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Rosetta 3 - General

Topic / Topic starter Replies Viewssort descending Last post
Normal topic InterfaceDdGMover and ResfileReader
by asaf.farhi » Wed, 2022-04-13 15:05
0
768 by asaf.farhi
Wed, 2022-04-13 15:05
Normal topic PDB weird to PDB rosetta friendly
by jpfuenzalidawx » Fri, 2022-09-02 04:43
1
772 by rmoretti
Tue, 2022-09-06 08:13
Normal topic Adding NCAA with Metal Ion
by MustafaBughio » Mon, 2022-11-28 15:07
1
774 by JasonIsaac
Mon, 2022-12-05 18:41
Normal topic Enzyme design gets 0 hit
by cryosky » Sun, 2021-09-26 13:24
0
780 by cryosky
Sun, 2021-09-26 13:24
Normal topic total_score changes when decomposing bb hbonds ref2015
by Liviu Copoiu » Mon, 2022-10-31 15:40
2
783 by Liviu Copoiu
Mon, 2022-10-31 16:03
Normal topic How can I use InterfaceScore terms in docking as GenericMonteCarlo criterion
by wwwmrzkwww » Sun, 2021-08-15 00:19
0
783 by wwwmrzkwww
Sun, 2021-08-15 00:19
Normal topic Quick mysql output question
by pedro.guillem » Thu, 2020-07-23 03:45
0
793 by pedro.guillem
Thu, 2020-07-23 03:45
Normal topic How to export high energy state pdb out of backrub?
by whiteqiu » Mon, 2021-03-01 18:32
0
796 by whiteqiu
Mon, 2021-03-01 18:32
Normal topic Applying dihedral constraints to TRP dipeptide minimization. ACE/NME termni.
by reoverstreet » Mon, 2022-07-11 14:39
1
804 by matteoferla
Wed, 2022-07-20 10:33
Normal topic Make fragments
by jeanramos » Mon, 2020-07-13 00:56
0
805 by jeanramos
Mon, 2020-07-13 00:56
Normal topic How to create a native file for Protein-Protein docking
by Kotimedidhi » Mon, 2020-06-22 08:10
0
823 by Kotimedidhi
Mon, 2020-06-22 08:10
Normal topic pose.energies().total_enegies().show_nonzero() changes after packer is applied
by Liviu Copoiu » Mon, 2022-11-07 16:51
2
831 by Liviu Copoiu
Tue, 2022-11-08 10:43
Normal topic Meaning of Metalbinding_constraint
by Corvin » Wed, 2021-05-19 07:54
0
832 by Corvin
Wed, 2021-05-19 07:54
Normal topic Output "per-residue" energy score to database
by pedro.guillem » Thu, 2020-05-14 04:22
0
835 by pedro.guillem
Thu, 2020-05-14 04:22
Normal topic Different dG_separated from RAbD and InterfaceAnalyzer
by brubin » Mon, 2022-12-19 13:58
2
835 by brubin
Tue, 2022-12-20 13:26
Normal topic Score function in protein-protein docking with constrains
by Zehui Zhou » Mon, 2023-02-06 03:31
2
843 by Zehui Zhou
Wed, 2023-02-15 05:40
Normal topic Error with options -dunbrack_prob_buried_semi and -dunbrack_prob_nonburied_semi
by SamuelGong » Fri, 2023-01-27 06:20
3
851 by rmoretti
Mon, 2023-01-30 08:04
Normal topic rna_denovo secstruct_general function
by rvandamme » Mon, 2021-02-01 13:39
0
851 by rvandamme
Mon, 2021-02-01 13:39
Normal topic Inconsistent scoring by "aa_composition" term
by chenna » Thu, 2022-02-24 03:00
1
851 by vmulligan
Thu, 2022-03-03 18:48
Normal topic Rosetta for design of artifical metalloenzyme
by Delfosse57 » Thu, 2022-05-19 21:47
1
852 by matteoferla
Fri, 2022-06-03 01:09
Normal topic Compile C++ Rosetta to Pyrosetta ERROR
by michelleqyh » Fri, 2020-08-21 09:00
0
853 by michelleqyh
Fri, 2020-08-21 09:00
Normal topic Residue outside res_map range
by amcallister » Fri, 2022-04-22 11:26
1
856 by aneeqh
Fri, 2022-09-02 13:36
Normal topic Finding affinity-reducing mutants towards a ligand in Ligand-based interface design protocol
by adityapadhi » Wed, 2020-06-24 01:29
0
859 by adityapadhi
Wed, 2020-06-24 01:29
Normal topic Using NCAA
by ate » Sat, 2021-05-01 02:22
0
870 by ate
Sat, 2021-05-01 02:22
Normal topic Clustering error - Help, please
by karolcia1010 » Wed, 2020-06-17 11:19
0
873 by karolcia1010
Wed, 2020-06-17 11:19
Normal topic Figuring out the input flags required for this script
by jjung380 » Wed, 2023-04-19 14:17
3
876 by rmoretti
Mon, 2023-05-15 15:23
Normal topic I made a params file generation webpage
by matteoferla » Wed, 2020-07-22 03:08
0
876 by matteoferla
Wed, 2020-07-22 03:08
Normal topic BUG REPORT: MySql column protocol.protocol_id must have the AUTO_INCREMENT flag set
by pedro.guillem » Wed, 2020-05-13 18:31
0
876 by pedro.guillem
Wed, 2020-06-24 04:42
Normal topic How RosettaCM can perform part of C terminal domain (CTD) structure prediction without proper template structures (coordinates)
by haom » Tue, 2020-09-01 13:21
0
879 by haom
Tue, 2020-09-01 18:50
Normal topic ab initio structure modeling
by pci112 » Mon, 2021-04-12 08:07
0
879 by pci112
Mon, 2021-04-12 08:12
Normal topic Does it make sense to perform Docking on a complex?
by chrisHKL » Mon, 2020-02-17 09:12
0
882 by chrisHKL
Mon, 2020-02-17 09:12
Normal topic Comparatively modelled chains are far apart in final structure while the template pdb has all chains in a close-knit complex
by Sunidhi » Sun, 2020-11-01 11:00
0
884 by Sunidhi
Sun, 2020-11-01 11:01
Normal topic connecting pdb files
by Hyun » Wed, 2021-11-17 22:32
1
892 by ajasja
Thu, 2021-11-18 00:33
Normal topic Run protein-protein docking parallelly by mpi
by Zehui Zhou » Thu, 2023-02-02 06:23
3
895 by Zehui Zhou
Fri, 2023-02-03 05:51
Normal topic Error: Element 'RandomizeBBByRamaPrePro': This element is not expected.
by nferruz » Fri, 2020-08-28 06:04
0
896 by nferruz
Fri, 2020-08-28 06:05
Normal topic score.sc only shows total_score and with all zeros
by johnnytam100 » Mon, 2022-06-06 20:04
2
898 by johnnytam100
Tue, 2022-06-07 19:18
Normal topic Renumbering PDB
by jgustat » Wed, 2022-07-27 13:37
2
904 by jgustat
Thu, 2022-07-28 10:00
Normal topic genkic mover produced an unwanted HN - CA bond
by cttm4a1 » Mon, 2022-06-20 14:25
2
908 by cttm4a1
Mon, 2022-06-20 16:58
Normal topic Searching density map using real space correlation
by ahmadkhalifa » Fri, 2018-12-28 00:28
0
908 by ahmadkhalifa
Fri, 2018-12-28 00:28
Normal topic Docking mover
by Soler » Sat, 2022-02-12 20:48
1
913 by jadolfbr
Sat, 2022-02-12 23:16
Normal topic De Novo backbone generation vs Rosetta Match for enzdes and ligand binding.
by csvajda » Thu, 2022-06-30 09:55
2
919 by csvajda
Thu, 2022-06-30 16:26
Normal topic Unrecognized atom parameter with denovo_density
by kalabharath » Mon, 2020-06-29 06:59
0
921 by kalabharath
Mon, 2020-06-29 06:59
Normal topic Error with filter in rosseta_scripts
by Osmany Guirola » Mon, 2020-05-11 04:52
0
921 by Osmany Guirola
Mon, 2020-05-11 04:52
Normal topic ERROR: Your compiler does not have full support for C++11 regex, and therefore can't support RegEx_based_CDR_Detector/antibody g
by yliang20 » Mon, 2022-08-08 16:59
1
924 by rmoretti
Tue, 2022-08-09 06:52
Normal topic ligand docking error
by YuFei » Wed, 2020-04-22 17:27
0
924 by YuFei
Wed, 2020-04-22 17:27
Normal topic Rosetta and design of ligand binding site
by rohi » Mon, 2021-03-15 06:00
0
925 by rohi
Mon, 2021-03-15 06:31
Normal topic Structure refinement for helical assembles using Rosetta
by xiaoyanzi » Thu, 2020-06-18 00:34
0
929 by xiaoyanzi
Thu, 2020-06-18 00:36
Normal topic how to perform model quality assessment of rosetta generated models?
by Danielsebas » Tue, 2019-09-24 05:03
0
930 by Danielsebas
Tue, 2019-09-24 05:03
Normal topic Error when attempting to relax pdb, "flag_input_relax" not found
by Wexter300 » Mon, 2023-01-23 11:32
4
934 by Wexter300
Wed, 2023-01-25 12:34
Normal topic Using NCAA
by ate » Sat, 2021-05-01 02:52
0
937 by ate
Sat, 2021-05-01 02:52
Normal topic MakeRotLib
by yinasun » Fri, 2019-07-26 02:17
0
953 by yinasun
Fri, 2019-07-26 02:17
Normal topic Output and Input Tutorial
by jgustat » Fri, 2022-07-01 13:07
2
963 by jgustat
Fri, 2022-07-01 13:26
Normal topic GeneralizedKIC disulfide closure
by Ken » Tue, 2022-08-16 13:32
2
963 by Ken
Wed, 2022-08-17 08:04
Normal topic How to add uncommon metal elements into Rosetta and make it recognizable?
by JasonIsaac » Thu, 2023-02-09 00:08
4
969 by JasonIsaac
Sat, 2023-02-11 00:44
Normal topic Where is Sicdock application now? Can I find a substitute?
by JasonIsaac » Sun, 2022-11-13 03:41
3
971 by rmoretti
Mon, 2022-11-14 07:27
Normal topic Your compiler does not have full support for C++ll regex, and therefore can't suport RegEx_based_CDR_Detector/antitody grafting.
by ldx022 » Thu, 2023-03-09 17:03
3
973 by ldx022
Sat, 2023-03-11 16:53
Normal topic How to provide multiple templates for Robetta with RosettaCM option?
by lanselibai » Wed, 2021-06-23 14:06
1
974 by lanselibai
Wed, 2021-06-23 14:53
Normal topic RosettaCM: help to generate similar models as those from Robetta Server
by haom » Wed, 2020-09-09 09:19
0
977 by haom
Wed, 2020-09-09 09:19
Normal topic Side-chain grafting in fixed scaffold
by Kazu » Wed, 2020-05-20 08:45
0
980 by Kazu
Wed, 2020-05-20 11:58
Normal topic RNA update library
by Anne Klein » Mon, 2022-05-16 16:04
2
981 by Anne Klein
Tue, 2022-05-24 21:38
Normal topic SARS-CoV-2: call for compound predictions against protease
by matteoferla » Sun, 2020-03-22 05:29
0
987 by matteoferla
Sun, 2020-03-22 05:29
Normal topic Intel MPI: early exit due to job process stopped.
by jackzzs » Mon, 2023-05-15 02:57
0
992 by jackzzs
Mon, 2023-05-15 03:17
Normal topic ERROR: Unable to open weights/patch file
by almeida85 » Tue, 2022-08-09 05:33
2
995 by almeida85
Thu, 2022-08-11 00:32
Normal topic Error on rna_denovo_setup.py
by zahra_AZ » Mon, 2020-11-09 02:23
0
996 by zahra_AZ
Mon, 2020-11-09 02:23
Normal topic Cterm_amidation
by G Mustafa » Wed, 2021-11-03 08:52
1
1,000 by gezmi
Sat, 2021-11-06 15:26
Normal topic Save silent results to individual directory by process ID
by Payne » Sat, 2022-09-24 05:23
3
1,004 by rmoretti
Thu, 2022-09-29 00:15
Normal topic restrict PackRotamersMover
by pmit » Thu, 2018-05-03 01:48
0
1,006 by pmit
Thu, 2018-05-03 01:48
Normal topic Denovo density excess map input and segmentation
by ahmadkhalifa » Mon, 2018-04-30 07:28
0
1,008 by ahmadkhalifa
Fri, 2018-05-04 07:50
Normal topic Structural Similarity
by Soler » Mon, 2021-11-29 22:02
1
1,013 by rmoretti
Tue, 2021-11-30 07:41
Normal topic calcium metal nomenclature: Rosetta_cm confusing HETATM CA (calcium) with ATOM CA (alpha-carbon)
by rlwoltz » Tue, 2021-08-03 23:26
0
1,017 by rlwoltz
Tue, 2021-08-03 23:26
Normal topic using full atom constraint in docking
by rohi » Thu, 2020-10-15 10:28
0
1,018 by rohi
Thu, 2020-10-15 10:28
Normal topic Ensemble Docking with RosettaDock 4.0 Protocol
by mb0261 » Wed, 2022-07-27 07:00
1
1,019 by mb0261
Mon, 2022-09-26 07:50
Normal topic Questions about alanine scanning in Rosetta
by LTJ » Mon, 2020-07-06 14:13
0
1,021 by LTJ
Mon, 2020-07-06 14:13
Normal topic How to define the surface (???.surf) for surface_docking?
by Anpu » Thu, 2018-09-27 07:34
0
1,023 by Anpu
Thu, 2018-09-27 23:36
Normal topic what factors determine the lowest (best) LigInterfaceEnergy score?
by jmaly » Wed, 2020-08-26 13:07
0
1,023 by jmaly
Wed, 2020-09-02 16:16
Normal topic I_sc
by Soler » Sat, 2022-02-12 00:16
1
1,026 by rmoretti
Fri, 2022-02-18 11:14
Normal topic Multi-metric enzyme docking with substrate
by Wang Zhe » Sat, 2021-11-20 04:41
1
1,029 by matteoferla
Mon, 2021-12-13 02:27
Normal topic Remodel and the depracated EMPTY NC
by matteoferla » Fri, 2021-02-26 07:12
0
1,034 by matteoferla
Fri, 2021-02-26 07:12
Normal topic Residue outside res_map range
by to-qinbin@163.com » Sat, 2022-09-10 01:56
1
1,034 by rmoretti
Mon, 2022-09-12 07:01
Normal topic Blast error for rosetta antibody: No argument value given for Query file
by dngusdnr1 » Tue, 2021-06-08 17:32
1
1,040 by taylorjones
Wed, 2021-06-09 16:30
Normal topic No values for total score while running Rosetta score file.
by Shweata Maurya » Wed, 2023-02-01 02:05
4
1,042 by Shweata Maurya
Wed, 2023-02-08 03:19
Normal topic crashed when loading RDC data
by yangshen12 » Fri, 2018-10-26 12:34
0
1,048 by yangshen12
Fri, 2018-10-26 12:34
Normal topic RosettaDock - protonation states
by LWilliamson » Tue, 2023-08-15 08:15
6
1,054 by nannemdp
Thu, 2023-08-24 08:21
Normal topic The hbond for REF2015
by asbelx » Mon, 2022-06-06 06:07
2
1,058 by asbelx
Mon, 2022-06-06 23:15
Normal topic How to use the <CavityVolume> filter in the released version of Rosetta
by BioPython » Sun, 2019-05-12 20:07
0
1,062 by BioPython
Sun, 2019-05-12 20:07
Normal topic Help - Protein-Protein interface design
by Dinesh Kumar » Thu, 2021-01-28 00:47
1
1,064 by rmoretti
Tue, 2021-02-09 10:29
Normal topic FARFAR and RNA_Tools: problem executing the command helix_preassemble_setup.py
by obdulia » Wed, 2018-04-18 00:45
0
1,070 by obdulia
Wed, 2018-04-18 00:45
Normal topic abinitio demo is not progressing - new install
by jtpi6174 » Thu, 2022-03-24 03:49
2
1,073 by jtpi6174
Thu, 2022-03-24 09:43
Normal topic score against rmsd plot of designs
by LanMei » Mon, 2022-03-21 22:46
2
1,078 by LanMei
Tue, 2022-03-22 20:45
Normal topic "Rosetta predictions of density, heat of vaporization (∆Hvap) and heat capacity (Cp(l))"
by matteoferla » Tue, 2020-07-14 01:51
0
1,082 by matteoferla
Tue, 2020-07-14 01:51
Normal topic [dev] examples for implementing setup_for_packing, prepare_rotamers_for_packing?
by ipetrik_ambry » Mon, 2017-10-30 17:03
0
1,083 by ipetrik_ambry
Mon, 2017-10-30 17:03
Normal topic parameter file of GLU protonated (GLU_P1.params)
by rohi » Sat, 2021-06-05 20:44
1
1,088 by nannemdp
Sun, 2021-06-06 09:26
Normal topic Mutate multidomain protein
by frankfurter1 » Wed, 2018-05-09 04:40
0
1,091 by frankfurter1
Wed, 2018-05-09 04:40
Normal topic Better minimization with Rosetta
by Elijah_Hix » Wed, 2021-07-28 13:53
1
1,091 by matteoferla
Mon, 2021-08-09 01:53
Normal topic env energy term
by bazzoli » Wed, 2018-10-10 01:59
0
1,096 by bazzoli
Wed, 2018-10-10 01:59
Normal topic the question about ddg of disulfide bond mutants
by asbelx » Sun, 2021-08-29 06:40
1
1,101 by asbelx
Wed, 2021-09-08 23:19
Normal topic Difference between interface_delta_X and dG_separated?
by Nicole Deng » Sat, 2020-06-06 06:31
0
1,105 by Nicole Deng
Sat, 2020-06-06 06:40
Normal topic keep ATP in the kinase-peptide structure while docking
by ziqi1234 » Fri, 2017-11-10 04:04
0
1,106 by ziqi1234
Fri, 2017-11-10 04:04
Normal topic RosettaDesign improvements
by ac.research » Mon, 2018-05-14 08:27
0
1,110 by ac.research
Mon, 2018-05-14 08:27
Normal topic What is the expected behaviour when minimizing a jump edge?
by bio_james » Wed, 2017-12-13 09:13
0
1,119 by bio_james
Wed, 2017-12-13 09:13
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