctqwong
Mon, 2020-07-27 01:48
Normal topic Symmetric assembly and output reconstruction
by felipet » Wed, 2014-07-02 10:23
0
1,022 by felipet
Wed, 2014-07-02 10:23
Normal topic Imitating induced fit protocol in SymDock2 without any symmetry constraints
by chenna » Fri, 2020-02-14 01:35
2
1,019 by chenna
Wed, 2020-03-04 03:24
Normal topic relax.linuxgccrelease in multiple processors
by jpfuenzalidawx » Thu, 2021-01-14 14:07
5
1,017 by jadolfbr
Fri, 2021-01-15 08:06
Normal topic FloppyTail as a rosettascripts file
by tiagogomes89 » Mon, 2015-01-19 02:45
0
1,016 by tiagogomes89
Mon, 2015-01-19 02:45
Normal topic Two questions on the RosettaScripts flexbb-interfacedesign.xml
by johnnytam100 » Fri, 2019-03-15 04:54
1
1,013 by rmoretti
Fri, 2019-03-29 09:58
Normal topic Comparative modeling using a two chained template for a one chain structure
by ahmadkhalifa » Mon, 2017-12-18 11:00
1
1,012 by rmoretti
Mon, 2018-01-15 16:14
Normal topic Can't generate a cst file to use with ddg_monomer application
by ctqwong » Sat, 2021-03-13 03:53
6
1,010 by ctqwong
Thu, 2021-03-18 02:04
Normal topic Coupled Moves crash with Membrane Protein - residue_edge is undefined for root vertex
by benhardy » Mon, 2020-06-15 09:33
3
1,009 by benhardy
Fri, 2020-06-19 07:55
Normal topic output file in ddg calcualtion
by malkeet.singh » Sun, 2017-12-03 07:59
1
1,005 by malkeet.singh
Wed, 2017-12-06 02:02
Normal topic Question on Designing with NCAAs
by salvatta » Mon, 2018-09-10 10:09
1
1,005 by rmoretti
Thu, 2018-09-20 09:23
Normal topic De novo water predictions using SPaDES
by MNP1986 » Mon, 2019-03-25 07:53
1
1,004 by matteoferla
Tue, 2020-08-04 09:30
Normal topic Remodel: the pose does not have residue with chain=H, PDBnum=114
by lanselibai » Wed, 2019-12-25 13:35
1
1,002 by lanselibai
Fri, 2019-12-27 09:38
Normal topic missing atom number 5 atom name CB
by ajaniharesh » Fri, 2019-04-26 12:08
1
1,002 by rmoretti
Fri, 2019-04-26 12:13
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