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Rosetta 3 - Applications

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Normal topic ligand_docking tutorial help: do crystal_complex.pdb files need to be prepped before using with <InterfaceScoreCalculator>
by DGR95 » Fri, 2021-04-16 19:26
4
2,306 by DGR95
Wed, 2021-04-28 16:13
Normal topic Problem readin .ccp4 map file
by jljbbc » Tue, 2011-05-03 11:29
4
5,776 by jljbbc
Mon, 2014-04-21 06:47
Normal topic null mutation with ddg_monomer
by fred » Fri, 2012-05-11 07:16
4
4,214 by fred
Mon, 2014-04-21 06:47
Normal topic How to estimate the effect of a mutation on the binding energy?
by ltrabuco » Tue, 2011-02-15 08:02
4
5,475 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic fixbb with symmetry error
by Prasanth Kumar » Sun, 2014-01-26 10:56
4
5,507 by Prasanth Kumar
Mon, 2014-04-21 06:48
Normal topic favor native residue in fixBB design
by ast » Mon, 2012-12-10 06:00
4
4,812 by smlewis
Mon, 2014-04-21 06:47
Normal topic Loop modelling before peptide docking
by wsgosal » Tue, 2013-10-01 07:24
4
5,310 by wsgosal
Mon, 2014-04-21 06:48
Normal topic Abinitio.relax problem on centos
by krlitros87 » Wed, 2014-09-24 11:27
4
5,843 by jadolfbr
Tue, 2014-10-07 16:05
Normal topic Error while running "make_fragments.pl".....[blastpgp] ERROR: Arguments must start with '-'
by AG88 » Thu, 2011-11-03 01:25
4
7,706 by weitzner
Mon, 2014-04-21 06:47
Normal topic ReplicaDock2.0 demo fails with MPIFileBufJobDistributor: (1) [ ERROR ]
by erpannec » Tue, 2022-08-09 05:42
4
1,846 by erpannec
Thu, 2022-09-15 05:17
Normal topic RosettaDesign error with Option file open failed
by xingqing326 » Sun, 2020-04-19 01:56
4
3,965 by xingqing326
Tue, 2020-04-21 19:11
Normal topic Rebuilding the structure from unknown residues
by sushreet » Mon, 2016-06-27 09:32
4
5,244 by rmoretti
Tue, 2016-07-12 09:35
Normal topic extract_pdbs fails to open silent file when -auto_setup_metals enabled
by attesor » Thu, 2015-01-15 03:22
4
5,040 by attesor
Tue, 2015-01-27 02:20
Normal topic Score Functions for Ligand-protein Docking
by ziruiw » Sun, 2021-04-25 13:41
4
3,195 by ziruiw
Fri, 2021-04-30 12:01
Normal topic ligand dock question
by sacch » Sun, 2012-05-20 19:49
4
4,502 by sacch
Mon, 2014-04-21 06:47
Normal topic Docking to TM protein plus lipid bilayer
by renedominik » Tue, 2019-03-12 06:58
4
3,578 by elpipasp
Thu, 2023-10-19 04:37
Normal topic fa_plane enregy term in scoring weights
by ytao » Fri, 2012-11-30 20:25
4
5,014 by smlewis
Mon, 2014-04-21 06:47
Normal topic rosetta backrub
by ladimafakher » Thu, 2018-10-04 08:01
4
3,452 by ladimafakher
Thu, 2018-11-01 03:47
Normal topic homology modelling with DNA
by zadie1118 » Fri, 2012-09-28 06:35
4
5,778 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Segmentation Fault
by ajaniharesh » Fri, 2019-03-29 11:21
4
6,170 by ajaniharesh
Thu, 2019-04-04 07:07
Normal topic Relax with protein+complex
by Prasanth Kumar » Wed, 2013-05-08 23:16
4
5,779 by Prasanth Kumar
Mon, 2014-04-21 06:47
Normal topic Lammps or RosettaSurface
by StevPChem » Fri, 2016-06-10 10:13
3
3,946 by Anpu
Tue, 2018-09-25 18:53
Normal topic relax with resfile
by gw » Fri, 2011-08-05 10:57
3
6,184 by nannemdp
Mon, 2014-04-21 06:47
Normal topic Extract PDB structures from database
by cossio » Mon, 2018-01-29 09:30
3
3,840 by rmoretti
Fri, 2018-11-23 11:23
Normal topic How to perform abinitiorelax.mpi.linuxgccrelease in parallel mode with MPI
by kingljy » Sun, 2017-09-24 18:37
3
3,798 by rmoretti
Tue, 2017-10-10 09:58
Normal topic "Install_dependencies.pl" gives "Aborted" when downloading "nr" database?
by Danielsebas » Sat, 2019-09-14 08:53
3
2,278 by danpf
Mon, 2019-09-16 09:51
Normal topic Does it make sense if I do backrub after sequence design?
by johnnytam100 » Thu, 2019-08-15 05:15
3
2,333 by johnnytam100
Fri, 2019-08-16 00:20
Normal topic RosettaCM or FastRelax?
by Tianyang89 » Wed, 2020-09-23 07:46
3
2,152 by danpf
Thu, 2020-09-24 13:44
Normal topic Problem with symmetric docking
by saxen » Fri, 2011-04-29 15:15
3
4,128 by smlewis
Mon, 2014-04-21 06:47
Normal topic Syntax for the alignment file in "minirosetta comparative modeling"
by lanselibai » Thu, 2014-10-16 15:29
3
4,580 by lanselibai
Thu, 2014-10-23 03:26
Normal topic Constraints in RosettaCM
by kbuhr » Fri, 2015-07-31 06:55
3
4,202 by kbuhr
Mon, 2016-03-28 01:08
Normal topic Coupled Moves crash with Membrane Protein - residue_edge is undefined for root vertex
by benhardy » Mon, 2020-06-15 09:33
3
2,171 by benhardy
Fri, 2020-06-19 07:55
Normal topic scoring input pdbs as the same as docking score
by hamedkhakzad » Fri, 2016-07-01 07:15
3
3,695 by rmoretti
Tue, 2016-07-12 09:05
Normal topic KIC with fragments versus Next generation KIC
by Loki01 » Fri, 2018-09-07 05:06
3
2,940 by smlewis
Mon, 2018-09-10 11:48
Normal topic Transmembrane helix fold-and-dock?
by sarah_b » Tue, 2020-05-12 02:09
3
2,310 by jkleman
Tue, 2020-05-19 15:02
Normal topic Why is proline hydroxylated?
by kwonglynn » Tue, 2013-06-25 02:38
3
5,245 by rmoretti
Mon, 2014-04-21 06:48
Normal topic ddG_monomer
by cott1117 » Thu, 2014-06-12 09:53
3
5,132 by rmoretti
Wed, 2014-07-02 16:55
Normal topic Missing CS-HM-Rosetta Binary files
by Marius1987 » Wed, 2016-02-10 05:52
3
3,914 by Marius1987
Mon, 2016-03-14 04:34
Normal topic Threading a sequence onto a template with ligands/metal ions included
by ajkal » Wed, 2017-04-19 11:53
3
3,625 by ahmadkhalifa
Sun, 2019-03-31 23:27
Normal topic dihedral_between_bonded_children: atoms are not both my children!
by pdbb » Fri, 2013-04-05 06:40
3
3,360 by smlewis
Mon, 2014-04-21 06:47
Normal topic Homodimer interface design
by petrikigor » Fri, 2012-11-16 10:57
3
5,016 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Rosetta make_fragments.pl error?
by Danielsebas » Mon, 2019-09-02 07:51
3
2,431 by Danielsebas
Thu, 2019-09-05 03:35
Normal topic pdb2vall
by JadAbbass » Mon, 2013-07-08 12:11
3
3,916 by rmoretti
Mon, 2014-04-21 06:48
Normal topic FlexPepDock for protein containing multiple chains
by Dimitrov » Mon, 2012-10-08 08:31
3
4,026 by smlewis
Mon, 2014-04-21 06:47
Normal topic De novo model-building guided by exprimental density data
by dee2711453 » Thu, 2016-03-10 17:28
3
3,628 by dee2711453
Fri, 2016-03-11 21:32
Normal topic The question of ligand docking with constraints
by asbelx » Mon, 2018-06-11 09:39
3
3,222 by rmoretti
Thu, 2018-06-28 12:58
Normal topic Error when running cluster
by aloshbau » Wed, 2013-05-01 20:45
3
4,687 by rmoretti
Mon, 2014-04-21 06:47
Normal topic cluster.mpi.linuxgccrelease failed
by fred » Mon, 2014-02-24 12:11
3
8,085 by fred
Thu, 2014-03-27 11:29
Normal topic deltaG calculations
by Prasanth Kumar » Wed, 2013-05-15 07:06
3
6,421 by rmoretti
Mon, 2014-04-21 06:47
Normal topic what does initialize_rigid_body_dofs do?
by attesor » Mon, 2015-10-26 05:12
3
3,968 by rmoretti
Tue, 2015-11-10 11:35
Normal topic HBNet and RosettaScripts
by protos_heis » Tue, 2014-08-05 06:05
3
4,254 by protos_heis
Tue, 2014-08-05 12:47
Normal topic Enzdes constraint file not defined correctly
by eyong123 » Fri, 2015-03-27 07:16
3
3,860 by rmoretti
Thu, 2015-04-16 10:38
Normal topic error with fragment_picker.linuxgccrelease
by jiongzhang » Tue, 2012-04-17 09:07
3
3,584 by smlewis
Mon, 2014-04-21 06:47
Normal topic Docking one protein into interface between two other proteins
by Cheems » Sat, 2023-05-06 09:49
3
828 by rmoretti
Mon, 2023-05-08 13:14
Normal topic comparative modeling of protein-ligand complex
by tevang » Mon, 2013-09-09 09:06
3
4,387 by rmoretti
Mon, 2014-04-21 06:48
Normal topic sam.predict-2nd for make_fragments.pl script
by sumukh21 » Thu, 2011-02-17 12:29
3
4,811 by fukamitka
Mon, 2014-04-21 06:47
Normal topic Up to date Vall database
by JadAbbass » Sat, 2013-06-29 10:35
3
5,884 by rmoretti
Tue, 2017-06-20 09:02
Normal topic Missing common atom definitions in constraints
by ic3reyes » Sat, 2011-06-11 13:09
3
5,139 by smlewis
Mon, 2014-04-21 06:47
Normal topic Why there are two outputs using pmut_scan_parallel.linuxgccrelease with a mutant list file?
by lanselibai » Sun, 2014-11-16 10:26
3
3,850 by G Mustafa
Thu, 2018-10-18 05:31
Normal topic How tu use Delta filter's relax_mover
by pocin » Sun, 2017-02-19 05:21
3
3,313 by rmoretti
Wed, 2017-03-01 13:10
Normal topic Allow region of protein to move in a certain direction
by sn » Wed, 2017-08-23 17:07
3
3,289 by rmoretti
Thu, 2017-08-24 11:00
Normal topic fragment_picker with fasta only
by gw » Tue, 2011-11-15 13:20
3
4,432 by gw
Mon, 2014-04-21 06:47
Normal topic Modeling of side-chains onto membrane ab initio cluster?
by akfried » Thu, 2011-06-23 04:03
3
4,065 by nkemjika
Mon, 2014-04-21 06:47
Normal topic Residue_energy_breakdown utility
by cn » Sat, 2012-03-17 06:11
3
3,622 by cn
Mon, 2014-04-21 06:47
Normal topic NCAA attached at two points
by tsztain » Wed, 2021-06-16 15:20
3
1,806 by matteoferla
Sat, 2021-06-19 03:07
Normal topic Simple comparative modeling (threading) example is failing with "unknown atom name: CA CB"
by brspurri » Fri, 2017-03-24 10:52
3
3,758 by brspurri
Fri, 2017-03-24 11:35
Normal topic protein protein interaction design
by Negarsardar » Wed, 2019-05-15 06:13
3
3,574 by ajasja
Wed, 2019-05-15 15:40
Normal topic Using Rosetta Docking for nucleic acids
by Adrien Guilhot » Thu, 2011-04-28 06:16
3
5,129 by Adrien Guilhot
Mon, 2014-04-21 06:47
Normal topic No Space
by jrcf » Mon, 2016-01-11 16:18
3
3,496 by jrcf
Fri, 2016-02-12 16:42
Normal topic Negative Design
by rbjacob » Thu, 2018-10-11 09:18
3
2,913 by smlewis
Mon, 2018-10-15 08:42
Normal topic ddg_monomer.mpi
by gw » Thu, 2011-10-27 16:45
3
4,210 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to preserve ACE/NME termini?
by nitroamos » Tue, 2018-05-22 13:07
3
3,751 by rmoretti
Thu, 2018-06-28 12:44
Normal topic Error encountered during Rosetta loop modeling
by max » Tue, 2014-11-25 02:17
3
3,835 by max
Thu, 2014-11-27 02:56
Normal topic Loop modeling with constraints
by agctomer » Sat, 2021-03-20 03:53
3
1,952 by agctomer
Thu, 2021-04-08 07:37
Normal topic assymetric dymer modelling with comparative and ab initio
by marcia » Mon, 2013-10-14 08:33
3
4,896 by rmoretti
Mon, 2014-04-21 06:48
Normal topic ddg_monomer: what is the theoretical solution condition for the scoring?
by lanselibai » Sat, 2016-04-30 03:26
3
3,884 by smlewis
Mon, 2016-05-02 08:20
Normal topic clustering in RosettaRemodel
by cheyuk » Wed, 2014-04-23 03:09
3
4,062 by rmoretti
Mon, 2014-05-12 08:45
Normal topic partial ab initio modeling
by fred » Wed, 2011-08-17 14:14
3
4,212 by smlewis
Mon, 2014-04-21 06:47
Normal topic relax a protein with phosphorylated serine residue
by zruan » Thu, 2018-02-01 09:18
3
2,964 by rmoretti
Tue, 2018-02-06 09:47
Normal topic Relax both peptide and ligands
by matteoferla » Thu, 2018-09-13 03:11
3
2,705 by smlewis
Fri, 2018-09-14 10:34
Normal topic New CSRosetta toolbox
by sn » Mon, 2017-04-24 12:42
3
2,888 by rmoretti
Tue, 2017-04-25 06:41
Normal topic How can I set ref2015 and ligand.wts(-restore_pre_talaris_2013_behavior )
by asbelx » Sat, 2019-06-08 00:07
3
2,631 by happycaapi
Tue, 2021-06-29 15:35
Normal topic Are catalytic residues mutatable?
by uka147 » Thu, 2023-10-26 03:49
3
565 by uka147
Mon, 2023-10-30 01:53
Normal topic Can only relax one structure at a time
by lah435 » Wed, 2012-12-12 01:55
3
3,948 by smlewis
Mon, 2014-04-21 06:47
Normal topic ddg monomer vs pmut scan
by dave » Tue, 2014-03-04 10:18
3
4,485 by smlewis
Fri, 2014-03-07 13:02
Normal topic pmut_scan does not produce log file
by fglaser » Wed, 2013-10-16 07:25
3
4,414 by matteoferla
Tue, 2018-10-30 02:54
Normal topic auto_setup_metals flag with loop modeling application fails
by beowulfey » Wed, 2015-06-10 07:44
3
4,270 by beowulfey
Tue, 2015-06-23 16:10
Normal topic RosettaScripts filter BuriedUnsatHbonds2 missing still
by zdaw » Fri, 2020-12-11 12:39
3
1,838 by zdaw
Tue, 2020-12-15 15:38
Normal topic ligand_docking_error
by Alison_Yajie » Mon, 2020-04-20 12:27
3
2,256 by YuFei
Sat, 2020-05-30 00:12
Normal topic remodel gives no output
by coomteng@gmail.com » Tue, 2018-03-06 07:40
3
3,257 by rmoretti
Wed, 2018-03-07 08:44
Normal topic Rosetta 3.4 "Relax pdb with allatom constraints" does not work with structures containing multiple chains
by ahonegger » Tue, 2012-04-24 01:34
3
4,195 by ahonegger
Mon, 2014-04-21 06:47
Normal topic Model truncated proteins
by BuddySphinx » Wed, 2018-12-12 10:32
3
2,865 by smlewis
Wed, 2018-12-12 16:51
Normal topic revert_design_to_native app comparison to FavorNativeResidue mover
by nwhoppe » Wed, 2016-06-29 14:35
3
4,190 by rmoretti
Tue, 2016-07-12 09:30
Normal topic The confussion about an example in tutorial in Rosetta Virtual Workshop 2020
by ldx022 » Tue, 2022-11-29 04:58
3
4,352 by ldx022
Tue, 2022-11-29 08:38
Normal topic xyzVector error in Enzyme design
by ajmbarbosa » Tue, 2016-01-05 09:46
3
4,325 by rmoretti
Fri, 2016-06-17 10:36
Normal topic Deciding -nstruct for RNA FARFAR2
by mandar » Thu, 2024-03-07 22:16
3
160 by mandar
Thu, 2024-03-14 22:25
Normal topic loopmodel thinks there are no residues in the pose
by lah435 » Wed, 2013-03-27 02:46
3
4,233 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Ligand dock analysis
by sacch » Tue, 2012-05-22 01:20
3
3,905 by glemmon
Mon, 2014-04-21 06:47
Normal topic Per residue scoring
by chelsell » Mon, 2015-08-17 14:43
3
4,197 by rmoretti
Wed, 2015-09-02 12:33
Normal topic RosettaCM input file for running on Stampede
by smathersc » Wed, 2017-01-18 16:12
3
3,224 by rmoretti
Thu, 2017-02-02 09:02
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