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Rosetta 3 - General

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Sticky topic Sticky: FAQ
by admin » Mon, 2010-08-30 04:16
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5,474 by admin
Fri, 2015-09-04 16:17
Normal topic possible error in make_fragments.pl and fix
by DanielK » Fri, 2012-04-27 02:21
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1,042 by DanielK
Mon, 2014-04-21 06:47
Normal topic What is the expected behaviour when minimizing a jump edge?
by bio_james » Wed, 2017-12-13 09:13
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480 by bio_james
Wed, 2017-12-13 09:13
Normal topic Finding affinity-reducing mutants towards a ligand in Ligand-based interface design protocol
by adityapadhi » Wed, 2020-06-24 01:29
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174 by adityapadhi
Wed, 2020-06-24 01:29
Normal topic "Rosetta predictions of density, heat of vaporization (∆Hvap) and heat capacity (Cp(l))"
by matteoferla » Tue, 2020-07-14 01:51
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158 by matteoferla
Tue, 2020-07-14 01:51
Normal topic Correct way to force a specific histidine tautomer
by matteoferla » Fri, 2020-04-10 02:40
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221 by matteoferla
Fri, 2020-04-10 02:40
Normal topic Help with filtering (Rosetta scripts)
by wentlewi » Sat, 2020-10-24 10:12
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101 by wentlewi
Sat, 2020-10-24 10:12
Normal topic Mutate multidomain protein
by frankfurter1 » Wed, 2018-05-09 04:40
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461 by frankfurter1
Wed, 2018-05-09 04:40
Normal topic what factors determine the lowest (best) LigInterfaceEnergy score?
by jmaly » Wed, 2020-08-26 13:07
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205 by jmaly
Wed, 2020-09-02 16:16
Normal topic running ROBETTA protocol for proteins >1000 aa long
by tevang » Thu, 2010-07-15 07:09
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1,035 by tevang
Mon, 2014-04-21 06:47
Normal topic solution of the length of peptide candidates is larger than substrate with FlexPepDock and Flexpepbind
by ziqi1234 » Thu, 2018-05-24 02:18
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498 by ziqi1234
Thu, 2018-05-24 02:18
Normal topic Error in Loop Modeling
by sayan500 » Tue, 2019-07-30 22:20
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511 by sayan500
Tue, 2019-07-30 22:20
Normal topic RosettaCM: help to generate similar models as those from Robetta Server
by haom » Wed, 2020-09-09 09:19
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151 by haom
Wed, 2020-09-09 09:19
Normal topic make_fragments.pl
by rlwoltz » Fri, 2019-02-01 10:31
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677 by rlwoltz
Fri, 2019-02-01 10:31
Normal topic pyRosetta problem
by exchhattu » Sun, 2010-07-25 22:25
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955 by exchhattu
Mon, 2014-04-21 06:47
Normal topic How to define the surface (???.surf) for surface_docking?
by Anpu » Thu, 2018-09-27 07:34
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388 by Anpu
Thu, 2018-09-27 23:36
Normal topic SARS-CoV-2: call for compound predictions against protease
by matteoferla » Sun, 2020-03-22 05:29
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310 by matteoferla
Sun, 2020-03-22 05:29
Normal topic how to build homology based models?
by albumns » Thu, 2010-06-24 10:27
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980 by albumns
Mon, 2014-04-21 06:47
Normal topic Rosetta membrane prediction!
by wtscrystal » Tue, 2009-11-17 05:55
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1,772 by wtscrystal
Mon, 2014-04-21 06:47
Normal topic help to modelling of unsolved regions of homotetrameric protein
by csaylan » Sat, 2020-10-31 15:37
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79 by csaylan
Sat, 2020-10-31 15:37
Normal topic sam.predict-2nd for make_fragments.pl script
by sumukh21 » Tue, 2011-02-22 17:40
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1,049 by sumukh21
Mon, 2014-04-21 06:47
Normal topic Problem running make_fragments.pl script
by anirbanzz » Thu, 2010-04-22 01:27
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1,232 by anirbanzz
Mon, 2014-04-21 06:47
Normal topic RosettaDesign improvements
by ac.research » Mon, 2018-05-14 08:27
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484 by ac.research
Mon, 2018-05-14 08:27
Normal topic How RosettaCM can perform part of C terminal domain (CTD) structure prediction without proper template structures (coordinates)
by haom » Tue, 2020-09-01 13:21
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168 by haom
Tue, 2020-09-01 18:50
Normal topic Searching density map using real space correlation
by ahmadkhalifa » Fri, 2018-12-28 00:28
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351 by ahmadkhalifa
Fri, 2018-12-28 00:28
Normal topic [dev] examples for implementing setup_for_packing, prepare_rotamers_for_packing?
by ipetrik_ambry » Mon, 2017-10-30 17:03
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503 by ipetrik_ambry
Mon, 2017-10-30 17:03
Normal topic Docking Metalloprotein-Protein
by fgomes » Fri, 2019-11-22 19:12
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305 by fgomes
Fri, 2019-11-22 19:12
Normal topic How to generate a symmetry definition file for octahedral symmetry?
by Anonymous » Wed, 2012-08-15 05:20
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1,736 by Anonymous
Mon, 2014-04-21 06:47
Normal topic reading of AtomPair failed in relax with constraint
by hajar » Wed, 2020-06-10 10:02
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199 by hajar
Wed, 2020-06-10 11:17
Normal topic Constraints use in RosettaCM
by a.book » Wed, 2018-10-03 12:11
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594 by a.book
Wed, 2018-10-03 15:56
Normal topic Does it make sense to perform Docking on a complex?
by chrisHKL » Mon, 2020-02-17 09:12
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245 by chrisHKL
Mon, 2020-02-17 09:12
Normal topic Running CstFileToTheozyme for Mono-Atomic Metal
by Jhreed » Fri, 2016-07-08 13:43
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651 by Jhreed
Fri, 2016-07-08 13:44
Normal topic How to create a native file for Protein-Protein docking
by Kotimedidhi » Mon, 2020-06-22 08:10
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171 by Kotimedidhi
Mon, 2020-06-22 08:10
Normal topic Make fragments
by jeanramos » Mon, 2020-07-13 00:56
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165 by jeanramos
Mon, 2020-07-13 00:56
Normal topic restrict PackRotamersMover
by pmit » Thu, 2018-05-03 01:48
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435 by pmit
Thu, 2018-05-03 01:48
Normal topic Compile C++ Rosetta to Pyrosetta ERROR
by michelleqyh » Fri, 2020-08-21 09:00
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143 by michelleqyh
Fri, 2020-08-21 09:00
Normal topic Error with filter in rosseta_scripts
by Osmany Guirola » Mon, 2020-05-11 04:52
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206 by Osmany Guirola
Mon, 2020-05-11 04:52
Normal topic Ab Initio folding of protein with multiple chains?
by myang » Tue, 2009-11-24 13:01
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992 by myang
Mon, 2014-04-21 06:47
Normal topic Helical symmetry for cryo-EM refinement
by fmerino » Mon, 2017-10-16 04:02
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743 by fmerino
Mon, 2017-10-16 04:02
Normal topic Error on rna_denovo_setup.py
by zahra_AZ » Mon, 2020-11-09 02:23
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96 by zahra_AZ
Mon, 2020-11-09 02:23
Normal topic running Rosetta with MPI
by rohi » Sat, 2020-09-05 16:06
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248 by rohi
Mon, 2020-09-07 15:24
Normal topic RosettaMatch Problem
by David » Tue, 2019-01-22 12:23
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600 by David
Tue, 2019-01-22 12:23
Normal topic Side-chain grafting in fixed scaffold
by Kazu » Wed, 2020-05-20 08:45
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217 by Kazu
Wed, 2020-05-20 11:58
Normal topic keep ATP in the kinase-peptide structure while docking
by ziqi1234 » Fri, 2017-11-10 04:04
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499 by ziqi1234
Fri, 2017-11-10 04:04
Normal topic Structure refinement for helical assembles using Rosetta
by xiaoyanzi » Thu, 2020-06-18 00:34
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185 by xiaoyanzi
Thu, 2020-06-18 00:36
Normal topic Clustering Poses from RosettaDock
by ctaylor » Tue, 2009-12-29 06:38
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946 by ctaylor
Mon, 2014-04-21 06:47
Normal topic Using FastSAXS Scoring Protocol
by jurkm » Tue, 2011-09-20 07:40
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1,286 by jurkm
Mon, 2014-04-21 06:47
Normal topic possible error in make_fragments.pl and fix
by DanielK » Fri, 2012-04-27 02:23
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1,087 by DanielK
Mon, 2014-04-21 06:47
Normal topic Unrecognized atom parameter with denovo_density
by kalabharath » Mon, 2020-06-29 06:59
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167 by kalabharath
Mon, 2020-06-29 06:59
Normal topic Quick mysql output question
by pedro.guillem » Thu, 2020-07-23 03:45
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136 by pedro.guillem
Thu, 2020-07-23 03:45
Normal topic Error when trying to thread target sequence over template pdbs, partial_thread.static.macosclangrelease not working properly
by DGR95 » Wed, 2020-04-15 14:42
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248 by DGR95
Fri, 2020-04-17 11:25
Normal topic Could somebody interpret the rosetta's cluster application result?
by exchhattu » Mon, 2009-11-16 01:58
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1,043 by exchhattu
Mon, 2014-04-21 06:47
Normal topic how to perform model quality assessment of rosetta generated models?
by Danielsebas » Tue, 2019-09-24 05:03
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331 by Danielsebas
Tue, 2019-09-24 05:03
Normal topic protein design for increasing its affinity towards ligand
by rohi » Fri, 2020-10-30 11:33
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76 by rohi
Fri, 2020-10-30 11:33
Normal topic Homology modeling starter script
by gobli033 » Thu, 2010-04-01 07:27
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972 by gobli033
Mon, 2014-04-21 06:47
Normal topic MakeRotLib
by yinasun » Fri, 2019-07-26 02:17
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313 by yinasun
Fri, 2019-07-26 02:17
Normal topic Output "per-residue" energy score to database
by pedro.guillem » Thu, 2020-05-14 04:22
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204 by pedro.guillem
Thu, 2020-05-14 04:22
Normal topic cluster results
by albumns » Sun, 2010-07-18 23:59
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897 by albumns
Mon, 2014-04-21 06:47
Normal topic To smlewis............parallel job submission
by anusmita_sahoo » Mon, 2010-04-19 22:28
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987 by anusmita_sahoo
Mon, 2014-04-21 06:47
Normal topic benchmark for rosetta3.1
by anusmita_sahoo » Tue, 2010-05-04 22:05
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937 by anusmita_sahoo
Mon, 2014-04-21 06:47
Normal topic distance contraints file
by tricia » Wed, 2009-06-10 13:28
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901 by tricia
Mon, 2014-04-21 06:47
Normal topic alignblast.pl truncated file
by rlwoltz » Mon, 2019-03-11 18:32
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448 by rlwoltz
Mon, 2019-03-11 18:32
Normal topic Difference between interface_delta_X and dG_separated?
by Nicole Deng » Sat, 2020-06-06 06:31
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242 by Nicole Deng
Sat, 2020-06-06 06:40
Normal topic RNA & protein folding
by sdh » Thu, 2009-12-17 00:58
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990 by sdh
Mon, 2014-04-21 06:47
Normal topic Cryo-EM: problem with RosettaCM using multiple template models as input
by Karol » Mon, 2016-08-29 05:26
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986 by Karol
Mon, 2016-08-29 05:27
Normal topic Method to keep ATP in the certain position in the prepack step
by ziqi1234 » Tue, 2017-11-21 05:55
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504 by ziqi1234
Tue, 2017-11-21 05:55
Normal topic incomparable ddG values
by ela » Fri, 2018-08-31 02:53
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437 by ela
Fri, 2018-08-31 02:53
Normal topic General Forum Suggestion
by jadolfbr » Thu, 2011-09-29 08:11
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2,173 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic lDDT: local Distance Difference Test implemented?
by ipetrik_ambry » Wed, 2017-12-06 13:11
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495 by ipetrik_ambry
Wed, 2017-12-06 13:11
Normal topic maxsub calculation in scoring app
by abdullah » Thu, 2011-04-28 06:47
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1,150 by abdullah
Mon, 2014-04-21 06:47
Normal topic Centroid disulfide score weights
by vasek » Wed, 2014-01-22 23:34
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1,044 by vasek
Mon, 2014-04-21 06:48
Normal topic FARFAR and RNA_Tools: problem executing the command helix_preassemble_setup.py
by obdulia » Wed, 2018-04-18 00:45
0
460 by obdulia
Wed, 2018-04-18 00:45
Normal topic Membrane AbInitio
by coxford » Sat, 2012-12-22 05:06
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1,810 by coxford
Mon, 2014-04-21 06:47
Normal topic Error using FilterScan with rosettascripts
by SenyorDrew » Tue, 2016-12-13 14:29
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652 by SenyorDrew
Tue, 2016-12-13 14:29
Normal topic (eliminated)
by jiyongpark.77 » Tue, 2009-11-24 00:56
0
1,006 by jiyongpark.77
Mon, 2014-04-21 06:47
Normal topic error running "helix_preassemble_setup.py"
by zahra_AZ » Tue, 2020-11-03 01:54
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102 by zahra_AZ
Tue, 2020-11-03 01:54
Normal topic error message of runing make_fragment
by joseph » Fri, 2010-11-12 11:46
0
1,283 by joseph
Mon, 2014-04-21 06:47
Normal topic Errors in Interface_design_demo
by zhoubin » Fri, 2019-01-04 13:14
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438 by zhoubin
Fri, 2019-01-04 13:14
Normal topic 3.1 CLUSTERING OUTPUT
by w107kdk » Mon, 2009-12-07 13:10
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1,117 by w107kdk
Mon, 2014-04-21 06:47
Normal topic Need help finding the best predicted structure after running ab initio
by burkheadlab » Tue, 2011-06-21 11:18
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1,546 by burkheadlab
Mon, 2014-04-21 06:47
Normal topic Rosetta@cloud -- Macromolecular modeling in the cloud, Beta 1 is released!
by xujc » Wed, 2012-10-24 11:15
0
3,414 by xujc
Mon, 2014-04-21 06:47
Normal topic possible error in make_fragments.pl and fix
by DanielK » Fri, 2012-04-27 02:21
0
899 by DanielK
Mon, 2014-04-21 06:47
Normal topic env energy term
by bazzoli » Wed, 2018-10-10 01:59
0
443 by bazzoli
Wed, 2018-10-10 01:59
Normal topic Clustering TM domain of transmembrane protein
by justin » Sun, 2010-03-21 23:26
0
949 by justin
Mon, 2014-04-21 06:47
Normal topic abnitio in only part of pdb and map fitting
by tiagogomes89 » Mon, 2014-12-15 08:57
0
903 by tiagogomes89
Mon, 2014-12-15 08:57
Normal topic Molfile to Params File Issue
by jferrie » Mon, 2018-04-23 15:25
0
595 by jferrie
Mon, 2018-04-23 15:25
Normal topic How to use the <CavityVolume> filter in the released version of Rosetta
by BioPython » Sun, 2019-05-12 20:07
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398 by BioPython
Sun, 2019-05-12 20:07
Normal topic I made a params file generation webpage
by matteoferla » Wed, 2020-07-22 03:08
0
146 by matteoferla
Wed, 2020-07-22 03:08
Normal topic Rosetta and SAM 3.5!
by wtscrystal » Sat, 2009-11-14 22:49
0
1,323 by wtscrystal
Mon, 2014-04-21 06:47
Normal topic Structure-sequence alignment generation with selected PDB how?
by nzsuzsanna » Tue, 2016-05-10 07:39
0
706 by nzsuzsanna
Tue, 2016-05-10 07:39
Normal topic Error: Element 'RandomizeBBByRamaPrePro': This element is not expected.
by nferruz » Fri, 2020-08-28 06:04
0
191 by nferruz
Fri, 2020-08-28 06:05
Normal topic Ab Initio structure prediction
by abhishek » Tue, 2009-04-21 23:37
0
1,011 by abhishek
Mon, 2014-04-21 06:47
Normal topic BUG REPORT: MySql column protocol.protocol_id must have the AUTO_INCREMENT flag set
by pedro.guillem » Wed, 2020-05-13 18:31
0
204 by pedro.guillem
Wed, 2020-06-24 04:42
Normal topic compile make_fragments.pl
by justin » Wed, 2009-12-02 00:42
0
989 by justin
Mon, 2014-04-21 06:47
Normal topic Error using pHDock
by SenyorDrew » Thu, 2016-08-11 05:56
0
943 by SenyorDrew
Thu, 2016-08-11 05:56
Normal topic Disulfidize mover
by karenjgonzalez » Wed, 2019-07-31 12:35
0
387 by karenjgonzalez
Wed, 2019-07-31 12:35
Normal topic Suggestions for email notification & "category" for post
by lanselibai » Sun, 2014-11-16 10:44
0
925 by lanselibai
Sun, 2014-11-16 10:44
Normal topic shockingly low fragment diversity ___nnmake failed
by anusmita_sahoo » Wed, 2010-03-10 21:15
0
945 by anusmita_sahoo
Mon, 2014-04-21 06:47
Normal topic crashed when loading RDC data
by yangshen12 » Fri, 2018-10-26 12:34
0
427 by yangshen12
Fri, 2018-10-26 12:34
Normal topic using full atom constraint in docking
by rohi » Thu, 2020-10-15 10:28
0
100 by rohi
Thu, 2020-10-15 10:28

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