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Rosetta 3 - General

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Normal topic Where is Sicdock application now? Can I find a substitute?
by JasonIsaac » Sun, 2022-11-13 03:41
3
400 by rmoretti
Mon, 2022-11-14 07:27
Normal topic -loops:refine_repack_cycles option not accepted by loopmodel.linuxgccrelease
by tsjain » Tue, 2013-02-05 18:47
3
3,457 by tsjain
Mon, 2014-04-21 06:47
Normal topic run Rosetta under windows prompt
by skipper » Fri, 2013-12-20 21:16
3
3,944 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Clarify ProteinInterfaceDesign “randomness”
by tsztain » Wed, 2019-02-27 09:41
3
1,937 by rmoretti
Sat, 2019-03-30 12:12
Normal topic Rotate chain
by Germanico » Sun, 2021-05-09 16:36
3
1,427 by danpf
Mon, 2021-05-10 10:04
Normal topic sequence_tolerance is very slow when -ms:num_packs > 1
by coomteng@gmail.com » Thu, 2016-08-25 13:17
3
2,885 by coomteng@gmail.com
Fri, 2016-08-26 00:01
Normal topic rosetta on snow leopard?
by nitroamos » Thu, 2009-10-01 17:07
3
4,433 by nitroamos
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
3,292 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
9,428 by rmoretti
Mon, 2015-02-09 09:09
Normal topic Binding energy calculation
by SunH » Thu, 2010-12-09 19:29
3
5,318 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
4,679 by smlewis
Mon, 2014-04-21 06:47
Normal topic Fastrelax energy
by Lindsay » Thu, 2014-01-16 21:04
3
4,527 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Rosetta Design Stalling
by Jhreed » Sun, 2016-03-06 14:38
3
2,904 by rmoretti
Mon, 2016-03-07 14:20
Normal topic Silent Files
by ctaylor » Tue, 2009-12-22 09:22
3
3,046 by smlewis
Mon, 2014-04-21 06:47
Normal topic ERROR: f.check_fold_tree
by sudhar » Mon, 2010-08-23 08:59
3
3,261 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
3,331 by IAndre
Mon, 2014-04-21 06:47
Normal topic Rosetta documentation
by Ashafix » Sat, 2013-08-31 06:50
3
4,601 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
2,943 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
323 by ldx022
Sat, 2023-03-11 16:53
Normal topic AnchoredPDBcreator
by spraha » Wed, 2012-03-14 23:34
3
3,102 by smlewis
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
1,663 by ylwang
Tue, 2020-03-24 19:35
Normal topic Questions about rosetta fragment library ranking and fragment conformation sampling algorithm
by mdyini » Thu, 2011-05-19 17:34
3
4,182 by dgront
Mon, 2014-04-21 06:47
Normal topic InterfaceAnalyzer total score = 0.000
by vmc99 » Wed, 2019-06-12 14:06
3
2,505 by jadolfbr
Wed, 2019-06-12 20:17
Normal topic Explanations to membrane_abinitio options
by justin » Wed, 2010-02-10 01:14
3
2,923 by justin
Mon, 2014-04-21 06:47
Normal topic Hbond tripped
by alejandro » Mon, 2011-11-21 04:17
3
3,400 by alejandro
Mon, 2014-04-21 06:47
Normal topic RosettaDock-4.0 score term
by Zjq1998 » Wed, 2022-06-29 22:07
3
879 by ssrb
Tue, 2022-07-05 11:07
Normal topic Error Scoring Application- Illegal attempt to score
by samuelrpita » Thu, 2015-08-06 14:45
3
4,231 by rmoretti
Wed, 2015-08-12 15:03
Normal topic # decoys of silent
by fred » Wed, 2014-04-02 06:00
3
3,053 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
1,241 by matteoferla
Fri, 2021-08-20 08:37
Normal topic trying to create heme.params
by einew » Mon, 2011-02-28 13:33
3
3,954 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
3,134 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
3,249 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
3,178 by smlewis
Mon, 2014-04-21 06:47
Normal topic Abinitio isolated
by ac.research » Wed, 2018-04-04 07:36
3
2,177 by smlewis
Wed, 2018-04-04 10:42
Normal topic should rosetta3.1 do prepacking before docking?
by lqzhang » Thu, 2010-01-07 12:15
3
3,024 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
3,149 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
217 by rmoretti
Mon, 2023-05-15 15:23
Normal topic relax NOT CONVERGED
by albumns » Thu, 2010-06-24 21:25
3
2,965 by smlewis
Mon, 2014-04-21 06:47
Normal topic location of define_interface.py
by rohi » Mon, 2020-10-26 19:42
3
1,148 by rmoretti
Tue, 2023-05-09 15:32
Normal topic undefined symbol: ZN9CifString12UnknownValueE error meaning?
by aniyaz » Wed, 2023-01-04 08:37
3
343 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
4,041 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
2,308 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
6,378 by rmoretti
Mon, 2014-04-21 06:47
Normal topic relax - P6G molecule
by allan.ferrari » Wed, 2016-11-30 05:01
3
2,663 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
1,394 by rmoretti
Wed, 2021-03-17 13:52
Normal topic ERROR: unrecognized atomtype property VIRTUAL
by harshkhare » Mon, 2011-11-14 09:40
3
3,417 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
2,218 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
272 by rmoretti
Mon, 2023-01-30 08:04
Normal topic Symmetric local protein docking
by efratmas » Tue, 2011-01-11 03:00
3
3,996 by smlewis
Mon, 2014-04-21 06:47
Normal topic prepare PDB with constrained relax
by jarod » Sun, 2013-05-05 07:10
3
4,792 by rmoretti
Mon, 2014-04-21 06:47
Normal topic CDR Cluster Constrained Relax Equivalent
by SenyorDrew » Wed, 2016-04-27 08:04
3
3,024 by SenyorDrew
Tue, 2016-06-14 06:43
Normal topic Questions about Monte Carlo Simulated Annealing algorithm in the design protocols
by mdyini » Thu, 2012-05-31 12:39
3
5,233 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
4,000 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
3,310 by SergeyP
Thu, 2016-02-04 00:07
Normal topic Loop modeling FLAGS
by jklett » Fri, 2009-12-04 02:45
3
3,120 by jklett
Mon, 2014-04-21 06:47
Normal topic Cannot Open Resfile
by csvajda » Fri, 2022-03-04 13:39
3
963 by csvajda
Mon, 2022-03-07 07:46
Normal topic Criteria on the calculation of Irmsd of the protein-protein interface
by yzq » Tue, 2012-02-21 07:06
3
3,886 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
3,810 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Side-chain packing with multiple chains
by pachecoj » Mon, 2014-04-21 16:53
3
4,002 by jadolfbr
Mon, 2014-04-21 21:05
Normal topic Weird results from flexpepdock MPI
by gerdos » Fri, 2016-06-24 01:18
3
2,704 by smlewis
Thu, 2016-06-30 08:44
Normal topic Loop Modeling
by ctaylor » Fri, 2009-12-18 11:42
3
3,033 by ctaylor
Mon, 2014-04-21 06:47
Normal topic Docking 2 proteins including ligands
by einew » Tue, 2011-03-08 13:33
3
3,240 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
3,288 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
5,983 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
3,119 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
1,904 by rmoretti
Tue, 2021-02-09 09:22
Normal topic How can move peptide on cleft of enzyme on Flexpepdock?
by phanvy » Thu, 2014-06-05 02:22
4
4,047 by zaldini
Fri, 2015-01-02 05:38
Normal topic Problem with the -dock_ppk flag
by lzx32 » Sat, 2011-04-30 00:21
4
4,277 by lzx32
Mon, 2014-04-21 06:47
Normal topic rosetta 3.1 recognizes PO4 group in dockinglocalrefine option?
by nilkoeg » Thu, 2011-03-10 23:19
4
4,884 by nilkoeg
Mon, 2014-04-21 06:47
Normal topic Random seed confusion
by pardave » Mon, 2012-11-12 09:45
4
4,244 by pardave
Mon, 2014-04-21 06:47
Normal topic RosettaCM rename or swap the order of sequences in your alignment file
by ahmadkhalifa » Fri, 2017-12-22 08:42
4
3,167 by rmoretti
Mon, 2018-01-15 15:24
Normal topic C-term amidation
by tttt » Tue, 2021-03-02 07:46
4
2,147 by tatsiana.bylund
Mon, 2022-01-24 07:58
Normal topic ERROR: Unable to open weights/patch file
by peony » Sun, 2013-11-17 02:49
4
6,978 by rmoretti
Tue, 2019-07-09 10:29
Normal topic Unrecognised resiudues when rescoring PDB files generated by enzyme_design under MPI
by linucks » Tue, 2018-02-13 03:41
4
3,552 by linucks
Fri, 2018-02-23 08:08
Normal topic manually changing fixbb residue ref energies
by jtmacd » Wed, 2009-11-25 08:43
4
3,568 by jtmacd
Mon, 2014-04-21 06:47
Normal topic Ab initio structure prediction for long amino acid sequence
by maruhuang » Fri, 2019-08-02 03:38
4
2,390 by maruhuang
Thu, 2019-09-26 18:55
Normal topic Enzyme Design
by bharat_46010 » Tue, 2014-11-25 23:55
4
5,393 by bharat_46010
Mon, 2014-12-15 20:51
Normal topic The vall.jul19.2011.gz Database
by ac.research » Fri, 2017-09-01 02:29
4
3,937 by ac.research
Mon, 2017-09-04 16:43
Normal topic Does a negative Rosetta dG imply a favorable process?
by cossio » Tue, 2014-12-09 05:13
4
4,158 by lanselibai
Tue, 2014-12-16 10:48
Normal topic rosetta 3.1-how to run parallel tasks?
by wtscrystal » Fri, 2009-11-06 03:23
4
5,283 by lqzhang
Mon, 2014-04-21 06:47
Normal topic membrane protein packing prediction
by djpittdj » Fri, 2012-01-13 08:55
4
3,784 by pardave
Mon, 2014-04-21 06:47
Normal topic How to automatically position new peptides into the binding site of a enzime, in order to run peptide-protein docking approaches
by zaldini » Fri, 2015-01-02 05:53
4
4,061 by zaldini
Wed, 2015-01-07 20:35
Normal topic error about 'std::bad_alloc' during running
by zhisheng » Mon, 2011-01-10 09:45
4
10,713 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to turn off output of POSE_ENERGIES_TABLE
by lah435 » Tue, 2015-02-03 21:21
4
3,942 by jwillis
Sat, 2015-02-07 20:40
Normal topic Comparative modeling Error: potential mismatch between sequence from alignment  and sequence from PDB!
by nzsuzsanna » Wed, 2016-04-27 05:32
4
4,214 by nzsuzsanna
Fri, 2016-04-29 04:30
Normal topic Antibody Homology Modeling - Antibody vs. Antibody_legacy
by cannond » Tue, 2017-02-14 05:53
4
3,607 by cannond
Wed, 2017-03-01 08:05
Normal topic Identical decoys
by aroop » Tue, 2012-09-25 12:50
4
4,213 by smlewis
Mon, 2014-04-21 06:47
Normal topic Seasons greetings with a Christmas tree shaped protein
by matteoferla » Sun, 2019-12-22 03:37
4
2,404 by matteoferla
Mon, 2019-12-23 07:24
Normal topic How to add uncommon metal elements into Rosetta and make it recognizable?
by JasonIsaac » Thu, 2023-02-09 00:08
4
277 by JasonIsaac
Sat, 2023-02-11 00:44
Normal topic Repeated entries in silent file
by almeida85 » Fri, 2022-08-05 02:52
4
665 by almeida85
Thu, 2022-08-11 00:29
Normal topic Successful installation on OpenSuse11.1 - tests?
by zharmad » Thu, 2010-08-19 00:30
4
3,426 by zharmad
Mon, 2014-04-21 06:47
Normal topic Fluctuations in I_sc
by eminegenetics » Thu, 2018-09-13 12:07
4
2,707 by eminegenetics
Fri, 2018-09-21 07:42
Normal topic Updated publications/details on Rosetta score function?
by nitroamos » Tue, 2009-10-20 19:48
4
4,380 by rmoretti
Mon, 2015-03-30 14:43
Normal topic short peptide fragment file generation
by cheyuk » Mon, 2016-07-11 00:04
4
4,089 by smlewis
Wed, 2016-07-13 23:41
Normal topic cluster error
by albumns » Thu, 2010-12-16 18:06
4
4,204 by smlewis
Mon, 2014-04-21 06:47
Normal topic Difference between score and silent_score when silent files are combined
by justin » Tue, 2012-01-03 06:44
4
3,952 by justin
Mon, 2014-04-21 06:47
Normal topic first try at relaxing a structure
by einew » Wed, 2011-01-05 11:09
4
6,094 by einew
Mon, 2014-04-21 06:47
Normal topic Error while running MakeRotLib
by saxen » Sun, 2016-04-17 22:51
4
4,056 by saxen
Mon, 2016-04-25 10:38
Normal topic Error : seqpos <= size()
by phanvy » Sun, 2014-10-05 17:20
4
5,081 by phanvy
Wed, 2014-10-08 01:42
Normal topic rosettaScore.py has a typo, I think. Can I fix it in my own copy?
by mdeklotz » Thu, 2018-08-02 15:15
4
2,917 by rmoretti
Fri, 2018-08-03 11:39
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