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Rosetta 3 - Applications

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Normal topic Inquiry about MPI-Rosetta: Issue with -nstruct Parameter
by serena » Wed, 2024-01-24 00:59
1
113 by rmoretti
Wed, 2024-01-24 08:46
Normal topic ArchiveManager -- spinning down
by Marius1987 » Fri, 2016-12-23 03:10
1
1,835 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
2,203 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
1,573 by smlewis
Tue, 2019-09-24 12:43
Normal topic cluster docked pdbs
by kwu030 » Wed, 2023-06-14 22:48
1
515 by rmoretti
Wed, 2023-06-28 12:36
Normal topic PDB moves after relaxing
by Hr13b » Fri, 2018-07-27 13:12
1
1,464 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
1,419 by matteoferla
Mon, 2020-05-04 01:43
Normal topic Adding 'virtual' residues for N- and C-terminal optimisation
by Derek Smith » Thu, 2014-08-14 23:18
1
2,319 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
1,378 by everyday847
Fri, 2019-08-23 04:08
Normal topic error mesages from RosettaDock
by AlanZhao » Mon, 2011-03-21 11:42
1
2,572 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
2,399 by smlewis
Mon, 2014-04-21 06:47
Normal topic Protein-DNA Docking using RosettaScripts?
by brspurri » Fri, 2013-06-07 09:06
1
4,446 by rmoretti
Mon, 2014-04-21 06:48
Normal topic RosettaCM/hybridize
by kywei » Wed, 2021-04-28 09:56
1
1,021 by vmulligan
Wed, 2021-04-28 12:59
Normal topic Problem with AtomPair constraint
by jarek » Tue, 2012-10-09 07:28
1
2,370 by smlewis
Mon, 2014-04-21 06:47
Normal topic Ab-initio modeling on part of the protein
by xiayanlawrence » Thu, 2013-12-19 07:45
1
3,452 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
2,829 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
1,692 by kamau
Wed, 2017-12-13 14:31
Normal topic ERROR: ResidueType::add_ring: Requested atoms don't exist in this ResidueType!
by walidabualafia » Thu, 2023-07-20 09:44
1
349 by rmoretti
Thu, 2023-07-20 10:08
Normal topic score_jd2.linuxgccrelease documentation
by fglaser » Mon, 2011-08-01 04:08
1
3,998 by smlewis
Mon, 2014-04-21 06:47
Normal topic Loopmodel with DNA has no energy score
by Nicky_Learning_... » Sun, 2015-05-10 19:31
1
2,276 by rmoretti
Mon, 2015-05-25 12:30
Normal topic VH-VL Orientation in antibody
by sujigeorge1979 » Mon, 2019-06-17 01:23
1
1,732 by jeliazkov
Mon, 2019-06-17 06:03
Normal topic Representing Cross-linked nitrogens
by jjlee2 » Sat, 2011-11-26 18:42
1
2,452 by smlewis
Mon, 2014-04-21 06:47
Normal topic hybrid approach - comparative and ab initio modelling
by eprates » Wed, 2019-03-20 11:58
1
1,467 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
3,157 by Payne
Tue, 2022-06-21 07:25
Normal topic RosettaRemodel
by gw » Wed, 2011-09-14 13:24
2
3,604 by smlewis
Mon, 2014-04-21 06:47
Normal topic Problem with SymmDock in helical symmetry
by mumdonar » Wed, 2013-09-18 03:59
2
3,824 by mumdonar
Mon, 2014-04-21 06:48
Normal topic where is generate_ligens.linuxgccrelease?
by Nicole Deng » Thu, 2020-12-03 00:00
2
1,742 by Nicole Deng
Fri, 2020-12-18 00:28
Normal topic printing our per-residue energies including H-bonding energies
by vijayan » Tue, 2013-07-02 08:51
2
3,718 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Adding water interactions when docking a ligand with Rosetta 3.7.
by brspurri » Thu, 2017-06-01 09:37
2
3,371 by brspurri
Thu, 2017-06-01 10:58
Normal topic Modeling flexible linkers with Floppytail
by pdbb » Sun, 2013-05-12 15:55
2
3,248 by smlewis
Mon, 2014-04-21 06:47
Normal topic Docking seems to not parse the -nstruct flag
by rosend » Tue, 2015-11-17 12:01
2
3,738 by rosend
Tue, 2015-11-17 12:12
Normal topic DDG_monomer application
by shadrinams » Mon, 2018-02-12 12:14
2
3,227 by shadrinams
Wed, 2018-03-14 07:46
Normal topic Error when trying docking protocol with different ligand
by scyphs » Wed, 2020-08-05 04:37
2
1,540 by scyphs
Mon, 2020-08-10 08:09
Normal topic Could not open file /Rosetta/rosetta_bin_linux_2020.08.61146_bundle/main/database/citations/rosetta_citations
by yliang20 » Wed, 2022-06-15 11:26
2
1,502 by yliang20
Wed, 2022-06-15 13:46
Normal topic protein-ligand docking rescoring with interfaceAnalyzer
by syntekabio2019 » Sat, 2020-12-19 03:59
2
1,411 by syntekabio2019
Sun, 2020-12-20 21:10
Normal topic D-amino acids tripeptide docking.
by sam_dc » Sat, 2021-07-03 08:48
2
1,440 by vmulligan
Tue, 2021-07-06 08:27
Normal topic Element 'trRosettaProtocol': This element is not expected.
by csaylan » Tue, 2021-04-20 14:21
2
1,436 by csaylan
Tue, 2021-04-20 16:13
Normal topic homology modeling- Error: length mismatch between sequence and alignment.
by pdbb » Mon, 2012-10-01 07:57
2
4,414 by pdbb
Mon, 2014-04-21 06:47
Normal topic homology modeling with threading says length mismatch between sequence and alignment
by rqliang » Thu, 2015-08-06 11:46
2
2,882 by jharamesh
Sat, 2015-08-08 19:51
Normal topic The Usage of motifgraft
by Sunyp_IM » Sun, 2017-11-19 20:22
2
3,361 by Sunyp_IM
Mon, 2017-11-20 19:20
Normal topic Chemically bound ligand connection error
by tsztain » Tue, 2019-01-01 18:40
2
2,276 by tsztain
Mon, 2019-02-18 09:55
Normal topic Speed problem when running RosettaLigand ligand docking
by Nicole Deng » Tue, 2019-10-08 04:29
2
2,188 by Nicole Deng
Tue, 2020-11-03 19:07
Normal topic DDG monomer and backrub motions
by yperez » Thu, 2012-06-21 08:10
2
3,320 by yperez
Mon, 2014-04-21 06:47
Normal topic How to sort a Silent File based on RMSD
by JadAbbass » Sun, 2013-08-04 14:40
2
3,538 by lanselibai
Mon, 2014-10-06 15:30
Normal topic flexpepdock_score_only
by ays » Sun, 2014-09-21 06:17
2
2,657 by ays
Tue, 2014-09-30 08:31
Normal topic SPLINE EPR_DISTANCE Constraint Error
by mmw88 » Tue, 2018-09-18 14:39
2
2,405 by rmoretti
Thu, 2018-09-20 09:19
Normal topic RosettaAntibodyDesign] How can I use run_relax and run_snugdock as part of my command and workflow?
by brspurri » Thu, 2020-05-14 11:15
2
1,626 by brspurri
Thu, 2020-05-14 12:24
Normal topic A question on the logic of enzyme design
by agulsevin » Thu, 2013-06-13 08:10
2
4,017 by agulsevin
Mon, 2014-04-21 06:48
Normal topic Packstat score in InterfaceAnalyzer
by Vedasheersh » Fri, 2017-01-27 06:21
2
3,032 by smlewis
Fri, 2017-01-27 07:20
Normal topic Alanine Scanning for 1 Protein (no interface)
by mags33 » Fri, 2019-10-25 10:08
2
2,364 by mags33
Wed, 2019-11-06 09:35
Normal topic Rosetta Design: Non-canonical amino acid substrate not accepted
by Friedrich Ehinger » Fri, 2023-08-04 00:09
2
492 by Friedrich Ehinger
Fri, 2023-08-04 08:38
Normal topic cartfrag_overlap error while running hybridize protocol
by sn » Thu, 2017-12-21 10:24
2
2,216 by dnamkr
Mon, 2019-12-30 11:43
Normal topic Error: in membrane docking : Cannot split pose by membrane jump! Quitting...
by Astghik » Tue, 2020-11-24 05:27
2
1,569 by Astghik
Thu, 2020-12-03 02:35
Normal topic ligand_docking
by yang » Thu, 2023-02-16 04:37
2
2,380 by yang
Wed, 2023-02-22 19:18
Normal topic CSrosetta run problem
by erin_cutts » Fri, 2013-06-28 09:52
2
3,695 by erin_cutts
Mon, 2014-04-21 06:48
Normal topic Error in a new docking
by jrcf » Wed, 2017-05-17 19:26
2
4,404 by tingting
Tue, 2022-03-15 23:55
Normal topic Rosetta_cm Segmentation Fault
by gszwabowski » Thu, 2019-06-20 12:55
2
2,398 by gszwabowski
Wed, 2019-06-26 10:25
Normal topic Idealize in Rosetta 3.3
by jadolfbr » Tue, 2011-12-06 11:59
2
3,196 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Rosetta Script for ddg_monomer protocol 16
by cossio » Thu, 2018-01-25 08:23
2
2,548 by cossio
Sun, 2018-03-11 09:12
Normal topic Protein Ensemble RosettaLigand Docking
by sam_dc » Fri, 2021-03-26 10:18
2
1,482 by sam_dc
Fri, 2021-03-26 12:04
Normal topic minimize_with_cst problems (ddg_monomer)
by alexn » Tue, 2011-09-20 13:46
2
3,544 by alexn
Mon, 2014-04-21 06:47
Normal topic membrane score weights
by ytao » Sat, 2012-09-08 06:56
2
2,953 by ytao
Mon, 2014-04-21 06:47
Normal topic Docking-RMS value nan
by jlawrie » Wed, 2020-08-12 07:03
2
1,780 by jlawrie
Wed, 2020-08-12 07:27
Normal topic r_frag_quality
by ii_cnr » Mon, 2021-04-12 03:06
2
1,403 by ii_cnr
Mon, 2021-04-12 23:44
Normal topic Structure determination combining X-ray diffraction data and NMR chemical shift
by MajorID » Mon, 2011-10-17 19:55
2
3,789 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Flexpep docking freezing issue at "press enter to continue"
by rlwoltz » Tue, 2013-01-22 13:31
2
3,116 by rlwoltz
Mon, 2014-04-21 06:47
Normal topic ab initio modelling - what to do next?
by krlitros87 » Thu, 2014-10-16 13:05
2
3,352 by krlitros87
Wed, 2014-10-22 09:31
Normal topic score:weights for fixbb application in Rosetta 3.5
by tylerborrman » Tue, 2015-07-28 14:16
2
2,791 by tylerborrman
Wed, 2015-09-23 10:51
Normal topic Altering substrate specificity
by bp » Thu, 2016-12-22 02:45
2
2,649 by bp
Thu, 2016-12-22 07:54
Normal topic Model monomer to fit cryo density map of a filament
by BuddySphinx » Wed, 2018-12-12 18:58
2
2,075 by BuddySphinx
Sun, 2018-12-30 16:49
Normal topic BUG REPORT: Remodel Resfile ERROR: LEU was added more than once?
by daniloboskovic » Wed, 2020-04-29 01:17
2
1,758 by daniloboskovic
Wed, 2020-04-29 05:51
Normal topic Fragment files for membrane_abinitio application
by sumukh21 » Tue, 2011-02-15 17:23
2
3,470 by sumukh21
Mon, 2014-04-21 06:47
Normal topic Enzdes scorefile lost, can I recreate it
by eyong123 » Wed, 2015-04-15 05:55
2
2,701 by eyong123
Wed, 2015-04-22 11:33
Normal topic How to restart RASREC run
by aep » Fri, 2016-07-01 04:39
2
2,412 by aep
Fri, 2016-07-01 06:54
Normal topic RosettaCM hybridize mover error after fragment picking
by amorin » Thu, 2018-09-06 11:03
2
2,365 by dnamkr
Thu, 2019-12-26 10:22
Normal topic How to run partial_thread in RosettaCM when residure are more than 9999?
by lanselibai » Mon, 2020-05-11 22:43
2
2,142 by lanselibai
Tue, 2020-05-12 20:25
Normal topic hbond_sr_bb and hbond_lr_bb for different chains
by tylerborrman » Tue, 2020-10-13 13:41
2
1,768 by tylerborrman
Tue, 2021-02-09 16:33
Normal topic the meaning of total_score in docking
by libai2098 » Mon, 2011-03-21 05:46
2
4,540 by libai2098
Mon, 2014-04-21 06:47
Normal topic How to add a residue to one chain of an existing structure?
by sn » Mon, 2017-04-17 09:34
2
3,187 by sn
Thu, 2017-04-20 21:43
Normal topic protein interface design
by Negarsardar » Tue, 2019-05-28 07:04
2
2,104 by Negarsardar
Thu, 2019-05-30 23:46
Normal topic Successful RosettaCM?
by jlawrie » Wed, 2020-08-19 06:53
2
1,756 by jlawrie
Thu, 2020-08-20 11:00
Normal topic Filling the missing loops
by code_Monkey » Tue, 2021-04-27 07:44
2
1,660 by code_Monkey
Tue, 2021-04-27 12:11
Normal topic rosetta_cm - ERROR: Assertion `tlen < slen` failed on File: src/core/fragment/util.cc:177
by ramon-arg » Thu, 2023-07-13 18:41
2
454 by ramon-arg
Fri, 2023-07-14 07:47
Normal topic how to reconstruct the whole complex after symmetric docking
by Anonymous » Tue, 2012-07-03 02:44
2
3,241 by felipet
Wed, 2014-07-02 07:26
Normal topic clean_pdb.py of Rosetta VS cleanATOM of PyRosetta
by lanselibai » Wed, 2014-09-24 03:02
2
4,995 by lanselibai
Wed, 2014-09-24 13:21
Normal topic Trouble enforcing a disulfide in loop building
by chelsell » Sun, 2015-05-10 16:31
2
3,659 by chelsell
Wed, 2015-05-27 14:36
Normal topic Trouble running Enzyme Design application
by danaitop » Thu, 2016-08-11 13:34
2
2,764 by rmoretti
Mon, 2016-09-05 11:10
Normal topic Rosetta fragment tools installation error
by Danielsebas » Thu, 2019-08-29 02:17
2
1,959 by Danielsebas
Sun, 2019-09-01 02:38
Normal topic Rosetta relax problem
by jingwei xu » Wed, 2016-03-09 21:41
2
5,465 by jingwei xu
Wed, 2016-05-04 23:28
Normal topic Is native.pdb necess for fragment_picker?
by ylwang » Thu, 2020-03-12 00:57
2
1,846 by ylwang
Thu, 2020-03-12 20:42
Normal topic Unknown Element "SE" when generating NCAA params file containing selenium
by liuwenxi » Thu, 2022-08-04 16:24
2
1,252 by liuwenxi
Fri, 2022-08-05 09:50
Normal topic limit_cluster_size default value
by sacch » Thu, 2011-11-24 17:57
2
2,901 by sacch
Mon, 2014-04-21 06:47
Normal topic Disulfide prediction from primary sequence
by zcrook » Wed, 2014-11-12 14:44
2
4,970 by zcrook
Tue, 2014-11-25 10:27
Normal topic Use NMR ensemble in protein-protein docking?
by cossio » Sun, 2015-09-13 07:57
2
3,131 by cossio
Tue, 2015-09-15 12:48
Normal topic Error when running Remodel with EnzDes constraint file
by aloshbau » Wed, 2013-04-17 22:23
2
3,985 by aloshbau
Mon, 2014-04-21 06:47
Normal topic Can I change high-resolution filter in SymDock
by attesor » Fri, 2015-10-23 07:35
2
2,702 by attesor
Mon, 2015-10-26 09:01
Normal topic Relax evaluates protein-DNA complexes?
by pablogalazdavison » Thu, 2022-05-12 12:05
2
1,465 by pablogalazdavison
Fri, 2022-05-20 12:27
Normal topic nomenclature question in molfile_to_params_polymer.py in ncaa design
by lei » Tue, 2023-11-21 09:47
2
245 by lei
Wed, 2023-11-22 06:23
Normal topic Pepspec - random runtime segfaults (rosetta 3.3 database replaced) [solved]
by loreseeker » Wed, 2011-09-14 08:13
2
3,624 by loreseeker
Mon, 2014-04-21 06:47
Normal topic Some wrong with the flag "-l" for score_jd2.linuxgccrelease
by lanselibai » Mon, 2014-09-29 02:29
2
4,291 by lanselibai
Tue, 2014-09-30 02:28
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