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Rosetta 3 - Applications

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Normal topic Finding lowest energy structure among generated structures
by Marius1987 » Sun, 2016-04-10 11:38
0
1,544 by Marius1987
Sun, 2016-04-10 12:09
Normal topic Error when trying docking protocol with different ligand
by scyphs » Wed, 2020-08-05 04:37
2
1,542 by scyphs
Mon, 2020-08-10 08:09
Normal topic docking with capping groups
by xavierfradera » Sun, 2018-11-04 16:17
1
1,536 by maral.adeli-kou...
Wed, 2020-01-22 12:41
Normal topic small ligand docking in Ubuntu 20.04, please help
by guowuchen » Sun, 2022-03-06 18:12
2
1,535 by guowuchen
Mon, 2022-03-07 23:34
Normal topic Question on restraining receptor symmetry when docking ligand
by subha » Fri, 2018-07-06 21:59
1
1,534 by rmoretti
Fri, 2018-08-03 08:16
Normal topic how to know the precedure of solving a actural bio problem? like interface design?
by qq7678500549 » Thu, 2020-08-06 18:45
2
1,529 by qq7678500549
Sun, 2020-08-09 18:59
Normal topic ProteinInterfaceMS
by rbjacob » Wed, 2018-10-24 11:31
1
1,523 by rmoretti
Wed, 2018-11-21 15:10
Normal topic Membrane ab-initio modelling of a beta-strand
by hzhekova » Mon, 2019-06-10 14:22
1
1,516 by rmoretti
Mon, 2019-06-24 14:39
Normal topic Fusing C-terminal or N-terminal segments onto proteins using Remodel
by achambe » Mon, 2016-01-04 11:26
0
1,512 by achambe
Mon, 2016-01-04 11:26
Normal topic Disulfide Bonds in Loop Modeling
by code_Monkey » Mon, 2021-05-03 08:27
2
1,511 by code_Monkey
Thu, 2021-05-06 07:14
Normal topic Predicting the part of protein strcutrue
by ksy141 » Tue, 2018-10-16 11:47
1
1,511 by jadolfbr
Fri, 2018-11-09 14:28
Normal topic Could not open file /Rosetta/rosetta_bin_linux_2020.08.61146_bundle/main/database/citations/rosetta_citations
by yliang20 » Wed, 2022-06-15 11:26
2
1,504 by yliang20
Wed, 2022-06-15 13:46
Normal topic remodel: what are the exact meanings of notations for secondary structure?
by lanselibai » Sat, 2015-01-17 04:53
0
1,503 by lanselibai
Sat, 2015-01-17 07:57
Normal topic How to add additional rounds of design and optimization in Rosetta scripts?
by Nicole Deng » Tue, 2020-11-03 19:05
2
1,495 by Nicole Deng
Thu, 2020-11-05 03:04
Normal topic kcenters_clustering_of_fragments
by bjharris » Mon, 2019-07-01 16:16
1
1,494 by bjharris
Wed, 2020-07-01 23:25
Normal topic Docking protein complexes when constrained by oligomer symmetry
by msk » Tue, 2014-06-03 11:09
0
1,492 by msk
Tue, 2014-06-03 11:09
Normal topic How do I change the default Compiler for Rosetta?
by pagumaaaaa » Wed, 2022-03-16 00:23
2
1,490 by pagumaaaaa
Thu, 2022-03-24 22:40
Normal topic Protein Ensemble RosettaLigand Docking
by sam_dc » Fri, 2021-03-26 10:18
2
1,482 by sam_dc
Fri, 2021-03-26 12:04
Normal topic "install_dependencies.pl" script: an optimization of HDD space during nr-pfilt data extracting and formatting stage
by Corvin » Thu, 2019-10-10 02:20
1
1,481 by danpf
Thu, 2019-10-10 09:55
Normal topic RosettaCM
by jlawrie » Fri, 2020-08-14 14:09
0
1,474 by jlawrie
Fri, 2020-08-14 14:09
Normal topic debug rosetta_scripts FunFolDes run
by tatsiana.bylund » Sun, 2019-08-18 23:17
1
1,470 by neelamraju.srid...
Wed, 2020-11-18 05:47
Normal topic hybrid approach - comparative and ab initio modelling
by eprates » Wed, 2019-03-20 11:58
1
1,467 by rmoretti
Fri, 2019-03-29 09:45
Normal topic Relax evaluates protein-DNA complexes?
by pablogalazdavison » Thu, 2022-05-12 12:05
2
1,466 by pablogalazdavison
Fri, 2022-05-20 12:27
Normal topic PDB moves after relaxing
by Hr13b » Fri, 2018-07-27 13:12
1
1,465 by smlewis
Fri, 2018-07-27 13:32
Normal topic protein interction design
by Negarsardar » Wed, 2019-05-15 12:01
1
1,465 by rmoretti
Wed, 2019-07-10 09:24
Normal topic FASTA for Octopus
by Smbat » Wed, 2020-09-16 05:40
1
1,463 by rmoretti
Wed, 2020-09-16 22:11
Normal topic Help to understand docking results
by rtorquato » Fri, 2022-11-25 12:05
0
1,460 by rtorquato
Fri, 2022-11-25 12:05
Normal topic input file for loop modeling
by Negarsardar » Tue, 2019-04-16 10:21
1
1,455 by rmoretti
Tue, 2019-04-16 11:07
Normal topic Symmetric assembly and output reconstruction
by felipet » Wed, 2014-07-02 10:23
0
1,455 by felipet
Wed, 2014-07-02 10:23
Normal topic GeneralizedKIC loop closure error
by chenna » Sat, 2021-04-10 00:21
2
1,454 by chenna
Mon, 2021-04-12 22:08
Normal topic remodel ERROR: unrecognized mm_atom_type_name RGU
by daniloboskovic » Sat, 2020-02-22 11:55
1
1,454 by daniloboskovic
Tue, 2020-02-25 08:28
Normal topic Error with RosettaAntibodyDesign when running antibody_designer.linuxgccrelease
by bdzhh » Tue, 2019-09-17 17:02
1
1,452 by jadolfbr
Thu, 2019-09-19 08:53
Normal topic Can I use rosetta binaries built in one linux system to another linux system?
by Danielsebas » Wed, 2019-09-18 06:49
1
1,448 by rmoretti
Wed, 2019-09-18 10:36
Normal topic D-amino acids tripeptide docking.
by sam_dc » Sat, 2021-07-03 08:48
2
1,440 by vmulligan
Tue, 2021-07-06 08:27
Normal topic Element 'trRosettaProtocol': This element is not expected.
by csaylan » Tue, 2021-04-20 14:21
2
1,436 by csaylan
Tue, 2021-04-20 16:13
Normal topic denovo modelling on a virus-coat protein dimer
by aseem121 » Wed, 2019-10-16 06:55
1
1,434 by danpf
Wed, 2019-10-16 13:03
Normal topic pmut_scan_parallel
by G Mustafa » Wed, 2018-10-17 05:41
0
1,433 by G Mustafa
Wed, 2018-10-17 05:41
Normal topic antibody protocol fails
by hamedkhakzad » Mon, 2019-08-19 07:43
1
1,430 by smlewis
Tue, 2019-10-22 09:45
Normal topic AddHelixSequenceConstraints Mover2
by Negarsardar » Sat, 2019-06-01 01:54
1
1,424 by vmulligan
Thu, 2019-06-13 15:01
Normal topic The relax qustion of Rosetta VIP
by asbelx » Mon, 2019-06-10 07:52
1
1,422 by rmoretti
Mon, 2019-06-24 14:42
Normal topic can remodel add loops in one chain in multichain PDB structure?
by ksteczk » Fri, 2020-05-01 06:26
1
1,419 by matteoferla
Mon, 2020-05-04 01:43
Normal topic The energy terms in InterfaceAnalyzer
by Sunyp_IM » Tue, 2021-11-02 18:43
2
1,418 by zivben
Sat, 2021-11-13 04:49
Normal topic Segmentation Fault in Rosetta CM Hybridize
by yliang20 » Mon, 2022-06-06 17:25
2
1,418 by yliang20
Tue, 2022-06-07 08:36
Normal topic wallpaper symmetry definition file
by aaj » Fri, 2016-02-26 08:40
0
1,416 by aaj
Fri, 2016-02-26 08:40
Normal topic protein-ligand docking rescoring with interfaceAnalyzer
by syntekabio2019 » Sat, 2020-12-19 03:59
2
1,411 by syntekabio2019
Sun, 2020-12-20 21:10
Normal topic PlaceStub filter
by a-eatemadi@razi... » Wed, 2017-11-15 04:19
0
1,408 by a-eatemadi@razi...
Mon, 2017-12-04 23:52
Normal topic How to analyse multiple silent files from "Abinitiorelax" output to find best models?
by Danielsebas » Tue, 2019-09-10 10:01
1
1,406 by smlewis
Mon, 2019-09-16 12:22
Normal topic r_frag_quality
by ii_cnr » Mon, 2021-04-12 03:06
2
1,404 by ii_cnr
Mon, 2021-04-12 23:44
Normal topic FloppyTail as a rosettascripts file
by tiagogomes89 » Mon, 2015-01-19 02:45
0
1,403 by tiagogomes89
Mon, 2015-01-19 02:45
Normal topic algebric library for rosetta
by yigallah » Mon, 2014-12-15 08:46
0
1,395 by yigallah
Mon, 2014-12-15 08:46
Normal topic BuildPeptide - Using Phosphorylated and Sulfated Tyrosine
by jlawrie » Thu, 2020-09-03 14:29
1
1,383 by cryosky
Mon, 2021-03-01 21:37
Normal topic fixing sequence during grafting in antibody_designer
by COM » Fri, 2020-01-24 11:38
1
1,382 by jadolfbr
Tue, 2020-01-28 09:13
Normal topic Generalized KIC loop closure affects downstream residues without perturbations
by chenna » Mon, 2021-04-26 02:16
2
1,381 by chenna
Wed, 2021-04-28 07:18
Normal topic Adding positional restraints to pure RNA system in DRRAFTER and rna_denovo
by zharmad » Fri, 2019-08-23 01:16
1
1,380 by everyday847
Fri, 2019-08-23 04:08
Normal topic crazy loopmodel: linear output pdbs
by fred » Wed, 2014-12-03 12:27
0
1,376 by fred
Wed, 2014-12-03 12:28
Normal topic Error from clean_pdb.py
by code_Monkey » Mon, 2021-03-01 17:00
2
1,376 by code_Monkey
Thu, 2021-03-04 12:14
Normal topic Modelling at defined pH - for pmutscan - pH:mode not working
by cagfa1 » Tue, 2022-03-15 04:05
1
1,375 by Rituparna_Saman...
Wed, 2022-03-23 11:21
Normal topic Do partner1 and partner2 in mover BackrubDD mean chain1 and chain2 respectively?
by johnnytam100 » Fri, 2019-08-23 21:10
1
1,373 by rmoretti
Mon, 2019-08-26 12:03
Normal topic cartesian_ddg crashes when the mutfile contains multiple mutations to non-canonical residues
by ValentinaSora » Sun, 2020-05-24 12:32
0
1,373 by ValentinaSora
Sun, 2020-05-24 12:32
Normal topic Issue with Rosetta LinkResidues Script
by adityapadhi » Wed, 2019-11-20 22:00
1
1,371 by JackMaguire
Fri, 2019-11-22 13:45
Normal topic antibody H3 modelling protocol for nanobody gives "[ ERROR ] Inaccurate G!" messages
by AlfredoKCL » Sun, 2021-02-28 16:42
2
1,370 by AlfredoKCL
Mon, 2021-03-01 04:07
Normal topic get an increased energy after energy minimization when using different score functions for repacking and energy minimization
by xinmiaohe » Fri, 2020-02-07 11:59
1
1,369 by xinmiaohe
Fri, 2020-02-07 13:52
Normal topic /database folder after running "install_dependencies.pl" size 657 GB?
by Danielsebas » Tue, 2019-09-03 03:32
1
1,365 by danpf
Tue, 2019-09-03 10:15
Normal topic DNA-protein docking
by ksteczk » Sat, 2020-04-11 11:23
0
1,356 by ksteczk
Sat, 2020-04-11 11:23
Normal topic PDB file name too long to be handled by file system
by dave » Thu, 2019-08-08 03:10
1
1,352 by rmoretti
Mon, 2019-08-26 12:17
Normal topic Protein-Protein Docking or Comparative Modeling
by Morrian_Lynn » Wed, 2020-01-29 19:01
1
1,344 by danpf
Fri, 2020-02-21 18:23
Normal topic Symmetry definition question
by mrconde96 » Sun, 2022-10-02 05:34
0
1,336 by mrconde96
Sun, 2022-10-02 05:34
Normal topic Robetta ab initio - TrRosetta for membrane proteins
by benhardy » Wed, 2020-09-30 08:42
0
1,330 by benhardy
Wed, 2020-09-30 08:42
Normal topic Using abinition to predict a new (previously unsolved) structure.
by ac.research » Mon, 2017-01-09 00:59
0
1,324 by ac.research
Mon, 2017-01-09 00:59
Normal topic rosetta_cm segfault
by browns02 » Fri, 2021-07-09 13:35
2
1,322 by rmoretti
Fri, 2021-07-09 15:05
Normal topic Warning: Fold tree is not set properly for density scoring
by ahansel » Mon, 2020-07-13 10:50
1
1,316 by danpf
Tue, 2020-07-14 10:27
Normal topic EMERALD method not working, Rosetta version not available for download
by seba » Thu, 2023-05-04 08:14
6
1,311 by rmoretti
Mon, 2023-07-10 08:57
Normal topic The difference between the H1 regions of modeled camelid antibody and the crystal structure.
by Sunyp_IM » Sun, 2020-06-07 02:34
1
1,311 by nannemdp
Sun, 2020-06-07 08:01
Normal topic [Solved] RosettaAntibody3 - Grafting step is failing to detect H3 from the input sequence
by brspurri » Mon, 2021-01-04 16:46
1
1,308 by brspurri
Mon, 2021-01-18 18:14
Normal topic setup_RosettaCM.py
by browns02 » Mon, 2021-06-28 07:13
2
1,294 by browns02
Tue, 2021-06-29 11:41
Normal topic [LoopModelerMover] ERROR: Can't build a fold tree from a loop with an unspecified cut point.
by dgm3 » Sun, 2021-12-26 18:32
1
1,287 by dgm3
Fri, 2021-12-31 17:42
Normal topic 'standard.wts' does not exist
by almeida85 » Mon, 2020-09-14 02:26
1
1,277 by rmoretti
Mon, 2020-09-14 06:36
Normal topic core.pose.util: [ ERROR ] Can't find residue type 'UNK' in type set of mode fa_standard
by AlfredoKCL » Sat, 2020-11-07 18:21
0
1,276 by AlfredoKCL
Sat, 2020-11-07 18:21
Normal topic ERROR: Assertion `static_cast< size_type >( i - l_ ) < super::size()` failed. ERROR:: Exit from: src/utility/vectorL.hh line: 42
by yliang20 » Wed, 2022-06-15 22:22
2
1,269 by jxw
Wed, 2023-10-11 10:04
Normal topic using piper-flexpepdock
by syntekabio2019 » Thu, 2019-12-12 01:22
0
1,265 by syntekabio2019
Thu, 2019-12-12 01:22
Normal topic backrub application, resfile, and pivot_residues
by tylerborrman » Tue, 2016-12-06 14:46
0
1,263 by tylerborrman
Tue, 2016-12-06 14:46
Normal topic Energy function and iteration script files
by michelleqyh » Fri, 2019-09-27 09:06
1
1,261 by smlewis
Fri, 2019-09-27 11:54
Normal topic Ddg filter threshold value?
by chrisHKL » Fri, 2020-02-28 15:01
1
1,259 by rmoretti
Wed, 2020-03-04 09:56
Normal topic residue_energy_breakdown of a protein-ligand complex.
by sam_dc » Tue, 2021-05-18 04:45
1
1,258 by rmoretti
Tue, 2021-05-18 07:21
Normal topic Unknown Element "SE" when generating NCAA params file containing selenium
by liuwenxi » Thu, 2022-08-04 16:24
2
1,255 by liuwenxi
Fri, 2022-08-05 09:50
Normal topic manually defining CDRs in antibody modelling
by gard.nelson » Fri, 2020-07-10 13:31
1
1,253 by brspurri
Wed, 2021-01-20 08:11
Normal topic Can anybody suggests some flags to run Rifdock?
by Hyunmi Song » Sun, 2022-01-23 16:45
0
1,252 by Hyunmi Song
Sun, 2022-01-23 16:45
Normal topic How can I model ligands in comparative modeling
by Morrian_Lynn » Thu, 2020-02-20 09:57
1
1,247 by danpf
Fri, 2020-02-21 17:05
Normal topic I need some help for using pHDock applications(histidine protonation / pH-dependent binding)
by leygkn » Tue, 2020-09-22 18:40
1
1,242 by leygkn
Tue, 2020-09-22 22:46
Normal topic Symmetry mode in Remodel for N-terminal extension
by yvonne.chan2 » Mon, 2019-11-04 13:41
0
1,226 by yvonne.chan2
Mon, 2019-11-04 13:41
Normal topic antibody - sequence position requested was 0
by jremmel » Mon, 2021-09-27 12:26
1
1,223 by nannemdp
Mon, 2021-09-27 14:22
Normal topic Blast error for rosetta antibody: No argument value given for Query file
by dngusdnr1 » Tue, 2021-06-08 17:30
1
1,216 by taylorjones
Wed, 2021-06-09 16:38
Normal topic FlexPepDock Multi chain receptor
by evo_umich » Mon, 2018-04-02 12:13
0
1,215 by evo_umich
Mon, 2018-04-02 12:13
Normal topic DDG and interaction score problem
by a-eatemadi@razi... » Mon, 2018-04-09 22:54
0
1,206 by a-eatemadi@razi...
Mon, 2018-04-09 22:54
Normal topic mp_transform optimize with franklin2019 scoring
by benhardy » Thu, 2020-05-28 08:35
0
1,206 by benhardy
Thu, 2020-05-28 08:45
Normal topic How to design the anitgen-antibody interface
by Sunyp_IM » Tue, 2017-12-12 18:44
0
1,205 by Sunyp_IM
Tue, 2017-12-12 18:44
Normal topic how to generate the whole molecule that contains all the symmetric chains
by Sunyp_IM » Sun, 2017-12-10 19:43
0
1,201 by Sunyp_IM
Sun, 2017-12-10 19:43
Normal topic Undesirable behaviour of PoseFromSFRBuilder regarding Hydrogen atoms
by Corvin » Wed, 2020-12-02 04:00
1
1,201 by rmoretti
Wed, 2020-12-02 07:27
Normal topic pepspec anchor dock
by Andre Serobian » Tue, 2020-07-28 05:51
1
1,200 by Andre Serobian
Tue, 2020-07-28 23:26
Normal topic Ligand docking at specific orientation
by ShiranBZ » Mon, 2020-04-13 20:46
1
1,200 by matteoferla
Mon, 2020-05-04 02:02
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