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Rosetta 3 - General

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Normal topic How to allow rosetta to recognize the ASP and protonated ASP?
by Jeffrey_Chen » Mon, 2014-03-24 20:34
2
2,381 by Jeffrey_Chen
Tue, 2014-03-25 23:06
Normal topic Free FSC score for validating refinement
by ahmadkhalifa » Thu, 2018-05-10 05:53
2
947 by ahmadkhalifa
Fri, 2018-06-29 07:54
Normal topic RosettaDesign
by ac.research » Sun, 2019-07-21 01:20
2
1,253 by ac.research
Sat, 2019-08-03 08:12
Normal topic Predict the N-terminal of a protein
by aliaselin » Mon, 2010-11-08 03:23
2
1,498 by smlewis
Mon, 2014-04-21 06:47
Normal topic No structure mods allowed during scoring! error
by jadolfbr » Wed, 2013-12-04 14:06
2
1,847 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic the meaning of "maxsub" in score.fsc
by exchhattu » Tue, 2009-11-10 04:37
2
2,155 by smlewis
Mon, 2014-04-21 06:47
Normal topic Add hemes to cytochrome structures
by BuddySphinx » Sun, 2018-12-16 13:46
2
677 by rmoretti
Fri, 2019-03-29 14:43
Normal topic Homology modeling
by mchldln » Mon, 2009-08-17 13:04
2
2,409 by smlewis
Mon, 2014-04-21 06:47
Normal topic Peptide building
by berk » Thu, 2015-07-30 06:53
2
1,625 by rmoretti
Thu, 2015-08-06 09:21
Normal topic generate full atom coordinates with abinitio rosetta structure prediction
by anusmita_sahoo » Tue, 2010-03-30 00:11
2
2,017 by Trentage
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
2,244 by smlewis
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
2,075 by rmoretti
Thu, 2015-09-17 12:42
Normal topic Clarify ProteinInterfaceDesign “randomness”
by tsztain » Wed, 2019-02-27 09:41
3
805 by rmoretti
Sat, 2019-03-30 12:12
Normal topic get_distances command in rosetta 3.5
by pramod » Mon, 2014-01-20 11:31
3
1,976 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Simple FoldTree Question
by gipsonb » Wed, 2012-04-25 18:19
3
2,258 by gipsonb
Mon, 2014-04-21 06:47
Normal topic Comparison between two fragment pickers
by qlj » Mon, 2013-09-02 06:34
3
2,233 by rmoretti
Mon, 2014-04-21 06:48
Normal topic rosetta on snow leopard?
by nitroamos » Thu, 2009-10-01 17:07
3
2,885 by nitroamos
Mon, 2014-04-21 06:47
Normal topic DomainAssembly Mover with constraints (using RosettaScripts)
by resiros » Wed, 2016-09-21 11:19
3
2,089 by rmoretti
Mon, 2016-11-14 14:21
Normal topic How to integrate Rosetta code to my program?
by Lsg » Tue, 2011-06-28 07:18
3
2,787 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
6,361 by rmoretti
Mon, 2014-04-21 06:48
Normal topic why energy is positive?
by albumns » Tue, 2014-12-23 00:05
3
2,419 by rmoretti
Mon, 2015-02-09 11:21
Normal topic Silent Files
by ctaylor » Tue, 2009-12-22 09:22
3
1,855 by smlewis
Mon, 2014-04-21 06:47
Normal topic what is 05.2009 ideal coordinates
by Lindsay » Tue, 2014-09-23 20:36
3
1,915 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
1,353 by aaxx
Wed, 2019-11-06 01:44
Normal topic I got so many atoms in one residue
by ylwang » Tue, 2020-03-24 04:40
3
372 by ylwang
Tue, 2020-03-24 19:35
Normal topic Rosetta Dock with MPI / PBS
by edpryor » Wed, 2012-09-05 11:04
3
4,395 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
2,030 by rmoretti
Sun, 2015-07-05 14:28
Normal topic make_fragments
by sumukh21 » Wed, 2011-02-23 09:29
3
2,248 by sumukh21
Mon, 2014-04-21 06:47
Normal topic Problem with HETATM entries in PDB file
by asmi » Fri, 2011-05-20 10:17
3
3,793 by smlewis
Mon, 2014-04-21 06:47
Normal topic Problems with output control
by Sunyp_IM » Thu, 2017-06-22 15:30
3
1,649 by rmoretti
Wed, 2017-06-28 01:33
Normal topic InterfaceAnalyzer total score = 0.000
by vmc99 » Wed, 2019-06-12 14:06
3
887 by jadolfbr
Wed, 2019-06-12 20:17
Normal topic how build (N-terminal 17 residues) structre /fragment file generation
by venkatazb » Wed, 2016-07-27 23:56
3
1,809 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
1,441 by SenyorDrew
Mon, 2017-11-13 11:44
Normal topic How to make a resfile
by dflaher » Fri, 2017-11-03 10:26
3
1,715 by smlewis
Wed, 2017-11-08 12:08
Normal topic backrub score different from calculated score
by attesor » Wed, 2014-04-09 07:34
3
2,055 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
1,307 by rmoretti
Thu, 2017-08-03 08:50
Normal topic Protein folding using Monte Carlo derived techniques and implicit solvation
by hefeweizen » Tue, 2013-12-10 06:30
3
2,455 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Molecular oxygen
by matteoferla » Sat, 2018-02-24 06:05
3
1,320 by matteoferla
Mon, 2018-02-26 02:05
Normal topic first run of abinitio in rosetta 3.2 produces an error right away
by burkheadlab » Fri, 2011-03-04 22:50
3
2,298 by smlewis
Mon, 2014-04-21 06:47
Normal topic Explanations to membrane_abinitio options
by justin » Wed, 2010-02-10 01:14
3
1,829 by justin
Mon, 2014-04-21 06:47
Normal topic Maximum Number of Constraints
by jurkm » Fri, 2011-06-17 05:23
3
3,476 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
2,587 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Parallel computing in RosettaDock3.1?
by xhluo » Fri, 2010-09-03 02:31
3
2,223 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
3,981 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
2,270 by smlewis
Mon, 2014-04-21 06:47
Normal topic ddg calculation
by Lindsay » Thu, 2013-09-12 10:19
3
3,516 by Lindsay
Mon, 2014-04-21 06:48
Normal topic should rosetta3.1 do prepacking before docking?
by lqzhang » Thu, 2010-01-07 12:15
3
1,857 by smlewis
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
2,246 by smlewis
Mon, 2014-04-21 06:47
Normal topic calculate low-resolution total docking score for a input pdb
by jasnyderjr » Fri, 2015-12-11 23:08
3
2,122 by rmoretti
Wed, 2015-12-16 11:22
Normal topic Rotamer Library Generation in Rosetta3
by jcminerlanl » Wed, 2016-11-30 07:34
3
2,291 by sk0319
Thu, 2017-01-05 17:07
Normal topic obtaing pdb files
by knutjbj » Fri, 2011-02-25 11:05
3
2,070 by scombs
Mon, 2014-04-21 06:47
Normal topic Does Rosetta have homology modeling protocol?
by SunH » Thu, 2010-11-04 07:36
3
2,754 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to set up options in rosetta
by alejandro » Wed, 2011-04-06 02:08
3
3,369 by smlewis
Mon, 2014-04-21 06:47
Normal topic relax NOT CONVERGED
by albumns » Thu, 2010-06-24 21:25
3
1,964 by smlewis
Mon, 2014-04-21 06:47
Normal topic Denovo density didn't output a structure
by ahmadkhalifa » Mon, 2018-02-12 08:10
3
1,206 by ylwang
Wed, 2018-11-14 03:03
Normal topic How to specify constraints during fold-and-dock?
by sarah_b » Tue, 2020-05-12 01:55
3
401 by matteoferla
Thu, 2020-05-14 07:01
Normal topic sequence_tolerance is very slow when -ms:num_packs > 1
by coomteng@gmail.com » Thu, 2016-08-25 13:17
3
1,634 by coomteng@gmail.com
Fri, 2016-08-26 00:01
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
2,196 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Change the number of residues on pdb file!
by phanvy » Tue, 2014-04-15 23:26
3
6,577 by rmoretti
Mon, 2015-02-09 09:09
Normal topic -loops:refine_repack_cycles option not accepted by loopmodel.linuxgccrelease
by tsjain » Tue, 2013-02-05 18:47
3
2,284 by tsjain
Mon, 2014-04-21 06:47
Normal topic run Rosetta under windows prompt
by skipper » Fri, 2013-12-20 21:16
3
2,786 by rmoretti
Mon, 2014-04-21 06:48
Normal topic ERROR: f.check_fold_tree
by sudhar » Mon, 2010-08-23 08:59
3
2,160 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta can't handle symmetric fold and dock for >10-subunit protein?
by myang » Mon, 2011-09-26 11:52
3
2,321 by IAndre
Mon, 2014-04-21 06:47
Normal topic Rosetta documentation
by Ashafix » Sat, 2013-08-31 06:50
3
3,410 by Ashafix
Mon, 2014-04-21 06:48
Normal topic Rosetta remodel on intel Xeon Phi
by pablogalazdavison » Wed, 2016-09-14 15:35
3
1,735 by pablogalazdavison
Thu, 2016-09-15 16:36
Normal topic Binding energy calculation
by SunH » Thu, 2010-12-09 19:29
3
3,537 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic create a centroid file from structure or NOE list
by logandonaldson » Wed, 2013-03-20 12:23
3
3,540 by smlewis
Mon, 2014-04-21 06:47
Normal topic Fastrelax energy
by Lindsay » Thu, 2014-01-16 21:04
3
3,105 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Loop modeling FLAGS
by jklett » Fri, 2009-12-04 02:45
3
1,895 by jklett
Mon, 2014-04-21 06:47
Normal topic Rosetta Design Stalling
by Jhreed » Sun, 2016-03-06 14:38
3
1,740 by rmoretti
Mon, 2016-03-07 14:20
Normal topic Loop Modeling
by ctaylor » Fri, 2009-12-18 11:42
3
1,934 by ctaylor
Mon, 2014-04-21 06:47
Normal topic AnchoredPDBcreator
by spraha » Wed, 2012-03-14 23:34
3
1,966 by smlewis
Mon, 2014-04-21 06:47
Normal topic Questions about rosetta fragment library ranking and fragment conformation sampling algorithm
by mdyini » Thu, 2011-05-19 17:34
3
3,202 by dgront
Mon, 2014-04-21 06:47
Normal topic how to use backrub in rosetta3.1
by lqzhang » Mon, 2010-01-11 14:43
3
1,959 by smlewis
Mon, 2014-04-21 06:47
Normal topic Quesition about Relax Mode
by crysta11 » Wed, 2009-10-21 09:57
3
2,057 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta dock parallel
by mahajanr » Tue, 2010-06-01 16:04
3
2,687 by smlewis
Mon, 2014-04-21 06:47
Normal topic "CEN" atom in the pdb file
by wszjzhang » Wed, 2010-03-17 14:35
3
2,949 by anusmita_sahoo
Mon, 2014-04-21 06:47
Normal topic Error Scoring Application- Illegal attempt to score
by samuelrpita » Thu, 2015-08-06 14:45
3
2,592 by rmoretti
Wed, 2015-08-12 15:03
Normal topic # decoys of silent
by fred » Wed, 2014-04-02 06:00
3
1,839 by fred
Fri, 2014-04-04 11:34
Normal topic Hbond tripped
by alejandro » Mon, 2011-11-21 04:17
3
2,347 by alejandro
Mon, 2014-04-21 06:47
Normal topic trying to create heme.params
by einew » Mon, 2011-02-28 13:33
3
2,816 by einew
Mon, 2014-04-21 06:47
Normal topic Question about run FLEXPEPDOCK with 3 chain
by phanvy » Wed, 2014-07-02 08:46
3
1,976 by phanvy
Wed, 2014-07-02 23:32
Normal topic Problem creating pNNMAKE.gnu
by anirbanzz » Sat, 2010-04-17 02:14
3
2,600 by monica0569
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
1,541 by everyday847
Tue, 2017-11-28 13:07
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
2,117 by smlewis
Mon, 2014-04-21 06:47
Normal topic membrane modeling error!
by wtscrystal » Wed, 2009-12-09 21:28
3
3,535 by arthuc01
Mon, 2014-04-21 06:47
Normal topic Abinitio isolated
by ac.research » Wed, 2018-04-04 07:36
3
973 by smlewis
Wed, 2018-04-04 10:42
Normal topic interpreting score values in silent output file after running abinitiorelax
by burkheadlab » Wed, 2011-03-09 15:42
3
2,031 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
2,075 by mpiuzzi
Mon, 2014-04-21 06:47
Normal topic Only 430 models are generated for membrane prediction
by justin » Wed, 2010-01-06 00:04
3
1,997 by smlewis
Mon, 2014-04-21 06:47
Normal topic Refinement of a PDB structure containing multiple models
by ahmadkhalifa » Wed, 2018-04-18 07:44
3
980 by smlewis
Wed, 2018-04-18 19:03
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
5,079 by rmoretti
Mon, 2014-04-21 06:47
Normal topic relax - P6G molecule
by allan.ferrari » Wed, 2016-11-30 05:01
3
1,522 by allan.ferrari
Tue, 2017-01-03 05:02
Normal topic Does Rosetta have an app for detecting brakes and clashes in proteins
by Anatol » Sat, 2012-09-08 15:48
3
2,613 by smlewis
Mon, 2014-04-21 06:47
Normal topic Symmetric local protein docking
by efratmas » Tue, 2011-01-11 03:00
3
2,999 by smlewis
Mon, 2014-04-21 06:47
Normal topic prepare PDB with constrained relax
by jarod » Sun, 2013-05-05 07:10
3
3,539 by rmoretti
Mon, 2014-04-21 06:47
Normal topic CDR Cluster Constrained Relax Equivalent
by SenyorDrew » Wed, 2016-04-27 08:04
3
1,948 by SenyorDrew
Tue, 2016-06-14 06:43
Normal topic ERROR: unrecognized atomtype property VIRTUAL
by harshkhare » Mon, 2011-11-14 09:40
3
2,353 by harshkhare
Mon, 2014-04-21 06:47
Normal topic Propagating the same mutation over "different" chains
by mdeklotz » Thu, 2018-07-26 09:27
3
928 by rmoretti
Fri, 2018-08-03 08:42
Normal topic Criteria on the calculation of Irmsd of the protein-protein interface
by yzq » Tue, 2012-02-21 07:06
3
2,770 by smlewis
Mon, 2014-04-21 06:47
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