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Rosetta 3 - General

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Normal topic Comparative Modeling Tutorial Script not working
by Srinivas23 » Thu, 2017-09-21 12:00
4
2,734 by Srinivas23
Tue, 2017-10-24 10:58
Normal topic Error when attempting to relax pdb, "flag_input_relax" not found
by Wexter300 » Mon, 2023-01-23 11:32
4
81 by Wexter300
Wed, 2023-01-25 12:34
Normal topic solvation
by gw » Wed, 2011-08-31 17:14
4
4,008 by smlewis
Mon, 2014-04-21 06:47
Normal topic Using rosetta 3 to make a fragment library and then use it to model loop of a protein structure
by bharat_46010 » Sun, 2011-01-23 05:22
4
6,586 by dgront
Mon, 2014-04-21 06:47
Normal topic Flexible backbone design using PSSM
by kalicuta » Thu, 2012-07-26 13:38
4
4,334 by rmoretti
Mon, 2014-04-21 06:47
Normal topic protein ligand docking
by patrickchirdon » Sun, 2018-12-30 15:07
4
2,654 by smlewis
Mon, 2018-12-31 08:58
Normal topic Updated publications/details on Rosetta score function?
by nitroamos » Tue, 2009-10-20 19:48
4
4,242 by rmoretti
Mon, 2015-03-30 14:43
Normal topic UBQ chemically conjugated docking error
by cheyuk » Fri, 2015-09-18 06:57
4
3,936 by cheyuk
Sun, 2015-09-20 02:08
Normal topic core.scoring.rms_util: WARNING: CA_rmsd out of range...
by mdyini » Sat, 2012-02-25 16:14
4
3,775 by mdyini
Mon, 2014-04-21 06:47
Normal topic how to do cluster after low resolution protein-protein docking?
by albumns » Sat, 2010-11-27 01:17
4
3,899 by albumns
Mon, 2014-04-21 06:47
Normal topic Problems installing Rosetta
by S » Fri, 2010-09-03 01:04
4
5,508 by abdullah_ahmed
Mon, 2014-04-21 06:47
Normal topic Picking the correct model from a large set of decoys (30,000+)
by brspurri » Thu, 2012-04-26 15:37
4
4,961 by rmoretti
Mon, 2014-04-21 06:47
Normal topic computer shuts down during autobulding with rosetta
by intekhab » Tue, 2011-07-19 01:07
4
3,748 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Relax protocol details for Rosetta 3.1
by Matthys » Sun, 2012-01-15 10:00
4
3,840 by rmoretti
Mon, 2014-04-21 06:47
Normal topic [Mover] is not known to the MoverFactory
by Jhreed » Fri, 2016-08-05 12:23
4
3,546 by msardejani
Sun, 2016-08-07 17:49
Normal topic Can I compare binding affinity of different ligands using Rosetta?
by zg148119@ohio.edu » Sun, 2020-12-06 11:30
4
2,315 by nannemdp
Fri, 2021-02-05 06:49
Normal topic pepspec aplication - segmentation fault
by tiagogomes89 » Fri, 2011-09-02 11:18
4
3,666 by smlewis
Mon, 2014-04-21 06:47
Normal topic Iterative local rebuilding vs automated structure refinement
by ahmadkhalifa » Fri, 2018-09-14 07:44
4
2,798 by rmoretti
Wed, 2018-11-21 14:11
Normal topic RNA Parameter File
by hdavis9 » Tue, 2010-07-06 11:36
4
3,362 by smlewis
Mon, 2014-04-21 06:47
Normal topic rs filter for terms in .sc files
by gw » Sat, 2012-08-18 16:20
4
4,123 by gw
Mon, 2014-04-21 06:47
Normal topic problem parsing a THR residue
by decrSTL » Wed, 2019-08-21 12:25
4
2,174 by decrSTL
Tue, 2019-08-27 10:24
Normal topic multiple cst files
by logandonaldson » Wed, 2013-03-20 12:16
4
3,820 by logandonaldson
Mon, 2014-04-21 06:47
Normal topic Problem with the -dock_ppk flag
by lzx32 » Sat, 2011-04-30 00:21
4
4,143 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
4,736 by nilkoeg
Mon, 2014-04-21 06:47
Normal topic Random seed confusion
by pardave » Mon, 2012-11-12 09:45
4
4,085 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
3,021 by rmoretti
Mon, 2018-01-15 15:24
Normal topic C-term amidation
by tttt » Tue, 2021-03-02 07:46
4
1,916 by tatsiana.bylund
Mon, 2022-01-24 07:58
Normal topic how to keep native structure when do loop modeling
by zlni » Sun, 2009-05-03 10:12
4
3,569 by zlni
Mon, 2014-04-21 06:47
Normal topic How can move peptide on cleft of enzyme on Flexpepdock?
by phanvy » Thu, 2014-06-05 02:22
4
3,877 by zaldini
Fri, 2015-01-02 05:38
Normal topic ERROR: Unable to open weights/patch file
by peony » Sun, 2013-11-17 02:49
4
6,706 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
3,285 by linucks
Fri, 2018-02-23 08:08
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
3,260 by smlewis
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
2,220 by maruhuang
Thu, 2019-09-26 18:55
Normal topic Enzyme Design
by bharat_46010 » Tue, 2014-11-25 23:55
4
5,179 by bharat_46010
Mon, 2014-12-15 20:51
Normal topic Fragment files
by exchhattu » Fri, 2009-09-18 01:04
4
4,029 by rmoretti
Tue, 2015-01-06 09:58
Normal topic The vall.jul19.2011.gz Database
by ac.research » Fri, 2017-09-01 02:29
4
3,742 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
3,954 by lanselibai
Tue, 2014-12-16 10:48
Normal topic membrane protein packing prediction
by djpittdj » Fri, 2012-01-13 08:55
4
3,646 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
3,897 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
10,476 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
3,793 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
4,060 by nzsuzsanna
Fri, 2016-04-29 04:30
Normal topic Seasons greetings with a Christmas tree shaped protein
by matteoferla » Sun, 2019-12-22 03:37
4
2,256 by matteoferla
Mon, 2019-12-23 07:24
Normal topic Antibody Homology Modeling - Antibody vs. Antibody_legacy
by cannond » Tue, 2017-02-14 05:53
4
3,438 by cannond
Wed, 2017-03-01 08:05
Normal topic Identical decoys
by aroop » Tue, 2012-09-25 12:50
4
4,065 by smlewis
Mon, 2014-04-21 06:47
Normal topic extraction of pdbs from silent.out files on Mac
by pramod » Tue, 2014-01-07 11:43
5
6,480 by rmoretti
Mon, 2014-04-21 06:48
Normal topic combine_silent ERROR: unknown atom_name: CYS SG
by freedman » Mon, 2017-03-06 10:56
5
3,552 by freedman
Mon, 2017-03-06 13:24
Normal topic cluster pdb structures questions
by ritacc18 » Thu, 2013-03-28 19:20
5
6,316 by ritacc18
Mon, 2014-04-21 06:47
Normal topic Computing energy gradients for side chain minimization
by pachecoj » Wed, 2017-03-29 08:03
5
3,888 by pachecoj
Wed, 2017-03-29 12:32
Normal topic Question regarding buried or exposed residues
by qlj » Fri, 2012-11-09 23:43
5
5,784 by qlj
Mon, 2014-04-21 06:47
Normal topic loop modelling/Rosetta 3.4, 3.5
by berk » Tue, 2013-07-02 08:38
5
5,081 by MRH
Mon, 2014-04-21 06:48
Normal topic low resolution blind protein-protein docking with a ligand
by einew » Sun, 2011-03-20 13:59
5
5,270 by einew
Mon, 2014-04-21 06:47
Normal topic pro_closure energy scoring function
by peony » Sat, 2013-11-16 13:22
5
5,122 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Docking tree issues
by salvatta » Tue, 2018-07-17 05:57
5
3,832 by salvatta
Mon, 2018-09-10 10:04
Normal topic How to handle/retain Metals (Zn, Ca) inside the Protein?
by aniyaz » Wed, 2023-01-11 03:21
5
204 by aniyaz
Thu, 2023-01-19 06:26
Normal topic how to use AbinitioRelax.mpi.linuxgccrelease?
by albumns » Mon, 2012-03-26 22:50
5
5,889 by smlewis
Mon, 2014-04-21 06:47
Normal topic Error when using RabD with a nanobody.
by zhangying1990 » Mon, 2018-12-17 04:40
5
3,182 by jadolfbr
Mon, 2019-01-28 08:46
Normal topic loop modelling error on Rosetta3.2 or Rosetta3.3
by exchhattu » Thu, 2011-09-29 03:58
5
4,406 by rpache
Mon, 2014-04-21 06:47
Normal topic de novo RNA loop
by c.ocasion » Sun, 2021-02-14 18:34
5
1,887 by everyday847
Mon, 2021-03-29 20:19
Normal topic Access sigma values for rotamers
by pachecoj » Thu, 2014-05-15 07:10
5
4,727 by rmoretti
Sat, 2014-05-17 14:10
Normal topic Chain specific flags
by helenah » Mon, 2020-10-19 03:31
5
2,119 by rmoretti
Fri, 2020-11-06 08:04
Normal topic rosetta_scripts_BOGUS coords warning message
by Karol » Tue, 2016-12-13 02:35
5
4,521 by Karol
Thu, 2016-12-15 01:35
Normal topic Problem with undetected lower and upper terminus variants for new polymer
by Martin Floor » Sat, 2022-06-11 06:51
5
777 by matteoferla
Fri, 2022-07-01 13:49
Normal topic comparison of energy
by sdh » Mon, 2010-08-16 07:55
5
4,591 by smlewis
Mon, 2014-04-21 06:47
Normal topic Abinitio Calculations - typical parameters
by vamsi » Thu, 2010-11-11 07:06
5
5,169 by smlewis
Mon, 2014-04-21 06:47
Normal topic match_dspos1 and other matcher options
by petrikigor » Sat, 2012-10-20 09:22
5
4,756 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Problems with disulphide bonds during KIC
by Loki01 » Tue, 2017-11-28 03:11
5
3,512 by Loki01
Thu, 2017-12-14 06:20
Normal topic Rotate MOVER
by gw » Wed, 2012-08-15 12:09
5
4,663 by glemmon
Mon, 2014-04-21 06:47
Normal topic protein binding energy problem
by Lindsay » Thu, 2014-04-17 23:10
5
5,032 by jadolfbr
Mon, 2014-04-21 07:30
Normal topic Error when running "plot_LHOC.py"
by Sunyp_IM » Sun, 2017-08-13 05:54
5
3,489 by smlewis
Wed, 2017-08-16 08:30
Normal topic P-P docking with ambiguous constraints
by Anouk » Fri, 2013-11-08 11:38
5
5,854 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Rotamer Library Generation in Rosetta3
by jcminerlanl » Wed, 2016-11-30 07:34
5
4,728 by rmoretti
Tue, 2021-02-09 11:52
Normal topic BridgeChainsMover
by msardejani » Sun, 2016-08-07 17:32
5
4,211 by smlewis
Tue, 2016-08-30 13:47
Normal topic Rosetta-foldtree and docking
by tingting » Tue, 2022-03-15 22:49
5
870 by aastha.pal
Mon, 2022-06-27 09:55
Normal topic Relax command for docking purposes and cluster_vs_rmsd command
by Rkfoury » Wed, 2015-04-01 08:48
5
4,877 by rmoretti
Sat, 2015-04-25 10:05
Normal topic ignore loops on threading
by fred » Tue, 2014-11-11 11:33
5
4,498 by rmoretti
Tue, 2014-11-18 10:01
Normal topic Typical relax options not applied in relax.mpi.linuxiccrelease??
by David Weis » Mon, 2017-02-27 11:35
5
3,911 by rmoretti
Thu, 2017-08-03 09:01
Normal topic Using 2 non-standard residues in one run
by einew » Tue, 2011-03-08 21:24
5
5,715 by einew
Mon, 2014-04-21 06:47
Normal topic Evaluating energies on non-standard rotamer set
by pachecoj » Sat, 2014-07-26 16:27
5
4,224 by pachecoj
Sat, 2014-08-09 06:33
Normal topic Interface rmsd calculation Irms
by mahajanr » Wed, 2010-07-07 18:24
5
6,893 by mahajanr
Mon, 2014-04-21 06:47
Normal topic Efficient implementation of MPI with protein design programs
by zachdebruine » Thu, 2018-06-28 10:41
5
3,453 by smlewis
Tue, 2018-07-03 11:22
Normal topic Secondary Structure Relax
by ac.research » Sat, 2018-03-17 10:50
5
3,572 by smlewis
Wed, 2018-03-21 08:42
Normal topic RosettaMatch
by jtmacd » Wed, 2012-01-11 06:50
5
8,727 by jtmacd
Mon, 2014-04-21 06:47
Normal topic Suppress printing to STDOUT for applications
by tylerborrman » Tue, 2015-11-24 11:37
5
4,592 by code_Monkey
Thu, 2021-03-18 08:03
Normal topic P(Res | phi,psi )
by jadolfbr » Thu, 2011-07-21 08:49
5
4,244 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic industrial example of ROSETTA modeled protein
by banshee » Sat, 2016-04-23 23:40
5
4,399 by banshee
Tue, 2016-04-26 00:47
Normal topic How to extract specific pdb from silent files
by eunwook » Tue, 2013-05-14 05:29
5
13,644 by nawsad
Mon, 2014-04-21 06:47
Normal topic nr.fasta
by silvia » Wed, 2013-01-23 10:08
5
9,677 by dgront
Mon, 2014-04-21 06:47
Normal topic scoring models
by peony » Fri, 2013-12-06 02:45
5
5,046 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Minimization Issue: Coarse Graining to All atom modeling
by abolia » Tue, 2015-04-28 10:52
5
4,586 by rmoretti
Tue, 2015-05-05 14:31
Normal topic Cannot use SimpleMetrics
by Vedasheersh » Sun, 2018-06-10 23:38
5
3,089 by smlewis
Tue, 2018-06-12 10:54
Normal topic demos/public/ideal_proteins Segmentation fault
by coomteng@gmail.com » Wed, 2018-03-07 00:15
5
3,208 by rmoretti
Thu, 2018-03-08 07:46
Normal topic Error running snugdock
by SenyorDrew » Tue, 2017-03-14 10:00
5
3,840 by SenyorDrew
Wed, 2017-03-29 06:40
Normal topic Robetta fragments and silent.out-file
by masterofpuppets » Wed, 2015-01-07 04:28
5
5,586 by masterofpuppets
Tue, 2015-02-10 03:15
Normal topic Rosetta repacking output
by doranhen » Mon, 2012-12-03 03:44
5
5,173 by doranhen
Mon, 2014-04-21 06:47
Normal topic Modeling only part of the protein structure using ROSETTA
by qiongwu » Fri, 2009-05-29 09:08
5
4,177 by smlewis
Mon, 2014-04-21 06:47
Normal topic Docking double-stranded DNA to a protein
by xpzhang » Tue, 2012-01-31 12:35
5
8,057 by xpzhang
Mon, 2014-04-21 06:47
Normal topic Is cis-Glycine okay?
by matteoferla » Tue, 2019-11-19 07:26
5
2,554 by matteoferla
Wed, 2019-11-20 02:32
Normal topic Unrecognized residue Glc
by cgautier » Tue, 2015-03-31 02:20
5
5,453 by rmoretti
Thu, 2015-04-16 10:09
Normal topic Encouraging better packing in enzyme_design
by linucks » Thu, 2018-03-01 07:05
5
4,539 by linucks
Wed, 2018-04-25 08:50
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