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Rosetta 3 - General

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Normal topic dG/dsasa , What is the exact meaning?
by Apiwat » Sun, 2014-04-13 00:38 		2
 4,576 by Apiwat
Thu, 2014-04-17 09:56
Normal topic Determining Rosetta version from directory
by linucks » Fri, 2014-02-28 04:04 		1
 3,122 by smlewis
Fri, 2014-02-28 05:45
Normal topic Determine the weights of score functions
by SunH » Thu, 2010-09-02 07:20 		3
 4,599 by smlewis
Mon, 2014-04-21 06:47
Normal topic Designing Feasible Backbones
by csvajda » Sat, 2022-08-13 08:08 		0
 641 by csvajda
Sat, 2022-08-13 08:08
Normal topic DesignByCavityProximity: element not expected
by karenjgonzalez » Tue, 2020-01-28 05:16 		4
 2,919 by karenjgonzalez
Tue, 2020-02-11 08:44
Normal topic Design with non-canonical amino acids (NCAA)
by yinasun » Mon, 2019-08-05 00:34 		2
 2,597 by matteoferla
Thu, 2019-08-22 05:39
Normal topic Design strategy - One chain at a time OR two chains together?
by tlopes » Wed, 2022-01-05 18:19 		0
 683 by tlopes
Wed, 2022-01-05 18:19
Normal topic Design on NMR template
by enoee » Wed, 2010-07-21 05:29 		1
 2,010 by smlewis
Mon, 2014-04-21 06:47
Normal topic Design constraints on pairs of residues
by SenyorDrew » Mon, 2017-10-02 07:25 		3
 3,384 by SenyorDrew
Mon, 2017-11-13 11:44
Normal topic Derivative of the Energy function?
by MkM » Fri, 2010-01-15 08:00 		1
 2,419 by smlewis
Mon, 2014-04-21 06:47
Normal topic Denovo prediction from multiple fragment lengths
by ahmadkhalifa » Sun, 2019-03-24 03:55 		1
 1,555 by rmoretti
Sat, 2019-03-30 12:10
Normal topic Denovo density excess map input and segmentation
by ahmadkhalifa » Mon, 2018-04-30 07:28 		0
 1,077 by ahmadkhalifa
Fri, 2018-05-04 07:50
Normal topic Denovo density didn't output a structure
by ahmadkhalifa » Mon, 2018-02-12 08:10 		3
 3,007 by ylwang
Wed, 2018-11-14 03:03
Normal topic Denovo density corrupted silent file
by ahmadkhalifa » Mon, 2018-04-23 07:30 		4
 3,980 by ahmadkhalifa
Thu, 2018-04-26 09:11
Normal topic demos/public/ideal_proteins Segmentation fault
by coomteng@gmail.com » Wed, 2018-03-07 00:15 		5
 4,273 by rmoretti
Thu, 2018-03-08 07:46
Normal topic demo documentation
by lshi » Fri, 2009-08-28 08:51 		1
 2,246 by smlewis
Mon, 2014-04-21 06:47
Normal topic defining interface in interface analyzer
by aa20 » Fri, 2013-09-27 11:08 		5
 7,220 by smlewis
Mon, 2014-04-21 06:48
Normal topic decoy vs pose
by Anonymous » Fri, 2012-06-15 02:46 		1
 2,817 by smlewis
Mon, 2014-04-21 06:47
Normal topic Debugging Rosetta under XCode
by sacch » Sun, 2011-10-16 18:23 		8
 8,631 by sacch
Mon, 2014-04-21 06:47
Normal topic dealing with Large ligand in Ligand docking and enzyme design
by rohi » Mon, 2021-01-04 09:58 		1
 1,294 by rmoretti
Tue, 2021-02-09 10:48
Normal topic de novo RNA loop
by c.ocasion » Sun, 2021-02-14 18:34 		5
 2,982 by everyday847
Mon, 2021-03-29 20:19
Normal topic de novo protein prediction
by pci112 » Tue, 2021-03-23 10:13 		2
 1,649 by pci112
Thu, 2021-03-25 01:44
Normal topic De novo Protein Design
by ac.research » Sat, 2017-07-15 10:39 		5
 8,887 by rmoretti
Mon, 2017-08-14 09:06
Normal topic De novo density assembly weights don't add up to a 100
by ahmadkhalifa » Fri, 2018-08-03 12:07 		3
 2,716 by rmoretti
Tue, 2019-10-22 07:05
Normal topic De novo backbone trace from fragments
by Victor Tobiasson » Tue, 2020-12-22 06:34 		2
 2,079 by Victor Tobiasson
Tue, 2020-12-22 09:18
Normal topic De Novo backbone generation vs Rosetta Match for enzdes and ligand binding.
by csvajda » Thu, 2022-06-30 09:55 		2
 1,078 by csvajda
Thu, 2022-06-30 16:26
Normal topic ddG of multiple mutations on a monomer
by hltorresvera » Mon, 2021-02-01 16:54 		1
 2,434 by paulbo
Sun, 2024-02-04 22:03
Normal topic ddG from backrub
by jte » Tue, 2010-10-05 14:09 		3
 3,441 by smlewis
Mon, 2014-04-21 06:47
Normal topic ddg energy components
by japgar » Tue, 2010-07-13 13:20 		1
 33,028 by smlewis
Mon, 2014-04-21 06:47
Normal topic Ddg calculation for a metalloprotein using APBS
by dfcoelho » Tue, 2019-11-19 10:06 		2
 1,929 by dfcoelho
Wed, 2019-11-20 05:39
Normal topic ddg calculation
by Lindsay » Thu, 2013-09-12 10:19 		3
 6,062 by Lindsay
Mon, 2014-04-21 06:48
Normal topic ddG backbone movement
by dave » Wed, 2012-10-03 03:23 		2
 3,174 by dave
Mon, 2014-04-21 06:47
Normal topic ddG average energy
by dave » Wed, 2013-04-03 03:36 		1
 2,557 by rmoretti
Mon, 2014-04-21 06:47
Normal topic ddG = dGmutant ‐ dGwildtype
by ela » Thu, 2018-07-26 09:17 		3
 3,602 by ela
Thu, 2018-08-09 08:04
Normal topic Data Check for a newb
by ac.research » Sun, 2017-03-12 23:42 		2
 2,482 by ac.research
Fri, 2017-03-31 07:36
Normal topic Cyclizing .pdb of a linear chain.
by jcminerlanl » Wed, 2017-07-05 23:56 		3
 3,270 by jcminerlanl
Thu, 2017-07-06 09:22
Normal topic cutpoint error!
by monos_morpheus » Thu, 2011-04-07 08:04 		7
 7,952 by monos_morpheus
Mon, 2014-04-21 06:47
Normal topic Custom fold tree
by lah435 » Tue, 2015-03-03 12:02 		1
 2,155 by rmoretti
Mon, 2015-03-30 16:38
Normal topic Cterm_amidation
by G Mustafa » Wed, 2021-11-03 08:52 		1
 1,147 by gezmi
Sat, 2021-11-06 15:26
Normal topic CS-Rosetta fragments
by isengupta13 » Sun, 2010-05-16 08:08 		1
 2,766 by AndrewBworth
Mon, 2014-04-21 06:47
Normal topic CryoEM model refinement with covalent conjugated prosthetic Phosphopantetheine carrying acyl group
by ZhijunW » Thu, 2020-09-03 18:36 		11
 6,503 by matteoferla
Sat, 2020-09-12 03:02
Normal topic Cryo-EM: problem with RosettaCM using multiple template models as input
by Karol » Mon, 2016-08-29 05:26 		0
 1,838 by Karol
Mon, 2016-08-29 05:27
Normal topic Criteria on the calculation of Irmsd of the protein-protein interface
by yzq » Tue, 2012-02-21 07:06 		3
 4,390 by smlewis
Mon, 2014-04-21 06:47
Normal topic Creation of core.* file in current running directory
by alejandro » Tue, 2011-12-06 06:19 		2
 3,221 by alejandro
Mon, 2014-04-21 06:47
Normal topic Creating new residue type for pyridoxal phosphate bound to lysine (LLP) [Solved]
by franfdez » Sat, 2012-01-28 11:39 		1
 3,406 by franfdez
Mon, 2014-04-21 06:47
Hot topic Creating centroid patches for Proline (pro_hydroxylated_case1 and pro_hydroxylated_case2)
by skovacs » Thu, 2012-05-10 20:10 		18
 18,011 by aaj
Fri, 2016-04-22 15:20
Normal topic create a centroid file from structure or NOE list
by logandonaldson » Wed, 2013-03-20 12:23 		3
 5,221 by smlewis
Mon, 2014-04-21 06:47
Normal topic crashed when loading RDC data
by yangshen12 » Fri, 2018-10-26 12:34 		0
 1,117 by yangshen12
Fri, 2018-10-26 12:34
Normal topic covalent ligand docking in Rosetta
by rohi » Mon, 2021-06-07 06:39 		12
 12,152 by matteoferla
Wed, 2021-07-14 04:03
Normal topic Could the Relax step be used separately ? （solved）
by wszjzhang » Tue, 2010-03-30 15:00 		1
 2,173 by smlewis
Mon, 2014-04-21 06:47
Normal topic Could somebody interpret the rosetta's cluster application result?
by exchhattu » Mon, 2009-11-16 01:58 		0
 1,816 by exchhattu
Mon, 2014-04-21 06:47
Normal topic could restta consider the flexibility of backbone duirng protein docking?
by albumns » Wed, 2010-11-24 01:00 		1
 2,542 by smlewis
Mon, 2014-04-21 06:47
Normal topic could I add some constrain to the backbone but not completely fix it when relax?
by albumns » Tue, 2010-06-29 05:43 		4
 4,048 by smlewis
Mon, 2014-04-21 06:47
Normal topic could ab initio support running mpi?
by albumns » Mon, 2010-07-05 01:13 		1
 2,769 by smlewis
Mon, 2014-04-21 06:47
Normal topic Correct way to force a specific histidine tautomer
by matteoferla » Fri, 2020-04-10 02:40 		0
 1,360 by matteoferla
Fri, 2020-04-10 02:40
Normal topic core.scoring.rms_util: WARNING: CA_rmsd out of range...
by mdyini » Sat, 2012-02-25 16:14 		4
 4,485 by mdyini
Mon, 2014-04-21 06:47
Normal topic core.pack.rotamer_set.RotamerSet_: (0) Using simple Rotamer generation logic for pdb_NAP
by to-qinbin@163.com » Wed, 2022-09-14 06:06 		1
 779 by rmoretti
Wed, 2022-09-14 09:14
Normal topic Copying angles (pose.set_phi()) from a substructure with the same sequence to pose doesn't produce the exact same substructure?
by resiros » Wed, 2012-08-22 07:20 		13
 11,092 by smlewis
Mon, 2014-04-21 06:47
Normal topic Converting charmm parameter files (.par)
by ajasja » Mon, 2014-09-29 07:19 		3
 4,316 by jcminerlanl
Tue, 2017-12-19 14:03
Normal topic Converting all residues to poly-Gly/Ala
by jtpi6174 » Tue, 2023-05-09 14:14 		2
 845 by jtpi6174
Tue, 2023-05-09 15:51
Normal topic Conversion from Dihedral angle representation to Cartesian representation
by rodrigo.faccioli » Sat, 2012-02-25 11:57 		3
 16,712 by charlie.strauss
Fri, 2016-09-02 10:08
Normal topic Controlling Input in the Tutorial
by Smbat » Wed, 2020-07-29 22:41 		2
 1,792 by Smbat
Thu, 2020-07-30 03:07
Normal topic contribution of interface residues in binding energy
by rohi » Wed, 2021-01-20 07:33 		1
 1,297 by rmoretti
Wed, 2021-01-20 07:39
Normal topic Constraints use in RosettaCM
by a.book » Wed, 2018-10-03 12:11 		0
 1,498 by a.book
Wed, 2018-10-03 15:56
Normal topic Constraints in Loop Modeling
by Julix » Wed, 2012-12-05 07:08 		11
 10,923 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Constraints and final scoring of satisfied constraints in ab initio
by Azadeh » Tue, 2014-07-15 01:29 		3
 6,615 by rmoretti
Thu, 2014-07-17 09:21
Normal topic constraints
by lah435 » Sun, 2017-03-12 03:25 		2
 2,489 by lah435
Mon, 2017-04-03 19:50
Normal topic constraint are not imposed during protein-ligand docking
by rohi » Wed, 2020-12-02 11:28 		1
 1,506 by rmoretti
Tue, 2021-02-09 12:02
Normal topic Constraining a docking study
by jos » Tue, 2011-10-18 05:26 		2
 2,766 by rmoretti
Mon, 2014-04-21 06:47
Normal topic constrain files tutorial
by knutjbj » Fri, 2011-02-18 23:57 		2
 2,828 by smlewis
Mon, 2014-04-21 06:47
Normal topic Consistent XYZvector length() zero failure in EnzDes
by mwfranklin » Thu, 2018-11-01 12:44 		1
 1,777 by rmoretti
Wed, 2018-11-21 14:14
Normal topic connecting pdb files
by Hyun » Wed, 2021-11-17 22:32 		1
 1,003 by ajasja
Thu, 2021-11-18 00:33
Normal topic Connecting 2 Domains Via Non-Flexible Linker
by jurkm » Mon, 2011-09-05 06:10 		2
 5,945 by kbuhr
Tue, 2015-07-14 04:30
Normal topic Configuration of Robetta fragment libraries
by Run » Fri, 2014-01-24 23:03 		2
 3,138 by Run
Mon, 2014-04-21 06:48
Normal topic computing Pnear for Rosetta ligand docking
by rohi » Mon, 2021-02-01 08:27 		1
 1,697 by rmoretti
Tue, 2021-02-09 09:37
Normal topic Computing pairwise energies for rotamers
by pachecoj » Sat, 2014-05-03 17:52 		1
 2,283 by rmoretti
Mon, 2014-05-12 07:50
Normal topic Computing energy gradients for side chain minimization
by pachecoj » Wed, 2017-03-29 08:03 		5
 4,894 by pachecoj
Wed, 2017-03-29 12:32
Normal topic computer specifications
by rlwoltz » Tue, 2012-10-09 16:11 		4
 6,428 by rlwoltz
Mon, 2014-04-21 06:47
Normal topic computer shuts down during autobulding with rosetta
by intekhab » Tue, 2011-07-19 01:07 		4
 4,459 by rmoretti
Mon, 2014-04-21 06:47
Normal topic compile make_fragments.pl
by justin » Wed, 2009-12-02 00:42 		0
 1,618 by justin
Mon, 2014-04-21 06:47
Normal topic Compile C++ Rosetta to Pyrosetta ERROR
by michelleqyh » Fri, 2020-08-21 09:00 		0
 933 by michelleqyh
Fri, 2020-08-21 09:00
Normal topic Compilation in Mac OS 10.6
by rjn » Thu, 2010-02-18 12:35 		1
 2,319 by smlewis
Mon, 2014-04-21 06:47
Normal topic Compilation error
by zgcarvalho » Fri, 2010-02-12 06:58 		1
 2,107 by smlewis
Mon, 2014-04-21 06:47
Normal topic comparison of energy
by sdh » Mon, 2010-08-16 07:55 		5
 5,736 by smlewis
Mon, 2014-04-21 06:47
Normal topic Comparison between two fragment pickers
by qlj » Mon, 2013-09-02 06:34 		3
 3,981 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Comparing scores
by renedominik » Mon, 2012-02-27 05:21 		4
 4,753 by renedominik
Mon, 2014-04-21 06:47
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
 961 by Sunidhi
Sun, 2020-11-01 11:01
Normal topic Comparative modelling of dimer
by rt1108 » Fri, 2012-06-15 07:31 		1
 2,845 by smlewis
Mon, 2014-04-21 06:47
Normal topic Comparative Modeling Tutorial Script not working
by Srinivas23 » Thu, 2017-09-21 12:00 		4
 3,582 by Srinivas23
Tue, 2017-10-24 10:58
Normal topic Comparative modeling Error: potential mismatch between sequence from alignment  and sequence from PDB!
by nzsuzsanna » Wed, 2016-04-27 05:32 		4
 5,009 by nzsuzsanna
Fri, 2016-04-29 04:30
Normal topic Comparative Modeling databases?
by nitroamos » Wed, 2011-11-23 14:54 		6
 6,547 by rmoretti
Thu, 2016-04-28 16:15
Normal topic combine_silent ERROR: unknown atom_name: CYS SG
by freedman » Mon, 2017-03-06 10:56 		5
 4,541 by freedman
Mon, 2017-03-06 13:24
Normal topic combine silent.out file
by venkatazb » Fri, 2016-07-22 05:22 		1
 3,657 by smlewis
Fri, 2016-07-22 07:31
Normal topic Combine flags file with command line arguments?
by cossio » Mon, 2014-12-22 13:52 		1
 3,391 by smlewis
Tue, 2014-12-23 13:58
Hot topic Collecting 3.2 documentation holes
by smlewis » Wed, 2011-01-26 10:39 		23
 19,860 by FrankVerdin86
Mon, 2014-04-21 06:47
Normal topic Clustering using an disrupted run silent file
by PaulaBanks » Mon, 2013-07-15 02:19 		9
 8,901 by rmoretti
Wed, 2014-09-24 09:57
Normal topic Clustering TM domain of transmembrane protein
by justin » Sun, 2010-03-21 23:26 		0
 1,592 by justin
Mon, 2014-04-21 06:47
Normal topic Clustering Rosetta output PDB files
by ritacc18 » Sat, 2014-01-11 20:13 		2
 5,826 by jwillis
Sat, 2015-06-27 21:11
Normal topic Clustering problem
by Suuo » Tue, 2021-04-20 01:40 		1
 1,300 by rmoretti
Tue, 2021-04-20 13:06
Normal topic Clustering Poses from RosettaDock
by ctaylor » Tue, 2009-12-29 06:38 		0
 1,602 by ctaylor
Mon, 2014-04-21 06:47