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Rosetta 3 - General

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Normal topic Models which are not recorded (Abinitio protocol)
by allan.ferrari » Fri, 2015-08-28 13:39
3
3,051 by rmoretti
Thu, 2015-09-17 12:42
Normal topic How to integrate Rosetta code to my program?
by Lsg » Tue, 2011-06-28 07:18
3
3,776 by smlewis
Mon, 2014-04-21 06:47
Normal topic acceptable RMSD value in the clustered structures?
by ritacc18 » Wed, 2013-06-19 14:53
3
8,065 by rmoretti
Mon, 2014-04-21 06:48
Normal topic how to get reliable results for carbohydrate docking?
by albumns » Sun, 2010-09-05 23:12
3
4,419 by smlewis
Mon, 2014-04-21 06:47
Normal topic Explanations to membrane_abinitio options
by justin » Wed, 2010-02-10 01:14
3
2,810 by justin
Mon, 2014-04-21 06:47
Normal topic get_distances command in rosetta 3.5
by pramod » Mon, 2014-01-20 11:31
3
2,984 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Simple FoldTree Question
by gipsonb » Wed, 2012-04-25 18:19
3
3,277 by gipsonb
Mon, 2014-04-21 06:47
Normal topic Comparison between two fragment pickers
by qlj » Mon, 2013-09-02 06:34
3
3,223 by rmoretti
Mon, 2014-04-21 06:48
Normal topic DomainAssembly Mover with constraints (using RosettaScripts)
by resiros » Wed, 2016-09-21 11:19
3
3,202 by rmoretti
Mon, 2016-11-14 14:21
Normal topic Peripheral membrane protein modeling
by Fukiishi » Tue, 2018-10-02 02:09
3
2,294 by matteoferla
Thu, 2018-10-04 01:30
Normal topic should rosetta3.1 do prepacking before docking?
by lqzhang » Thu, 2010-01-07 12:15
3
2,893 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta Dock with MPI / PBS
by edpryor » Wed, 2012-09-05 11:04
3
5,793 by smlewis
Mon, 2014-04-21 06:47
Normal topic When does Rosetta switch from centroid to FA mode?
by MarkW » Fri, 2015-07-03 04:48
3
3,013 by rmoretti
Sun, 2015-07-05 14:28
Normal topic ddG from backrub
by jte » Tue, 2010-10-05 14:09
3
2,851 by smlewis
Mon, 2014-04-21 06:47
Normal topic why energy is positive?
by albumns » Tue, 2014-12-23 00:05
3
3,780 by rmoretti
Mon, 2015-02-09 11:21
Normal topic what is 05.2009 ideal coordinates
by Lindsay » Tue, 2014-09-23 20:36
3
2,962 by rmoretti
Mon, 2014-09-29 13:45
Normal topic Can I thread a two chained structure in RosettaCM?
by ahmadkhalifa » Mon, 2018-01-08 09:41
3
2,787 by aaxx
Wed, 2019-11-06 01:44
Normal topic Rosetta-based projects using and licensing
by SergeyP » Fri, 2018-10-26 15:45
3
2,552 by SergeyP
Mon, 2018-11-12 09:19
Normal topic Is it better to have smaller nstruct but many runs?
by Loki01 » Mon, 2018-11-19 11:50
3
1,986 by smlewis
Mon, 2018-11-19 13:20
Normal topic how build (N-terminal 17 residues) structre /fragment file generation
by venkatazb » Wed, 2016-07-27 23:56
3
2,841 by smlewis
Fri, 2016-07-29 07:43
Normal topic Design constraints on pairs of residues
by SenyorDrew » Mon, 2017-10-02 07:25
3
2,637 by SenyorDrew
Mon, 2017-11-13 11:44
Normal topic Problem with HETATM entries in PDB file
by asmi » Fri, 2011-05-20 10:17
3
5,067 by smlewis
Mon, 2014-04-21 06:47
Normal topic Problems with output control
by Sunyp_IM » Thu, 2017-06-22 15:30
3
3,207 by rmoretti
Wed, 2017-06-28 01:33
Normal topic Hydrogen bond detection and shape complementarity
by sujigeorge1979 » Fri, 2019-06-14 02:39
3
1,892 by sujigeorge1979
Thu, 2019-06-27 01:30
Normal topic Protein folding using Monte Carlo derived techniques and implicit solvation
by hefeweizen » Tue, 2013-12-10 06:30
3
3,553 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Molecular oxygen
by matteoferla » Sat, 2018-02-24 06:05
3
2,686 by matteoferla
Mon, 2018-02-26 02:05
Normal topic How to make a resfile
by dflaher » Fri, 2017-11-03 10:26
3
3,514 by smlewis
Wed, 2017-11-08 12:08
Normal topic relax NOT CONVERGED
by albumns » Thu, 2010-06-24 21:25
3
2,854 by smlewis
Mon, 2014-04-21 06:47
Normal topic Loop modeling FLAGS
by jklett » Fri, 2009-12-04 02:45
3
2,980 by jklett
Mon, 2014-04-21 06:47
Normal topic backrub score different from calculated score
by attesor » Wed, 2014-04-09 07:34
3
3,167 by rmoretti
Thu, 2014-04-10 07:38
Normal topic Problem with outputing decoys in the process of AbinitioRelax
by MA » Thu, 2017-07-13 23:27
3
2,252 by rmoretti
Thu, 2017-08-03 08:50
Normal topic Maximum Number of Constraints
by jurkm » Fri, 2011-06-17 05:23
3
4,495 by jurkm
Mon, 2014-04-21 06:47
Normal topic Biopython error in mac os x
by vinodh » Tue, 2012-06-12 12:23
3
3,692 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Error with simple_cycpep_predict protocol while using a native pdb file
by Florent Langenfeld » Tue, 2019-03-26 10:05
3
1,895 by Florent Langenfeld
Tue, 2020-09-22 03:03
Normal topic first run of abinitio in rosetta 3.2 produces an error right away
by burkheadlab » Fri, 2011-03-04 22:50
3
3,142 by smlewis
Mon, 2014-04-21 06:47
Normal topic Loop Modeling
by ctaylor » Fri, 2009-12-18 11:42
3
2,919 by ctaylor
Mon, 2014-04-21 06:47
Normal topic how to use backrub in rosetta3.1
by lqzhang » Mon, 2010-01-11 14:43
3
2,886 by smlewis
Mon, 2014-04-21 06:47
Normal topic Quesition about Relax Mode
by crysta11 » Wed, 2009-10-21 09:57
3
3,167 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta3.2 cluster application file-reading error
by mdyini » Wed, 2011-03-09 16:59
3
5,041 by smlewis
Mon, 2014-04-21 06:47
Normal topic Information about “membrane_highres_Menv_smooth.wts”
by Groros » Sun, 2011-10-02 03:59
3
3,323 by smlewis
Mon, 2014-04-21 06:47
Normal topic ddg calculation
by Lindsay » Thu, 2013-09-12 10:19
3
4,996 by Lindsay
Mon, 2014-04-21 06:48
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
1,255 by zhoubin
Mon, 2021-03-01 22:11
Normal topic calculate low-resolution total docking score for a input pdb
by jasnyderjr » Fri, 2015-12-11 23:08
3
3,276 by rmoretti
Wed, 2015-12-16 11:22
Normal topic make_fragments
by sumukh21 » Wed, 2011-02-23 09:29
3
3,295 by sumukh21
Mon, 2014-04-21 06:47
Normal topic Solving van der waals clashes in a transmembrane protein model with rosetta
by doranhen » Wed, 2012-12-05 00:12
3
3,265 by smlewis
Mon, 2014-04-21 06:47
Normal topic manually changing fixbb residue ref energies
by jtmacd » Wed, 2009-11-25 08:43
4
3,428 by jtmacd
Mon, 2014-04-21 06:47
Normal topic protein protein docking pipeline
by dzhao » Thu, 2012-07-19 06:25
4
5,212 by smlewis
Mon, 2014-04-21 06:47
Normal topic Error when running enzyme_design tutorial
by linucks » Fri, 2017-06-30 12:26
4
3,072 by linucks
Mon, 2017-07-03 09:50
Normal topic Does Rosetta recognise OXT atom type in PDB.?
by monos_morpheus » Mon, 2011-04-11 23:57
4
4,781 by monos_morpheus
Mon, 2014-04-21 06:47
Normal topic Energy calculation for protein design
by Filipe » Sat, 2011-11-26 15:01
4
6,589 by Filipe
Mon, 2014-04-21 06:47
Normal topic computer specifications
by rlwoltz » Tue, 2012-10-09 16:11
4
5,274 by rlwoltz
Mon, 2014-04-21 06:47
Normal topic a question about loop refinement
by albumns » Fri, 2012-03-02 09:38
4
4,818 by albumns
Mon, 2014-04-21 06:47
Normal topic Suppressing Rosetta output, flag for that?
by msellers » Tue, 2011-04-26 11:18
4
4,562 by smlewis
Mon, 2014-04-21 06:47
Normal topic How the Rosetta score (dG) is actually related to dH (enthalpy) and dS (entropy)?
by lanselibai » Thu, 2014-12-04 13:16
4
5,467 by lanselibai
Fri, 2014-12-12 10:27
Normal topic I have a .tab file. How do I extract information from it?
by monos_morpheus » Tue, 2011-02-08 09:30
4
4,620 by monos_morpheus
Mon, 2014-04-21 06:47
Normal topic rosetta 3.1-how to run parallel tasks?
by wtscrystal » Fri, 2009-11-06 03:23
4
5,091 by lqzhang
Mon, 2014-04-21 06:47
Normal topic Discarding atoms for fixbb
by Jacob-kong » Tue, 2012-06-26 06:23
4
4,649 by Jacob-kong
Mon, 2014-04-21 06:47
Normal topic Give diferent chain information for a single sequence (comparative modeling)
by Martin Floor » Tue, 2013-04-02 08:59
4
4,045 by Martin Floor
Mon, 2014-04-21 06:47
Normal topic span and frags filefor multichain transmembrane protein
by zhiguang » Wed, 2016-10-26 13:28
4
3,329 by zhiguang
Tue, 2016-11-15 12:27
Normal topic Symmetric abrelax modeling
by SenyorDrew » Fri, 2011-02-18 10:14
4
3,905 by IAndre
Mon, 2014-04-21 06:47
Normal topic total energy score of the pdb structure
by Lindsay » Tue, 2012-05-01 12:14
4
5,687 by Lindsay
Mon, 2014-04-21 06:47
Normal topic Comparative Modeling Tutorial Script not working
by Srinivas23 » Thu, 2017-09-21 12:00
4
2,734 by Srinivas23
Tue, 2017-10-24 10:58
Normal topic Error when attempting to relax pdb, "flag_input_relax" not found
by Wexter300 » Mon, 2023-01-23 11:32
4
81 by Wexter300
Wed, 2023-01-25 12:34
Normal topic solvation
by gw » Wed, 2011-08-31 17:14
4
4,008 by smlewis
Mon, 2014-04-21 06:47
Normal topic Can anyone become a Rosetta developer?
by cossio » Thu, 2015-01-22 05:10
4
5,293 by cossio
Thu, 2015-01-29 11:50
Normal topic protein ligand docking
by patrickchirdon » Sun, 2018-12-30 15:07
4
2,654 by smlewis
Mon, 2018-12-31 08:58
Normal topic Flexible backbone design using PSSM
by kalicuta » Thu, 2012-07-26 13:38
4
4,334 by rmoretti
Mon, 2014-04-21 06:47
Normal topic core.scoring.rms_util: WARNING: CA_rmsd out of range...
by mdyini » Sat, 2012-02-25 16:14
4
3,775 by mdyini
Mon, 2014-04-21 06:47
Normal topic UBQ chemically conjugated docking error
by cheyuk » Fri, 2015-09-18 06:57
4
3,936 by cheyuk
Sun, 2015-09-20 02:08
Normal topic RosettaMatch in 3.2
by jtmacd » Mon, 2010-12-20 08:04
4
4,382 by jtmacd
Mon, 2014-04-21 06:47
Normal topic computer shuts down during autobulding with rosetta
by intekhab » Tue, 2011-07-19 01:07
4
3,748 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Updated publications/details on Rosetta score function?
by nitroamos » Tue, 2009-10-20 19:48
4
4,242 by rmoretti
Mon, 2015-03-30 14:43
Normal topic Picking the correct model from a large set of decoys (30,000+)
by brspurri » Thu, 2012-04-26 15:37
4
4,961 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Relax protocol details for Rosetta 3.1
by Matthys » Sun, 2012-01-15 10:00
4
3,840 by rmoretti
Mon, 2014-04-21 06:47
Normal topic [Mover] is not known to the MoverFactory
by Jhreed » Fri, 2016-08-05 12:23
4
3,546 by msardejani
Sun, 2016-08-07 17:49
Normal topic Can I compare binding affinity of different ligands using Rosetta?
by zg148119@ohio.edu » Sun, 2020-12-06 11:30
4
2,315 by nannemdp
Fri, 2021-02-05 06:49
Normal topic Using rosetta 3 to make a fragment library and then use it to model loop of a protein structure
by bharat_46010 » Sun, 2011-01-23 05:22
4
6,586 by dgront
Mon, 2014-04-21 06:47
Normal topic pepspec aplication - segmentation fault
by tiagogomes89 » Fri, 2011-09-02 11:18
4
3,666 by smlewis
Mon, 2014-04-21 06:47
Normal topic how to do cluster after low resolution protein-protein docking?
by albumns » Sat, 2010-11-27 01:17
4
3,899 by albumns
Mon, 2014-04-21 06:47
Normal topic rs filter for terms in .sc files
by gw » Sat, 2012-08-18 16:20
4
4,123 by gw
Mon, 2014-04-21 06:47
Normal topic problem parsing a THR residue
by decrSTL » Wed, 2019-08-21 12:25
4
2,174 by decrSTL
Tue, 2019-08-27 10:24
Normal topic Problems installing Rosetta
by S » Fri, 2010-09-03 01:04
4
5,508 by abdullah_ahmed
Mon, 2014-04-21 06:47
Normal topic multiple cst files
by logandonaldson » Wed, 2013-03-20 12:16
4
3,820 by logandonaldson
Mon, 2014-04-21 06:47
Normal topic Iterative local rebuilding vs automated structure refinement
by ahmadkhalifa » Fri, 2018-09-14 07:44
4
2,798 by rmoretti
Wed, 2018-11-21 14:11
Normal topic How can move peptide on cleft of enzyme on Flexpepdock?
by phanvy » Thu, 2014-06-05 02:22
4
3,877 by zaldini
Fri, 2015-01-02 05:38
Normal topic Problem with the -dock_ppk flag
by lzx32 » Sat, 2011-04-30 00:21
4
4,143 by lzx32
Mon, 2014-04-21 06:47
Normal topic rosetta 3.1 recognizes PO4 group in dockinglocalrefine option?
by nilkoeg » Thu, 2011-03-10 23:19
4
4,736 by nilkoeg
Mon, 2014-04-21 06:47
Normal topic Random seed confusion
by pardave » Mon, 2012-11-12 09:45
4
4,085 by pardave
Mon, 2014-04-21 06:47
Normal topic RosettaCM rename or swap the order of sequences in your alignment file
by ahmadkhalifa » Fri, 2017-12-22 08:42
4
3,021 by rmoretti
Mon, 2018-01-15 15:24
Normal topic C-term amidation
by tttt » Tue, 2021-03-02 07:46
4
1,916 by tatsiana.bylund
Mon, 2022-01-24 07:58
Normal topic ERROR: Unable to open weights/patch file
by peony » Sun, 2013-11-17 02:49
4
6,706 by rmoretti
Tue, 2019-07-09 10:29
Normal topic Unrecognised resiudues when rescoring PDB files generated by enzyme_design under MPI
by linucks » Tue, 2018-02-13 03:41
4
3,285 by linucks
Fri, 2018-02-23 08:08
Normal topic how to keep native structure when do loop modeling
by zlni » Sun, 2009-05-03 10:12
4
3,569 by zlni
Mon, 2014-04-21 06:47
Normal topic Ab initio structure prediction for long amino acid sequence
by maruhuang » Fri, 2019-08-02 03:38
4
2,220 by maruhuang
Thu, 2019-09-26 18:55
Normal topic Enzyme Design
by bharat_46010 » Tue, 2014-11-25 23:55
4
5,179 by bharat_46010
Mon, 2014-12-15 20:51
Normal topic RNA Parameter File
by hdavis9 » Tue, 2010-07-06 11:36
4
3,362 by smlewis
Mon, 2014-04-21 06:47
Normal topic The vall.jul19.2011.gz Database
by ac.research » Fri, 2017-09-01 02:29
4
3,742 by ac.research
Mon, 2017-09-04 16:43
Normal topic Does a negative Rosetta dG imply a favorable process?
by cossio » Tue, 2014-12-09 05:13
4
3,954 by lanselibai
Tue, 2014-12-16 10:48
Normal topic membrane protein packing prediction
by djpittdj » Fri, 2012-01-13 08:55
4
3,646 by pardave
Mon, 2014-04-21 06:47
Normal topic How to automatically position new peptides into the binding site of a enzime, in order to run peptide-protein docking approaches
by zaldini » Fri, 2015-01-02 05:53
4
3,897 by zaldini
Wed, 2015-01-07 20:35
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