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Rosetta 3 - General

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Normal topic acceptable RMSD value in the clustered structures?
by ritacc18 » Wed, 2013-06-19 14:53
3
7,668 by rmoretti
Mon, 2014-04-21 06:48
Normal topic error during docking
by zhisheng » Thu, 2012-02-02 12:10
10
7,655 by smlewis
Mon, 2014-04-21 06:47
Normal topic Why are all source codes .gz and not .tgz
by jasnyderjr » Tue, 2016-12-20 21:23
12
7,650 by smlewis
Thu, 2016-12-22 13:11
Normal topic Can Fold-and-dock protocol applied to membrane proteins
by justin » Thu, 2011-07-21 00:14
9
7,634 by wangyr
Mon, 2014-04-21 06:47
Normal topic hydrophobicity patch
by Lindsay » Fri, 2012-05-04 08:24
7
7,457 by Lindsay
Mon, 2014-04-21 06:47
Normal topic what is "-relax:sequence" ?
by Anonymous » Fri, 2012-06-08 06:31
10
7,405 by smlewis
Mon, 2014-04-21 06:47
Normal topic input_score_filter not taken by program cluster ?
by Anonymous » Mon, 2012-06-11 09:14
9
7,401 by attesor
Fri, 2014-10-31 04:49
Normal topic Talaris score function
by nawsad » Tue, 2013-05-21 03:32
7
7,400 by rmoretti
Mon, 2014-04-21 06:47
Normal topic side-chain refinement
by qlj » Wed, 2013-02-20 04:40
6
7,311 by qlj
Mon, 2014-04-21 06:47
Normal topic ERROR READING PDB FILE
by asmi » Sat, 2011-02-26 07:23
7
7,276 by smlewis
Mon, 2014-04-21 06:47
Normal topic Using D-amino acids in Rosetta docking
by moehle » Wed, 2011-06-01 00:49
7
7,276 by moehle
Mon, 2014-04-21 06:47
Normal topic Re: Protein-RNA interface design
by bharat_46010 » Tue, 2015-04-07 04:44
9
7,256 by rmoretti
Mon, 2015-06-01 15:27
Normal topic Loop Modeling with fixed backbone
by bharat_46010 » Mon, 2011-12-19 05:20
9
7,124 by bharat_46010
Mon, 2014-04-21 06:47
Normal topic Resfile
by vijayaraj81 » Thu, 2014-02-27 01:14
8
7,096 by vijayaraj81
Tue, 2014-03-04 05:07
Normal topic B1_SampleSegment1.sh from RosettaES tutorial crashes
by ab » Tue, 2017-07-04 08:42
12
7,042 by brandon.frenz
Sat, 2017-07-08 13:49
Normal topic using constraints with AbinitioRelax (Rosetta 3.1)
by ndousis » Fri, 2009-12-18 08:56
8
7,039 by ndousis
Mon, 2014-04-21 06:47
Normal topic pNNMAKE compilation
by adva » Sun, 2012-12-02 03:59
10
7,027 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
6,984 by Jacob-kong
Mon, 2014-04-21 06:47
Normal topic Docking + Active Site Design
by bharat_46010 » Sat, 2014-12-13 23:04
7
6,933 by rmoretti
Wed, 2015-01-21 08:43
Normal topic Relax structure using Membrane Environment Scoring Function
by anna.duncan » Thu, 2010-02-04 08:01
6
6,873 by jruhym
Mon, 2014-04-21 06:47
Normal topic kinematic loop modeling/sequence design keeps crashing with segmentation fault
by banshee » Thu, 2013-03-28 09:52
8
6,859 by smlewis
Mon, 2014-04-21 06:47
Normal topic ab inito memberane error
by albumns » Mon, 2011-02-14 10:58
5
6,847 by albumns
Mon, 2014-04-21 06:47
Normal topic is it possible to generate models without hydrogen?
by albumns » Fri, 2012-03-02 12:24
9
6,822 by albumns
Mon, 2014-04-21 06:47
Normal topic Using Patches in Rosetta
by JS » Wed, 2010-03-10 13:32
6
6,813 by JS
Mon, 2014-04-21 06:47
Normal topic Clustering using an disrupted run silent file
by PaulaBanks » Mon, 2013-07-15 02:19
9
6,772 by rmoretti
Wed, 2014-09-24 09:57
Normal topic Debugging Rosetta under XCode
by sacch » Sun, 2011-10-16 18:23
8
6,734 by sacch
Mon, 2014-04-21 06:47
Normal topic Rosetta3.3 enzyme_design errors
by jtmacd » Wed, 2012-01-25 03:33
7
6,717 by rmoretti
Mon, 2014-04-21 06:47
Normal topic RosettaDock decoys recoring with ZRANK
by cheyuk » Fri, 2014-04-11 01:40
5
6,699 by rmoretti
Thu, 2016-04-28 15:53
Normal topic Looking for a pdb....
by MarkW » Mon, 2014-10-13 15:45
8
6,682 by rmoretti
Mon, 2014-11-03 16:30
Normal topic how to transfer the rosetta score to physical unit?
by Lindsay » Thu, 2012-06-28 09:33
7
6,648 by Lindsay
Mon, 2014-04-21 06:47
Normal topic De novo Protein Design
by ac.research » Sat, 2017-07-15 10:39
5
6,630 by rmoretti
Mon, 2017-08-14 09:06
Normal topic errors while running rosetta 3.1
by isengupta13 » Tue, 2011-05-17 18:11
7
6,615 by jurkm
Mon, 2014-04-21 06:47
Normal topic modeling residues with covalent ligand attachments
by sid » Fri, 2011-04-15 09:16
5
6,587 by rmoretti
Fri, 2015-07-03 14:02
Normal topic Interface rmsd calculation Irms
by mahajanr » Wed, 2010-07-07 18:24
5
6,560 by mahajanr
Mon, 2014-04-21 06:47
Normal topic Relax Refinement for complecated targets
by jiongzhang » Fri, 2012-01-20 09:57
10
6,509 by jiongzhang
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
6,496 by tigerous
Mon, 2014-04-21 06:47
Normal topic Error running Abinitio relax with @flags
by samuelrpita » Mon, 2015-10-05 13:20
7
6,464 by rmoretti
Tue, 2015-10-27 09:11
Normal topic ERROR: Assertion Fdensity.u2 and Fdensity.u3 failed
by ahmadkhalifa » Wed, 2017-12-06 07:38
13
6,410 by brandon.frenz
Thu, 2018-03-08 09:28
Normal topic uninstalling or rebuilding rosetta
by rlwoltz » Thu, 2013-04-11 11:45
5
6,387 by rlwoltz
Mon, 2014-04-21 06:47
Normal topic Rosetta3 Tutorials Beta Release
by smlewis » Fri, 2011-08-19 13:35
7
6,375 by smlewis
Mon, 2014-04-21 06:47
Normal topic AbinitioRelax under different directories without -constant_seed -jran flag
by xpzhang » Wed, 2010-09-15 14:56
6
6,360 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Problems with "pdb_renumber.py" in tutorial Advanced Protein-Protein Docking
by Sunyp_IM » Sun, 2017-06-25 02:40
9
6,355 by ac.research
Mon, 2018-05-14 10:20
Normal topic Energy calculation for protein design
by Filipe » Sat, 2011-11-26 15:01
4
6,340 by Filipe
Mon, 2014-04-21 06:47
Normal topic ERROR: Unable to open weights/patch file
by peony » Sun, 2013-11-17 02:49
4
6,311 by rmoretti
Tue, 2019-07-09 10:29
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
6,308 by dgront
Mon, 2014-04-21 06:47
Normal topic cutpoint error!
by monos_morpheus » Thu, 2011-04-07 08:04
7
6,265 by monos_morpheus
Mon, 2014-04-21 06:47
Normal topic Every thing Ok in PC end Error on Server
by jrcf » Tue, 2016-03-22 07:21
8
6,226 by jrcf
Wed, 2016-03-23 12:16
Normal topic What is the general protocol for antibody-antigen docking without the native antibody-antigen structures?
by Sunyp_IM » Sun, 2017-08-13 05:42
11
6,209 by smlewis
Tue, 2017-08-29 08:56
Normal topic extraction of pdbs from silent.out files on Mac
by pramod » Tue, 2014-01-07 11:43
5
6,157 by rmoretti
Mon, 2014-04-21 06:48
Normal topic building a 77 aa long protein fragment
by tevang » Sat, 2010-02-20 11:37
8
6,131 by gsmurphy
Mon, 2014-04-21 06:47
Normal topic pdb files in Rosetta format
by zhisheng » Mon, 2011-10-31 08:52
6
6,101 by smlewis
Mon, 2014-04-21 06:47
Normal topic RosettaVIP
by nick.polizzi » Tue, 2013-08-06 15:13
8
6,073 by rmoretti
Mon, 2014-04-21 06:48
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
6,026 by smlewis
Mon, 2014-04-21 06:47
Normal topic cluster pdb structures questions
by ritacc18 » Thu, 2013-03-28 19:20
5
6,007 by ritacc18
Mon, 2014-04-21 06:47
Normal topic How to define specific residues in alascan ?
by Park » Mon, 2011-06-13 19:56
6
5,967 by smlewis
Mon, 2014-04-21 06:47
Normal topic InterfaceAnalyzer packstat score = 0.000
by vmc99 » Fri, 2018-11-16 11:30
11
5,964 by SenyorDrew
Wed, 2019-06-12 14:10
Normal topic I am a beginner in rosetta software and need help to build params file
by nais » Fri, 2011-03-18 13:37
3
5,947 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Reproducing Rosetta++ scoring function with Rosetta 3?
by JuliusSu » Mon, 2014-03-17 21:15
7
5,882 by JuliusSu
Wed, 2014-03-19 20:38
Normal topic A question about Multiple constraints
by kxiao » Mon, 2014-06-16 07:02
7
5,853 by masterofpuppets
Fri, 2014-12-19 08:30
Normal topic What is a "silent file"?
by lanselibai » Mon, 2014-09-22 02:43
2
5,828 by lanselibai
Mon, 2014-09-22 08:13
Normal topic rerun same experiment on MPI.
by exchhattu » Tue, 2010-02-23 21:14
7
5,792 by exchhattu
Mon, 2014-04-21 06:47
Normal topic How does one prevent Rosetta from connecting two separate chains?
by jhbrown » Thu, 2011-12-15 14:08
7
5,746 by Anonymous
Mon, 2014-04-21 06:47
Normal topic ERROR: Unused "free" argument specified: GDP.fa.tors
by ahmadkhalifa » Fri, 2018-06-15 11:27
10
5,735 by smlewis
Tue, 2018-06-19 09:28
Normal topic first try at relaxing a structure
by einew » Wed, 2011-01-05 11:09
4
5,669 by einew
Mon, 2014-04-21 06:47
Normal topic Error with non-canonical amino acid in SnugDock.
by sk0319 » Thu, 2016-12-29 16:12
8
5,657 by sk0319
Wed, 2017-01-11 10:52
Normal topic Loop Modeling Deletes Residues
by Julix » Wed, 2012-09-05 10:14
7
5,654 by smlewis
Mon, 2014-04-21 06:47
Normal topic mitochondria protein modeling
by rlwoltz » Fri, 2012-10-26 14:32
6
5,651 by smlewis
Mon, 2014-04-21 06:47
Normal topic Problem with clustering 1000 centroid pdbs
by doranhen » Sat, 2012-04-28 10:34
6
5,644 by doranhen
Mon, 2014-04-21 06:47
Normal topic how to use AbinitioRelax.mpi.linuxgccrelease?
by albumns » Mon, 2012-03-26 22:50
5
5,641 by smlewis
Mon, 2014-04-21 06:47
Normal topic SASA packing score in Rosetta 3.1
by enoee » Wed, 2010-07-28 01:45
6
5,632 by smlewis
Mon, 2014-04-21 06:47
Normal topic Possible Shellshock Patch problem results in no output files being written
by hazards » Wed, 2014-10-22 13:48
3
5,630 by rmoretti
Mon, 2014-11-03 16:39
Normal topic Constraints and final scoring of satisfied constraints in ab initio
by Azadeh » Tue, 2014-07-15 01:29
3
5,612 by rmoretti
Thu, 2014-07-17 09:21
Normal topic optH flag makes hydrogen bond energy scores worse...
by tsjain » Fri, 2012-07-13 14:04
6
5,551 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta Dock with MPI / PBS
by edpryor » Wed, 2012-09-05 11:04
3
5,542 by smlewis
Mon, 2014-04-21 06:47
Normal topic P-P docking with ambiguous constraints
by Anouk » Fri, 2013-11-08 11:38
5
5,525 by rmoretti
Mon, 2014-04-21 06:48
Normal topic defining interface in interface analyzer
by aa20 » Fri, 2013-09-27 11:08
5
5,524 by smlewis
Mon, 2014-04-21 06:48
Normal topic Talaris scoring function
by Lindsay » Sun, 2014-08-24 18:16
2
5,455 by AndrewLeaver-Fay
Sun, 2015-09-20 19:34
Normal topic Loop modeling with ligand in the receptor
by cno » Mon, 2010-12-13 14:07
5
5,442 by smlewis
Mon, 2014-04-21 06:47
Normal topic total energy score of the pdb structure
by Lindsay » Tue, 2012-05-01 12:14
4
5,442 by Lindsay
Mon, 2014-04-21 06:47
Normal topic Question regarding buried or exposed residues
by qlj » Fri, 2012-11-09 23:43
5
5,430 by qlj
Mon, 2014-04-21 06:47
Normal topic Cannot run binaries after successful compilation
by ac.research » Mon, 2017-08-14 02:56
6
5,418 by ac.research
Fri, 2017-08-18 00:57
Normal topic how to cluster loop?
by albumns » Wed, 2011-01-05 19:48
6
5,418 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
5,417 by ssrb
Tue, 2015-09-22 08:35
Normal topic ERROR: compiling rosetta3.1 with MPI
by biofisikx » Thu, 2010-08-05 16:00
6
5,407 by smlewis
Mon, 2014-04-21 06:47
Normal topic Using 2 non-standard residues in one run
by einew » Tue, 2011-03-08 21:24
5
5,397 by einew
Mon, 2014-04-21 06:47
Normal topic best_ifaceE.py error
by rosa » Fri, 2013-07-12 08:35
7
5,371 by rosa
Mon, 2014-04-21 06:48
Normal topic This element is not expected.
by ac.research » Fri, 2017-10-13 03:47
6
5,357 by vmulligan
Thu, 2020-07-16 23:31
Normal topic Reading FE from 2PAH
by jadolfbr » Tue, 2013-01-29 16:10
5
5,347 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Question on eval_atom_derivative function.
by Al52 » Thu, 2015-12-03 16:17
7
5,340 by rmoretti
Thu, 2016-02-04 09:29
Normal topic General Protein Folding Question
by twopint23oz » Sun, 2012-04-01 22:57
7
5,325 by smlewis
Mon, 2014-04-21 06:47
Normal topic Introduction or tutorial about RosettaMatch
by kwak » Thu, 2010-10-21 06:37
4
5,298 by kwak
Mon, 2014-04-21 06:47
Normal topic Robetta fragments and silent.out-file
by masterofpuppets » Wed, 2015-01-07 04:28
5
5,298 by masterofpuppets
Tue, 2015-02-10 03:15
Normal topic Problems installing Rosetta
by S » Fri, 2010-09-03 01:04
4
5,297 by abdullah_ahmed
Mon, 2014-04-21 06:47
Normal topic What's the unit of Rosetta energy function?
by Run » Tue, 2014-06-24 00:44
1
5,281 by rmoretti
Tue, 2014-07-01 12:45
Normal topic loop remodelling with a fixed bound DNA
by jtmacd » Thu, 2010-02-25 03:23
8
5,241 by jtmacd
Mon, 2014-04-21 06:47
Normal topic Getting an interface score from RosettaDock without docking
by rosend » Fri, 2015-12-18 14:02
3
5,209 by rosend
Fri, 2015-12-18 19:39
Normal topic Error_fragment_generation
by Payal Chatterjee » Fri, 2016-02-12 12:11
6
5,166 by G Mustafa
Fri, 2021-09-10 01:16
Normal topic Problem With Rosetta3.3 Comparative/Loop Modeling And Constraints
by jurkm » Mon, 2011-09-12 01:01
6
5,163 by jurkm
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
5,160 by lanselibai
Fri, 2014-12-12 10:27
Normal topic Is the packer aware of non canonical amino acids?
by krdav » Tue, 2016-08-16 08:16
7
5,129 by krdav
Wed, 2016-08-17 12:57
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