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Rosetta 3 - Applications

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Normal topic FastRelax Refinement severe clashes
by Victor Tobiasson » Thu, 2021-05-20 06:55
0
349 by Victor Tobiasson
Thu, 2021-05-20 06:55
Normal topic Rosetta Remodel - Error in core::conformation::Conformation::residue(): The sequence position requested was 0.
by daniloboskovic » Fri, 2019-11-08 08:24
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1,488 by daniloboskovic
Fri, 2019-11-08 08:27
Normal topic Does antibody_numbering_converter support camelid antibody?
by mxp » Tue, 2020-07-07 01:21
0
476 by mxp
Tue, 2020-07-07 01:21
Normal topic problem in using "zinc_site_redesign" tool
by Isomerase » Mon, 2022-03-28 01:19
0
72 by Isomerase
Mon, 2022-03-28 01:19
Normal topic How many iterations of remodel is enough?
by daniloboskovic » Thu, 2020-07-16 08:07
0
453 by daniloboskovic
Thu, 2020-07-16 08:14
Normal topic extract docking pose from ligand docking silent file
by Ruska322 » Sat, 2019-09-07 05:21
0
660 by Ruska322
Sat, 2019-09-07 05:21
Normal topic How to apply cartesian_ddg to multi-metric enzyme?
by Wang Zhe » Wed, 2021-12-08 10:07
0
179 by Wang Zhe
Wed, 2021-12-08 10:07
Normal topic PDB Clustering
by code_Monkey » Mon, 2021-04-05 10:40
0
358 by code_Monkey
Mon, 2021-04-05 10:40
Normal topic Can't find RosettaRemodel in Rosetta 3.4
by petrikigor » Mon, 2012-12-03 13:56
0
1,462 by petrikigor
Mon, 2014-04-21 06:47
Normal topic backrub application, resfile, and pivot_residues
by tylerborrman » Tue, 2016-12-06 14:46
0
879 by tylerborrman
Tue, 2016-12-06 14:46
Normal topic Dock two domains using topology broker
by sn » Thu, 2017-10-05 17:07
0
772 by sn
Thu, 2017-10-05 17:07
Normal topic "Residue 7 was disulfide bonded but had no partner" with antibody.linuxgccrelease
by Sunyp_IM » Thu, 2020-06-04 05:53
0
473 by Sunyp_IM
Thu, 2020-06-04 05:54
Normal topic Protein design: Ligand binding between two units of a homodimer
by chemotaxis_123 » Sun, 2022-01-02 16:01
0
169 by chemotaxis_123
Sun, 2022-01-02 16:01
Normal topic FlexPepDock Multi chain receptor
by evo_umich » Mon, 2018-04-02 12:13
0
847 by evo_umich
Mon, 2018-04-02 12:13
Normal topic RNP structure prediction flags
by daniloboskovic » Fri, 2019-08-16 11:10
0
634 by daniloboskovic
Fri, 2019-08-16 11:17
Normal topic Robetta ab initio - TrRosetta for membrane proteins
by benhardy » Wed, 2020-09-30 08:42
0
861 by benhardy
Wed, 2020-09-30 08:42
Normal topic Topobuilder segmentation fault
by tatsiana.bylund » Mon, 2021-08-09 07:10
0
469 by tatsiana.bylund
Mon, 2021-08-09 07:10
Normal topic Pepspec options
by shaunmk » Mon, 2015-04-27 02:33
0
1,311 by shaunmk
Mon, 2015-04-27 02:33
Normal topic Linker Building in scFv
by sam_dc » Sat, 2021-10-09 05:38
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228 by sam_dc
Sat, 2021-10-09 05:38
Normal topic RosettaAntibody3 - How can I model an extended H3?
by brspurri » Fri, 2020-08-28 09:11
0
479 by brspurri
Fri, 2020-08-28 09:11
Normal topic Scoring after HBNet
by HHL_SIUC » Wed, 2020-07-01 10:49
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460 by HHL_SIUC
Wed, 2020-07-01 10:49
Normal topic pmut_scan_parallel
by G Mustafa » Wed, 2018-10-17 05:41
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939 by G Mustafa
Wed, 2018-10-17 05:41
Normal topic ligand_docking: ligand preparation
by Alison_Yajie » Thu, 2020-05-21 09:42
0
506 by Alison_Yajie
Thu, 2020-05-21 09:42
Normal topic constraining different chains together in rosetta_cm
by y_atsmonraz » Thu, 2021-11-18 02:59
0
251 by y_atsmonraz
Thu, 2021-11-18 03:01
Normal topic Finding lowest energy structure among generated structures
by Marius1987 » Sun, 2016-04-10 11:38
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1,204 by Marius1987
Sun, 2016-04-10 12:09
Normal topic What means "[ ERROR ] TIME_STAMP: AbrelaxMover: finished ...NO_BATCH S_0001."
by Corvin » Thu, 2020-04-02 00:16
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614 by Corvin
Thu, 2020-04-02 00:16
Normal topic help surface_docking peptide on ice
by engand93 » Wed, 2019-03-27 02:43
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625 by engand93
Wed, 2019-03-27 02:43
Normal topic RosettaAntibody3 core.pose.util error
by linhhoang157 » Tue, 2020-07-28 12:40
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581 by linhhoang157
Tue, 2020-07-28 12:40
Normal topic Problems with mpi version of antibody.linuxgccrelease
by Sunyp_IM » Thu, 2020-05-28 23:06
0
607 by Sunyp_IM
Thu, 2020-05-28 23:07
Normal topic Protonating all possible sites: the problem in MOL2 file format or the innate Rosetta feature(bug)?
by Corvin » Wed, 2020-12-16 04:58
0
485 by Corvin
Wed, 2020-12-30 09:21
Normal topic Segfault error while running MR Rosetta in Phenix
by memilton » Thu, 2021-12-16 09:09
0
205 by memilton
Thu, 2021-12-16 09:09
Normal topic Helical Symmetry Axis
by Sandy » Tue, 2016-05-31 18:48
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1,344 by Sandy
Tue, 2016-05-31 18:48
Normal topic Design of multimeric protein
by ldlamini » Mon, 2021-01-11 07:23
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385 by ldlamini
Mon, 2021-01-11 07:23
Normal topic ligand dock into HEM containg pdb
by syntekabio2019 » Thu, 2022-01-20 03:05
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216 by syntekabio2019
Thu, 2022-01-20 03:05
Normal topic new BUNS for FunFolDes run
by tatsiana.bylund » Wed, 2019-08-14 20:57
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627 by tatsiana.bylund
Wed, 2019-08-14 20:57
Normal topic FlexPepDock ab initio: behavior without fragment files
by nrollins » Mon, 2021-07-26 14:16
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248 by nrollins
Mon, 2021-07-26 14:16
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
0
1,876 by fglaser
Mon, 2014-04-21 06:47
Normal topic Using GlycanDock and the Antibody Affinity Maturation protocol.
by tbelec » Mon, 2022-02-28 12:37
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176 by tbelec
Mon, 2022-02-28 12:37
Normal topic Side-chain grafting at the fixed protein and position
by Kazu » Wed, 2020-05-20 08:49
0
435 by Kazu
Wed, 2020-05-20 08:49
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
647 by AlfredoKCL
Sat, 2020-11-07 18:21
Normal topic Docking protein complexes when constrained by oligomer symmetry
by msk » Tue, 2014-06-03 11:09
0
1,173 by msk
Tue, 2014-06-03 11:09
Normal topic Extracting top score PIPER models
by almeida85 » Mon, 2020-08-31 07:17
0
543 by almeida85
Mon, 2020-08-31 07:17
Normal topic How to design the anitgen-antibody interface
by Sunyp_IM » Tue, 2017-12-12 18:44
0
870 by Sunyp_IM
Tue, 2017-12-12 18:44
Normal topic Symmetry mode in Remodel for N-terminal extension
by yvonne.chan2 » Mon, 2019-11-04 13:41
0
756 by yvonne.chan2
Mon, 2019-11-04 13:41
Normal topic zero standard deviation of I_sc in protein-protein docking
by rohi » Fri, 2020-07-03 22:19
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434 by rohi
Fri, 2020-07-03 22:20
Normal topic Segfault with Pepspec
by almeida85 » Thu, 2021-02-11 02:56
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344 by almeida85
Thu, 2021-02-11 02:56
Normal topic snugdock run error: Sequence for partner1 does not match first member of ensemble1
by pagumaaaaa » Fri, 2022-03-25 01:21
0
77 by pagumaaaaa
Fri, 2022-03-25 01:21
Normal topic Error Implementing Match Style Constraints
by pwging13 » Thu, 2019-12-19 09:53
0
608 by pwging13
Thu, 2019-12-19 09:53
Normal topic cartesian_ddg crashes when the mutfile contains multiple mutations to non-canonical residues
by ValentinaSora » Sun, 2020-05-24 12:32
0
664 by ValentinaSora
Sun, 2020-05-24 12:32
Normal topic Symmetric assembly and output reconstruction
by felipet » Wed, 2014-07-02 10:23
0
1,078 by felipet
Wed, 2014-07-02 10:23
Normal topic algebric library for rosetta
by yigallah » Mon, 2014-12-15 08:46
0
1,053 by yigallah
Mon, 2014-12-15 08:46
Normal topic appropriate sampling for protein docking to a multi chain assembly
by SWM » Fri, 2020-01-24 11:22
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475 by SWM
Fri, 2020-01-24 11:22
Normal topic Bug Report - Encoding issue
by daniloboskovic » Tue, 2020-08-04 07:02
0
385 by daniloboskovic
Tue, 2020-08-04 07:02
Normal topic Weighted scores??
by sizhang » Wed, 2018-12-05 15:22
0
650 by sizhang
Wed, 2018-12-05 15:22
Normal topic flexpepdcok of lipid conjugated peptide with glyco protein.
by ravi.thakkkar369 » Fri, 2020-12-18 13:00
0
371 by ravi.thakkkar369
Fri, 2020-12-18 13:00
Normal topic DNA-protein docking
by ksteczk » Sat, 2020-04-11 11:23
0
775 by ksteczk
Sat, 2020-04-11 11:23
Normal topic Pepspec Anchor Dock
by Soler » Wed, 2020-09-16 19:08
0
402 by Soler
Wed, 2020-09-16 19:08
Normal topic Repacker vs minimization
by Elijah_Hix » Fri, 2021-07-02 07:25
0
251 by Elijah_Hix
Fri, 2021-07-02 07:25
Normal topic ddg_monomer: if MPI executable is reproducible and efficient?
by lanselibai » Sun, 2015-01-11 09:48
0
1,278 by lanselibai
Sun, 2015-01-11 10:50
Normal topic Fusing C-terminal or N-terminal segments onto proteins using Remodel
by achambe » Mon, 2016-01-04 11:26
0
1,172 by achambe
Mon, 2016-01-04 11:26
Normal topic RosettaCM
by jlawrie » Fri, 2020-08-14 14:09
0
822 by jlawrie
Fri, 2020-08-14 14:09
Normal topic fragment_picker bug
by David Hoover » Wed, 2012-02-29 11:43
0
1,455 by David Hoover
Mon, 2014-04-21 06:47
Normal topic PlaceStub filter
by a-eatemadi@razi... » Wed, 2017-11-15 04:19
0
970 by a-eatemadi@razi...
Mon, 2017-12-04 23:52
Normal topic Residue selector
by Alison_Yajie » Wed, 2020-06-17 19:57
0
464 by Alison_Yajie
Thu, 2020-06-18 09:47
Normal topic FastRelaxMover parameters for antibody-antigen interaction analysis
by samuel_k » Thu, 2022-01-27 01:08
0
236 by samuel_k
Thu, 2022-01-27 01:08
Normal topic NCAA Rotamers for Cyclosporin
by marinok » Mon, 2020-09-28 14:11
0
559 by marinok
Mon, 2020-09-28 14:11
Normal topic Ligand creation
by Prasanth Kumar » Fri, 2013-08-02 09:48
1
2,024 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Ligand docking: ERROR: set_atom_base: atoms must be bonded!
by mengzhang » Mon, 2014-05-12 12:36
1
2,156 by rmoretti
Mon, 2014-05-12 15:08
Normal topic radius of gyration as constrain
by dhirajks » Sat, 2018-05-05 23:00
1
1,193 by smlewis
Mon, 2018-05-07 11:42
Normal topic Antibody Modelling
by luicui » Mon, 2017-01-23 21:30
1
1,707 by smlewis
Mon, 2017-02-06 20:46
Normal topic blast database error
by jessye » Sun, 2017-12-03 23:59
1
1,263 by smlewis
Mon, 2017-12-04 12:18
Normal topic Comparative modeling
by MRH » Mon, 2013-08-19 23:08
1
2,026 by smlewis
Mon, 2014-04-21 06:48
Normal topic SymDock with constraints
by felipet » Thu, 2015-05-14 09:01
1
2,537 by rmoretti
Mon, 2015-05-25 11:49
Normal topic Predicting the part of protein strcutrue
by ksy141 » Tue, 2018-10-16 11:47
1
972 by jadolfbr
Fri, 2018-11-09 14:28
Normal topic /database folder after running "install_dependencies.pl" size 657 GB?
by Danielsebas » Tue, 2019-09-03 03:32
1
827 by danpf
Tue, 2019-09-03 10:15
Normal topic Changing rosetta scoring to favour less hydrophobic areas
by daniloboskovic » Thu, 2020-05-21 03:03
1
664 by vmulligan
Thu, 2020-05-21 18:33
Normal topic Executing the clean_pdb.py script
by Rkfoury » Fri, 2015-02-20 10:16
1
3,131 by lanselibai
Tue, 2015-02-24 02:36
Normal topic Enzyme Design - Score File
by nwhoppe » Thu, 2016-04-07 15:11
1
1,614 by rmoretti
Fri, 2016-04-08 07:39
Normal topic Rosetta_cm Partial Threading Removing Parts of Sequence
by gszwabowski » Thu, 2019-06-20 12:30
1
1,068 by rmoretti
Mon, 2019-06-24 13:43
Normal topic Comparative modeling using a two chained template for a one chain structure
by ahmadkhalifa » Mon, 2017-12-18 11:00
1
1,086 by rmoretti
Mon, 2018-01-15 16:14
Normal topic De novo water predictions using SPaDES
by MNP1986 » Mon, 2019-03-25 07:53
1
1,148 by matteoferla
Tue, 2020-08-04 09:30
Normal topic JD2 MPI
by jrcf » Wed, 2015-10-28 14:45
1
1,752 by rmoretti
Sat, 2015-10-31 08:57
Normal topic RosettaLigand Docking
by Dinesh Kumar » Mon, 2018-01-15 20:54
1
1,606 by rmoretti
Tue, 2018-01-16 07:24
Normal topic is it necessary to always run relax before any Rosetta
by mainzer » Fri, 2019-04-12 01:35
1
1,246 by rmoretti
Wed, 2019-07-10 09:47
Normal topic How to freeze ligand during FastRelax?
by dnamkr » Thu, 2020-01-02 14:53
1
987 by aloshbau
Fri, 2020-01-10 16:48
Normal topic pepspec anchor dock
by Andre Serobian » Tue, 2020-07-28 05:51
1
673 by Andre Serobian
Tue, 2020-07-28 23:26
Normal topic Surface Docking Crash (continued)
by dkozuch » Tue, 2017-09-12 06:18
1
1,161 by rmoretti
Tue, 2017-10-10 10:08
Normal topic AbinitioRelax - Error with flags
by jmschu » Wed, 2018-11-21 17:36
1
1,471 by rmoretti
Fri, 2018-11-23 07:59
Normal topic Blast error for rosetta antibody: No argument value given for Query file
by dngusdnr1 » Tue, 2021-06-08 17:30
1
445 by taylorjones
Wed, 2021-06-09 16:38
Normal topic No output with docking full protocol
by JulienO » Mon, 2016-05-30 02:16
1
1,493 by rmoretti
Fri, 2016-06-17 10:24
Normal topic ddg_monomer with -ddg::local_opt_only true, will it affect other chains that are close?
by cossio » Fri, 2014-12-26 13:11
1
1,642 by rmoretti
Tue, 2015-01-13 07:44
Normal topic cluster.linuxgccrelease Killed error
by samuelrpita » Fri, 2015-11-20 05:56
1
1,829 by rmoretti
Tue, 2015-11-24 16:07
Normal topic loop design for Conformational bias
by dhirajks » Thu, 2019-05-09 21:22
1
1,016 by jadolfbr
Fri, 2019-05-10 07:53
Normal topic error: Unable to open weights/patch file in using ddg_monomer.linuxgccrelease
by xinmiaohe » Thu, 2020-01-30 22:09
1
1,239 by xinmiaohe
Fri, 2020-01-31 08:23
Normal topic rosetta scores for mutated structures
by harshkhare » Wed, 2011-11-23 09:30
1
2,296 by rmoretti
Mon, 2014-04-21 06:47
Normal topic profit program in antibody design
by tzhou » Tue, 2013-10-15 23:29
1
2,341 by rmoretti
Mon, 2014-04-21 06:48
Normal topic how to generate Fragments using up to 2001 structures only
by oppopomoz » Sat, 2015-07-25 00:43
1
1,582 by rmoretti
Thu, 2015-08-06 08:57
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
884 by rmoretti
Wed, 2019-09-18 10:36
Normal topic [Solved] RosettaAntibody3 - Grafting step is failing to detect H3 from the input sequence
by brspurri » Mon, 2021-01-04 16:46
1
670 by brspurri
Mon, 2021-01-18 18:14
Normal topic PDB file name too long to be handled by file system
by dave » Thu, 2019-08-08 03:10
1
797 by rmoretti
Mon, 2019-08-26 12:17
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