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Rosetta 3 - Applications

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Sticky topic Sticky: FAQ
by admin » Mon, 2010-08-30 04:18
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16,823 by admin
Fri, 2015-09-04 16:17
Normal topic minirosetta: how to reserve (inter-chain) disulfides after relax ?
by lanselibai » Sat, 2015-01-24 10:56
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2,073 by lanselibai
Thu, 2015-01-29 00:50
Normal topic Comparative Modeling Templates for Protein with Multiple Domains
by Morrian_Lynn » Wed, 2020-03-04 10:42
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707 by Morrian_Lynn
Wed, 2020-03-04 10:42
Normal topic hpatch commands and how to identify patches
by Bianca Oliva » Thu, 2021-04-29 04:02
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691 by Bianca Oliva
Thu, 2021-04-29 04:02
Normal topic CS-Rosetta cofactor
by martongadanecz » Wed, 2022-08-03 01:05
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476 by martongadanecz
Wed, 2022-08-03 01:05
Normal topic Modelling humanized camelid like antibody
by terabithia2011 » Tue, 2021-01-26 10:12
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632 by terabithia2011
Tue, 2021-01-26 10:12
Normal topic simple_cycpep_predict thioether_lariat option
by Ken » Mon, 2022-03-14 15:14
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564 by Ken
Mon, 2022-03-14 15:14
Normal topic RosettaMatch and CST files
by mwfranklin » Mon, 2016-07-25 11:49
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1,962 by mwfranklin
Mon, 2016-07-25 11:49
Normal topic how to run ala_scan.xml
by xinmiaohe » Mon, 2019-08-26 09:38
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842 by xinmiaohe
Mon, 2019-08-26 09:38
Normal topic Docking of multichain oligomers
by sdh_h » Wed, 2020-03-25 12:43
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834 by sdh_h
Wed, 2020-03-25 12:43
Normal topic Docking the border segments of coiled coils in parallel orientation
by Corvin » Mon, 2019-12-02 02:00
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797 by Corvin
Mon, 2019-12-02 02:00
Normal topic about “protein mimic designer”
by sia » Wed, 2022-04-27 19:59
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559 by sia
Wed, 2022-04-27 19:59
Normal topic Fixing and Building disulfide bonds in homology modeling
by kamau » Wed, 2014-09-24 11:33
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2,276 by kamau
Wed, 2014-09-24 11:35
Normal topic Problems with waters in CoupledMoves application
by Corvin » Tue, 2021-11-16 07:16
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656 by Corvin
Tue, 2021-11-16 07:22
Normal topic How to change the axes of "-spin" in docking_protocol
by Zehui Zhou » Mon, 2023-02-13 22:06
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1,640 by Zehui Zhou
Mon, 2023-02-13 22:06
Normal topic error in loop remodeling
by syntekabio2019 » Wed, 2023-04-05 01:00
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75 by syntekabio2019
Wed, 2023-04-05 01:01
Normal topic Nanobody design
by chandana » Tue, 2022-08-09 20:36
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586 by chandana
Tue, 2022-08-09 20:36
Normal topic crazy loopmodel: linear output pdbs
by fred » Wed, 2014-12-03 12:27
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1,215 by fred
Wed, 2014-12-03 12:28
Normal topic Enzyme Design Not Editing Structure
by liuwenxi » Wed, 2022-05-18 10:12
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540 by liuwenxi
Wed, 2022-05-18 10:12
Normal topic Pepspec - sequence sampling
by almeida85 » Thu, 2022-06-23 04:05
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486 by almeida85
Thu, 2022-06-23 05:50
Normal topic charge grid in rosetta ligand docking using rosetta script
by syntekabio2019 » Mon, 2022-01-17 23:53
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706 by syntekabio2019
Mon, 2022-01-17 23:53
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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1,342 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
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1,011 by a-eatemadi@razi...
Mon, 2018-04-09 22:54
Normal topic Repeatability of DDG calculation
by jennifer » Wed, 2015-04-08 05:29
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1,441 by jennifer
Wed, 2015-04-08 05:29
Normal topic structure prediction
by MA » Wed, 2018-09-05 00:50
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813 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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662 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
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765 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
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568 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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469 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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1,028 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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733 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
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728 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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702 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
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646 by SubhaK
Wed, 2023-01-18 23:33
Normal topic Lots of Prepacking Jobs for Snugdock Failing
by katherinemccoy » Tue, 2023-02-28 18:17
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2,001 by katherinemccoy
Mon, 2023-03-13 19:10
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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782 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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803 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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607 by wangtao
Thu, 2022-05-05 02:46
Normal topic AbinitioRelax detect_disulf_tolerance
by aarono » Tue, 2020-06-02 00:13
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747 by aarono
Tue, 2020-06-02 00:13
Normal topic Trehalose
by jpfuenzalidawx » Thu, 2022-09-08 00:49
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416 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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750 by SWM
Fri, 2020-01-24 07:35
Normal topic What is an SS0 predictor?
by ojmel » Fri, 2021-04-02 14:25
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540 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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557 by seayoung lee
Fri, 2022-05-27 02:45
Normal topic Ligand Docking with ROSETTA
by sc19 » Thu, 2022-07-14 01:32
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508 by sc19
Thu, 2022-07-14 01:34
Normal topic Using abinition to predict a new (previously unsolved) structure.
by ac.research » Mon, 2017-01-09 00:59
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1,150 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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550 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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537 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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725 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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564 by listofdina
Mon, 2021-08-02 06:51
Normal topic snugdock: constrained backbone
by mahendra » Mon, 2022-11-14 02:51
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1,407 by mahendra
Mon, 2022-11-14 02:51
Normal topic Molecular Replacement with multiple chains
by brspurri » Fri, 2011-06-10 08:25
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2,010 by brspurri
Mon, 2014-04-21 06:47
Normal topic DNA Interface design
by zadie1118 » Wed, 2011-06-22 07:05
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2,012 by zadie1118
Mon, 2014-04-21 06:47
Normal topic Reproduce Robetta's ddg values of interface alanine scan using Rosetta?
by cossio » Mon, 2015-01-19 07:14
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2,566 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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994 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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708 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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613 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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809 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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909 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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678 by tschiex
Wed, 2020-07-08 05:28
Normal topic denovo_density don't output a pdb file
by ylwang » Sun, 2018-11-18 17:51
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870 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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942 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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638 by Corvin
Mon, 2021-12-13 09:07
Normal topic Error with xml script
by almeida85 » Tue, 2023-03-28 01:53
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103 by almeida85
Tue, 2023-05-16 01:00
Normal topic Can remodel really handle multiple insertions in one simulation?
by lanselibai » Sat, 2019-12-28 12:51
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705 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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559 by e3lm
Tue, 2022-05-17 11:58
Normal topic RemodelMover and Input Pose
by ozyo » Tue, 2020-12-29 09:41
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676 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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696 by Wenithor
Thu, 2022-01-06 12:20
Normal topic Simple_cycpep_predict with crosslinker BBMB
by Ken » Tue, 2023-05-09 08:52
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41 by Ken
Tue, 2023-05-09 08:52
Normal topic Pepspec Anchor Dock
by Soler » Fri, 2020-09-18 08:09
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824 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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1,019 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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551 by georg
Thu, 2021-04-08 09:31
Normal topic Problem with Scoring function and PlaceStub mover
by a-eatemadi@razi... » Sat, 2018-04-07 09:22
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969 by a-eatemadi@razi...
Sat, 2018-04-07 09:24
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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754 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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593 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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1,548 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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734 by CATarr
Wed, 2019-10-09 19:05
Normal topic RosettaAntibody - No matching templates for CDR1
by agctomer » Tue, 2021-01-19 22:45
0
689 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
0
791 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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961 by mbakalar
Fri, 2018-08-31 13:06
Normal topic General question regarding ligand-docking
by Alison_Yajie » Thu, 2020-05-07 09:48
0
625 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
0
756 by LanMei
Wed, 2020-10-07 09:58
Normal topic behind threading protocol
by fred » Tue, 2011-10-25 05:37
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2,035 by fred
Mon, 2014-04-21 06:47
Normal topic wallpaper symmetry definition file
by aaj » Fri, 2016-02-26 08:40
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1,245 by aaj
Fri, 2016-02-26 08:40
Normal topic pMHC modelling
by Roberto » Thu, 2022-08-04 07:11
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448 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
0
941 by ziqi1234
Fri, 2017-12-08 07:52
Normal topic An error with score app
by Genta » Tue, 2019-10-29 18:46
0
1,138 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
919 by drewaight
Mon, 2020-11-02 17:07
Normal topic Rosetta DARc suboptimal dockings
by ddhoyo » Mon, 2021-10-11 06:18
0
503 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
756 by stannowitz
Tue, 2023-01-17 23:48
Normal topic SecundaryStructure Filter
by Soler » Sun, 2021-11-21 22:20
0
639 by Soler
Sun, 2021-11-21 22:20
Normal topic how to control alignment for energy_based_clustering
by xfradera » Tue, 2023-02-28 10:13
0
1,573 by xfradera
Tue, 2023-02-28 10:13
Normal topic Rosetta remodel - including an RNA ligand
by daniloboskovic » Fri, 2020-04-10 04:24
0
777 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
1,436 by alex
Sun, 2017-02-19 08:12
Normal topic using piper-flexpepdock
by syntekabio2019 » Thu, 2019-12-12 01:22
0
1,001 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
572 by jseco
Mon, 2021-03-08 03:40
Normal topic Dimeric interface redesign
by kjs1728 » Mon, 2022-05-02 21:57
0
537 by kjs1728
Mon, 2022-05-02 21:57
Normal topic Error when using Remodel on a protein with a chemically bound ligand
by Pappmaschee » Wed, 2020-12-16 09:23
0
815 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
654 by Ken
Fri, 2021-12-17 09:49
Normal topic dG_separated values comparison
by almeida85 » Mon, 2023-04-24 03:34
0
71 by almeida85
Tue, 2023-05-16 01:02
Normal topic FlexPepDocking
by jlawrie » Tue, 2020-09-15 12:52
0
703 by jlawrie
Tue, 2020-09-15 12:52

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