This historical page is locked! For new posts see Github Discussions.

You are here

Home » Forums » Rosetta 3

Rosetta 3 - General

Topic / Topic starter Repliessort descending Views Last post
Normal topic Clarify ProteinInterfaceDesign “randomness”
by tsztain » Wed, 2019-02-27 09:41 		3
 2,533 by rmoretti
Sat, 2019-03-30 12:12
Normal topic Rotate chain
by Germanico » Sun, 2021-05-09 16:36 		3
 2,236 by danpf
Mon, 2021-05-10 10:04
Normal topic ERROR: f.check_fold_tree
by sudhar » Mon, 2010-08-23 08:59 		3
 3,813 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
 3,773 by IAndre
Mon, 2014-04-21 06:47
Normal topic Rosetta documentation
by Ashafix » Sat, 2013-08-31 06:50 		3
 5,191 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
 3,575 by pablogalazdavison
Thu, 2016-09-15 16:36
Normal topic Your compiler does not have full support for C++ll regex, and therefore can't suport RegEx_based_CDR_Detector/antitody grafting.
by ldx022 » Thu, 2023-03-09 17:03 		3
 1,314 by ldx022
Sat, 2023-03-11 16:53
Normal topic Binding energy calculation
by SunH » Thu, 2010-12-09 19:29 		3
 6,161 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
 5,222 by smlewis
Mon, 2014-04-21 06:47
Normal topic Fastrelax energy
by Lindsay » Thu, 2014-01-16 21:04 		3
 5,185 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Rosetta Design Stalling
by Jhreed » Sun, 2016-03-06 14:38 		3
 3,536 by rmoretti
Mon, 2016-03-07 14:20
Normal topic Explanations to membrane_abinitio options
by justin » Wed, 2010-02-10 01:14 		3
 3,397 by justin
Mon, 2014-04-21 06:47
Normal topic I got so many atoms in one residue
by ylwang » Tue, 2020-03-24 04:40 		3
 2,220 by ylwang
Tue, 2020-03-24 19:35
Normal topic AnchoredPDBcreator
by spraha » Wed, 2012-03-14 23:34 		3
 3,706 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
 4,662 by dgront
Mon, 2014-04-21 06:47
Normal topic InterfaceAnalyzer total score = 0.000
by vmc99 » Wed, 2019-06-12 14:06 		3
 3,389 by jadolfbr
Wed, 2019-06-12 20:17
Normal topic # decoys of silent
by fred » Wed, 2014-04-02 06:00 		3
 3,635 by fred
Fri, 2014-04-04 11:34
Normal topic How to set start coordinates for ligand when doing protein_ligand docking
by Huanhuan » Wed, 2021-08-18 21:09 		3
 2,024 by matteoferla
Fri, 2021-08-20 08:37
Normal topic Hbond tripped
by alejandro » Mon, 2011-11-21 04:17 		3
 3,920 by alejandro
Mon, 2014-04-21 06:47
Normal topic RosettaDock-4.0 score term
by Zjq1998 » Wed, 2022-06-29 22:07 		3
 1,694 by ssrb
Tue, 2022-07-05 11:07
Normal topic should rosetta3.1 do prepacking before docking?
by lqzhang » Thu, 2010-01-07 12:15 		3
 3,595 by smlewis
Mon, 2014-04-21 06:47
Normal topic Error Scoring Application- Illegal attempt to score
by samuelrpita » Thu, 2015-08-06 14:45 		3
 5,125 by rmoretti
Wed, 2015-08-12 15:03
Normal topic trying to create heme.params
by einew » Mon, 2011-02-28 13:33 		3
 4,562 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
 3,674 by phanvy
Wed, 2014-07-02 23:32
Normal topic score_jd2.macosclangrelease No such file or directory
by ahmadkhalifa » Mon, 2017-11-27 09:26 		3
 4,121 by everyday847
Tue, 2017-11-28 13:07
Normal topic relax NOT CONVERGED
by albumns » Thu, 2010-06-24 21:25 		3
 3,435 by smlewis
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
 3,666 by smlewis
Mon, 2014-04-21 06:47
Normal topic Figuring out the input flags required for this script
by jjung380 » Wed, 2023-04-19 14:17 		3
 1,208 by rmoretti
Mon, 2023-05-15 15:23
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
 3,711 by smlewis
Mon, 2014-04-21 06:47
Normal topic Abinitio isolated
by ac.research » Wed, 2018-04-04 07:36 		3
 2,768 by smlewis
Wed, 2018-04-04 10:42
Normal topic Refinement of a PDB structure containing multiple models
by ahmadkhalifa » Wed, 2018-04-18 07:44 		3
 2,972 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
 7,088 by rmoretti
Mon, 2014-04-21 06:47
Normal topic relax - P6G molecule
by allan.ferrari » Wed, 2016-11-30 05:01 		3
 3,219 by allan.ferrari
Tue, 2017-01-03 05:02
Normal topic small molecule charge generated by molfile_to_params.py
by rohi » Wed, 2021-03-17 09:35 		3
 2,071 by rmoretti
Wed, 2021-03-17 13:52
Normal topic Loop modeling FLAGS
by jklett » Fri, 2009-12-04 02:45 		3
 3,730 by jklett
Mon, 2014-04-21 06:47
Normal topic location of define_interface.py
by rohi » Mon, 2020-10-26 19:42 		3
 2,140 by rmoretti
Tue, 2023-05-09 15:32
Normal topic undefined symbol: ZN9CifString12UnknownValueE error meaning?
by aniyaz » Wed, 2023-01-04 08:37 		3
 1,555 by aniyaz
Wed, 2023-01-11 01:24
Normal topic Does Rosetta have an app for detecting brakes and clashes in proteins
by Anatol » Sat, 2012-09-08 15:48 		3
 4,559 by smlewis
Mon, 2014-04-21 06:47
Normal topic Symmetric local protein docking
by efratmas » Tue, 2011-01-11 03:00 		3
 4,499 by smlewis
Mon, 2014-04-21 06:47
Normal topic prepare PDB with constrained relax
by jarod » Sun, 2013-05-05 07:10 		3
 5,460 by rmoretti
Mon, 2014-04-21 06:47
Normal topic CDR Cluster Constrained Relax Equivalent
by SenyorDrew » Wed, 2016-04-27 08:04 		3
 3,603 by SenyorDrew
Tue, 2016-06-14 06:43
Normal topic ERROR: unrecognized atomtype property VIRTUAL
by harshkhare » Mon, 2011-11-14 09:40 		3
 3,866 by harshkhare
Mon, 2014-04-21 06:47
Normal topic Loop Modeling
by ctaylor » Fri, 2009-12-18 11:42 		3
 3,610 by ctaylor
Mon, 2014-04-21 06:47
Normal topic Propagating the same mutation over "different" chains
by mdeklotz » Thu, 2018-07-26 09:27 		3
 2,828 by rmoretti
Fri, 2018-08-03 08:42
Normal topic Error with options -dunbrack_prob_buried_semi and -dunbrack_prob_nonburied_semi
by SamuelGong » Fri, 2023-01-27 06:20 		3
 1,184 by rmoretti
Mon, 2023-01-30 08:04
Normal topic Cannot Open Resfile
by csvajda » Fri, 2022-03-04 13:39 		3
 1,778 by csvajda
Mon, 2022-03-07 07:46
Normal topic Quesition about Relax Mode
by crysta11 » Wed, 2009-10-21 09:57 		3
 4,024 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta dock parallel
by mahajanr » Tue, 2010-06-01 16:04 		3
 4,392 by smlewis
Mon, 2014-04-21 06:47
Normal topic Criteria on the calculation of Irmsd of the protein-protein interface
by yzq » Tue, 2012-02-21 07:06 		3
 4,391 by smlewis
Mon, 2014-04-21 06:47
Normal topic how to output a structure when scoring it?
by tianbu » Tue, 2012-07-31 09:38 		3
 4,292 by rmoretti
Mon, 2014-04-21 06:47
Normal topic "CEN" atom in the pdb file
by wszjzhang » Wed, 2010-03-17 14:35 		3
 4,938 by anusmita_sahoo
Mon, 2014-04-21 06:47
Normal topic Questions about Monte Carlo Simulated Annealing algorithm in the design protocols
by mdyini » Thu, 2012-05-31 12:39 		3
 5,766 by smlewis
Mon, 2014-04-21 06:47
Normal topic fix backbone design of interface residue
by Lindsay » Tue, 2013-12-17 19:23 		3
 4,605 by rmoretti
Mon, 2014-04-21 06:48
Normal topic change DOF of NH3 group in N terminus
by SergeyP » Wed, 2016-02-03 02:22 		3
 3,896 by SergeyP
Thu, 2016-02-04 00:07
Normal topic how to use backrub in rosetta3.1
by lqzhang » Mon, 2010-01-11 14:43 		3
 3,491 by smlewis
Mon, 2014-04-21 06:47
Normal topic Docking 2 proteins including ligands
by einew » Tue, 2011-03-08 13:33 		3
 3,753 by einew
Mon, 2014-04-21 06:47
Normal topic Abinitio starts at the 27th amino acid
by JadAbbass » Thu, 2013-08-29 05:38 		3
 3,843 by JadAbbass
Mon, 2014-04-21 06:48
Normal topic Constraints and final scoring of satisfied constraints in ab initio
by Azadeh » Tue, 2014-07-15 01:29 		3
 6,616 by rmoretti
Thu, 2014-07-17 09:21
Normal topic error for the pose reading:TRP:NtermProteinFull:triazolamerC missing: C1
by wyb » Fri, 2017-12-01 17:50 		3
 3,996 by rmoretti
Sat, 2017-12-16 12:19
Normal topic Problem with protein and ligand preparation before ligand docking.
by zg148119@ohio.edu » Fri, 2021-02-05 06:47 		3
 3,259 by rmoretti
Tue, 2021-02-09 09:22
Normal topic Side-chain packing with multiple chains
by pachecoj » Mon, 2014-04-21 16:53 		3
 4,697 by jadolfbr
Mon, 2014-04-21 21:05
Normal topic Weird results from flexpepdock MPI
by gerdos » Fri, 2016-06-24 01:18 		3
 3,284 by smlewis
Thu, 2016-06-30 08:44
Normal topic how to make a combined PDB file?
by fenghc » Mon, 2013-04-01 06:27 		3
 15,277 by smlewis
Mon, 2014-04-21 06:47
Normal topic Segmentation fault
by Hongtham » Mon, 2014-12-15 20:21 		3
 5,209 by Sandy
Fri, 2015-08-07 15:49
Normal topic score terms
by qlj » Wed, 2013-07-03 08:00 		3
 4,467 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Modeling protonated histidine
by SenyorDrew » Mon, 2016-07-18 07:34 		3
 4,437 by matteoferla
Sat, 2017-08-05 07:18
Normal topic Problem creating pNNMAKE.gnu
by anirbanzz » Sat, 2010-04-17 02:14 		3
 4,233 by monica0569
Mon, 2014-04-21 06:47
Normal topic why docking results are different?
by albumns » Sat, 2010-12-18 23:53 		3
 3,613 by smlewis
Mon, 2014-04-21 06:47
Normal topic force field, energy function
by masterofpuppets » Wed, 2015-01-21 11:06 		3
 6,287 by masterofpuppets
Tue, 2015-01-27 07:07
Normal topic Multiprocessor Execution
by starone » Tue, 2016-04-19 20:06 		3
 4,636 by smlewis
Thu, 2016-04-21 16:00
Normal topic NOE constraints with Rosetta 3.1
by mpiuzzi » Wed, 2010-02-24 02:40 		3
 3,677 by mpiuzzi
Mon, 2014-04-21 06:47
Normal topic is it possbile to cluster pdb files?
by albumns » Wed, 2010-10-06 02:38 		3
 5,454 by smlewis
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
 6,659 by rosend
Fri, 2015-12-18 19:39
Normal topic General protein-protein docking when no info. on structure is availble
by jasnyderjr » Fri, 2016-12-09 04:55 		3
 3,354 by smlewis
Tue, 2016-12-20 10:40
Normal topic membrane modeling error!
by wtscrystal » Wed, 2009-12-09 21:28 		3
 5,423 by arthuc01
Mon, 2014-04-21 06:47
Normal topic Abinitio Video
by ac.research » Tue, 2017-09-12 04:00 		3
 3,618 by ac.research
Sun, 2017-09-24 11:25
Normal topic pyrosetta.rosetta.core.pose.rna
by chenjief » Tue, 2021-11-23 07:03 		3
 1,986 by matteoferla
Mon, 2022-01-10 06:44
Normal topic NC atom type [Solved]
by franfdez » Tue, 2012-02-07 16:05 		3
 4,094 by franfdez
Mon, 2014-04-21 06:47
Normal topic how to identify selected interface residues
by vijayaraj81 » Mon, 2014-03-31 01:40 		3
 4,620 by rmoretti
Tue, 2014-04-01 08:12
Normal topic ligand docking with rosetta_scripts.linuxgccrelease
by xpzhang » Thu, 2015-02-26 10:57 		3
 4,377 by rmoretti
Mon, 2015-03-30 16:58
Normal topic Cyclizing .pdb of a linear chain.
by jcminerlanl » Wed, 2017-07-05 23:56 		3
 3,274 by jcminerlanl
Thu, 2017-07-06 09:22
Normal topic Rescoring protein docking decoys to get Irms
by lj269 » Thu, 2014-10-23 13:23 		3
 4,276 by rmoretti
Wed, 2014-10-29 14:30
Normal topic Only 430 models are generated for membrane prediction
by justin » Wed, 2010-01-06 00:04 		3
 3,757 by smlewis
Mon, 2014-04-21 06:47
Normal topic De novo density assembly weights don't add up to a 100
by ahmadkhalifa » Fri, 2018-08-03 12:07 		3
 2,720 by rmoretti
Tue, 2019-10-22 07:05
Normal topic Run protein-protein docking parallelly by mpi
by Zehui Zhou » Thu, 2023-02-02 06:23 		3
 1,221 by Zehui Zhou
Fri, 2023-02-03 05:51
Normal topic loop modeling
by MRH » Thu, 2013-08-22 23:19 		3
 4,383 by MRH
Mon, 2014-04-21 06:48
Normal topic Conversion from Dihedral angle representation to Cartesian representation
by rodrigo.faccioli » Sat, 2012-02-25 11:57 		3
 16,713 by charlie.strauss
Fri, 2016-09-02 10:08
Normal topic Adding new files using rosetta classes went wrong
by Jeremy1990 » Sun, 2015-04-26 01:07 		3
 3,973 by rmoretti
Thu, 2015-04-30 16:09
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
 4,452 by rmoretti
Mon, 2018-03-19 12:35
Normal topic XML schema file taken from Rosie docking giving errors in Rosetta Scripts
by Delfosse57 » Mon, 2022-07-18 10:51 		3
 1,373 by rmoretti
Mon, 2022-07-18 11:56
Normal topic Determine the weights of score functions
by SunH » Thu, 2010-09-02 07:20 		3
 4,602 by smlewis
Mon, 2014-04-21 06:47
Normal topic what's the difference between recovery and sequence identity
by Lindsay » Thu, 2012-04-26 05:46 		3
 5,152 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to get the GDT_TS?
by JadAbbass » Thu, 2013-09-05 11:59 		3
 5,779 by rmoretti
Mon, 2014-04-21 06:48
Normal topic build local user guide
by coomteng@gmail.com » Wed, 2018-03-28 13:55 		3
 2,910 by coomteng@gmail.com
Wed, 2018-03-28 14:58
Normal topic does rosetta good at peptide-protein docking?
by albumns » Mon, 2010-12-27 18:51 		3
 5,338 by smlewis
Mon, 2014-04-21 06:47
Normal topic Problem with running turtorial of rna denovo
by myle » Fri, 2017-04-14 09:23 		3
 3,286 by rmoretti
Tue, 2017-04-18 13:49
Normal topic Converting charmm parameter files (.par)
by ajasja » Mon, 2014-09-29 07:19 		3
 4,320 by jcminerlanl
Tue, 2017-12-19 14:03
Normal topic dna_denovo
by frits » Fri, 2013-07-12 06:12 		3
 4,014 by frits
Mon, 2014-04-21 06:48
Normal topic How to model a protein that dimerizes to a small molecule?
by pholland » Wed, 2011-05-25 07:29 		3
 5,607 by pholland
Mon, 2014-04-21 06:47
Normal topic how to keep modeling ignored ERROR?
by eunwook » Sat, 2013-04-27 05:44 		3
 4,039 by eunwook
Mon, 2014-04-21 06:47