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Rosetta 3 - General

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Normal topic Homology Model gives output - but completely wrong!
by Julix » Wed, 2012-10-31 10:10
1
3,066 by rmoretti
Mon, 2014-04-21 06:47
Normal topic interpreting score values in silent output file after running abinitiorelax
by burkheadlab » Wed, 2011-03-09 15:42
3
3,067 by smlewis
Mon, 2014-04-21 06:47
Normal topic RosettaDesign Server, reproducing optimized interface conformation
by AlexanderMetz » Thu, 2012-02-09 10:41
1
3,068 by smlewis
Mon, 2014-04-21 06:47
Normal topic Error when clustering the output from a docking study
by jos » Thu, 2011-09-08 03:26
2
3,069 by jos
Mon, 2014-04-21 06:47
Normal topic Models which are not recorded (Abinitio protocol)
by allan.ferrari » Fri, 2015-08-28 13:39
3
3,079 by rmoretti
Thu, 2015-09-17 12:42
Normal topic Only 430 models are generated for membrane prediction
by justin » Wed, 2010-01-06 00:04
3
3,084 by smlewis
Mon, 2014-04-21 06:47
Normal topic What is "residue packing", "repacking", and so on?
by cossio » Wed, 2014-12-03 08:49
2
3,092 by cossio
Wed, 2014-12-03 14:51
Normal topic combine silent.out file
by venkatazb » Fri, 2016-07-22 05:22
1
3,093 by smlewis
Fri, 2016-07-22 07:31
Normal topic Is it CS-HM Rosetta restraint derivation i.e cm_scripts in Rosetta 3.3 bundles?
by nh_prt » Tue, 2013-03-26 12:22
3
3,098 by smlewis
Mon, 2014-04-21 06:47
Normal topic NOE constraints with Rosetta 3.1
by mpiuzzi » Wed, 2010-02-24 02:40
3
3,105 by mpiuzzi
Mon, 2014-04-21 06:47
Normal topic score_jd2.macosclangrelease No such file or directory
by ahmadkhalifa » Mon, 2017-11-27 09:26
3
3,110 by everyday847
Tue, 2017-11-28 13:07
Normal topic Error when running enzyme_design tutorial
by linucks » Fri, 2017-06-30 12:26
4
3,120 by linucks
Mon, 2017-07-03 09:50
Normal topic segmentation fault when using design_hpatch scoring function
by rbjacob » Mon, 2018-04-09 11:05
5
3,126 by smlewis
Wed, 2018-04-11 11:45
Normal topic Parallel computing in RosettaDock3.1?
by xhluo » Fri, 2010-09-03 02:31
3
3,127 by smlewis
Mon, 2014-04-21 06:47
Normal topic Question about homology modelling
by DmitriiN » Sun, 2016-08-21 13:44
3
3,132 by smlewis
Mon, 2016-08-22 10:28
Normal topic Cannot use SimpleMetrics
by Vedasheersh » Sun, 2018-06-10 23:38
5
3,142 by smlewis
Tue, 2018-06-12 10:54
Normal topic How to get the RMSD between two .pdb structures?
by cossio » Wed, 2014-12-03 05:33
1
3,146 by rmoretti
Wed, 2014-12-03 18:52
Normal topic positive results in total_score by symmetry docking
by Jacob » Thu, 2011-06-16 05:18
1
3,146 by rmoretti
Mon, 2014-04-21 06:47
Normal topic ERROR: PDB reader is ignoring atom
by phanvy » Wed, 2014-04-16 17:59
2
3,148 by phanvy
Mon, 2014-04-21 03:58
Normal topic the meaning of "maxsub" in score.fsc
by exchhattu » Tue, 2009-11-10 04:37
2
3,151 by smlewis
Mon, 2014-04-21 06:47
Normal topic "caught exception" for PDB with membrane "DUM" residues
by nitroamos » Wed, 2018-05-30 08:35
2
3,151 by Awagner7
Tue, 2020-04-28 10:51
Normal topic error when running beta_strand_homodimer_design
by szypanther » Sun, 2014-05-25 20:22
2
3,157 by szypanther
Mon, 2014-05-26 22:03
Normal topic fixbb and HETATM
by doranhen » Mon, 2013-01-14 07:50
2
3,159 by doranhen
Mon, 2014-04-21 06:47
Normal topic Docking 2 proteins including ligands
by einew » Tue, 2011-03-08 13:33
3
3,159 by einew
Mon, 2014-04-21 06:47
Normal topic first run of abinitio in rosetta 3.2 produces an error right away
by burkheadlab » Fri, 2011-03-04 22:50
3
3,176 by smlewis
Mon, 2014-04-21 06:47
Normal topic Error running design in 3.4
by inder » Thu, 2012-07-05 19:27
2
3,176 by inder
Mon, 2014-04-21 06:47
Normal topic Handling peptide with noncanonical aminoacids
by tigerous » Sat, 2013-12-28 17:16
1
3,177 by rmoretti
Mon, 2014-04-21 06:48
Normal topic ERROR: f.check_fold_tree
by sudhar » Mon, 2010-08-23 08:59
3
3,181 by smlewis
Mon, 2014-04-21 06:47
Normal topic Cluster gdtmm vs. rmsd
by brspurri » Thu, 2012-04-19 08:20
1
3,186 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Pairwise decomposable terms in the Rosetta energy function
by pgainza » Wed, 2011-08-03 12:26
1
3,195 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Loop Modelling: ERROR: switch_to_residue_type_set fails
by smiruthi » Wed, 2012-07-18 14:48
2
3,200 by smlewis
Mon, 2014-04-21 06:47
Normal topic backrub score different from calculated score
by attesor » Wed, 2014-04-09 07:34
3
3,200 by rmoretti
Thu, 2014-04-10 07:38
Normal topic Abinitio starts at the 27th amino acid
by JadAbbass » Thu, 2013-08-29 05:38
3
3,203 by JadAbbass
Mon, 2014-04-21 06:48
Normal topic Negative design: Can a filter call a mover in rosetta scripts?
by jgans » Sat, 2012-09-08 21:28
2
3,209 by rmoretti
Mon, 2014-04-21 06:47
Normal topic How to generate constraints of active sites from a pdb file of an enzyme
by Albert » Sun, 2013-05-26 20:07
3
3,215 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Quesition about Relax Mode
by crysta11 » Wed, 2009-10-21 09:57
3
3,216 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta numbering with missing occupancies
by ShaneOConnor » Fri, 2011-10-07 16:18
2
3,218 by ShaneOConnor
Mon, 2014-04-21 06:47
Normal topic Troubles using RigidBodyTransMover and RigidBodyPerturbMover
by alejandro » Thu, 2011-04-21 06:11
3
3,228 by alejandro
Mon, 2014-04-21 06:47
Normal topic change DOF of NH3 group in N terminus
by SergeyP » Wed, 2016-02-03 02:22
3
3,228 by SergeyP
Thu, 2016-02-04 00:07
Normal topic Error when using RabD with a nanobody.
by zhangying1990 » Mon, 2018-12-17 04:40
5
3,238 by jadolfbr
Mon, 2019-01-28 08:46
Normal topic Rosetta can't handle symmetric fold and dock for >10-subunit protein?
by myang » Mon, 2011-09-26 11:52
3
3,241 by IAndre
Mon, 2014-04-21 06:47
Normal topic DomainAssembly Mover with constraints (using RosettaScripts)
by resiros » Wed, 2016-09-21 11:19
3
3,244 by rmoretti
Mon, 2016-11-14 14:21
Normal topic Fix missing backbone residues
by Matthys » Mon, 2010-05-03 09:03
2
3,250 by Matthys
Mon, 2014-04-21 06:47
Normal topic homo-oligomeric proteins.............folddock+symmetry+abinito
by anusmita_sahoo » Thu, 2010-04-29 02:59
2
3,252 by biofisikx
Mon, 2014-04-21 06:47
Normal topic what option should I use if I want to use the dfire in 3.4
by Lindsay » Thu, 2012-04-12 05:19
3
3,255 by smlewis
Mon, 2014-04-21 06:47
Normal topic Comparison between two fragment pickers
by qlj » Mon, 2013-09-02 06:34
3
3,255 by rmoretti
Mon, 2014-04-21 06:48
Normal topic symmetric Docking- TRIMER in Rosetta 3.4 ?
by sdg_lab » Thu, 2012-04-12 04:22
1
3,264 by rmoretti
Mon, 2014-04-21 06:47
Normal topic demos/public/ideal_proteins Segmentation fault
by coomteng@gmail.com » Wed, 2018-03-07 00:15
5
3,266 by rmoretti
Thu, 2018-03-08 07:46
Normal topic secondary structure prediction for generation of fragment libraries
by xpzhang » Sat, 2011-06-25 00:47
1
3,273 by smlewis
Mon, 2014-04-21 06:47
Normal topic Problems with output control
by Sunyp_IM » Thu, 2017-06-22 15:30
3
3,283 by rmoretti
Wed, 2017-06-28 01:33
Normal topic The following options have been set but have not yet been used
by jrcf » Fri, 2015-10-09 10:48
2
3,290 by jrcf
Fri, 2015-10-16 10:57
Normal topic RosettaHoles?
by kbala » Thu, 2009-07-30 16:52
3
3,295 by smlewis
Mon, 2014-04-21 06:47
Normal topic Homology modeling
by mchldln » Mon, 2009-08-17 13:04
2
3,301 by smlewis
Mon, 2014-04-21 06:47
Normal topic dna_denovo
by frits » Fri, 2013-07-12 06:12
3
3,310 by frits
Mon, 2014-04-21 06:48
Normal topic calculate low-resolution total docking score for a input pdb
by jasnyderjr » Fri, 2015-12-11 23:08
3
3,312 by rmoretti
Wed, 2015-12-16 11:22
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
3,315 by smlewis
Mon, 2014-04-21 06:47
Normal topic Adding new files using rosetta classes went wrong
by Jeremy1990 » Sun, 2015-04-26 01:07
3
3,318 by rmoretti
Thu, 2015-04-30 16:09
Normal topic Simple FoldTree Question
by gipsonb » Wed, 2012-04-25 18:19
3
3,318 by gipsonb
Mon, 2014-04-21 06:47
Normal topic Hbond tripped
by alejandro » Mon, 2011-11-21 04:17
3
3,319 by alejandro
Mon, 2014-04-21 06:47
Normal topic Successful installation on OpenSuse11.1 - tests?
by zharmad » Thu, 2010-08-19 00:30
4
3,319 by zharmad
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
3,320 by smlewis
Mon, 2014-04-21 06:47
Normal topic Memory leak when PDB preparation
by Jacky010 » Mon, 2019-05-06 01:28
6
3,321 by Jacky010
Tue, 2019-05-14 01:24
Normal topic I got the message "ERROR: Residue names must be unique!".
by monos_morpheus » Sun, 2011-02-06 03:55
2
3,322 by monos_morpheus
Mon, 2014-04-21 06:47
Normal topic make_fragments
by sumukh21 » Wed, 2011-02-23 09:29
3
3,327 by sumukh21
Mon, 2014-04-21 06:47
Normal topic Library of unnatural amino acid parameters
by saxen » Mon, 2017-04-17 11:08
1
3,328 by smlewis
Tue, 2017-04-18 08:33
Normal topic ERROR: unrecognized atomtype property VIRTUAL
by harshkhare » Mon, 2011-11-14 09:40
3
3,329 by harshkhare
Mon, 2014-04-21 06:47
Normal topic Errors in scorefiles after running Design
by Jhreed » Tue, 2016-03-29 10:25
4
3,333 by smlewis
Wed, 2016-03-30 09:52
Normal topic AtomPair and SPLINE
by attesor » Sat, 2015-06-20 11:42
2
3,336 by attesor
Thu, 2015-10-22 03:42
Normal topic mutate residue at termini
by jarek » Fri, 2013-09-13 09:24
2
3,340 by jarek
Mon, 2014-04-21 06:48
Normal topic how to keep modeling ignored ERROR?
by eunwook » Sat, 2013-04-27 05:44
3
3,341 by eunwook
Mon, 2014-04-21 06:47
Normal topic Information about “membrane_highres_Menv_smooth.wts”
by Groros » Sun, 2011-10-02 03:59
3
3,352 by smlewis
Mon, 2014-04-21 06:47
Normal topic build parallel version of Rosetta
by atfrank » Tue, 2009-10-06 22:33
2
3,354 by smlewis
Mon, 2014-04-21 06:47
Normal topic span and frags filefor multichain transmembrane protein
by zhiguang » Wed, 2016-10-26 13:28
4
3,368 by zhiguang
Tue, 2016-11-15 12:27
Normal topic -loops:refine_repack_cycles option not accepted by loopmodel.linuxgccrelease
by tsjain » Tue, 2013-02-05 18:47
3
3,371 by tsjain
Mon, 2014-04-21 06:47
Normal topic Unrecognised resiudues when rescoring PDB files generated by enzyme_design under MPI
by linucks » Tue, 2018-02-13 03:41
4
3,374 by linucks
Fri, 2018-02-23 08:08
Normal topic RNA Parameter File
by hdavis9 » Tue, 2010-07-06 11:36
4
3,401 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to allow rosetta to recognize the ASP and protonated ASP?
by Jeffrey_Chen » Mon, 2014-03-24 20:34
2
3,403 by Jeffrey_Chen
Tue, 2014-03-25 23:06
Normal topic Rosetta Holes and Packstat scoring
by nick.polizzi » Fri, 2013-08-02 09:06
1
3,404 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Basic help with Protein-DNA and Protein-Protein modeling and engineering
by Robert Evans » Sat, 2013-08-17 12:21
2
3,407 by Robert Evans
Mon, 2014-04-21 06:48
Normal topic energy units
by jtmacd » Mon, 2009-07-06 10:39
1
3,411 by smlewis
Mon, 2014-04-21 06:47
Normal topic The question about  protonation of Rosetta
by asbelx » Tue, 2017-12-19 05:44
3
3,441 by rmoretti
Mon, 2018-01-15 15:34
Normal topic Rigid Body & Flexible Minimization
by Hanieh » Thu, 2014-02-06 12:37
2
3,464 by Hanieh
Fri, 2014-02-28 12:43
Normal topic manually changing fixbb residue ref energies
by jtmacd » Wed, 2009-11-25 08:43
4
3,466 by jtmacd
Mon, 2014-04-21 06:47
Normal topic loop design
by varma » Sun, 2012-11-04 21:25
2
3,467 by varma
Mon, 2014-04-21 06:47
Normal topic Fold tree error
by mansi » Tue, 2010-05-18 07:43
2
3,477 by mansi
Mon, 2014-04-21 06:47
Normal topic loop modeling
by isengupta13 » Wed, 2011-06-01 15:00
3
3,480 by smlewis
Mon, 2014-04-21 06:47
Normal topic NC atom type [Solved]
by franfdez » Tue, 2012-02-07 16:05
3
3,483 by franfdez
Mon, 2014-04-21 06:47
Normal topic force point mutation with fixbb
by Anonymous » Wed, 2012-06-13 09:15
3
3,489 by smlewis
Mon, 2014-04-21 06:47
Normal topic Antibody Homology Modeling - Antibody vs. Antibody_legacy
by cannond » Tue, 2017-02-14 05:53
4
3,494 by cannond
Wed, 2017-03-01 08:05
Normal topic Error Atom_::dihedral_between_bonded_children
by abiadak » Mon, 2012-07-30 06:34
2
3,506 by abiadak
Mon, 2014-04-21 06:47
Normal topic error--rosetta fragment‐based refinement protocol for refinement against EM density
by gsuchunli » Thu, 2016-06-30 11:06
2
3,519 by rmoretti
Tue, 2016-07-12 08:18
Normal topic spline constraint
by jadolfbr » Mon, 2012-06-25 04:43
3
3,527 by smlewis
Mon, 2014-04-21 06:47
Normal topic Error when running "plot_LHOC.py"
by Sunyp_IM » Sun, 2017-08-13 05:54
5
3,536 by smlewis
Wed, 2017-08-16 08:30
Normal topic Cluster gdtmm vs. rmsd
by brspurri » Thu, 2012-04-19 08:19
2
3,539 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Adding noncanonical amino acid (PCA) to Rosetta 3
by JuliusSu » Fri, 2014-08-01 11:23
2
3,542 by JuliusSu
Fri, 2014-08-08 02:07
Normal topic Modeling protonated histidine
by SenyorDrew » Mon, 2016-07-18 07:34
3
3,543 by matteoferla
Sat, 2017-08-05 07:18
Normal topic protocols.jd2.JobDistributor: [ ERROR ]
by johnnytam100 » Thu, 2019-04-11 09:30
5
3,552 by jadolfbr
Tue, 2019-04-16 09:15
Normal topic Efficient implementation of MPI with protein design programs
by zachdebruine » Thu, 2018-06-28 10:41
5
3,555 by smlewis
Tue, 2018-07-03 11:22
Normal topic Structure Prediction: Max Sequence Length?
by jcsaborio » Tue, 2009-07-14 12:10
2
3,558 by jcsaborio
Mon, 2014-04-21 06:47
Normal topic Calling a Rosetta xml script in a Python script gives fail to validate error
by ahmadkhalifa » Tue, 2018-03-06 08:00
3
3,560 by rmoretti
Mon, 2018-03-19 12:35
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