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Rosetta 3 - Applications

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Normal topic Fixing and Building disulfide bonds in homology modeling
by kamau » Wed, 2014-09-24 11:33
0
2,222 by kamau
Wed, 2014-09-24 11:35
Normal topic Problems with waters in CoupledMoves application
by Corvin » Tue, 2021-11-16 07:16
0
559 by Corvin
Tue, 2021-11-16 07:22
Normal topic Nanobody design
by chandana » Tue, 2022-08-09 20:36
0
343 by chandana
Tue, 2022-08-09 20:36
Normal topic crazy loopmodel: linear output pdbs
by fred » Wed, 2014-12-03 12:27
0
1,166 by fred
Wed, 2014-12-03 12:28
Normal topic Enzyme Design Not Editing Structure
by liuwenxi » Wed, 2022-05-18 10:12
0
360 by liuwenxi
Wed, 2022-05-18 10:12
Normal topic charge grid in rosetta ligand docking using rosetta script
by syntekabio2019 » Mon, 2022-01-17 23:53
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520 by syntekabio2019
Mon, 2022-01-17 23:53
Normal topic Pepspec - sequence sampling
by almeida85 » Thu, 2022-06-23 04:05
0
338 by almeida85
Thu, 2022-06-23 05:50
Normal topic remodel: what are the exact meanings of notations for secondary structure?
by lanselibai » Sat, 2015-01-17 04:53
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1,293 by lanselibai
Sat, 2015-01-17 07:57
Normal topic DDG and interaction score problem
by a-eatemadi@razi... » Mon, 2018-04-09 22:54
0
965 by a-eatemadi@razi...
Mon, 2018-04-09 22:54
Normal topic Repeatability of DDG calculation
by jennifer » Wed, 2015-04-08 05:29
0
1,390 by jennifer
Wed, 2015-04-08 05:29
Normal topic structure prediction
by MA » Wed, 2018-09-05 00:50
0
755 by MA
Wed, 2018-09-05 00:50
Normal topic Error reading in/out glycosylated silent file - "Can't create a polymer bond after residue due to incompatible type"
by amorin » Mon, 2021-09-27 12:16
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555 by amorin
Mon, 2021-09-27 12:16
Normal topic score is 0 in the output? - RosettaScripts
by chrisHKL » Thu, 2020-03-05 09:33
0
697 by chrisHKL
Thu, 2020-03-05 12:58
Normal topic Issues with modifying dock.xml for multiple ligand docking
by DGR95 » Fri, 2021-05-14 12:51
0
507 by DGR95
Fri, 2021-05-14 12:51
Normal topic Include MHC alpha helices in loop modelling protocol for pMHC complex
by Roberto » Thu, 2022-08-04 07:22
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300 by Roberto
Thu, 2022-08-04 07:22
Normal topic how to generate the whole molecule that contains all the symmetric chains
by Sunyp_IM » Sun, 2017-12-10 19:43
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982 by Sunyp_IM
Sun, 2017-12-10 19:43
Normal topic ligand_docking: ligand preparation
by Alison_Yajie » Thu, 2020-07-02 07:05
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667 by Alison_Yajie
Thu, 2020-07-02 07:10
Normal topic core.optimization.LineMinimizer: [ ERROR ] Inaccurate G!
by aralz » Thu, 2021-02-11 00:46
0
662 by aralz
Thu, 2021-02-11 00:46
Normal topic protein relax
by Alison_Yajie » Tue, 2020-05-19 08:29
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642 by Alison_Yajie
Tue, 2020-05-19 08:29
Normal topic Grafting using antibody.mpi.linuxgccrelease and specifying custom template which doesnt have pdb id.
by SubhaK » Wed, 2023-01-18 23:33
0
410 by SubhaK
Wed, 2023-01-18 23:33
Normal topic Use membrane or non-membrane weights in RosettaCM for a hexon in virus capsid?
by lanselibai » Sat, 2020-04-11 02:10
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726 by lanselibai
Sat, 2020-04-11 02:10
Normal topic using DARC in rosetta
by syntekabio2019 » Thu, 2019-12-12 01:27
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760 by syntekabio2019
Thu, 2019-12-12 01:27
Normal topic Flex_ddG突变设计
by wangtao » Thu, 2022-05-05 02:46
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435 by wangtao
Thu, 2022-05-05 02:46
Normal topic AbinitioRelax detect_disulf_tolerance
by aarono » Tue, 2020-06-02 00:13
0
702 by aarono
Tue, 2020-06-02 00:13
Normal topic Trehalose
by jpfuenzalidawx » Thu, 2022-09-08 00:49
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256 by jpfuenzalidawx
Thu, 2022-09-08 00:49
Normal topic Limit on backbone movement in relax?
by SWM » Fri, 2020-01-24 07:35
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700 by SWM
Fri, 2020-01-24 07:35
Normal topic What is an SS0 predictor?
by ojmel » Fri, 2021-04-02 14:25
0
479 by ojmel
Mon, 2021-04-12 07:50
Normal topic Local docking- should I use KIC?
by seayoung lee » Fri, 2022-05-27 02:45
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392 by seayoung lee
Fri, 2022-05-27 02:45
Normal topic fragment_picker bug
by David Hoover » Wed, 2012-02-29 11:43
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1,580 by David Hoover
Mon, 2014-04-21 06:47
Normal topic Using abinition to predict a new (previously unsolved) structure.
by ac.research » Mon, 2017-01-09 00:59
0
1,104 by ac.research
Mon, 2017-01-09 00:59
Normal topic metalloprotein ab initio with glutamic acid
by inorgchem » Tue, 2020-06-16 20:45
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505 by inorgchem
Tue, 2020-06-16 20:45
Normal topic Writing down properties for new atom types
by Corvin » Tue, 2021-01-12 04:30
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485 by Corvin
Wed, 2021-01-13 04:00
Normal topic Relax in membrane pull my protein out of the membrane
by Martin Floor » Wed, 2022-01-26 07:46
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569 by Martin Floor
Wed, 2022-01-26 07:46
Normal topic clashes created with enzdes
by listofdina » Mon, 2021-08-02 06:51
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513 by listofdina
Mon, 2021-08-02 06:51
Normal topic snugdock: constrained backbone
by mahendra » Mon, 2022-11-14 02:51
0
1,260 by mahendra
Mon, 2022-11-14 02:51
Normal topic Ligand Docking with ROSETTA
by sc19 » Thu, 2022-07-14 01:32
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338 by sc19
Thu, 2022-07-14 01:34
Normal topic Reproduce Robetta's ddg values of interface alanine scan using Rosetta?
by cossio » Mon, 2015-01-19 07:14
0
2,517 by cossio
Mon, 2015-01-19 07:14
Normal topic DDG_monomer ΔΔG question
by asbelx » Fri, 2018-04-20 03:31
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946 by asbelx
Fri, 2018-04-20 03:33
Normal topic Global Docking with carbohydrates
by ChiauShu » Sat, 2020-08-22 20:16
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631 by ChiauShu
Sat, 2020-08-22 20:16
Normal topic Creating fragment files for proteins less than 27 aa in length
by Poladu » Tue, 2021-01-26 07:50
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562 by Poladu
Tue, 2021-01-26 07:50
Normal topic Flex_ddG crashes when attempting to move 2 chains (e.g. chains_to_move = A,C)
by jcampecino » Wed, 2020-05-13 12:22
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700 by jcampecino
Wed, 2020-05-13 12:22
Normal topic comparative modelling of a complex
by sdh_h » Sun, 2017-12-17 06:07
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859 by sdh_h
Sun, 2017-12-17 06:07
Normal topic Metal Ion in symmetric design
by tschiex » Wed, 2020-07-08 05:28
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627 by tschiex
Wed, 2020-07-08 05:28
Normal topic Can remodel really handle multiple insertions in one simulation?
by lanselibai » Sat, 2019-12-28 12:51
0
657 by lanselibai
Sat, 2019-12-28 12:51
Normal topic minimize_ppi.mpi.linuxgccrelease doesn't use jd2?
by e3lm » Tue, 2022-05-17 11:58
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388 by e3lm
Tue, 2022-05-17 11:58
Normal topic denovo_density don't output a pdb file
by ylwang » Sun, 2018-11-18 17:51
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808 by ylwang
Sun, 2018-11-18 17:51
Normal topic mp_transform optimize with franklin2019 scoring
by benhardy » Thu, 2020-05-28 08:35
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866 by benhardy
Thu, 2020-05-28 08:45
Normal topic Remodel's problem in treatment with non-protein residues
by Corvin » Mon, 2021-12-13 09:07
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489 by Corvin
Mon, 2021-12-13 09:07
Normal topic RemodelMover and Input Pose
by ozyo » Tue, 2020-12-29 09:41
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607 by ozyo
Tue, 2020-12-29 09:41
Normal topic I need help with cst file the paper: De Novo Computational Design of Retro-Aldol Enzymes
by Wenithor » Thu, 2022-01-06 12:20
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518 by Wenithor
Thu, 2022-01-06 12:20
Normal topic Pepspec Anchor Dock
by Soler » Fri, 2020-09-18 08:09
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756 by Soler
Fri, 2020-09-18 08:09
Normal topic Symmetry definition question
by mrconde96 » Sun, 2022-10-02 05:34
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871 by mrconde96
Sun, 2022-10-02 05:34
Normal topic Patch to impose tetrahedral geometry on backbone O atom
by georg » Thu, 2021-04-08 09:30
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504 by georg
Thu, 2021-04-08 09:31
Normal topic membrane ab-initio modeling, is the quality comparable to comparative modeling of 20% id template?
by fglaser » Thu, 2011-04-07 07:57
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2,017 by fglaser
Mon, 2014-04-21 06:47
Normal topic What is interface_cutoff_distance? And why did my residues outside this value get designed?
by chrisHKL » Fri, 2020-02-28 14:52
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694 by chrisHKL
Fri, 2020-02-28 14:52
Normal topic clustering output file has few structures
by fabiotrovato » Mon, 2020-08-17 11:37
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545 by fabiotrovato
Mon, 2020-08-17 11:37
Normal topic Domain insertion with Non-CAA
by mwfranklin » Mon, 2017-01-16 12:30
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1,491 by mwfranklin
Mon, 2017-01-16 12:30
Normal topic Segment File Gen - no ouput
by CATarr » Wed, 2019-10-09 19:05
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683 by CATarr
Wed, 2019-10-09 19:05
Normal topic RosettaAntibody - No matching templates for CDR1
by agctomer » Tue, 2021-01-19 22:45
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611 by agctomer
Tue, 2021-01-19 22:45
Normal topic Generating the 3-mer and 9-mer fragments
by Prasoon » Wed, 2022-02-09 09:04
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556 by Prasoon
Wed, 2022-02-09 09:04
Normal topic Flexpepdock I_hb scoring term
by mbakalar » Fri, 2018-08-31 13:05
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897 by mbakalar
Fri, 2018-08-31 13:06
Normal topic General question regarding ligand-docking
by Alison_Yajie » Thu, 2020-05-07 09:48
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572 by Alison_Yajie
Thu, 2020-05-07 09:48
Normal topic Modelling of multi-component symmetrical structures
by LanMei » Wed, 2020-10-07 09:58
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700 by LanMei
Wed, 2020-10-07 09:58
Normal topic Problem with Scoring function and PlaceStub mover
by a-eatemadi@razi... » Sat, 2018-04-07 09:22
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910 by a-eatemadi@razi...
Sat, 2018-04-07 09:24
Normal topic wallpaper symmetry definition file
by aaj » Fri, 2016-02-26 08:40
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1,192 by aaj
Fri, 2016-02-26 08:40
Normal topic pMHC modelling
by Roberto » Thu, 2022-08-04 07:11
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300 by Roberto
Thu, 2022-08-04 07:11
Normal topic Interesting scoring performance in flexpepdock against random peptides
by ziqi1234 » Fri, 2017-12-08 07:52
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887 by ziqi1234
Fri, 2017-12-08 07:52
Normal topic An error with score app
by Genta » Tue, 2019-10-29 18:46
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1,046 by Genta
Tue, 2019-10-29 18:46
Normal topic antibody.mpi.linuxgccrelease some antibodies failing to model
by drewaight » Mon, 2020-11-02 17:07
0
828 by drewaight
Mon, 2020-11-02 17:07
Normal topic Rosetta DARc suboptimal dockings
by ddhoyo » Mon, 2021-10-11 06:18
0
458 by ddhoyo
Mon, 2021-10-11 06:18
Normal topic Snugdock Error: The sequence position requested was greater than the number of residues
by stannowitz » Tue, 2023-01-17 07:37
0
516 by stannowitz
Tue, 2023-01-17 23:48
Normal topic Folding and Docking using Symmetry
by danielles » Wed, 2012-09-12 11:32
0
1,662 by danielles
Mon, 2014-04-21 06:47
Normal topic Rosetta remodel - including an RNA ligand
by daniloboskovic » Fri, 2020-04-10 04:24
0
718 by daniloboskovic
Fri, 2020-04-10 04:24
Normal topic Fragment library (vall file) from Robetta?
by alex » Sun, 2017-02-19 08:12
0
1,381 by alex
Sun, 2017-02-19 08:12
Normal topic using piper-flexpepdock
by syntekabio2019 » Thu, 2019-12-12 01:22
0
937 by syntekabio2019
Thu, 2019-12-12 01:22
Normal topic Ab Initio folding with HEM ligand molecule
by jseco » Fri, 2021-03-05 06:49
0
525 by jseco
Mon, 2021-03-08 03:40
Normal topic Dimeric interface redesign
by kjs1728 » Mon, 2022-05-02 21:57
0
368 by kjs1728
Mon, 2022-05-02 21:57
Normal topic SecundaryStructure Filter
by Soler » Sun, 2021-11-21 22:20
0
528 by Soler
Sun, 2021-11-21 22:20
Normal topic Error when using Remodel on a protein with a chemically bound ligand
by Pappmaschee » Wed, 2020-12-16 09:23
0
733 by Pappmaschee
Wed, 2020-12-16 09:23
Normal topic simple_cycpep_predict with N-term acetylation
by Ken » Fri, 2021-12-17 09:49
0
493 by Ken
Fri, 2021-12-17 09:49
Normal topic FlexPepDocking
by jlawrie » Tue, 2020-09-15 12:52
0
636 by jlawrie
Tue, 2020-09-15 12:52
Normal topic Macrocycle from a C-terminal amidated peptide
by almeida85 » Thu, 2022-08-18 07:53
0
340 by almeida85
Thu, 2022-08-18 07:53
Normal topic csrosetta.org login
by jfeuva » Tue, 2014-12-09 14:49
0
24,179 by jfeuva
Tue, 2014-12-09 14:49
Normal topic Zero residues error in docking
by cjy318 » Tue, 2020-07-28 19:47
0
689 by cjy318
Tue, 2020-07-28 19:47
Normal topic Params for a stapled helix peptide
by e3lm » Thu, 2022-05-26 12:55
0
370 by e3lm
Thu, 2022-05-26 12:55
Normal topic rosetta remodel and designing helix extension
by dhirajks » Thu, 2018-12-13 19:34
0
922 by dhirajks
Thu, 2018-12-13 19:34
Normal topic constraints in Rosetta ligand docking (AddorRemoveMatchCsts, Addconstraints Mover, and ConstraintSetMover)
by rohi » Mon, 2021-01-11 13:32
0
723 by rohi
Mon, 2021-01-11 13:58
Normal topic Can anybody suggests some flags to run Rifdock?
by Hyunmi Song » Sun, 2022-01-23 16:45
0
672 by Hyunmi Song
Sun, 2022-01-23 16:45
Normal topic FlexPepDock bug? Constraints do not appear in total_score?
by nrollins » Mon, 2021-07-26 14:29
0
468 by nrollins
Mon, 2021-07-26 14:29
Normal topic Ligand Rotamer Control in Macther
by Hirbond » Tue, 2022-10-25 13:01
0
1,331 by Hirbond
Wed, 2022-10-26 12:57
Normal topic Secondary Matching build_sets Error
by enmirts » Wed, 2018-03-28 10:33
0
880 by enmirts
Wed, 2018-03-28 10:34
Normal topic multi ligand docking using rosetta script
by syntekabio2019 » Tue, 2021-04-13 19:31
0
532 by syntekabio2019
Tue, 2021-04-13 19:31
Normal topic Per residue total score
by johnnytam100 » Wed, 2022-07-13 21:57
0
310 by johnnytam100
Wed, 2022-07-13 21:57
Normal topic Protein-DNA Docking using RosettaScripts?
by brspurri » Fri, 2013-06-07 09:06
1
4,077 by rmoretti
Mon, 2014-04-21 06:48
Normal topic RosettaCM/hybridize
by kywei » Wed, 2021-04-28 09:56
1
691 by vmulligan
Wed, 2021-04-28 12:59
Normal topic Rosetta DNA - Protein-DNA scoring function and binding energy
by tanoramb » Tue, 2012-05-08 14:00
1
4,208 by smlewis
Mon, 2014-04-21 06:47
Normal topic Ab-initio modeling on part of the protein
by xiayanlawrence » Thu, 2013-12-19 07:45
1
3,128 by rmoretti
Mon, 2014-04-21 06:48
Normal topic latest version of rosetta unable to build models
by pramod » Mon, 2014-11-03 11:31
1
2,412 by rmoretti
Tue, 2014-11-04 10:33
Normal topic RosettaRemodel: ERROR: 'Replacing' an atom which doesn't currently exist.
by kamau » Fri, 2017-12-01 08:42
1
1,383 by kamau
Wed, 2017-12-13 14:31
Normal topic Adding 'virtual' residues for N- and C-terminal optimisation
by Derek Smith » Thu, 2014-08-14 23:18
1
2,015 by jadolfbr
Fri, 2014-10-31 09:00
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