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Rosetta 3 - Applications

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Sticky topic Sticky: FAQ
by admin » Mon, 2010-08-30 04:18
0
7,305 by admin
Fri, 2015-09-04 16:17
Normal topic polymer docking using rosetta scripts
by syntekabio2019 » Fri, 2020-11-27 01:51
1
16 by rmoretti
Fri, 2020-11-27 10:47
Normal topic Error: in membrane docking : Cannot split pose by membrane jump! Quitting...
by Astghik » Tue, 2020-11-24 05:27
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17 by Astghik
Thu, 2020-11-26 01:56
Normal topic Prevention of the negatively charged Nitrogen protonation by coupled_moves
by Corvin » Wed, 2020-11-18 02:56
4
81 by Corvin
Wed, 2020-11-25 02:58
Normal topic How well does dG_seperate predict the binding energy in real experiment?
by Sunyp_IM » Sun, 2020-11-22 22:22
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40 by Sunyp_IM
Mon, 2020-11-23 19:20
Normal topic RosettaMP: issue with generating .lips4 file
by ksy141 » Mon, 2019-01-21 17:17
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698 by noahC_noahDo
Fri, 2020-11-20 11:29
Normal topic "option matching xxx not found in command line top-level context" error
by Sunyp_IM » Fri, 2020-11-20 06:09
1
23 by rmoretti
Fri, 2020-11-20 06:36
Normal topic How to use MHC Epitope energy (mhc_epitope) to deimmunize a protein structure?
by Sunyp_IM » Sun, 2020-11-08 08:07
5
162 by Brahm Yachnin
Wed, 2020-11-18 17:21
Normal topic debug rosetta_scripts FunFolDes run
by tatsiana.bylund » Sun, 2019-08-18 23:17
1
368 by neelamraju.srid...
Wed, 2020-11-18 05:47
Normal topic Membrane Abinitio modeling error
by jkyan007 » Thu, 2020-10-29 03:30
1
95 by noahC_noahDo
Tue, 2020-11-17 10:35
Normal topic pepspec anchor dock
by Astghik » Tue, 2020-10-20 05:31
5
189 by Astghik
Tue, 2020-11-17 04:38
Normal topic Segmentation fault (core dumped) in rosetta_scripts.default.linuxgccrelease after blueprint file reading
by Corvin » Tue, 2020-06-30 00:36
12
957 by Corvin
Tue, 2020-11-10 01:22
Normal topic Using Rmsd RosettaScripts filter with alignment files
by bjharris » Sun, 2020-11-08 15:51
1
59 by rmoretti
Sun, 2020-11-08 18:56
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
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73 by AlfredoKCL
Sat, 2020-11-07 18:21
Normal topic How to add additional rounds of design and optimization in Rosetta scripts?
by Nicole Deng » Tue, 2020-11-03 19:05
2
91 by Nicole Deng
Thu, 2020-11-05 03:04
Normal topic Speed problem when running RosettaLigand ligand docking
by Nicole Deng » Tue, 2019-10-08 04:29
2
702 by Nicole Deng
Tue, 2020-11-03 19:07
Normal topic antibody.mpi.linuxgccrelease some antibodies failing to model
by drewaight » Mon, 2020-11-02 17:07
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93 by drewaight
Mon, 2020-11-02 17:07
Normal topic ERROR: Unable to fill in missing atoms.
by mieczyslaw » Tue, 2020-10-20 09:43
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218 by mieczyslaw
Thu, 2020-10-29 07:52
Normal topic not knowing which one of three ways to run rosettascript
by xinmiaohe » Tue, 2020-10-13 13:52
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192 by xinmiaohe
Mon, 2020-10-19 13:18
Normal topic Scoring functions: talaris2013 incompatible versions
by Smbat » Tue, 2020-10-13 06:18
5
258 by Astghik
Thu, 2020-10-15 00:48
Normal topic hbond_sr_bb and hbond_lr_bb for different chains
by tylerborrman » Tue, 2020-10-13 13:41
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123 by rmoretti
Wed, 2020-10-14 08:25
Normal topic neutral N-term and C-term
by nawsad » Sun, 2013-06-09 10:20
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5,435 by helenah
Thu, 2020-10-08 05:29
Normal topic Modelling of multi-component symmetrical structures
by LanMei » Wed, 2020-10-07 09:58
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163 by LanMei
Wed, 2020-10-07 09:58
Normal topic minimize_with_cst and convert_to_cst_file for ddG_monomer issues/confusion
by Kharlamov1317a » Mon, 2020-09-21 08:46
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184 by Kharlamov1317a
Wed, 2020-10-07 08:26
Normal topic Robetta ab initio - TrRosetta for membrane proteins
by benhardy » Wed, 2020-09-30 08:42
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166 by benhardy
Wed, 2020-09-30 08:42
Normal topic Membrane Abinitio modeling
by bharat_46010 » Mon, 2017-03-13 22:39
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788 by benhardy
Wed, 2020-09-30 04:24
Normal topic Input structure
by Soler » Mon, 2020-09-28 13:18
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151 by ssrb
Tue, 2020-09-29 12:37
Normal topic NCAA Rotamers for Cyclosporin
by marinok » Mon, 2020-09-28 14:11
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105 by marinok
Mon, 2020-09-28 14:11
Normal topic Trouble running MPI docking protocol, please help!
by Rob_Barringer » Tue, 2020-08-18 06:40
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287 by Rob_Barringer
Fri, 2020-09-25 05:45
Normal topic RosettaCM or FastRelax?
by Tianyang89 » Wed, 2020-09-23 07:46
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229 by danpf
Thu, 2020-09-24 13:44
Normal topic Sequence design with mixed fixbb-relax protocol
by kszczepaniak » Thu, 2013-10-03 08:11
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3,358 by fede
Wed, 2020-09-23 11:24
Normal topic I need some help for using pHDock applications(histidine protonation / pH-dependent binding)
by leygkn » Tue, 2020-09-22 18:40
1
131 by leygkn
Tue, 2020-09-22 22:46
Normal topic When using "screening job files" in small molecule-docking I get: Residue type already exists in the cache Error
by Martin Floor » Thu, 2020-09-17 06:01
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294 by Martin Floor
Tue, 2020-09-22 00:48
Normal topic Strong bias in sampling observed in RosettaDock
by chenna » Thu, 2020-08-27 22:23
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201 by ssrb
Sun, 2020-09-20 15:50
Normal topic Building loop extensions in a membrane protein with Remodel
by benhardy » Tue, 2020-06-02 08:21
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390 by benhardy
Sun, 2020-09-20 11:15
Normal topic Pepspec Anchor Dock
by Soler » Fri, 2020-09-18 08:09
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163 by Soler
Fri, 2020-09-18 08:09
Normal topic FASTA for Octopus
by Smbat » Wed, 2020-09-16 05:40
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145 by rmoretti
Wed, 2020-09-16 22:11
Normal topic Pepspec Anchor Dock
by Soler » Wed, 2020-09-16 19:08
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113 by Soler
Wed, 2020-09-16 19:08
Normal topic BuildPeptide - Using Phosphorylated and Sulfated Tyrosine
by jlawrie » Thu, 2020-09-03 14:29
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203 by jlawrie
Wed, 2020-09-16 10:05
Normal topic FlexPepDocking
by jlawrie » Tue, 2020-09-15 12:52
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114 by jlawrie
Tue, 2020-09-15 12:52
Normal topic 'standard.wts' does not exist
by almeida85 » Mon, 2020-09-14 02:26
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153 by rmoretti
Mon, 2020-09-14 06:36
Normal topic Number of max allowed mutations from WT sequence
by mouung » Fri, 2020-09-04 02:33
1
220 by rmoretti
Sun, 2020-09-06 10:10
Normal topic Scoring docking error
by almeida85 » Wed, 2020-09-02 01:32
2
249 by almeida85
Wed, 2020-09-02 06:14
Normal topic make_fragments.pl error
by almeida85 » Mon, 2020-08-31 04:39
2
227 by almeida85
Tue, 2020-09-01 01:29
Normal topic Extracting top score PIPER models
by almeida85 » Mon, 2020-08-31 07:17
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137 by almeida85
Mon, 2020-08-31 07:17
Normal topic density scoring
by Tianyang89 » Sat, 2020-08-29 04:54
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219 by danpf
Sun, 2020-08-30 22:23
Normal topic RosettaAntibody3 - How can I model an extended H3?
by brspurri » Fri, 2020-08-28 09:11
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170 by brspurri
Fri, 2020-08-28 09:11
Normal topic Rosetta_CM error unrecognized atom 'CS' this atom is not in PDB
by rlwoltz » Thu, 2019-01-24 19:43
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1,339 by bjharris
Sun, 2020-08-23 14:03
Normal topic Global Docking with carbohydrates
by ChiauShu » Sat, 2020-08-22 20:16
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135 by ChiauShu
Sat, 2020-08-22 20:16
Normal topic Successful RosettaCM?
by jlawrie » Wed, 2020-08-19 06:53
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213 by jlawrie
Thu, 2020-08-20 11:00
Normal topic Fewer than expected structures in clustering output
by fabiotrovato » Thu, 2020-08-20 00:59
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120 by fabiotrovato
Thu, 2020-08-20 00:59
Normal topic RosettaAntibody3 is failing with "Error: no input sequences were specified!"
by brspurri » Sun, 2020-08-16 16:16
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351 by brspurri
Tue, 2020-08-18 09:57
Normal topic clustering output file has few structures
by fabiotrovato » Mon, 2020-08-17 11:37
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114 by fabiotrovato
Mon, 2020-08-17 11:37
Normal topic RosettaCM
by jlawrie » Fri, 2020-08-14 14:09
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177 by jlawrie
Fri, 2020-08-14 14:09
Normal topic mpirun docking_protocol
by NanB » Mon, 2020-08-03 11:38
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263 by ssrb
Fri, 2020-08-14 09:18
Normal topic Docking-I_sc values do not correlate
by jlawrie » Wed, 2020-08-12 08:08
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221 by jlawrie
Wed, 2020-08-12 08:57
Normal topic Homology Modeling-no PDB output
by jlawrie » Wed, 2020-08-12 06:30
2
218 by jlawrie
Wed, 2020-08-12 08:56
Normal topic Modeling-Using RosettaCM
by jlawrie » Wed, 2020-08-12 08:46
1
135 by jlawrie
Wed, 2020-08-12 08:47
Normal topic Docking-RMS value nan
by jlawrie » Wed, 2020-08-12 07:03
2
225 by jlawrie
Wed, 2020-08-12 07:27
Normal topic Error when trying docking protocol with different ligand
by scyphs » Wed, 2020-08-05 04:37
2
250 by scyphs
Mon, 2020-08-10 08:09
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
226 by qq7678500549
Sun, 2020-08-09 18:59
Normal topic De novo water predictions using SPaDES
by MNP1986 » Mon, 2019-03-25 07:53
1
541 by matteoferla
Tue, 2020-08-04 09:30
Normal topic Bug Report - Encoding issue
by daniloboskovic » Tue, 2020-08-04 07:02
0
93 by daniloboskovic
Tue, 2020-08-04 07:02
Normal topic pepspec anchor dock
by Andre Serobian » Tue, 2020-07-28 05:51
1
182 by Andre Serobian
Tue, 2020-07-28 23:26
Normal topic Zero residues error in docking
by cjy318 » Tue, 2020-07-28 19:47
0
126 by cjy318
Tue, 2020-07-28 19:47
Normal topic RosettaAntibody3 core.pose.util error
by linhhoang157 » Tue, 2020-07-28 12:40
0
159 by linhhoang157
Tue, 2020-07-28 12:40
Normal topic clean_pdb not working
by Andre Serobian » Thu, 2020-07-23 04:48
3
346 by rmoretti
Tue, 2020-07-28 08:24
Normal topic Comparative modeling of metalloproteins
by ctqwong » Sun, 2020-07-12 13:51
3
365 by ctqwong
Mon, 2020-07-27 01:48
Normal topic How to choose designed antibody
by Sunyp_IM » Wed, 2020-06-24 10:06
5
538 by jadolfbr
Fri, 2020-07-24 07:24
Normal topic How many iterations of remodel is enough?
by daniloboskovic » Thu, 2020-07-16 08:07
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139 by daniloboskovic
Thu, 2020-07-16 08:14
Normal topic Translate mover chain X doesnot exist.
by surya » Thu, 2020-07-09 08:36
6
604 by rmoretti
Tue, 2020-07-14 10:54
Normal topic Warning: Fold tree is not set properly for density scoring
by ahansel » Mon, 2020-07-13 10:50
1
223 by danpf
Tue, 2020-07-14 10:27
Normal topic manually defining CDRs in antibody modelling
by gard.nelson » Fri, 2020-07-10 13:31
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178 by gard.nelson
Fri, 2020-07-10 13:31
Normal topic Problem with mpirun/mpiexec
by ahansel » Fri, 2020-07-10 08:37
1
292 by rmoretti
Fri, 2020-07-10 09:59
Normal topic Segmentation Fault during prepacking
by Sunyp_IM » Fri, 2020-06-12 11:24
4
512 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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168 by tschiex
Wed, 2020-07-08 05:28
Normal topic PEPSPEC
by Neeraj » Wed, 2018-01-03 02:24
1
691 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
0
116 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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145 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
334 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
1
266 by matteoferla
Thu, 2020-07-02 07:27
Normal topic ligand_docking: ligand preparation
by Alison_Yajie » Thu, 2020-07-02 07:05
0
158 by Alison_Yajie
Thu, 2020-07-02 07:10
Normal topic kcenters_clustering_of_fragments
by bjharris » Mon, 2019-07-01 16:16
1
446 by bjharris
Wed, 2020-07-01 23:25
Normal topic Scoring after HBNet
by HHL_SIUC » Wed, 2020-07-01 10:49
0
157 by HHL_SIUC
Wed, 2020-07-01 10:49
Normal topic Noncanonical amino acids
by wsgosal » Tue, 2014-03-18 05:29
5
3,383 by Nolanm15
Tue, 2020-06-30 08:43
Normal topic "core.kinematics.FoldTree" error upon running RAbD
by Sunyp_IM » Fri, 2020-06-26 17:27
2
333 by Sunyp_IM
Fri, 2020-06-26 20:57
Normal topic ligand_docking ligand preparation
by Alison_Yajie » Thu, 2020-05-21 10:21
2
361 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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158 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
2
338 by Kotimedidhi
Mon, 2020-06-22 16:19
Normal topic How to select docked models
by Sunyp_IM » Mon, 2020-06-22 00:50
1
211 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
366 by benhardy
Fri, 2020-06-19 07:55
Normal topic Residue selector
by Alison_Yajie » Wed, 2020-06-17 19:57
0
168 by Alison_Yajie
Thu, 2020-06-18 09:47
Normal topic Constraint generator
by Alison_Yajie » Wed, 2020-06-17 20:14
1
242 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
0
138 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
4
393 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
1
260 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
2
370 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
0
156 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
5
545 by brspurri
Wed, 2020-06-03 13:20
Normal topic AbinitioRelax detect_disulf_tolerance
by aarono » Tue, 2020-06-02 00:13
0
231 by aarono
Tue, 2020-06-02 00:13

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