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Rosetta 3 - General

Topic / Topic starter Repliessort descending Views Last post
Normal topic Evaluating energies on non-standard rotamer set
by pachecoj » Sat, 2014-07-26 16:27
5
2,872 by pachecoj
Sat, 2014-08-09 06:33
Normal topic Efficient implementation of MPI with protein design programs
by zachdebruine » Thu, 2018-06-28 10:41
5
1,799 by smlewis
Tue, 2018-07-03 11:22
Normal topic RosettaMatch
by jtmacd » Wed, 2012-01-11 06:50
5
6,385 by jtmacd
Mon, 2014-04-21 06:47
Normal topic P(Res | phi,psi )
by jadolfbr » Thu, 2011-07-21 08:49
5
2,950 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic industrial example of ROSETTA modeled protein
by banshee » Sat, 2016-04-23 23:40
5
2,852 by banshee
Tue, 2016-04-26 00:47
Normal topic Interface rmsd calculation Irms
by mahajanr » Wed, 2010-07-07 18:24
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5,104 by mahajanr
Mon, 2014-04-21 06:47
Normal topic How to extract specific pdb from silent files
by eunwook » Tue, 2013-05-14 05:29
5
10,225 by nawsad
Mon, 2014-04-21 06:47
Normal topic nr.fasta
by silvia » Wed, 2013-01-23 10:08
5
7,667 by dgront
Mon, 2014-04-21 06:47
Normal topic scoring models
by peony » Fri, 2013-12-06 02:45
5
3,534 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Minimization Issue: Coarse Graining to All atom modeling
by abolia » Tue, 2015-04-28 10:52
5
3,089 by rmoretti
Tue, 2015-05-05 14:31
Normal topic Cannot use SimpleMetrics
by Vedasheersh » Sun, 2018-06-10 23:38
5
1,576 by smlewis
Tue, 2018-06-12 10:54
Normal topic demos/public/ideal_proteins Segmentation fault
by coomteng@gmail.com » Wed, 2018-03-07 00:15
5
1,761 by rmoretti
Thu, 2018-03-08 07:46
Normal topic Error running snugdock
by SenyorDrew » Tue, 2017-03-14 10:00
5
2,310 by SenyorDrew
Wed, 2017-03-29 06:40
Normal topic protocols.jd2.JobDistributor: [ ERROR ]
by johnnytam100 » Thu, 2019-04-11 09:30
5
1,404 by jadolfbr
Tue, 2019-04-16 09:15
Normal topic Robetta fragments and silent.out-file
by masterofpuppets » Wed, 2015-01-07 04:28
5
4,042 by masterofpuppets
Tue, 2015-02-10 03:15
Normal topic Rosetta repacking output
by doranhen » Mon, 2012-12-03 03:44
5
3,679 by doranhen
Mon, 2014-04-21 06:47
Normal topic Chain specific flags
by helenah » Mon, 2020-10-19 03:31
5
265 by rmoretti
Fri, 2020-11-06 08:04
Normal topic Docking double-stranded DNA to a protein
by xpzhang » Tue, 2012-01-31 12:35
5
6,531 by xpzhang
Mon, 2014-04-21 06:47
Normal topic Unrecognized residue Glc
by cgautier » Tue, 2015-03-31 02:20
5
3,684 by rmoretti
Thu, 2015-04-16 10:09
Normal topic Modeling only part of the protein structure using ROSETTA
by qiongwu » Fri, 2009-05-29 09:08
5
2,644 by smlewis
Mon, 2014-04-21 06:47
Normal topic Encouraging better packing in enzyme_design
by linucks » Thu, 2018-03-01 07:05
5
2,501 by linucks
Wed, 2018-04-25 08:50
Normal topic Produces a set of rotamers from a given residue
by a-eatemadi@razi... » Tue, 2017-08-15 08:05
5
2,338 by a-eatemadi@razi...
Fri, 2017-09-15 07:45
Normal topic segmentation fault when using design_hpatch scoring function
by rbjacob » Mon, 2018-04-09 11:05
5
1,483 by smlewis
Wed, 2018-04-11 11:45
Normal topic defining interface in interface analyzer
by aa20 » Fri, 2013-09-27 11:08
5
4,141 by smlewis
Mon, 2014-04-21 06:48
Normal topic dun10
by jadolfbr » Thu, 2012-01-19 12:16
5
3,268 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic ClusterApp hogs way too much memory...
by IgaK » Tue, 2009-09-29 00:14
5
2,640 by w107kdk
Mon, 2014-04-21 06:47
Normal topic Error when using RabD with a nanobody.
by zhangying1990 » Mon, 2018-12-17 04:40
5
1,504 by jadolfbr
Mon, 2019-01-28 08:46
Normal topic Resfile for fixed backbone design
by dyq » Wed, 2009-10-07 10:50
5
3,030 by attesor
Mon, 2014-04-21 06:47
Normal topic Scoring Electrostatics
by aroop » Tue, 2012-08-07 11:41
5
3,385 by aroop
Mon, 2014-04-21 06:47
Normal topic modeling residues with covalent ligand attachments
by sid » Fri, 2011-04-15 09:16
5
5,080 by rmoretti
Fri, 2015-07-03 14:02
Normal topic Error_fragment_generation
by Payal Chatterjee » Fri, 2016-02-12 12:11
5
3,542 by Payal Chatterjee
Wed, 2016-02-24 10:35
Normal topic Rosetta Antibody Prepack - Problem HL_A vs. LH_A
by cannond » Fri, 2017-03-03 02:41
5
2,601 by cannond
Wed, 2017-03-08 03:00
Normal topic Loop modeling with ligand in the receptor
by cno » Mon, 2010-12-13 14:07
5
4,340 by smlewis
Mon, 2014-04-21 06:47
Normal topic questions about ab init membrane protein
by albumns » Mon, 2011-02-07 01:09
5
3,288 by zeynep
Mon, 2014-04-21 06:47
Normal topic calculate RMSD (RNA modelling)
by obdulia » Tue, 2016-07-05 01:58
5
3,301 by obdulia
Wed, 2016-07-13 09:11
Normal topic uninstalling or rebuilding rosetta
by rlwoltz » Thu, 2013-04-11 11:45
5
4,826 by rlwoltz
Mon, 2014-04-21 06:47
Normal topic ab inito memberane error
by albumns » Mon, 2011-02-14 10:58
5
5,388 by albumns
Mon, 2014-04-21 06:47
Normal topic Relax protocoll short pdb of AAA petide
by knutjbj » Wed, 2011-01-26 05:01
5
2,900 by smlewis
Mon, 2014-04-21 06:47
Normal topic About align hundreds of pdb structures produced by rosseta membrane abinitio
by ritacc18 » Wed, 2013-05-22 12:37
5
4,096 by ssrb
Tue, 2015-09-22 08:35
Normal topic RosettaDock decoys recoring with ZRANK
by cheyuk » Fri, 2014-04-11 01:40
5
5,217 by rmoretti
Thu, 2016-04-28 15:53
Normal topic De novo Protein Design
by ac.research » Sat, 2017-07-15 10:39
5
4,486 by rmoretti
Mon, 2017-08-14 09:06
Normal topic Reading FE from 2PAH
by jadolfbr » Tue, 2013-01-29 16:10
5
4,151 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Can i start again the job ?
by byin » Thu, 2011-09-15 01:19
6
3,247 by byin
Mon, 2014-04-21 06:47
Normal topic Cannot run binaries after successful compilation
by ac.research » Mon, 2017-08-14 02:56
6
3,259 by ac.research
Fri, 2017-08-18 00:57
Normal topic dG_separated threshold for identifying non-binding peptides with InterfaceAnalyzer.
by jyotisutar9 » Thu, 2016-12-01 00:39
6
2,690 by jyotisutar9
Wed, 2016-12-14 09:39
Normal topic distances definition in course-grained (centroid mode) steps
by allan.ferrari » Tue, 2017-01-03 05:15
6
2,778 by allan.ferrari
Tue, 2017-01-03 11:15
Normal topic What's a good application to thread a sequence over a peptide (of a peptide-protein complex) and minimize?
by brspurri » Tue, 2013-02-12 08:19
6
4,773 by smlewis
Mon, 2014-04-21 06:47
Normal topic The design of a helical peptide
by Jacob-kong » Tue, 2012-06-26 06:26
6
5,477 by Jacob-kong
Mon, 2014-04-21 06:47
Normal topic is it possible to ab initio only a part of a protein?
by albumns » Sun, 2011-02-13 08:10
6
2,724 by albumns
Mon, 2014-04-21 06:47
Normal topic pdb files in Rosetta format
by zhisheng » Mon, 2011-10-31 08:52
6
4,757 by smlewis
Mon, 2014-04-21 06:47
Normal topic Don't want to output the design structure
by Lindsay » Wed, 2012-05-02 08:02
6
3,205 by Anonymous
Mon, 2014-04-21 06:47
Normal topic Atomic refinement with fixed ligand
by ahmadkhalifa » Tue, 2018-07-24 10:41
6
1,943 by rmoretti
Mon, 2018-08-20 11:45
Normal topic Rosetta CM incorrect threading
by ahmadkhalifa » Mon, 2018-08-06 11:09
6
2,105 by rmoretti
Fri, 2018-08-24 11:59
Normal topic No score.sc generated after running flexpepdock.
by monos_morpheus » Sun, 2011-04-10 04:06
6
3,909 by robren
Mon, 2014-04-21 06:47
Normal topic SASA packing score in Rosetta 3.1
by enoee » Wed, 2010-07-28 01:45
6
4,312 by smlewis
Mon, 2014-04-21 06:47
Normal topic Problem With Rosetta3.3 Comparative/Loop Modeling And Constraints
by jurkm » Mon, 2011-09-12 01:01
6
3,945 by jurkm
Mon, 2014-04-21 06:47
Normal topic Linker problems when building mini
by assaff » Mon, 2009-10-12 01:07
6
2,890 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta CM - Ignore Sporadic Errors
by Swillard » Wed, 2018-06-13 05:47
6
1,877 by rmoretti
Mon, 2018-11-12 14:29
Normal topic '-norepack_disulf' flag NOT work in Ligand-protein docking ?
by darlintai » Tue, 2011-01-11 22:21
6
3,551 by smlewis
Mon, 2014-04-21 06:47
Normal topic Relax structure using Membrane Environment Scoring Function
by anna.duncan » Thu, 2010-02-04 08:01
6
5,707 by jruhym
Mon, 2014-04-21 06:47
Normal topic Energy Calculation in Rosetta3.4
by sdg_lab » Thu, 2012-04-12 04:49
6
7,468 by rmoretti
Mon, 2014-04-21 06:47
Normal topic two questions about "Prepare structures for use in Rosetta"
by Anonymous » Wed, 2012-06-06 08:13
6
3,663 by Anonymous
Mon, 2014-04-21 06:47
Normal topic ERROR: compiling rosetta3.1 with MPI
by biofisikx » Thu, 2010-08-05 16:00
6
4,269 by smlewis
Mon, 2014-04-21 06:47
Normal topic mitochondria protein modeling
by rlwoltz » Fri, 2012-10-26 14:32
6
4,291 by smlewis
Mon, 2014-04-21 06:47
Normal topic Using Patches in Rosetta
by JS » Wed, 2010-03-10 13:32
6
5,161 by JS
Mon, 2014-04-21 06:47
Normal topic what rotamer lib is used in rosetta3.5?
by Lindsay » Thu, 2014-02-06 16:11
6
3,689 by rmoretti
Fri, 2014-03-28 09:03
Normal topic how to cluster loop?
by albumns » Wed, 2011-01-05 19:48
6
4,273 by smlewis
Mon, 2014-04-21 06:47
Normal topic optH flag makes hydrogen bond energy scores worse...
by tsjain » Fri, 2012-07-13 14:04
6
4,178 by smlewis
Mon, 2014-04-21 06:47
Normal topic Native gives higher (positive) than lowest energy and clustered decoys
by tiagogomes89 » Thu, 2011-06-02 07:19
6
3,444 by rmoretti
Mon, 2014-04-21 06:47
Normal topic abinitiorelax: No funnel
by cno » Tue, 2010-07-27 06:14
6
3,125 by biofisikx
Mon, 2014-04-21 06:47
Normal topic I used mpirun/mpiexec and it runs same job 32times
by leygkn » Mon, 2020-09-21 00:53
6
417 by jadolfbr
Thu, 2020-09-24 10:04
Normal topic Memory leak when PDB preparation
by Jacky010 » Mon, 2019-05-06 01:28
6
1,240 by Jacky010
Tue, 2019-05-14 01:24
Normal topic How to run Rosetta3 in parallel
by lennylv » Mon, 2009-03-30 04:21
6
5,993 by rmoretti
Mon, 2014-04-21 06:47
Normal topic membrane ab initio error after montecarlo
by adva » Mon, 2012-12-24 01:43
6
3,736 by tevang
Mon, 2014-04-21 06:47
Normal topic Comparative Modeling databases?
by nitroamos » Wed, 2011-11-23 14:54
6
3,825 by rmoretti
Thu, 2016-04-28 16:15
Normal topic RosettaHoles
by ge0rgekh0ury » Mon, 2012-01-09 09:01
6
3,872 by Anonymous
Mon, 2014-04-21 06:47
Normal topic NR Database Download in install_dependencies.pl (for make_fragments.pl) Broken
by Jacob_Verburgt » Tue, 2020-03-10 08:58
6
1,008 by Jacob_Verburgt
Wed, 2020-03-11 05:18
Normal topic Public subversion / Enzyme design public app
by weallen » Tue, 2009-08-11 20:50
6
2,969 by weallen
Mon, 2014-04-21 06:47
Normal topic Fixed bb design with hydrogen bond constraint
by bharat_46010 » Mon, 2012-04-30 22:56
6
3,622 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to define specific residues in alascan ?
by Park » Mon, 2011-06-13 19:56
6
4,670 by smlewis
Mon, 2014-04-21 06:47
Normal topic side-chain refinement
by qlj » Wed, 2013-02-20 04:40
6
5,750 by qlj
Mon, 2014-04-21 06:47
Normal topic calculated ddG_bind converges to zero
by fukamitka » Mon, 2013-06-24 20:32
6
3,571 by fukamitka
Mon, 2014-04-21 06:48
Normal topic Give preference to native residue during fixed backbone designing
by tusharranjanmoharana » Mon, 2016-04-04 12:43
6
2,992 by rmoretti
Thu, 2016-04-28 15:19
Normal topic AbinitioRelax under different directories without -constant_seed -jran flag
by xpzhang » Wed, 2010-09-15 14:56
6
5,030 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Problem with clustering 1000 centroid pdbs
by doranhen » Sat, 2012-04-28 10:34
6
4,406 by doranhen
Mon, 2014-04-21 06:47
Normal topic Fe3p Heme Iron Unrecognized Despite Loading Hem Params
by vsjasion » Fri, 2011-09-02 10:37
6
5,342 by tigerous
Mon, 2014-04-21 06:47
Normal topic selecting pivot_residue in Backrub for ensemble generation
by rohi » Fri, 2020-08-07 15:41
6
484 by matteoferla
Tue, 2020-08-11 10:00
Normal topic modeling loops between domains
by dhorita » Thu, 2009-03-05 14:48
6
3,127 by jarod
Mon, 2014-04-21 06:47
Normal topic How do I add hydrogen atoms to my PDB file?
by monos_morpheus » Wed, 2011-03-30 03:30
6
9,214 by rmoretti
Mon, 2014-04-21 06:47
Normal topic This element is not expected.
by ac.research » Fri, 2017-10-13 03:47
6
2,798 by vmulligan
Thu, 2020-07-16 23:31
Normal topic errors while running rosetta 3.1
by isengupta13 » Tue, 2011-05-17 18:11
7
5,183 by jurkm
Mon, 2014-04-21 06:47
Normal topic ERROR READING PDB FILE
by asmi » Sat, 2011-02-26 07:23
7
5,704 by smlewis
Mon, 2014-04-21 06:47
Normal topic cutpoint error!
by monos_morpheus » Thu, 2011-04-07 08:04
7
4,893 by monos_morpheus
Mon, 2014-04-21 06:47
Normal topic how to optimize the weights?
by Lindsay » Tue, 2012-04-10 07:40
7
3,639 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Rosetta3.3 enzyme_design errors
by jtmacd » Wed, 2012-01-25 03:33
7
5,186 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Help with get_pdb.py for PDB file cleaning
by lzx32 » Mon, 2011-03-28 02:11
7
6,243 by smlewis
Mon, 2014-04-21 06:47
Normal topic Talaris score function
by nawsad » Tue, 2013-05-21 03:32
7
5,921 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Error running Abinitio relax with @flags
by samuelrpita » Mon, 2015-10-05 13:20
7
4,688 by rmoretti
Tue, 2015-10-27 09:11
Normal topic Structure refinement guided by Cryo-EM density maps
by ahmadkhalifa » Thu, 2018-03-08 08:22
7
3,194 by ahmadkhalifa
Tue, 2018-05-01 09:04
Normal topic Docking + Active Site Design
by bharat_46010 » Sat, 2014-12-13 23:04
7
5,294 by rmoretti
Wed, 2015-01-21 08:43
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