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Rosetta 3 - General

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Normal topic Rosetta (antibody_designer) performance
by Kihang _Youn » Wed, 2022-03-02 00:48
7
1,383 by Kihang _Youn
Thu, 2022-03-10 16:30
Normal topic Cannot Open Resfile
by csvajda » Fri, 2022-03-04 13:39
3
836 by csvajda
Mon, 2022-03-07 07:46
Normal topic Inconsistent scoring by "aa_composition" term
by chenna » Thu, 2022-02-24 03:00
1
530 by vmulligan
Thu, 2022-03-03 18:48
Normal topic I_sc
by Soler » Sat, 2022-02-12 00:16
1
639 by rmoretti
Fri, 2022-02-18 11:14
Normal topic Docking mover
by Soler » Sat, 2022-02-12 20:48
1
610 by jadolfbr
Sat, 2022-02-12 23:16
Normal topic C-term amidation
by tttt » Tue, 2021-03-02 07:46
4
1,969 by tatsiana.bylund
Mon, 2022-01-24 07:58
Normal topic Ineffective Constraints
by Sandy » Tue, 2017-09-05 19:36
2
1,935 by CameronJA
Wed, 2022-01-19 20:50
Normal topic RMSD filter
by Soler » Sat, 2022-01-15 22:09
0
482 by Soler
Sat, 2022-01-15 22:09
Normal topic pyrosetta.rosetta.core.pose.rna
by chenjief » Tue, 2021-11-23 07:03
3
1,115 by matteoferla
Mon, 2022-01-10 06:44
Normal topic Design strategy - One chain at a time OR two chains together?
by tlopes » Wed, 2022-01-05 18:19
0
405 by tlopes
Wed, 2022-01-05 18:19
Normal topic mpi_MSD for antibody design
by hanzhiz » Thu, 2021-12-16 09:32
0
438 by hanzhiz
Thu, 2021-12-16 09:32
Normal topic SnugDock or RosettaDock for HDX-MS data
by hanzhiz » Thu, 2021-12-16 09:18
0
421 by hanzhiz
Thu, 2021-12-16 09:18
Normal topic Global ligand docking with Rosetta script and PyRosetta
by tisozaki » Tue, 2021-12-14 17:16
0
447 by tisozaki
Tue, 2021-12-14 17:16
Normal topic Multi-metric enzyme docking with substrate
by Wang Zhe » Sat, 2021-11-20 04:41
1
693 by matteoferla
Mon, 2021-12-13 02:27
Normal topic Structural Similarity
by Soler » Mon, 2021-11-29 22:02
1
684 by rmoretti
Tue, 2021-11-30 07:41
Normal topic PIPER-FlexPepDock protocol file apply_ftresult.py missing
by diasmarieli » Thu, 2021-11-04 06:33
2
994 by diasmarieli
Fri, 2021-11-26 05:11
Normal topic ligand docking
by hong wei » Thu, 2021-11-18 05:01
2
881 by hong wei
Thu, 2021-11-25 02:46
Normal topic SecundaryStructure Filter
by Soler » Sat, 2021-11-20 23:41
0
504 by Soler
Sat, 2021-11-20 23:41
Normal topic Error when using rna_denovo in TACC stampede2 HPC
by lsong2 » Thu, 2021-11-18 10:31
0
450 by lsong2
Thu, 2021-11-18 10:31
Normal topic connecting pdb files
by Hyun » Wed, 2021-11-17 22:32
1
594 by ajasja
Thu, 2021-11-18 00:33
Normal topic Cterm_amidation
by G Mustafa » Wed, 2021-11-03 08:52
1
668 by gezmi
Sat, 2021-11-06 15:26
Normal topic Help with file in article Kemp elimination catalysts by computational enzyme design
by Wenithor » Sat, 2021-10-09 07:23
0
448 by Wenithor
Sat, 2021-10-09 07:23
Normal topic ref2015: approx. kcal/mol or actually kJ/mol?
by matteoferla » Thu, 2021-10-07 04:04
2
1,129 by matteoferla
Thu, 2021-10-07 09:31
Normal topic problem plotting results from docking_analyser with provided Rscript
by madammolecular » Mon, 2021-02-01 14:44
2
1,085 by amystevens
Thu, 2021-09-30 14:18
Normal topic Make_fragments.pl database
by TiagoGomes » Tue, 2009-10-13 11:31
5
3,730 by matteoferla
Wed, 2021-09-29 01:58
Normal topic Enzyme design gets 0 hit
by cryosky » Sun, 2021-09-26 13:24
0
564 by cryosky
Sun, 2021-09-26 13:24
Normal topic Help deciphering an input
by Elijah_Hix » Wed, 2021-09-22 11:12
2
889 by Elijah_Hix
Thu, 2021-09-23 10:13
Normal topic pmut and scoring
by ldlamini » Tue, 2021-09-14 00:46
3
1,283 by matteoferla
Mon, 2021-09-20 06:05
Normal topic Rosetta Enzyme design cst block raises error
by cryosky » Thu, 2021-09-16 08:47
1
781 by cryosky
Fri, 2021-09-17 22:04
Normal topic Error when running prepack of PLEXPEPDOCKING
by phanvy » Wed, 2014-06-18 07:11
11
9,923 by G Mustafa
Fri, 2021-09-10 08:20
Normal topic Error_fragment_generation
by Payal Chatterjee » Fri, 2016-02-12 12:11
6
5,704 by G Mustafa
Fri, 2021-09-10 01:16
Normal topic the question about ddg of disulfide bond mutants
by asbelx » Sun, 2021-08-29 06:40
1
792 by asbelx
Wed, 2021-09-08 23:19
Normal topic Explicit water
by tsztain » Wed, 2021-08-25 05:54
1
865 by matteoferla
Thu, 2021-09-02 03:50
Normal topic how does rosetta handle hydrogens?
by patcD » Tue, 2021-08-31 00:48
2
927 by patcD
Wed, 2021-09-01 06:54
Normal topic How to set start coordinates for ligand when doing protein_ligand docking
by Huanhuan » Wed, 2021-08-18 21:09
3
1,140 by matteoferla
Fri, 2021-08-20 08:37
Normal topic How can I use InterfaceScore terms in docking as GenericMonteCarlo criterion
by wwwmrzkwww » Sun, 2021-08-15 00:19
0
594 by wwwmrzkwww
Sun, 2021-08-15 00:19
Normal topic Better minimization with Rosetta
by Elijah_Hix » Wed, 2021-07-28 13:53
1
833 by matteoferla
Mon, 2021-08-09 01:53
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
725 by rlwoltz
Tue, 2021-08-03 23:26
Normal topic Extracting a part of a silent file as another silent file
by almeida85 » Wed, 2021-07-28 23:53
1
788 by zivben
Sat, 2021-07-31 08:16
Normal topic Problem with match on enzdes
by ahuls1 » Thu, 2021-07-29 13:21
1
797 by ahuls1
Thu, 2021-07-29 13:23
Normal topic Scoring in Rosetta
by Elijah_Hix » Wed, 2021-07-14 06:48
1
805 by rmoretti
Wed, 2021-07-14 07:07
Normal topic covalent ligand docking in Rosetta
by rohi » Mon, 2021-06-07 06:39
12
6,161 by matteoferla
Wed, 2021-07-14 04:03
Normal topic Why does the sum of the per-residue total energy not match the whole score?
by matteoferla » Fri, 2021-07-09 08:36
2
998 by matteoferla
Mon, 2021-07-12 02:23
Normal topic Differences between energy values reported in the tutorials and the ones obtained by running the code, what is normal?
by ericlang » Mon, 2021-07-05 05:43
2
847 by ericlang
Mon, 2021-07-05 06:59
Normal topic Error using ddg_monomer application (Assertion `pose.residue(resnum).name1() == wt` failed)
by sgaray » Thu, 2021-06-24 14:47
2
1,429 by sgaray
Fri, 2021-06-25 11:26
Normal topic enzyme design and scoring function
by rohi » Fri, 2021-06-25 10:29
0
511 by rohi
Fri, 2021-06-25 10:29
Normal topic Add a ligand with only one atom (i.e. Zn) to the RosettaCM
by lanselibai » Tue, 2021-06-22 10:28
6
1,762 by rmoretti
Thu, 2021-06-24 12:23
Normal topic RosettaCM: threading okay, but hybridize loses many secondary structure
by lanselibai » Wed, 2021-06-23 13:51
2
848 by lanselibai
Thu, 2021-06-24 10:16
Normal topic How to provide multiple templates for Robetta with RosettaCM option?
by lanselibai » Wed, 2021-06-23 14:06
1
683 by lanselibai
Wed, 2021-06-23 14:53
Normal topic RosettaCM: "Ligands must be added to all templates"
by lanselibai » Tue, 2021-06-22 10:42
2
844 by lanselibai
Wed, 2021-06-23 13:21
Normal topic Internal error while running AbinitioRelax
by Subhrodeep Saha » Sun, 2021-06-13 03:44
1
805 by rmoretti
Wed, 2021-06-23 02:17
Normal topic adding NCAA to the N-terminal of RCSB pdb
by ate » Tue, 2021-06-08 08:24
4
1,708 by Subhrodeep Saha
Sat, 2021-06-19 07:17
Normal topic Flex-pep-docking (ab-initio mode)
by ate » Wed, 2021-06-16 19:19
0
511 by ate
Wed, 2021-06-16 19:19
Normal topic Obtaining all PDB IDs containing similar binding sites for a specific ligand
by Antonia » Wed, 2021-06-16 12:30
0
510 by Antonia
Wed, 2021-06-16 12:30
Normal topic Obtain score during prediction
by CameronJA » Mon, 2021-06-14 16:12
0
509 by CameronJA
Mon, 2021-06-14 16:12
Normal topic Blast error for rosetta antibody: No argument value given for Query file
by dngusdnr1 » Tue, 2021-06-08 17:32
1
723 by taylorjones
Wed, 2021-06-09 16:30
Normal topic parameter file of GLU protonated (GLU_P1.params)
by rohi » Sat, 2021-06-05 20:44
1
717 by nannemdp
Sun, 2021-06-06 09:26
Normal topic Segmentation fault on antibody structure prediction
by dkesar » Fri, 2021-06-04 19:09
0
553 by dkesar
Fri, 2021-06-04 19:09
Normal topic FastRelax Mover with symmetry, ligand and membrane
by Michele.Bonus » Wed, 2021-05-26 04:43
1
1,011 by matteoferla
Thu, 2021-06-03 08:24
Normal topic partial charge of params file in ligand docking
by rohi » Fri, 2021-05-28 08:43
1
930 by rmoretti
Fri, 2021-05-28 08:54
Normal topic Meaning of Metalbinding_constraint
by Corvin » Wed, 2021-05-19 07:54
0
620 by Corvin
Wed, 2021-05-19 07:54
Normal topic Rosetta Double changing mmCIF chain ID
by Victor Tobiasson » Thu, 2021-05-13 07:57
2
1,022 by Victor Tobiasson
Thu, 2021-05-13 08:33
Normal topic Rotate chain
by Germanico » Sun, 2021-05-09 16:36
3
1,313 by danpf
Mon, 2021-05-10 10:04
Normal topic Calibur not listing cluster members
by Swillard » Sun, 2018-07-01 13:07
2
1,903 by benhardy
Fri, 2021-05-07 07:22
Normal topic Using NCAA
by ate » Sat, 2021-05-01 02:52
0
729 by ate
Sat, 2021-05-01 02:52
Normal topic Using NCAA
by ate » Sat, 2021-05-01 02:22
0
671 by ate
Sat, 2021-05-01 02:22
Normal topic Speeding up FastDesign
by ebetica0 » Wed, 2021-04-28 13:08
1
997 by vmulligan
Wed, 2021-04-28 14:20
Normal topic Clustering problem
by Suuo » Tue, 2021-04-20 01:40
1
845 by rmoretti
Tue, 2021-04-20 13:06
Normal topic opencl support programs
by x_wuxi » Mon, 2021-04-12 18:17
1
916 by rmoretti
Tue, 2021-04-13 06:42
Normal topic ab initio structure modeling
by pci112 » Mon, 2021-04-12 08:07
0
661 by pci112
Mon, 2021-04-12 08:12
Normal topic Sequence Profile/Checkpoint file
by ojmel » Fri, 2021-04-02 17:29
1
905 by taylorjones
Mon, 2021-04-05 13:17
Normal topic Ligand being read as part of protein structure
by MarkusAurelius » Thu, 2021-04-01 11:00
2
1,122 by MarkusAurelius
Fri, 2021-04-02 11:44
Normal topic params file for beta-amino acids
by phonez » Mon, 2021-03-29 18:30
4
1,738 by everyday847
Thu, 2021-04-01 11:59
Normal topic clean_pdb.py
by duz » Wed, 2021-03-24 13:36
2
1,429 by duz
Thu, 2021-04-01 09:34
Normal topic Show I be using beta_nov16 scorefxn?
by matteoferla » Thu, 2021-04-01 04:06
0
845 by matteoferla
Thu, 2021-04-01 04:06
Normal topic de novo RNA loop
by c.ocasion » Sun, 2021-02-14 18:34
5
1,925 by everyday847
Mon, 2021-03-29 20:19
Normal topic Chain name being read as residue
by MarkusAurelius » Mon, 2021-03-22 11:19
2
975 by MarkusAurelius
Mon, 2021-03-29 09:06
Normal topic de novo protein prediction
by pci112 » Tue, 2021-03-23 10:13
2
1,121 by pci112
Thu, 2021-03-25 01:44
Normal topic MPI optimization on TACC stampede2 HPC
by rlwoltz » Tue, 2021-03-16 18:07
2
1,429 by rlwoltz
Wed, 2021-03-24 22:36
Normal topic I Need Help on Validation for a Ligand Docking Experiment.
by tbelec » Sat, 2021-03-20 13:27
1
1,006 by matteoferla
Mon, 2021-03-22 08:29
Normal topic Suppress printing to STDOUT for applications
by tylerborrman » Tue, 2015-11-24 11:37
5
4,643 by code_Monkey
Thu, 2021-03-18 08:03
Normal topic small molecule charge generated by molfile_to_params.py
by rohi » Wed, 2021-03-17 09:35
3
1,287 by rmoretti
Wed, 2021-03-17 13:52
Normal topic Rosetta and design of ligand binding site
by rohi » Mon, 2021-03-15 06:00
0
691 by rohi
Mon, 2021-03-15 06:31
Normal topic Recommendations for CoupledMoves enzyme redesign
by dgm3 » Thu, 2021-03-04 10:53
1
943 by aloshbau
Tue, 2021-03-09 02:47
Normal topic Ab Initio Modelling of Protein with Small-Molecule Cofactor
by jurkm » Thu, 2011-03-10 06:56
14
14,111 by jseco
Mon, 2021-03-08 03:46
Normal topic Running RosettaScripts, but got an error "src/utility/options/OptionCollection.cc, line 1153, No values of the appropriate type"
by zhoubin » Sun, 2021-02-28 08:51
3
1,308 by zhoubin
Mon, 2021-03-01 22:11
Normal topic How to export high energy state pdb out of backrub?
by whiteqiu » Mon, 2021-03-01 18:32
0
563 by whiteqiu
Mon, 2021-03-01 18:32
Normal topic ERROR: Not complementary at positions
by szcshr123 » Fri, 2021-02-26 05:58
2
1,264 by szcshr123
Fri, 2021-02-26 14:41
Normal topic Remodel and the depracated EMPTY NC
by matteoferla » Fri, 2021-02-26 07:12
0
755 by matteoferla
Fri, 2021-02-26 07:12
Normal topic Fragment Picker score type weights
by wellsm10 » Mon, 2020-12-14 13:05
1
1,021 by dgront
Thu, 2021-02-11 08:30
Normal topic multi state protein design
by rohi » Fri, 2020-09-04 08:14
2
1,408 by rmoretti
Tue, 2021-02-09 13:45
Normal topic running Rosetta with MPI
by rohi » Sat, 2020-09-05 16:06
1
1,183 by rmoretti
Tue, 2021-02-09 13:44
Normal topic Help with filtering (Rosetta scripts)
by wentlewi » Sat, 2020-10-24 10:12
1
1,036 by rmoretti
Tue, 2021-02-09 12:35
Normal topic protein design for increasing its affinity towards ligand
by rohi » Fri, 2020-10-30 11:33
1
996 by rmoretti
Tue, 2021-02-09 12:25
Normal topic error running "helix_preassemble_setup.py"
by zahra_AZ » Tue, 2020-11-03 01:54
1
1,084 by rmoretti
Tue, 2021-02-09 12:19
Normal topic clustering ligand binding mood by ligand RMSD
by rohi » Tue, 2021-01-26 21:11
1
1,035 by brownbp1
Tue, 2021-02-09 12:12
Normal topic constraint are not imposed during protein-ligand docking
by rohi » Wed, 2020-12-02 11:28
1
1,033 by rmoretti
Tue, 2021-02-09 12:02
Normal topic Rotamer Library Generation in Rosetta3
by jcminerlanl » Wed, 2016-11-30 07:34
5
4,794 by rmoretti
Tue, 2021-02-09 11:52
Normal topic enzyme design implementation
by rohi » Wed, 2020-12-16 09:54
1
996 by rmoretti
Tue, 2021-02-09 11:30
Normal topic dealing with Large ligand in Ligand docking and enzyme design
by rohi » Mon, 2021-01-04 09:58
1
876 by rmoretti
Tue, 2021-02-09 10:48
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