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Rosetta 3 - Applications

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Sticky topic Sticky: FAQ
by admin » Mon, 2010-08-30 04:18
0
7,153 by admin
Fri, 2015-09-04 16:17
Normal topic Translate mover chain X doesnot exist.
by surya » Thu, 2020-07-09 08:36
4
23 by surya
Thu, 2020-07-09 20:13
Normal topic Segmentation Fault during prepacking
by Sunyp_IM » Fri, 2020-06-12 11:24
4
107 by Sunyp_IM
Thu, 2020-07-09 18:40
Normal topic Metal Ion in symmetric design
by tschiex » Wed, 2020-07-08 05:28
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5 by tschiex
Wed, 2020-07-08 05:28
Normal topic PEPSPEC
by Neeraj » Wed, 2018-01-03 02:24
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493 by Andre Serobian
Wed, 2020-07-08 04:44
Normal topic Does antibody_numbering_converter support camelid antibody?
by mxp » Tue, 2020-07-07 01:21
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13 by mxp
Tue, 2020-07-07 01:21
Normal topic zero standard deviation of I_sc in protein-protein docking
by rohi » Fri, 2020-07-03 22:19
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20 by rohi
Fri, 2020-07-03 22:20
Normal topic OptimizeMembranePositionMover - This element is not expected
by bjharris » Wed, 2020-07-01 23:21
2
47 by bjharris
Thu, 2020-07-02 11:09
Normal topic LoopModeler mover unable to determine cut point
by gszwabowski » Mon, 2020-06-01 13:12
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71 by matteoferla
Thu, 2020-07-02 07:27
Normal topic ligand_docking: ligand preparation
by Alison_Yajie » Thu, 2020-07-02 07:05
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21 by Alison_Yajie
Thu, 2020-07-02 07:10
Normal topic kcenters_clustering_of_fragments
by bjharris » Mon, 2019-07-01 16:16
1
275 by bjharris
Wed, 2020-07-01 23:25
Normal topic Scoring after HBNet
by HHL_SIUC » Wed, 2020-07-01 10:49
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25 by HHL_SIUC
Wed, 2020-07-01 10:49
Normal topic Noncanonical amino acids
by wsgosal » Tue, 2014-03-18 05:29
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3,028 by Nolanm15
Tue, 2020-06-30 08:43
Normal topic Segmentation fault (core dumped) in rosetta_scripts.default.linuxgccrelease
by Corvin » Tue, 2020-06-30 00:36
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34 by Corvin
Tue, 2020-06-30 00:36
Normal topic "core.kinematics.FoldTree" error upon running RAbD
by Sunyp_IM » Fri, 2020-06-26 17:27
2
63 by Sunyp_IM
Fri, 2020-06-26 20:57
Normal topic How to choose designed antibody
by Sunyp_IM » Wed, 2020-06-24 10:06
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76 by jadolfbr
Thu, 2020-06-25 07:11
Normal topic ligand_docking ligand preparation
by Alison_Yajie » Thu, 2020-05-21 10:21
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115 by Alison_Yajie
Wed, 2020-06-24 12:38
Normal topic Ligand docking with constraint
by Alison_Yajie » Wed, 2020-06-24 12:34
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38 by Alison_Yajie
Wed, 2020-06-24 12:34
Normal topic How to create a native file for Protein-Protein docking
by Kotimedidhi » Fri, 2020-06-19 08:58
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81 by Kotimedidhi
Mon, 2020-06-22 16:19
Normal topic How to select docked models
by Sunyp_IM » Mon, 2020-06-22 00:50
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41 by ssrb
Mon, 2020-06-22 13:12
Normal topic Coupled Moves crash with Membrane Protein - residue_edge is undefined for root vertex
by benhardy » Mon, 2020-06-15 09:33
3
86 by benhardy
Fri, 2020-06-19 07:55
Normal topic Residue selector
by Alison_Yajie » Wed, 2020-06-17 19:57
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47 by Alison_Yajie
Thu, 2020-06-18 09:47
Normal topic Constraint generator
by Alison_Yajie » Wed, 2020-06-17 20:14
1
60 by Alison_Yajie
Wed, 2020-06-17 20:35
Normal topic metalloprotein ab initio with glutamic acid
by inorgchem » Tue, 2020-06-16 20:45
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47 by inorgchem
Tue, 2020-06-16 20:45
Normal topic RosettaCM: An internal error has occurred when "Running the Hybridize mover"
by haom » Mon, 2020-06-15 05:56
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77 by haom
Tue, 2020-06-16 05:55
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
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78 by nannemdp
Sun, 2020-06-07 08:01
Normal topic The usage of antibody_H3.linuxgccrelease
by Sunyp_IM » Thu, 2020-05-28 22:50
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102 by Sunyp_IM
Thu, 2020-06-04 08:20
Normal topic "Residue 7 was disulfide bonded but had no partner" with antibody.linuxgccrelease
by Sunyp_IM » Thu, 2020-06-04 05:53
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57 by Sunyp_IM
Thu, 2020-06-04 05:54
Normal topic RosettaAntibodyDesign: How can I run the protocol without allowing design?
by brspurri » Tue, 2020-05-26 08:12
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165 by brspurri
Wed, 2020-06-03 13:20
Normal topic Building loop extensions in a membrane protein with Remodel
by benhardy » Tue, 2020-06-02 08:21
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69 by benhardy
Tue, 2020-06-02 08:21
Normal topic AbinitioRelax detect_disulf_tolerance
by aarono » Tue, 2020-06-02 00:13
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102 by aarono
Tue, 2020-06-02 00:13
Normal topic ligand_docking_error
by Alison_Yajie » Mon, 2020-04-20 12:27
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266 by YuFei
Sat, 2020-05-30 00:12
Normal topic Problems with mpi version of antibody.linuxgccrelease
by Sunyp_IM » Thu, 2020-05-28 23:06
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82 by Sunyp_IM
Thu, 2020-05-28 23:07
Normal topic mp_transform optimize with franklin2019 scoring
by benhardy » Thu, 2020-05-28 08:35
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104 by benhardy
Thu, 2020-05-28 08:45
Normal topic What is a rational minimal value for the "-nstruct" option
by Sunyp_IM » Fri, 2020-05-22 01:28
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151 by nannemdp
Sun, 2020-05-24 14:46
Normal topic cartesian_ddg crashes when the mutfile contains multiple mutations to non-canonical residues
by ValentinaSora » Sun, 2020-05-24 12:32
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73 by ValentinaSora
Sun, 2020-05-24 12:32
Normal topic relax and movemap
by Alison_Yajie » Wed, 2020-05-20 21:27
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130 by smlewis
Thu, 2020-05-21 21:05
Normal topic Changing rosetta scoring to favour less hydrophobic areas
by daniloboskovic » Thu, 2020-05-21 03:03
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89 by vmulligan
Thu, 2020-05-21 18:33
Normal topic ligand_docking: ligand preparation
by Alison_Yajie » Thu, 2020-05-21 09:42
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55 by Alison_Yajie
Thu, 2020-05-21 09:42
Normal topic Modelling temperature dependent RNA structures
by tuleshwori » Tue, 2020-05-19 01:16
2
99 by tuleshwori
Thu, 2020-05-21 02:08
Normal topic Rosetta Antibody Design: Error with foldtree: problem with the fold_tree:biggest_label != num_jump 2 1
by cm21 » Wed, 2020-05-20 08:55
2
104 by cm21
Wed, 2020-05-20 11:22
Normal topic Rna Denovo
by helderveras » Wed, 2020-05-06 08:40
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203 by everyday847
Wed, 2020-05-20 08:52
Normal topic Side-chain grafting at the fixed protein and position
by Kazu » Wed, 2020-05-20 08:49
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63 by Kazu
Wed, 2020-05-20 08:49
Normal topic Transmembrane helix fold-and-dock?
by sarah_b » Tue, 2020-05-12 02:09
3
159 by jkleman
Tue, 2020-05-19 15:02
Normal topic protein relax
by Alison_Yajie » Tue, 2020-05-19 08:29
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65 by Alison_Yajie
Tue, 2020-05-19 08:29
Normal topic RosettaAntibodyDesign] How can I use run_relax and run_snugdock as part of my command and workflow?
by brspurri » Thu, 2020-05-14 11:15
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112 by brspurri
Thu, 2020-05-14 12:24
Normal topic Multistate design issues with -run:msd_job_dist option and MSDMover
by elaine.thai » Wed, 2020-05-13 18:07
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89 by elaine.thai
Wed, 2020-05-13 18:07
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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74 by jcampecino
Wed, 2020-05-13 12:22
Normal topic How to run partial_thread in RosettaCM when residure are more than 9999?
by lanselibai » Mon, 2020-05-11 22:43
2
161 by lanselibai
Tue, 2020-05-12 20:25
Normal topic How to concatenate the 3-mer and 9-mer files for RosettaCM?
by lanselibai » Fri, 2020-05-08 05:38
5
220 by danpf
Tue, 2020-05-12 10:58
Normal topic Template/Input length mismatch error during RosettaCM
by marinok » Mon, 2020-05-04 13:12
4
157 by marinok
Mon, 2020-05-11 12:48
Normal topic General question regarding ligand-docking
by Alison_Yajie » Thu, 2020-05-07 09:48
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87 by Alison_Yajie
Thu, 2020-05-07 09:48
Normal topic Can the Rosetta Antibody Design (RAbD) protocol incorporate glycans?
by ccottrell » Tue, 2020-05-05 20:30
5
187 by jadolfbr
Wed, 2020-05-06 11:37
Normal topic Ligand docking at specific orientation
by ShiranBZ » Mon, 2020-04-13 20:46
1
121 by matteoferla
Mon, 2020-05-04 02:02
Normal topic can remodel add loops in one chain in multichain PDB structure?
by ksteczk » Fri, 2020-05-01 06:26
1
84 by matteoferla
Mon, 2020-05-04 01:43
Normal topic BUG REPORT: Remodel Resfile ERROR: LEU was added more than once?
by daniloboskovic » Wed, 2020-04-29 01:17
2
134 by daniloboskovic
Wed, 2020-04-29 05:51
Normal topic Using opt-nov15 scaling factor for cartesian_ddg protocol run with REF2015 & best way to calculate ddg from more iterations
by free_radical » Mon, 2020-04-27 00:25
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125 by free_radical
Mon, 2020-04-27 21:53
Normal topic RosettaDesign error with Option file open failed
by xingqing326 » Sun, 2020-04-19 01:56
4
204 by xingqing326
Tue, 2020-04-21 19:11
Normal topic DNA-protein docking
by ksteczk » Sat, 2020-04-11 11:23
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132 by ksteczk
Sat, 2020-04-11 11:23
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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129 by lanselibai
Sat, 2020-04-11 02:10
Normal topic Rosetta remodel - including an RNA ligand
by daniloboskovic » Fri, 2020-04-10 04:24
0
122 by daniloboskovic
Fri, 2020-04-10 04:24
Normal topic Error with the mpi version of simple_cycpep_predict
by Florent Langenfeld » Wed, 2020-02-05 05:16
5
411 by vmulligan
Fri, 2020-04-10 02:54
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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123 by Corvin
Thu, 2020-04-02 00:16
Normal topic Docking of multichain oligomers
by sdh_h » Wed, 2020-03-25 12:43
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154 by sdh_h
Wed, 2020-03-25 12:43
Normal topic Any progress on getting intermediate structures during a design?
by broomsday » Mon, 2020-03-16 06:46
2
191 by vmulligan
Tue, 2020-03-17 11:35
Normal topic application for affinity optimization
by wentlewi » Fri, 2020-03-13 03:24
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167 by wentlewi
Fri, 2020-03-13 03:24
Normal topic Is native.pdb necess for fragment_picker?
by ylwang » Thu, 2020-03-12 00:57
2
221 by ylwang
Thu, 2020-03-12 20:42
Normal topic "sparks failed" error when running "make_fragments.pl"?
by Danielsebas » Tue, 2019-09-03 03:43
6
731 by Jacob_Verburgt
Tue, 2020-03-10 14:39
Normal topic score is 0 in the output? - RosettaScripts
by chrisHKL » Thu, 2020-03-05 09:33
0
126 by chrisHKL
Thu, 2020-03-05 12:58
Normal topic Running Rosetta CM Hybridize step errors with: Scorefunction not set up for nonideal/Cartesian scoring
by brspurri » Wed, 2017-03-29 13:19
4
1,765 by Morrian_Lynn
Thu, 2020-03-05 10:07
Normal topic RosettaScript Segmentation Fault (crash log attached)
by chrisHKL » Thu, 2020-03-05 07:21
2
178 by chrisHKL
Thu, 2020-03-05 09:11
Normal topic std::bad_alloc error after changing .xml script?
by chrisHKL » Wed, 2020-03-04 11:44
10
492 by jadolfbr
Thu, 2020-03-05 07:02
Normal topic nstruct vs. trials?
by chrisHKL » Mon, 2020-03-02 13:22
2
222 by chrisHKL
Wed, 2020-03-04 10:49
Normal topic Comparative Modeling Templates for Protein with Multiple Domains
by Morrian_Lynn » Wed, 2020-03-04 10:42
0
143 by Morrian_Lynn
Wed, 2020-03-04 10:42
Normal topic Ddg filter threshold value?
by chrisHKL » Fri, 2020-02-28 15:01
1
161 by rmoretti
Wed, 2020-03-04 09:56
Normal topic Imitating induced fit protocol in SymDock2 without any symmetry constraints
by chenna » Fri, 2020-02-14 01:35
2
234 by chenna
Wed, 2020-03-04 03:24
Normal topic Filter for fixed-bb design using RosettaScript?
by chrisHKL » Fri, 2020-02-28 19:47
4
243 by vmulligan
Mon, 2020-03-02 13:40
Normal topic antibody_numbering_converter cannot recognize the IMGT scheme
by cryosky » Sat, 2020-02-29 23:12
4
288 by jadolfbr
Sun, 2020-03-01 14:54
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
0
114 by chrisHKL
Fri, 2020-02-28 14:52
Normal topic remodel ERROR: unrecognized mm_atom_type_name RGU
by daniloboskovic » Sat, 2020-02-22 11:55
1
186 by daniloboskovic
Tue, 2020-02-25 08:28
Normal topic Rosetta scripts crash in CM workflow
by jlburkhead » Tue, 2019-12-03 22:55
1
290 by danpf
Fri, 2020-02-21 18:37
Normal topic Options "-out:prefix" didn't work
by maruhuang » Tue, 2019-09-10 05:42
4
432 by danpf
Fri, 2020-02-21 18:32
Normal topic Protein-Protein Docking or Comparative Modeling
by Morrian_Lynn » Wed, 2020-01-29 19:01
1
216 by danpf
Fri, 2020-02-21 18:23
Normal topic How can I model ligands in comparative modeling
by Morrian_Lynn » Thu, 2020-02-20 09:57
1
186 by danpf
Fri, 2020-02-21 17:05
Normal topic Docking to TM protein plus lipid bilayer
by renedominik » Tue, 2019-03-12 06:58
3
739 by renedominik
Tue, 2020-02-18 01:36
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
168 by xinmiaohe
Fri, 2020-02-07 13:52
Normal topic error: Unable to open weights/patch file in using ddg_monomer.linuxgccrelease
by xinmiaohe » Thu, 2020-01-30 22:09
1
244 by xinmiaohe
Fri, 2020-01-31 08:23
Normal topic Error during single state design
by sujigeorge1979 » Sat, 2020-01-18 00:37
5
455 by rmoretti
Thu, 2020-01-30 15:42
Normal topic fixing sequence during grafting in antibody_designer
by COM » Fri, 2020-01-24 11:38
1
214 by jadolfbr
Tue, 2020-01-28 09:13
Normal topic appropriate sampling for protein docking to a multi chain assembly
by SWM » Fri, 2020-01-24 11:22
0
142 by SWM
Fri, 2020-01-24 11:22
Normal topic Limit on backbone movement in relax?
by SWM » Fri, 2020-01-24 07:35
0
170 by SWM
Fri, 2020-01-24 07:35
Normal topic docking with capping groups
by xavierfradera » Sun, 2018-11-04 16:17
1
427 by maral.adeli-kou...
Wed, 2020-01-22 12:41
Normal topic Centroid mode minimization
by Martin Floor » Tue, 2020-01-21 07:34
2
237 by Martin Floor
Tue, 2020-01-21 11:15
Normal topic How to freeze ligand during FastRelax?
by dnamkr » Thu, 2020-01-02 14:53
1
248 by aloshbau
Fri, 2020-01-10 16:48
Normal topic cartfrag_overlap error while running hybridize protocol
by sn » Thu, 2017-12-21 10:24
2
772 by dnamkr
Mon, 2019-12-30 11:43
Normal topic Can remodel really handle multiple insertions in one simulation?
by lanselibai » Sat, 2019-12-28 12:51
0
182 by lanselibai
Sat, 2019-12-28 12:51
Normal topic Remodel: the pose does not have residue with chain=H, PDBnum=114
by lanselibai » Wed, 2019-12-25 13:35
1
274 by lanselibai
Fri, 2019-12-27 09:38
Normal topic RosettaCM hybridize mover error after fragment picking
by amorin » Thu, 2018-09-06 11:03
2
770 by dnamkr
Thu, 2019-12-26 10:22
Normal topic Error Implementing Match Style Constraints
by pwging13 » Thu, 2019-12-19 09:53
0
203 by pwging13
Thu, 2019-12-19 09:53
Normal topic using DARC in rosetta
by syntekabio2019 » Thu, 2019-12-12 01:27
0
252 by syntekabio2019
Thu, 2019-12-12 01:27

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