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Rosetta 3 - General

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Normal topic What's the unit of Rosetta energy function?
by Run » Tue, 2014-06-24 00:44
1
6,195 by rmoretti
Tue, 2014-07-01 12:45
Normal topic How to extract antibody from a set of pdb file may may contain antigen?
by Sunyp_IM » Mon, 2017-11-13 17:11
1
1,597 by ac.research
Sat, 2017-11-18 06:54
Normal topic mpi + mp_mutate_relax
by decrSTL » Thu, 2020-01-16 10:47
1
1,520 by jkleman
Thu, 2020-01-16 11:05
Normal topic Intel Compiler and OS X Intel
by bene » Tue, 2009-10-20 10:20
1
2,533 by smlewis
Mon, 2014-04-21 06:47
Normal topic secondary structure prediction for generation of fragment libraries
by xpzhang » Sat, 2011-06-25 00:47
1
3,536 by smlewis
Mon, 2014-04-21 06:47
Normal topic missing amino acid
by berk » Fri, 2013-06-14 06:07
1
1,977 by smlewis
Mon, 2014-04-21 06:48
Normal topic Computing pairwise energies for rotamers
by pachecoj » Sat, 2014-05-03 17:52
1
2,196 by rmoretti
Mon, 2014-05-12 07:50
Normal topic Output fasta of enzdes generated pdbs
by eyong123 » Tue, 2015-05-19 08:07
1
2,245 by rmoretti
Mon, 2015-05-25 11:07
Normal topic multiple symmetry definition files
by sdh_h » Wed, 2016-06-29 09:31
1
1,874 by rmoretti
Wed, 2016-06-29 10:20
Normal topic Fixing certain residues during refinement
by ckdenist » Thu, 2019-08-29 14:00
1
1,756 by jadolfbr
Thu, 2019-08-29 14:29
Normal topic decoy vs pose
by Anonymous » Fri, 2012-06-15 02:46
1
2,720 by smlewis
Mon, 2014-04-21 06:47
Normal topic patch file modification for ser_phosphorylated.txt
by hajar » Sun, 2020-06-21 00:49
1
1,646 by matteoferla
Tue, 2020-06-23 10:58
Normal topic ERROR: Your compiler does not have full support for C++11 regex, and therefore can't support RegEx_based_CDR_Detector/antibody g
by yliang20 » Mon, 2022-08-08 16:59
1
970 by rmoretti
Tue, 2022-08-09 06:52
Normal topic is the RosettaNMR protocol available in Rosetta 3.x?
by murgantia » Wed, 2011-01-26 00:39
1
2,179 by smlewis
Mon, 2014-04-21 06:47
Normal topic Can Rosetta generate proteins with sidechains ?
by wszjzhang » Fri, 2010-01-08 08:26
1
2,226 by smlewis
Mon, 2014-04-21 06:47
Closed topic unidentifiable C++ exception in both linux and window.
by wajidarshad » Tue, 2015-10-27 08:12
1
2,000 by rmoretti
Tue, 2015-10-27 08:46
Normal topic Error in src/protocols/membrane/util.cc line: 1224
by renedominik » Tue, 2020-02-11 08:10
1
1,410 by renedominik
Wed, 2020-02-12 06:16
Normal topic dock_mcm not found
by libai2098 » Mon, 2011-03-14 00:02
1
2,241 by smlewis
Mon, 2014-04-21 06:47
Normal topic I got the message "bad format in first line of silent file". How do I resolve this?
by monos_morpheus » Thu, 2011-02-03 21:09
1
2,375 by smlewis
Mon, 2014-04-21 06:47
Normal topic could ab initio support running mpi?
by albumns » Mon, 2010-07-05 01:13
1
2,673 by smlewis
Mon, 2014-04-21 06:47
Normal topic Recommendations for CoupledMoves enzyme redesign
by dgm3 » Thu, 2021-03-04 10:53
1
1,314 by aloshbau
Tue, 2021-03-09 02:47
Normal topic Entropy calculation
by abdullah_ahmed » Wed, 2010-12-01 07:52
1
2,418 by smlewis
Mon, 2014-04-21 06:47
Normal topic make_fragments.pl without sparks
by nannemdp » Mon, 2014-06-09 13:18
1
2,239 by rmoretti
Tue, 2014-06-10 11:34
Normal topic Version of VALL Database and Corresponding Constraint Coordinate File for Fragment Generation
by jurkm » Mon, 2011-05-02 03:00
1
3,231 by smlewis
Mon, 2014-04-21 06:47
Normal topic Combine flags file with command line arguments?
by cossio » Mon, 2014-12-22 13:52
1
3,235 by smlewis
Tue, 2014-12-23 13:58
Normal topic can not find a residue type that matches the residue HIS_P:NtermProteinFull
by tarsis » Wed, 2017-04-05 08:51
1
2,680 by rmoretti
Fri, 2017-04-14 08:37
Normal topic Segmentation fault (core dumped) denovo_density.linuxgccrelease
by ahmadkhalifa » Sun, 2018-04-15 17:52
1
2,005 by smlewis
Mon, 2018-04-16 16:32
Normal topic How to determine the value size in block of *.cst files?
by weifulei » Sun, 2019-05-05 19:56
1
1,651 by rmoretti
Tue, 2019-07-09 15:48
Normal topic Using specific rotamers
by sahn97 » Fri, 2022-08-26 13:45
1
731 by rmoretti
Fri, 2022-08-26 14:51
Normal topic clean_pdb_keep_ligand.py IndexError
by to-qinbin@163.com » Sat, 2022-09-10 04:04
1
786 by rmoretti
Mon, 2022-09-12 06:58
Normal topic Problem in 3D structure building of ss DNA aptamer
by irshadbaig » Sun, 2013-11-17 20:15
1
4,020 by rmoretti
Mon, 2014-04-21 06:48
Normal topic I made a RDKit Chem.Mol to params converter — feedback welcome!
by matteoferla » Sun, 2020-05-03 10:14
1
1,773 by jadolfbr
Sun, 2020-05-03 19:38
Normal topic Generate template parameter file for a polymer
by anarob » Fri, 2022-06-10 11:05
1
718 by matteoferla
Fri, 2022-06-17 10:38
Normal topic Bug in LoopMover_Refine_Backrub.cc ?
by SunH » Wed, 2010-12-15 00:08
1
2,176 by smlewis
Mon, 2014-04-21 06:47
Normal topic combine silent.out file
by venkatazb » Fri, 2016-07-22 05:22
1
3,503 by smlewis
Fri, 2016-07-22 07:31
Normal topic Rosetta structure refinement alters bound ligand
by ahmadkhalifa » Mon, 2018-07-23 07:49
1
1,978 by rmoretti
Fri, 2018-08-03 08:59
Normal topic Structural Similarity
by Soler » Mon, 2021-11-29 22:02
1
1,040 by rmoretti
Tue, 2021-11-30 07:41
Normal topic ERROR - PDB's with occupancy field equal '1.0'
by khanhbinh » Sun, 2012-09-23 09:38
1
2,301 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Determining Rosetta version from directory
by linucks » Fri, 2014-02-28 04:04
1
3,004 by smlewis
Fri, 2014-02-28 05:45
Normal topic optimisation of a protein-protein interface
by sdh_h » Thu, 2017-05-04 05:06
1
2,179 by rmoretti
Mon, 2017-05-15 09:03
Normal topic protein-protien docking with uniform trans
by lkingsle » Thu, 2012-02-09 07:19
1
2,659 by mpacella
Mon, 2014-04-21 06:47
Normal topic scorefunction Talaris2013
by dave » Tue, 2015-03-03 02:13
1
2,416 by rmoretti
Thu, 2015-04-02 12:52
Normal topic TEST - who got this email?
by smlewis » Mon, 2016-05-23 17:24
1
1,807 by rmoretti
Tue, 2016-07-12 08:48
Closed topic MakeRotLib
by yinasun » Fri, 2019-07-26 02:20
1
1,594 by rmoretti
Mon, 2019-08-26 15:01
Normal topic How to specify a specific rotamer
by Lior_UCSF » Wed, 2018-02-21 20:35
1
1,553 by rmoretti
Thu, 2018-02-22 09:29
Normal topic Error in molfile_to_params_polymer.py for NCAA
by kkuo33 » Mon, 2020-05-18 16:41
1
1,690 by matteoferla
Sat, 2020-05-23 03:09
Normal topic Clustering problem
by Suuo » Tue, 2021-04-20 01:40
1
1,180 by rmoretti
Tue, 2021-04-20 13:06
Normal topic All possible mutations
by abdullah_ahmed » Tue, 2011-01-04 02:11
1
2,403 by smlewis
Mon, 2014-04-21 06:47
Normal topic total score
by score » Mon, 2010-05-03 02:03
1
2,338 by smlewis
Mon, 2014-04-21 06:47
Normal topic dealing with Large ligand in Ligand docking and enzyme design
by rohi » Mon, 2021-01-04 09:58
1
1,209 by rmoretti
Tue, 2021-02-09 10:48
Normal topic Docking mover
by Soler » Sat, 2022-02-12 20:48
1
939 by jadolfbr
Sat, 2022-02-12 23:16
Normal topic positive results in total_score by symmetry docking
by Jacob » Thu, 2011-06-16 05:18
1
3,476 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Pair potential
by jadolfbr » Thu, 2011-12-08 08:06
1
2,678 by smlewis
Mon, 2014-04-21 06:47
Normal topic Dumb question: Rosetta 3 vs Rosetta++, what's the difference?
by mintseris » Tue, 2013-12-31 13:03
1
2,572 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Running the Matcher on multiple PDBs
by Jhreed » Thu, 2016-02-18 08:50
1
2,097 by rmoretti
Sun, 2016-02-21 06:38
Normal topic [dev] not seeing energy in pose row for new energy term in design
by ipetrik_ambry » Fri, 2017-03-03 13:16
1
1,990 by ipetrik_ambry
Tue, 2017-03-14 14:09
Normal topic Denovo prediction from multiple fragment lengths
by ahmadkhalifa » Sun, 2019-03-24 03:55
1
1,446 by rmoretti
Sat, 2019-03-30 12:10
Normal topic Ligand docking: how to generate the crystal_complex.pdb with hydrogens added
by nhinguyen26 » Wed, 2020-06-17 15:03
1
1,363 by matteoferla
Sat, 2020-06-20 03:56
Normal topic FastRelax Mover with symmetry, ligand and membrane
by Michele.Bonus » Wed, 2021-05-26 04:43
1
1,537 by matteoferla
Thu, 2021-06-03 08:24
Normal topic Ensemble Docking with RosettaDock 4.0 Protocol
by mb0261 » Wed, 2022-07-27 07:00
1
1,061 by mb0261
Mon, 2022-09-26 07:50
Normal topic Residue not found in pose
by lzx32 » Fri, 2011-09-09 03:42
1
2,805 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Symmetric Docking (Making Trimer from Monomerics Units)
by sdg_lab » Thu, 2012-04-12 09:21
1
2,236 by rmoretti
Mon, 2014-04-21 06:47
Normal topic AtomTree::torsion_angle() can't find dof! in match and enzdes
by petrikigor » Fri, 2012-10-19 09:49
1
2,602 by rmoretti
Mon, 2014-04-21 06:47
Normal topic CS-Rosetta fragments
by isengupta13 » Sun, 2010-05-16 08:08
1
2,681 by AndrewBworth
Mon, 2014-04-21 06:47
Normal topic Clustering and Protein Preparation for docking
by MRH » Sun, 2013-08-25 22:01
1
3,420 by rmoretti
Mon, 2014-04-21 06:48
Normal topic dock & design
by sdh_h » Fri, 2016-09-02 03:07
1
2,287 by rmoretti
Mon, 2016-09-05 09:39
Normal topic mcm for Docking in Rosetta3.1
by dyq » Tue, 2010-01-12 13:44
1
2,290 by smlewis
Mon, 2014-04-21 06:47
Normal topic Available of some protocals mentioned in publications
by SunH » Mon, 2013-09-09 20:47
1
2,120 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Error when using next-gen KIC (Signal 6)
by janwp » Tue, 2014-08-26 08:36
1
2,882 by amelie
Tue, 2014-09-30 14:29
Normal topic Can I use next generation KIC with fragments?
by Loki01 » Thu, 2017-12-07 06:19
1
1,588 by Loki01
Wed, 2017-12-13 05:27
Normal topic Params file for Methane
by dasdevashishdas » Sun, 2018-10-07 21:34
1
1,534 by rmoretti
Mon, 2018-10-08 11:20
Normal topic Are 100 structures the maximum generated when using homology_with_end_extension (broker protocol)?
by thaisarns » Fri, 2020-02-21 05:46
1
1,303 by sheehajh
Fri, 2020-02-21 12:41
Normal topic Residue outside res_map range
by amcallister » Fri, 2022-04-22 11:26
1
893 by aneeqh
Fri, 2022-09-02 13:36
Normal topic packing option "explicit_h2o" and "solvate"
by SunH » Wed, 2010-11-17 00:03
1
2,493 by smlewis
Mon, 2014-04-21 06:47
Normal topic About generating Fullatom structures
by wszjzhang » Wed, 2010-03-24 19:27
1
2,100 by anusmita_sahoo
Mon, 2014-04-21 06:47
Normal topic Interpreting decoy ensemble
by lah435 » Wed, 2015-06-10 10:25
1
1,984 by rmoretti
Fri, 2015-07-03 13:51
Normal topic Protein-Protein Docking
by hwillis » Fri, 2009-08-07 01:31
1
2,614 by smlewis
Mon, 2014-04-21 06:47
Normal topic Generate full symmetric assembly from subsystem
by lj269 » Thu, 2011-04-28 20:04
1
2,399 by IAndre
Mon, 2014-04-21 06:47
Normal topic ratio of conformers and docking output
by pramod » Fri, 2014-12-12 12:54
1
2,321 by rmoretti
Mon, 2014-12-15 02:37
Normal topic setup_run error with multiple resonance lists
by aep » Fri, 2016-03-18 13:36
1
2,114 by rmoretti
Thu, 2016-04-28 15:49
Normal topic problems with implementing NOE constraints
by connyyu » Thu, 2019-04-11 12:37
1
1,480 by connyyu
Thu, 2019-04-18 03:26
Normal topic simple_cycpep_predict issue modifying terminal residue
by JEaston » Thu, 2020-06-25 13:15
1
1,345 by vmulligan
Mon, 2020-06-29 13:09
Normal topic Internal error while running AbinitioRelax
by Subhrodeep Saha » Sun, 2021-06-13 03:44
1
1,248 by rmoretti
Wed, 2021-06-23 02:17
Normal topic NMR / NOE related tools in 3.2 ?
by smg3d » Sun, 2011-02-06 06:11
1
2,284 by smlewis
Mon, 2014-04-21 06:47
Normal topic null rosetta energy/score
by fred » Tue, 2011-10-18 10:31
1
2,154 by fred
Mon, 2014-04-21 06:47
Normal topic which modules support MPI now?
by albumns » Fri, 2013-11-08 01:32
1
2,178 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Consistent XYZvector length() zero failure in EnzDes
by mwfranklin » Thu, 2018-11-01 12:44
1
1,681 by rmoretti
Wed, 2018-11-21 14:14
Normal topic ShapeSimilarity, ElectrostaticSimilarity (RosettaSurf)
by Ken » Mon, 2022-05-23 07:16
1
748 by ajasja
Mon, 2022-05-23 07:19
Normal topic How do the homology sequences exclude from fragment files?
by exchhattu » Mon, 2010-04-05 03:04
1
2,074 by smlewis
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
3,508 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Derivative of the Energy function?
by MkM » Fri, 2010-01-15 08:00
1
2,348 by smlewis
Mon, 2014-04-21 06:47
Normal topic Need help with compilation (How to test if compilation is sucessful)
by greenfur » Fri, 2012-06-29 12:29
1
3,020 by smlewis
Mon, 2014-04-21 06:47
Normal topic pdb 2 silent with ss information
by kalabharath » Sun, 2013-04-14 20:59
1
2,464 by smlewis
Mon, 2014-04-21 06:47
Normal topic non-canonical residues parametrisation
by DmitriiN » Tue, 2016-04-05 02:37
1
2,074 by rmoretti
Fri, 2016-04-08 08:43
Normal topic Library of unnatural amino acid parameters
by saxen » Mon, 2017-04-17 11:08
1
3,732 by smlewis
Tue, 2017-04-18 08:33
Normal topic How to provide multiple templates for Robetta with RosettaCM option?
by lanselibai » Wed, 2021-06-23 14:06
1
1,000 by lanselibai
Wed, 2021-06-23 14:53
Normal topic PDB weird to PDB rosetta friendly
by jpfuenzalidawx » Fri, 2022-09-02 04:43
1
795 by rmoretti
Tue, 2022-09-06 08:13
Normal topic Filters saying atom type does not exist on residue
by mdm95 » Mon, 2024-03-04 15:13
1
100 by mdm95
Tue, 2024-03-05 14:05
Normal topic How NMR structures can be inputted to Rosetta?
by exchhattu » Mon, 2015-02-09 17:44
1
2,113 by rmoretti
Wed, 2015-02-18 09:19
Normal topic Some problems with the "advanced protein-protein docking" tutorial
by Sunyp_IM » Tue, 2017-06-27 09:33
1
1,897 by smlewis
Wed, 2017-06-28 06:59
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