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Rosetta 3 - Applications

Topic / Topic starter Replies Viewssort descending Last post
Normal topic Can remodel really handle multiple insertions in one simulation?
by lanselibai » Sat, 2019-12-28 12:51
0
712 by lanselibai
Sat, 2019-12-28 12:51
Normal topic Comparative Modeling Templates for Protein with Multiple Domains
by Morrian_Lynn » Wed, 2020-03-04 10:42
0
713 by Morrian_Lynn
Wed, 2020-03-04 10:42
Normal topic charge grid in rosetta ligand docking using rosetta script
by syntekabio2019 » Mon, 2022-01-17 23:53
0
715 by syntekabio2019
Mon, 2022-01-17 23:53
Normal topic Global Docking with carbohydrates
by ChiauShu » Sat, 2020-08-22 20:16
0
717 by ChiauShu
Sat, 2020-08-22 20:16
Normal topic Segfault error while running MR Rosetta in Phenix
by memilton » Thu, 2021-12-16 09:09
0
720 by memilton
Thu, 2021-12-16 09:09
Normal topic Using GlycanDock and the Antibody Affinity Maturation protocol.
by tbelec » Mon, 2022-02-28 12:37
0
727 by tbelec
Mon, 2022-02-28 12:37
Normal topic Relax in membrane pull my protein out of the membrane
by Martin Floor » Wed, 2022-01-26 07:46
0
734 by Martin Floor
Wed, 2022-01-26 07:46
Normal topic ligand dock into HEM containg pdb
by syntekabio2019 » Thu, 2022-01-20 03:05
0
734 by syntekabio2019
Thu, 2022-01-20 03:05
Normal topic core.optimization.LineMinimizer: [ ERROR ] Inaccurate G!
by aralz » Thu, 2021-02-11 00:46
0
737 by aralz
Thu, 2021-02-11 00:46
Normal topic ligand_docking: ligand preparation
by Alison_Yajie » Thu, 2020-07-02 07:05
0
738 by Alison_Yajie
Thu, 2020-07-02 07:10
Normal topic Segment File Gen - no ouput
by CATarr » Wed, 2019-10-09 19:05
0
742 by CATarr
Wed, 2019-10-09 19:05
Normal topic Disulfidize- "Extra content at the end of the document"
by ldlamini » Tue, 2022-05-17 02:37
1
743 by rmoretti
Tue, 2022-05-17 07:29
Normal topic AbinitioRelax detect_disulf_tolerance
by aarono » Tue, 2020-06-02 00:13
0
752 by aarono
Tue, 2020-06-02 00:13
Normal topic ligand_docking: ligand preparation
by Alison_Yajie » Thu, 2020-05-21 09:42
0
752 by Alison_Yajie
Thu, 2020-05-21 09:42
Normal topic Stepwise Monte Carlo - errors with ResidueTypeSet and Disulfides
by user42 » Wed, 2021-07-21 20:34
1
755 by everyday847
Fri, 2021-07-30 13:26
Normal topic Limit on backbone movement in relax?
by SWM » Fri, 2020-01-24 07:35
0
758 by SWM
Fri, 2020-01-24 07:35
Normal topic What is interface_cutoff_distance? And why did my residues outside this value get designed?
by chrisHKL » Fri, 2020-02-28 14:52
0
761 by chrisHKL
Fri, 2020-02-28 14:52
Normal topic Snugdock Error: The sequence position requested was greater than the number of residues
by stannowitz » Tue, 2023-01-17 07:37
0
761 by stannowitz
Tue, 2023-01-17 23:48
Normal topic Modelling of multi-component symmetrical structures
by LanMei » Wed, 2020-10-07 09:58
0
763 by LanMei
Wed, 2020-10-07 09:58
Normal topic Help with enzyme design files
by Wenithor » Thu, 2021-04-29 10:33
1
765 by rmoretti
Thu, 2021-04-29 10:44
Normal topic Protonating all possible sites: the problem in MOL2 file format or the innate Rosetta feature(bug)?
by Corvin » Wed, 2020-12-16 04:58
0
765 by Corvin
Wed, 2020-12-30 09:21
Normal topic duplex RNA
by amir_tagh » Thu, 2021-08-05 06:34
1
769 by everyday847
Mon, 2021-08-16 10:43
Normal topic score is 0 in the output? - RosettaScripts
by chrisHKL » Thu, 2020-03-05 09:33
0
772 by chrisHKL
Thu, 2020-03-05 12:58
Normal topic Zero residues error in docking
by cjy318 » Tue, 2020-07-28 19:47
0
773 by cjy318
Tue, 2020-07-28 19:47
Normal topic RosettaCM/hybridize
by kywei » Wed, 2021-04-28 09:56
1
777 by vmulligan
Wed, 2021-04-28 12:59
Normal topic prepack - residue count fails
by xfradera » Fri, 2023-01-27 06:36
0
783 by xfradera
Fri, 2023-01-27 06:36
Normal topic Rosetta remodel - including an RNA ligand
by daniloboskovic » Fri, 2020-04-10 04:24
0
784 by daniloboskovic
Fri, 2020-04-10 04:24
Normal topic Use membrane or non-membrane weights in RosettaCM for a hexon in virus capsid?
by lanselibai » Sat, 2020-04-11 02:10
0
789 by lanselibai
Sat, 2020-04-11 02:10
Normal topic Comparative Modeling Tutorial
by code_Monkey » Thu, 2021-03-04 12:35
1
789 by rmoretti
Fri, 2021-03-05 09:35
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
790 by yliang20
Wed, 2022-06-15 13:46
Normal topic Segmentation Fault in Rosetta CM Hybridize
by yliang20 » Mon, 2022-06-06 17:25
2
796 by yliang20
Tue, 2022-06-07 08:36
Normal topic C-termini remodelling of dimeric structure removes second chain
by LeonhardJS » Wed, 2021-10-13 06:23
1
799 by LeonhardJS
Fri, 2021-11-12 01:20
Normal topic Generating the 3-mer and 9-mer fragments
by Prasoon » Wed, 2022-02-09 09:04
0
803 by Prasoon
Wed, 2022-02-09 09:04
Normal topic Docking the border segments of coiled coils in parallel orientation
by Corvin » Mon, 2019-12-02 02:00
0
805 by Corvin
Mon, 2019-12-02 02:00
Normal topic constraints in Rosetta ligand docking (AddorRemoveMatchCsts, Addconstraints Mover, and ConstraintSetMover)
by rohi » Mon, 2021-01-11 13:32
0
805 by rohi
Mon, 2021-01-11 13:58
Normal topic RNP structure prediction flags
by daniloboskovic » Fri, 2019-08-16 11:10
0
805 by daniloboskovic
Fri, 2019-08-16 11:17
Normal topic new BUNS for FunFolDes run
by tatsiana.bylund » Wed, 2019-08-14 20:57
0
806 by tatsiana.bylund
Wed, 2019-08-14 20:57
Normal topic ERROR: APBS failed to generate the result file.
by bhavranek » Sat, 2021-12-18 11:01
1
807 by bhavranek
Sun, 2021-12-26 21:05
Normal topic Modelling at defined pH - for pmutscan - pH:mode not working
by cagfa1 » Tue, 2022-03-15 04:05
1
807 by Rituparna_Saman...
Wed, 2022-03-23 11:21
Normal topic What means "[ ERROR ] TIME_STAMP: AbrelaxMover: finished ...NO_BATCH S_0001."
by Corvin » Thu, 2020-04-02 00:16
0
807 by Corvin
Thu, 2020-04-02 00:16
Normal topic using DARC in rosetta
by syntekabio2019 » Thu, 2019-12-12 01:27
0
810 by syntekabio2019
Thu, 2019-12-12 01:27
Normal topic application for affinity optimization
by wentlewi » Fri, 2020-03-13 03:24
0
810 by wentlewi
Fri, 2020-03-13 03:24
Normal topic RosettaAntibody3 core.pose.util error
by linhhoang157 » Tue, 2020-07-28 12:40
0
811 by linhhoang157
Tue, 2020-07-28 12:40
Normal topic core.pose.util: (0) {0} [ ERROR ] Can't find residue type 'UNK' in type set of mode fa_standard
by ldx022 » Thu, 2023-03-16 04:13
0
813 by ldx022
Thu, 2023-03-16 04:13
Normal topic help surface_docking peptide on ice
by engand93 » Wed, 2019-03-27 02:43
0
814 by engand93
Wed, 2019-03-27 02:43
Normal topic Error Implementing Match Style Constraints
by pwging13 » Thu, 2019-12-19 09:53
0
815 by pwging13
Thu, 2019-12-19 09:53
Normal topic structure prediction
by MA » Wed, 2018-09-05 00:50
0
816 by MA
Wed, 2018-09-05 00:50
Normal topic Flex_ddG crashes when attempting to move 2 chains (e.g. chains_to_move = A,C)
by jcampecino » Wed, 2020-05-13 12:22
0
816 by jcampecino
Wed, 2020-05-13 12:22
Normal topic Extracting top score PIPER models
by almeida85 » Mon, 2020-08-31 07:17
0
818 by almeida85
Mon, 2020-08-31 07:17
Normal topic How to use base_pair_constraint for RNA as a constraint term?
by yels » Sat, 2021-04-03 01:19
1
821 by everyday847
Sun, 2021-04-04 12:48
Normal topic Error when using Remodel on a protein with a chemically bound ligand
by Pappmaschee » Wed, 2020-12-16 09:23
0
823 by Pappmaschee
Wed, 2020-12-16 09:23
Normal topic Should I be stripping water molecules from my input structure for Rosetta Design?
by chrisHKL » Wed, 2021-03-24 14:22
1
825 by smlewis
Wed, 2021-03-24 14:59
Normal topic different value of score from rna_denovo and rna_score?
by yikanzhang » Wed, 2021-02-03 07:17
1
828 by CameronJA
Tue, 2021-06-15 20:02
Normal topic Weighted scores??
by sizhang » Wed, 2018-12-05 15:22
0
828 by sizhang
Wed, 2018-12-05 15:22
Normal topic Pepspec Anchor Dock
by Soler » Fri, 2020-09-18 08:09
0
829 by Soler
Fri, 2020-09-18 08:09
Normal topic [Solved] Resetting a pose with RigidBodyTransMover
by bjharris » Wed, 2021-01-13 14:01
1
829 by bjharris
Fri, 2021-01-22 17:34
Normal topic Docking of multichain oligomers
by sdh_h » Wed, 2020-03-25 12:43
0
843 by sdh_h
Wed, 2020-03-25 12:43
Normal topic trRosetta - Nan occuring in Hbond calculation
by y_atsmonraz » Mon, 2021-10-04 09:16
1
843 by shivarawat115
Mon, 2022-04-11 16:10
Normal topic extract docking pose from ligand docking silent file
by Ruska322 » Sat, 2019-09-07 05:21
0
845 by Ruska322
Sat, 2019-09-07 05:21
Normal topic how to run ala_scan.xml
by xinmiaohe » Mon, 2019-08-26 09:38
0
853 by xinmiaohe
Mon, 2019-08-26 09:38
Normal topic simple_cycpep_predict - Design mode - The base name "ARG" was added more than once
by almeida85 » Thu, 2022-08-04 02:57
4
855 by almeida85
Thu, 2022-08-11 00:58
Normal topic Topobuilder segmentation fault
by tatsiana.bylund » Mon, 2021-08-09 07:10
0
856 by tatsiana.bylund
Mon, 2021-08-09 07:10
Normal topic Python2 script in Rosetta3.13
by ddhoyo » Wed, 2021-09-15 04:05
1
857 by matteoferla
Wed, 2021-09-15 06:04
Normal topic Blast error for rosetta antibody: No argument value given for Query file
by dngusdnr1 » Tue, 2021-06-08 17:30
1
858 by taylorjones
Wed, 2021-06-09 16:38
Normal topic Relax evaluates protein-DNA complexes?
by pablogalazdavison » Thu, 2022-05-12 12:05
2
860 by pablogalazdavison
Fri, 2022-05-20 12:27
Normal topic Can anybody suggests some flags to run Rifdock?
by Hyunmi Song » Sun, 2022-01-23 16:45
0
863 by Hyunmi Song
Sun, 2022-01-23 16:45
Normal topic Problems with mpi version of antibody.linuxgccrelease
by Sunyp_IM » Thu, 2020-05-28 23:06
0
866 by Sunyp_IM
Thu, 2020-05-28 23:07
Normal topic Input structure
by Soler » Mon, 2020-09-28 13:18
1
869 by ssrb
Tue, 2020-09-29 12:37
Normal topic RIFdocking:Unable to locate database file chemical/residue_type_sets/fa_standard/residue_types/
by sia » Tue, 2022-08-02 20:06
2
871 by SeongRyeong Go
Mon, 2022-08-15 18:31
Normal topic NCAA Rotamers for Cyclosporin
by marinok » Mon, 2020-09-28 14:11
0
872 by marinok
Mon, 2020-09-28 14:11
Normal topic Modeling-Using RosettaCM
by jlawrie » Wed, 2020-08-12 08:46
1
874 by jlawrie
Wed, 2020-08-12 08:47
Normal topic Using Rmsd RosettaScripts filter with alignment files
by bjharris » Sun, 2020-11-08 15:51
1
877 by rmoretti
Sun, 2020-11-08 18:56
Normal topic residue_energy_breakdown of a protein-ligand complex.
by sam_dc » Tue, 2021-05-18 04:45
1
877 by rmoretti
Tue, 2021-05-18 07:21
Normal topic denovo_density don't output a pdb file
by ylwang » Sun, 2018-11-18 17:51
0
878 by ylwang
Sun, 2018-11-18 17:51
Normal topic [LoopModelerMover] ERROR: Can't build a fold tree from a loop with an unspecified cut point.
by dgm3 » Sun, 2021-12-26 18:32
1
882 by dgm3
Fri, 2021-12-31 17:42
Normal topic Undesirable behaviour of PoseFromSFRBuilder regarding Hydrogen atoms
by Corvin » Wed, 2020-12-02 04:00
1
894 by rmoretti
Wed, 2020-12-02 07:27
Normal topic ReplicaDock2.0 demo fails with MPIFileBufJobDistributor: (1) [ ERROR ]
by erpannec » Tue, 2022-08-09 05:42
4
895 by erpannec
Thu, 2022-09-15 05:17
Normal topic antibody - sequence position requested was 0
by jremmel » Mon, 2021-09-27 12:26
1
900 by nannemdp
Mon, 2021-09-27 14:22
Normal topic comparative modelling of a complex
by sdh_h » Sun, 2017-12-17 06:07
0
914 by sdh_h
Sun, 2017-12-17 06:07
Normal topic Membrane Abinitio modeling error
by jkyan007 » Thu, 2020-10-29 03:30
1
915 by noahC_noahDo
Tue, 2020-11-17 10:35
Normal topic How to select docked models
by Sunyp_IM » Mon, 2020-06-22 00:50
1
923 by ssrb
Mon, 2020-06-22 13:12
Normal topic polymer docking using rosetta scripts
by syntekabio2019 » Fri, 2020-11-27 01:51
1
923 by rmoretti
Fri, 2020-11-27 10:47
Normal topic antibody.mpi.linuxgccrelease some antibodies failing to model
by drewaight » Mon, 2020-11-02 17:07
0
925 by drewaight
Mon, 2020-11-02 17:07
Normal topic setup_RosettaCM.py
by browns02 » Mon, 2021-06-28 07:13
2
934 by browns02
Tue, 2021-06-29 11:41
Normal topic Secondary Matching build_sets Error
by enmirts » Wed, 2018-03-28 10:33
0
940 by enmirts
Wed, 2018-03-28 10:34
Normal topic core.pose.util: [ ERROR ] Can't find residue type 'UNK' in type set of mode fa_standard
by AlfredoKCL » Sat, 2020-11-07 18:21
0
941 by AlfredoKCL
Sat, 2020-11-07 18:21
Normal topic Interesting scoring performance in flexpepdock against random peptides
by ziqi1234 » Fri, 2017-12-08 07:52
0
949 by ziqi1234
Fri, 2017-12-08 07:52
Normal topic mp_transform optimize with franklin2019 scoring
by benhardy » Thu, 2020-05-28 08:35
0
951 by benhardy
Thu, 2020-05-28 08:45
Normal topic I need some help for using pHDock applications(histidine protonation / pH-dependent binding)
by leygkn » Tue, 2020-09-22 18:40
1
954 by leygkn
Tue, 2020-09-22 22:46
Normal topic Changing rosetta scoring to favour less hydrophobic areas
by daniloboskovic » Thu, 2020-05-21 03:03
1
957 by vmulligan
Thu, 2020-05-21 18:33
Normal topic Constraint generator
by Alison_Yajie » Wed, 2020-06-17 20:14
1
957 by Alison_Yajie
Wed, 2020-06-17 20:35
Normal topic Dock two domains using topology broker
by sn » Thu, 2017-10-05 17:07
0
966 by sn
Thu, 2017-10-05 17:07
Normal topic Ways to improve AbRelax performance?
by Corvin » Tue, 2022-04-19 06:10
2
971 by Corvin
Thu, 2022-04-21 00:50
Normal topic Flexpepdock I_hb scoring term
by mbakalar » Fri, 2018-08-31 13:05
0
972 by mbakalar
Fri, 2018-08-31 13:06
Normal topic Problem with Scoring function and PlaceStub mover
by a-eatemadi@razi... » Sat, 2018-04-07 09:22
0
973 by a-eatemadi@razi...
Sat, 2018-04-07 09:24
Normal topic Ligand docking at specific orientation
by ShiranBZ » Mon, 2020-04-13 20:46
1
974 by matteoferla
Mon, 2020-05-04 02:02
Normal topic rosetta_cm segfault
by browns02 » Fri, 2021-07-09 13:35
2
978 by rmoretti
Fri, 2021-07-09 15:05
Normal topic How do I change the default Compiler for Rosetta?
by pagumaaaaa » Wed, 2022-03-16 00:23
2
981 by pagumaaaaa
Thu, 2022-03-24 22:40
Normal topic pepspec anchor dock
by Andre Serobian » Tue, 2020-07-28 05:51
1
989 by Andre Serobian
Tue, 2020-07-28 23:26
Normal topic rosetta remodel and designing helix extension
by dhirajks » Thu, 2018-12-13 19:34
0
989 by dhirajks
Thu, 2018-12-13 19:34
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