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Rosetta 3 - Applications

Topic / Topic starter Replies Viewssort descending Last post
Normal topic Does antibody_numbering_converter support camelid antibody?
by mxp » Tue, 2020-07-07 01:21
0
875 by mxp
Tue, 2020-07-07 01:21
Normal topic RemodelMover and Input Pose
by ozyo » Tue, 2020-12-29 09:41
0
876 by ozyo
Tue, 2020-12-29 09:41
Normal topic protein relax
by Alison_Yajie » Tue, 2020-05-19 08:29
0
880 by Alison_Yajie
Tue, 2020-05-19 08:29
Normal topic IL-2 gets better binding with beta / gamma
by tonycheng1688 » Wed, 2022-05-25 10:23
0
885 by tonycheng1688
Wed, 2022-05-25 10:23
Normal topic ligand_docking: ligand preparation
by Alison_Yajie » Thu, 2020-07-02 07:05
0
889 by Alison_Yajie
Thu, 2020-07-02 07:10
Normal topic FlexPepDocking
by jlawrie » Tue, 2020-09-15 12:52
0
889 by jlawrie
Tue, 2020-09-15 12:52
Normal topic Local docking- should I use KIC?
by seayoung lee » Fri, 2022-05-27 02:45
0
891 by seayoung lee
Fri, 2022-05-27 02:45
Normal topic fragment_picker:[ ERROR ] UtilityExitException ERROR: can't open file: $ROSETTA/tools/fragment_tools/vall.jul19.2011.gz
by yueyuedake » Wed, 2023-07-12 03:36
6
892 by yueyuedake
Sun, 2023-07-16 19:17
Normal topic Error reading in/out glycosylated silent file - "Can't create a polymer bond after residue due to incompatible type"
by amorin » Mon, 2021-09-27 12:16
0
896 by amorin
Mon, 2021-09-27 12:16
Normal topic Segment File Gen - no ouput
by CATarr » Wed, 2019-10-09 19:05
0
896 by CATarr
Wed, 2019-10-09 19:05
Normal topic Protein design: Ligand binding between two units of a homodimer
by chemotaxis_123 » Sun, 2022-01-02 16:01
0
897 by chemotaxis_123
Sun, 2022-01-02 16:01
Normal topic Macrocycle from a C-terminal amidated peptide
by almeida85 » Thu, 2022-08-18 07:53
0
899 by almeida85
Thu, 2022-08-18 07:53
Normal topic AbinitioRelax detect_disulf_tolerance
by aarono » Tue, 2020-06-02 00:13
0
903 by aarono
Tue, 2020-06-02 00:13
Normal topic Docking HeparinSulfate to proteins using GlycanDock
by GebauerJ » Tue, 2022-08-16 07:44
0
905 by GebauerJ
Tue, 2022-08-16 07:44
Normal topic Limit on backbone movement in relax?
by SWM » Fri, 2020-01-24 07:35
0
909 by SWM
Fri, 2020-01-24 07:35
Normal topic Ligand Docking with ROSETTA
by sc19 » Thu, 2022-07-14 01:32
0
909 by sc19
Thu, 2022-07-14 01:34
Normal topic snugdock run error: Sequence for partner1 does not match first member of ensemble1
by pagumaaaaa » Fri, 2022-03-25 01:21
0
911 by pagumaaaaa
Fri, 2022-03-25 01:21
Normal topic Grafting using antibody.mpi.linuxgccrelease and specifying custom template which doesnt have pdb id.
by SubhaK » Wed, 2023-01-18 23:33
0
912 by SubhaK
Wed, 2023-01-18 23:33
Normal topic Benchmarking Rosetta DDG Methods
by sareeves96 » Fri, 2022-07-29 09:55
0
912 by sareeves96
Fri, 2022-07-29 09:55
Normal topic RosettaAntibody - No matching templates for CDR1
by agctomer » Tue, 2021-01-19 22:45
0
914 by agctomer
Tue, 2021-01-19 22:45
Normal topic simple_cycpep_predict with N-term acetylation
by Ken » Fri, 2021-12-17 09:49
0
915 by Ken
Fri, 2021-12-17 09:49
Normal topic Global Docking with carbohydrates
by ChiauShu » Sat, 2020-08-22 20:16
0
929 by ChiauShu
Sat, 2020-08-22 20:16
Normal topic hpatch commands and how to identify patches
by Bianca Oliva » Thu, 2021-04-29 04:02
0
930 by Bianca Oliva
Thu, 2021-04-29 04:02
Normal topic How to apply cartesian_ddg to multi-metric enzyme?
by Wang Zhe » Wed, 2021-12-08 10:07
0
930 by Wang Zhe
Wed, 2021-12-08 10:07
Normal topic core.optimization.LineMinimizer: [ ERROR ] Inaccurate G!
by aralz » Thu, 2021-02-11 00:46
0
938 by aralz
Thu, 2021-02-11 00:46
Normal topic ligand_docking: ligand preparation
by Alison_Yajie » Thu, 2020-05-21 09:42
0
938 by Alison_Yajie
Thu, 2020-05-21 09:42
Normal topic score is 0 in the output? - RosettaScripts
by chrisHKL » Thu, 2020-03-05 09:33
0
948 by chrisHKL
Thu, 2020-03-05 12:58
Normal topic minimize_ppi.mpi.linuxgccrelease doesn't use jd2?
by e3lm » Tue, 2022-05-17 11:58
0
952 by e3lm
Tue, 2022-05-17 11:58
Normal topic RNP structure prediction flags
by daniloboskovic » Fri, 2019-08-16 11:10
0
953 by daniloboskovic
Fri, 2019-08-16 11:17
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
958 by lanselibai
Sat, 2020-04-11 02:10
Normal topic using DARC in rosetta
by syntekabio2019 » Thu, 2019-12-12 01:27
0
960 by syntekabio2019
Thu, 2019-12-12 01:27
Normal topic Docking the border segments of coiled coils in parallel orientation
by Corvin » Mon, 2019-12-02 02:00
0
961 by Corvin
Mon, 2019-12-02 02:00
Normal topic Flex_ddG突变设计
by wangtao » Thu, 2022-05-05 02:46
0
965 by wangtao
Thu, 2022-05-05 02:46
Normal topic connecting rna strands together
by y_atsmonraz » Tue, 2021-11-09 05:42
1
965 by y_atsmonraz
Thu, 2021-11-11 04:51
Normal topic Remodel's problem in treatment with non-protein residues
by Corvin » Mon, 2021-12-13 09:07
0
966 by Corvin
Mon, 2021-12-13 09:07
Normal topic Modelling of multi-component symmetrical structures
by LanMei » Wed, 2020-10-07 09:58
0
967 by LanMei
Wed, 2020-10-07 09:58
Normal topic new BUNS for FunFolDes run
by tatsiana.bylund » Wed, 2019-08-14 20:57
0
969 by tatsiana.bylund
Wed, 2019-08-14 20:57
Normal topic Rosetta remodel - including an RNA ligand
by daniloboskovic » Fri, 2020-04-10 04:24
0
969 by daniloboskovic
Fri, 2020-04-10 04:24
Normal topic about “protein mimic designer”
by sia » Wed, 2022-04-27 19:59
0
971 by sia
Wed, 2022-04-27 19:59
Normal topic application for affinity optimization
by wentlewi » Fri, 2020-03-13 03:24
0
972 by wentlewi
Fri, 2020-03-13 03:24
Normal topic structure prediction
by MA » Wed, 2018-09-05 00:50
0
973 by MA
Wed, 2018-09-05 00:50
Normal topic What means "[ ERROR ] TIME_STAMP: AbrelaxMover: finished ...NO_BATCH S_0001."
by Corvin » Thu, 2020-04-02 00:16
0
973 by Corvin
Thu, 2020-04-02 00:16
Normal topic charge grid in rosetta ligand docking using rosetta script
by syntekabio2019 » Mon, 2022-01-17 23:53
0
978 by syntekabio2019
Mon, 2022-01-17 23:53
Normal topic help surface_docking peptide on ice
by engand93 » Wed, 2019-03-27 02:43
0
978 by engand93
Wed, 2019-03-27 02:43
Normal topic Expected density
by GabrielDucrocq » Thu, 2022-07-14 06:38
1
980 by matteoferla
Wed, 2022-07-20 10:50
Normal topic Weighted scores??
by sizhang » Wed, 2018-12-05 15:22
0
981 by sizhang
Wed, 2018-12-05 15:22
Normal topic RosettaAntibody3 core.pose.util error
by linhhoang157 » Tue, 2020-07-28 12:40
0
984 by linhhoang157
Tue, 2020-07-28 12:40
Normal topic FastRelaxMover parameters for antibody-antigen interaction analysis
by samuel_k » Thu, 2022-01-27 01:08
0
990 by samuel_k
Thu, 2022-01-27 01:08
Normal topic Error Implementing Match Style Constraints
by pwging13 » Thu, 2019-12-19 09:53
0
993 by pwging13
Thu, 2019-12-19 09:53
Normal topic Extracting top score PIPER models
by almeida85 » Mon, 2020-08-31 07:17
0
995 by almeida85
Mon, 2020-08-31 07:17
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
995 by chrisHKL
Fri, 2020-02-28 14:52
Normal topic extract docking pose from ligand docking silent file
by Ruska322 » Sat, 2019-09-07 05:21
0
995 by Ruska322
Sat, 2019-09-07 05:21
Normal topic constraints in Rosetta ligand docking (AddorRemoveMatchCsts, Addconstraints Mover, and ConstraintSetMover)
by rohi » Mon, 2021-01-11 13:32
0
1,000 by rohi
Mon, 2021-01-11 13:58
Normal topic Stepwise Monte Carlo - errors with ResidueTypeSet and Disulfides
by user42 » Wed, 2021-07-21 20:34
1
1,005 by everyday847
Fri, 2021-07-30 13:26
Normal topic duplex RNA
by amir_tagh » Thu, 2021-08-05 06:34
1
1,006 by everyday847
Mon, 2021-08-16 10:43
Normal topic Rosetta Matcher not recognizing protonation forms of CST files like CYZ, HIS_D, etc
by Hirbond » Tue, 2022-03-01 13:16
0
1,006 by Hirbond
Tue, 2022-03-01 13:16
Normal topic Help with enzyme design files
by Wenithor » Thu, 2021-04-29 10:33
1
1,006 by rmoretti
Thu, 2021-04-29 10:44
Normal topic Error with RoseTTAFold
by sc19 » Thu, 2022-07-14 03:40
0
1,007 by sc19
Thu, 2022-07-14 03:40
Normal topic ligand dock into HEM containg pdb
by syntekabio2019 » Thu, 2022-01-20 03:05
0
1,009 by syntekabio2019
Thu, 2022-01-20 03:05
Normal topic Segfault error while running MR Rosetta in Phenix
by memilton » Thu, 2021-12-16 09:09
0
1,009 by memilton
Thu, 2021-12-16 09:09
Normal topic Pepspec Anchor Dock
by Soler » Fri, 2020-09-18 08:09
0
1,012 by Soler
Fri, 2020-09-18 08:09
Normal topic Relax in membrane pull my protein out of the membrane
by Martin Floor » Wed, 2022-01-26 07:46
0
1,013 by Martin Floor
Wed, 2022-01-26 07:46
Normal topic SnugDock Partners parameter
by tyang39 » Fri, 2022-07-08 10:02
1
1,020 by rmoretti
Fri, 2022-07-08 10:27
Normal topic Comparative Modeling Tutorial
by code_Monkey » Thu, 2021-03-04 12:35
1
1,024 by rmoretti
Fri, 2021-03-05 09:35
Normal topic I need help with cst file the paper: De Novo Computational Design of Retro-Aldol Enzymes
by Wenithor » Thu, 2022-01-06 12:20
0
1,031 by Wenithor
Thu, 2022-01-06 12:20
Normal topic RosettaCM/hybridize
by kywei » Wed, 2021-04-28 09:56
1
1,031 by vmulligan
Wed, 2021-04-28 12:59
Normal topic denovo_density don't output a pdb file
by ylwang » Sun, 2018-11-18 17:51
0
1,049 by ylwang
Sun, 2018-11-18 17:51
Normal topic C-termini remodelling of dimeric structure removes second chain
by LeonhardJS » Wed, 2021-10-13 06:23
1
1,058 by LeonhardJS
Fri, 2021-11-12 01:20
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
1,058 by jcampecino
Wed, 2020-05-13 12:22
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
1,060 by Corvin
Wed, 2020-12-30 09:21
Normal topic Docking of multichain oligomers
by sdh_h » Wed, 2020-03-25 12:43
0
1,065 by sdh_h
Wed, 2020-03-25 12:43
Normal topic shape complementarity
by holdenj » Fri, 2022-07-15 13:24
1
1,065 by rmoretti
Fri, 2022-07-15 13:50
Normal topic Zero residues error in docking
by cjy318 » Tue, 2020-07-28 19:47
0
1,066 by cjy318
Tue, 2020-07-28 19:47
Normal topic Problems with mpi version of antibody.linuxgccrelease
by Sunyp_IM » Thu, 2020-05-28 23:06
0
1,068 by Sunyp_IM
Thu, 2020-05-28 23:07
Normal topic how to run ala_scan.xml
by xinmiaohe » Mon, 2019-08-26 09:38
0
1,070 by xinmiaohe
Mon, 2019-08-26 09:38
Normal topic Snugdock Error: The sequence position requested was greater than the number of residues
by stannowitz » Tue, 2023-01-17 07:37
0
1,071 by stannowitz
Tue, 2023-01-17 23:48
Normal topic comparative modelling of a complex
by sdh_h » Sun, 2017-12-17 06:07
0
1,072 by sdh_h
Sun, 2017-12-17 06:07
Normal topic How to use base_pair_constraint for RNA as a constraint term?
by yels » Sat, 2021-04-03 01:19
1
1,086 by everyday847
Sun, 2021-04-04 12:48
Normal topic different value of score from rna_denovo and rna_score?
by yikanzhang » Wed, 2021-02-03 07:17
1
1,089 by CameronJA
Tue, 2021-06-15 20:02
Normal topic Modeling-Using RosettaCM
by jlawrie » Wed, 2020-08-12 08:46
1
1,091 by jlawrie
Wed, 2020-08-12 08:47
Normal topic ERROR: APBS failed to generate the result file.
by bhavranek » Sat, 2021-12-18 11:01
1
1,102 by bhavranek
Sun, 2021-12-26 21:05
Normal topic Input structure
by Soler » Mon, 2020-09-28 13:18
1
1,104 by ssrb
Tue, 2020-09-29 12:37
Normal topic Old Knotfind algorithm
by Martin Floor » Thu, 2022-09-22 07:28
1
1,105 by rmoretti
Fri, 2022-09-23 09:38
Normal topic Disulfidize- "Extra content at the end of the document"
by ldlamini » Tue, 2022-05-17 02:37
1
1,106 by rmoretti
Tue, 2022-05-17 07:29
Normal topic Secondary Matching build_sets Error
by enmirts » Wed, 2018-03-28 10:33
0
1,107 by enmirts
Wed, 2018-03-28 10:34
Normal topic Error when using Remodel on a protein with a chemically bound ligand
by Pappmaschee » Wed, 2020-12-16 09:23
0
1,108 by Pappmaschee
Wed, 2020-12-16 09:23
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
1,109 by ldx022
Thu, 2023-03-16 04:13
Normal topic Should I be stripping water molecules from my input structure for Rosetta Design?
by chrisHKL » Wed, 2021-03-24 14:22
1
1,112 by smlewis
Wed, 2021-03-24 14:59
Normal topic [Solved] Resetting a pose with RigidBodyTransMover
by bjharris » Wed, 2021-01-13 14:01
1
1,116 by bjharris
Fri, 2021-01-22 17:34
Normal topic Dock two domains using topology broker
by sn » Thu, 2017-10-05 17:07
0
1,123 by sn
Thu, 2017-10-05 17:07
Normal topic Flexpepdock I_hb scoring term
by mbakalar » Fri, 2018-08-31 13:05
0
1,134 by mbakalar
Fri, 2018-08-31 13:06
Normal topic trRosetta - Nan occuring in Hbond calculation
by y_atsmonraz » Mon, 2021-10-04 09:16
1
1,138 by shivarawat115
Mon, 2022-04-11 16:10
Normal topic Interesting scoring performance in flexpepdock against random peptides
by ziqi1234 » Fri, 2017-12-08 07:52
0
1,140 by ziqi1234
Fri, 2017-12-08 07:52
Normal topic Using Rmsd RosettaScripts filter with alignment files
by bjharris » Sun, 2020-11-08 15:51
1
1,144 by rmoretti
Sun, 2020-11-08 18:56
Normal topic Membrane Abinitio modeling error
by jkyan007 » Thu, 2020-10-29 03:30
1
1,152 by noahC_noahDo
Tue, 2020-11-17 10:35
Normal topic DDG_monomer ΔΔG question
by asbelx » Fri, 2018-04-20 03:31
0
1,163 by asbelx
Fri, 2018-04-20 03:33
Normal topic prepack - residue count fails
by xfradera » Fri, 2023-01-27 06:36
0
1,164 by xfradera
Fri, 2023-01-27 06:36
Normal topic Problem with Scoring function and PlaceStub mover
by a-eatemadi@razi... » Sat, 2018-04-07 09:22
0
1,164 by a-eatemadi@razi...
Sat, 2018-04-07 09:24
Normal topic Constraint generator
by Alison_Yajie » Wed, 2020-06-17 20:14
1
1,167 by Alison_Yajie
Wed, 2020-06-17 20:35
Normal topic antibody.mpi.linuxgccrelease some antibodies failing to model
by drewaight » Mon, 2020-11-02 17:07
0
1,174 by drewaight
Mon, 2020-11-02 17:07
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