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Rosetta 3 - Applications

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Normal topic cyclization_type flag in simple_cycpep_predict
by Florent Langenfeld » Thu, 2018-01-04 09:22
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4,373 by Florent Langenfeld
Tue, 2018-03-27 11:44
Normal topic Enzdes: increase weight of energy term for steric clashes with ligand
by eyong123 » Wed, 2015-03-25 09:12
5
5,852 by rmoretti
Fri, 2015-04-24 12:02
Normal topic RosettaLigand: How to score native pose in protein-ligand docking experiment?
by Ryhon Wang » Tue, 2015-11-10 01:30
5
5,546 by Ryhon Wang
Mon, 2016-01-04 19:59
Normal topic Rosetta ScriptsFeatures Reporter issue
by David Weis » Sun, 2017-03-12 08:19
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4,487 by David Weis
Mon, 2017-03-13 10:59
Normal topic domain:domain fusion
by felipet » Thu, 2017-06-15 13:13
5
5,136 by felipet
Fri, 2017-06-16 11:42
Normal topic Can the Rosetta Antibody Design (RAbD) protocol incorporate glycans?
by ccottrell » Tue, 2020-05-05 20:30
5
2,697 by jadolfbr
Wed, 2020-05-06 11:37
Normal topic RosettaScripts LinkResidues
by Yero » Fri, 2019-05-17 05:26
5
3,902 by Yero
Thu, 2019-07-18 01:39
Normal topic Parse error while reading in XML file in ROSETTA Scripts
by rweisse » Fri, 2014-08-29 03:24
5
9,120 by a-eatemadi@razi...
Sun, 2017-08-06 03:49
Normal topic Rosetta dock irmsd
by Pernille » Sun, 2015-04-26 13:51
5
6,687 by rmoretti
Mon, 2015-10-12 15:10
Normal topic snugdock(sequence position requested was greater than the number of residues in the pose)
by lei » Thu, 2023-01-12 01:40
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2,111 by lei
Fri, 2023-01-20 08:11
Normal topic rosetta protein protein docking start up
by vk » Fri, 2011-06-24 09:01
5
6,749 by smlewis
Mon, 2014-04-21 06:47
Normal topic [TopologyBroker Exception]: BBTorsion at pos 468unitialized...unclaimed
by tevang » Wed, 2013-04-10 15:07
5
4,636 by rmoretti
Mon, 2014-04-21 06:47
Normal topic too many constraints result in no output pose
by Yao Wu » Sun, 2012-11-18 23:45
5
5,933 by smlewis
Mon, 2014-04-21 06:47
Normal topic extract_pdb application parse error with silent file
by staciekim » Tue, 2017-08-22 12:39
5
5,377 by rmoretti
Thu, 2017-08-24 08:19
Normal topic Local docking: "manually place the two proteins facing each other" ?
by mdeklotz » Fri, 2018-07-20 10:24
5
4,220 by dfcoelho
Tue, 2018-10-16 09:05
Normal topic conway2016 correction on beta-nov15?
by attesor » Wed, 2017-03-15 05:26
5
4,167 by attesor
Thu, 2017-03-16 01:21
Normal topic How to concatenate the 3-mer and 9-mer files for RosettaCM?
by lanselibai » Fri, 2020-05-08 05:38
5
3,008 by danpf
Tue, 2020-05-12 10:58
Normal topic Scoring functions: talaris2013 incompatible versions
by Smbat » Tue, 2020-10-13 06:18
5
2,812 by Astghik
Thu, 2020-10-15 00:48
Normal topic how to do alanine scanning
by xinmiaohe » Mon, 2019-08-26 17:40
5
4,753 by xinmiaohe
Fri, 2019-10-04 08:54
Normal topic Is there a way to restrict memory usage of ddg_monomer?
by cossio » Fri, 2015-01-30 14:35
5
4,968 by rmoretti
Mon, 2015-02-09 12:04
Normal topic Using MoveMap within Relax Application?
by m_grisewood » Mon, 2012-08-13 12:21
5
6,900 by m_grisewood
Mon, 2014-04-21 06:47
Normal topic Steric clashes in RNA minimization
by brianmlee » Tue, 2014-11-18 18:29
5
5,892 by brianmlee
Mon, 2014-11-24 19:40
Normal topic flexpep docking problem
by michael_luntan » Mon, 2011-04-18 17:15
5
5,483 by michael_luntan
Mon, 2014-04-21 06:47
Normal topic Symmetric Minimization
by aroop » Mon, 2012-12-17 11:45
5
4,479 by aroop
Mon, 2014-04-21 06:47
Normal topic How to minimize the decoys obtained from backrub?
by Vedasheersh » Wed, 2017-06-14 10:26
5
3,984 by SenyorDrew
Fri, 2017-06-30 09:47
Normal topic Does linker modeling exist?
by aroop » Wed, 2012-02-22 07:34
5
5,134 by smlewis
Mon, 2014-04-21 06:47
Normal topic rosetta app
by MA » Wed, 2017-07-05 06:52
5
3,795 by smlewis
Tue, 2017-07-11 07:53
Normal topic trRosetta protocol Segmentation Fault
by nc-ring » Wed, 2021-04-28 11:57
5
2,384 by nc-ring
Tue, 2021-05-04 12:26
Normal topic problem creating lips4 file using run_lips.pl
by adva » Sun, 2015-02-15 06:22
5
7,217 by linucks
Mon, 2016-06-20 12:02
Normal topic Error with talaris2014.wts, which leads to a garbade scorefunction in loop modelling for protein-protein docking
by Corvin » Wed, 2019-06-19 08:40
5
3,760 by rmoretti
Tue, 2019-07-09 10:13
Normal topic AbinitioRelax with native fragments
by ks » Mon, 2016-09-05 03:03
5
5,095 by ks
Mon, 2016-09-12 03:14
Normal topic RosettaVIP: ERROR: seqpos <= size()
by Anonymous » Thu, 2012-07-26 07:30
5
6,307 by Anonymous
Mon, 2014-04-21 06:47
Normal topic ddg dG_separate
by gw » Wed, 2012-08-22 11:25
5
5,897 by smlewis
Mon, 2014-04-21 06:47
Normal topic RosettaCM Biological Assembly
by jrcf » Mon, 2015-10-26 11:01
5
7,081 by rmoretti
Tue, 2015-11-24 15:30
Normal topic rna structure prediction
by cbala » Thu, 2011-04-14 07:42
5
5,621 by mkoohim
Mon, 2014-04-21 06:47
Normal topic matdes_design: ERROR]EXCN_utility_exit has been thrown from: src/core/io/silent/SilentFileData.cc line: 302
by siciliu » Fri, 2014-03-21 17:51
5
6,004 by siciliu
Thu, 2014-04-10 09:50
Normal topic RosettaMP: issue with generating .lips4 file
by ksy141 » Mon, 2019-01-21 17:17
5
3,220 by noahC_noahDo
Fri, 2020-11-20 11:29
Normal topic Antibody protocol: unusual antibodies, and chainbreaks
by Cyril Cros » Mon, 2014-07-21 17:03
5
5,973 by Cyril Cros
Tue, 2014-11-25 08:21
Normal topic Rosetta residue design for DNA binding
by deltag » Wed, 2012-12-12 11:35
5
8,930 by deltag
Mon, 2014-04-21 06:47
Normal topic molfile to params polymer python errors
by tsztain » Sun, 2018-12-02 15:38
5
4,646 by tsztain
Tue, 2018-12-11 13:41
Normal topic symmetrical membrane modeling
by rlwoltz » Tue, 2013-10-29 03:41
5
5,850 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic Docking with constraints
by ytao » Tue, 2013-04-02 09:45
6
7,755 by smlewis
Mon, 2014-04-21 06:47
Normal topic Line search failed even after resetting Hessian
by Loki01 » Wed, 2017-12-13 16:52
6
5,606 by Loki01
Thu, 2018-02-15 13:54
Normal topic enzyme design and output_matchres_only
by petrikigor » Wed, 2012-10-24 18:45
6
5,054 by petrikigor
Mon, 2014-04-21 06:47
Normal topic Help with enzyme design
by lzx32 » Fri, 2011-04-08 22:29
6
6,223 by lzx32
Mon, 2014-04-21 06:47
Normal topic Missing "Bio.PDB" module when running "remove_loop_coords.py"
by lanselibai » Mon, 2014-09-29 04:34
6
9,940 by lanselibai
Wed, 2014-10-01 02:13
Normal topic Multistate design output
by tong » Wed, 2018-06-20 00:21
6
3,810 by tong
Sun, 2018-06-24 23:30
Normal topic Cannot get a negative score after relax
by kxiao » Tue, 2014-01-28 22:28
6
7,601 by rmoretti
Mon, 2014-04-21 06:48
Normal topic "sparks failed" error when running "make_fragments.pl"?
by Danielsebas » Tue, 2019-09-03 03:43
6
3,773 by Jacob_Verburgt
Tue, 2020-03-10 14:39
Normal topic FloppyTail :How to specify range of design(mutation)
by syoifczeri » Mon, 2015-11-02 04:14
6
6,166 by syoifczeri
Sat, 2015-11-07 21:42
Normal topic Distinctions between InterfaceAnalyzer and RosettaScript
by achambe » Wed, 2015-06-17 10:14
6
7,998 by rmoretti
Wed, 2015-09-02 12:43
Normal topic ligand docking, how to combine some silent.out files into a silent_all.out file
by Ryhon Wang » Fri, 2013-12-06 01:53
6
7,024 by rmoretti
Wed, 2017-01-11 12:53
Normal topic How to model missing residues on a protein from multiple PDB files?
by cossio » Fri, 2015-08-21 07:18
6
12,755 by rmoretti
Fri, 2015-09-11 13:27
Normal topic terminal amino acids of gap has incomplete valency
by malkeet.singh » Wed, 2017-11-29 05:20
6
4,193 by rmoretti
Fri, 2017-12-01 12:05
Normal topic How to choose designed antibody
by Sunyp_IM » Wed, 2020-06-24 10:06
6
3,717 by chandana
Tue, 2022-08-09 20:27
Normal topic errors about RIFdocking
by sia » Sun, 2022-07-24 20:45
6
1,974 by sia
Tue, 2022-08-02 20:08
Normal topic the ddg of mutant is same as the wt
by deepanshuiitb » Wed, 2015-03-04 11:56
6
6,422 by jadolfbr
Tue, 2015-04-07 10:50
Normal topic symmetric design in the presence of a nonsymmetric ligand
by msardejani » Fri, 2016-09-30 15:17
6
5,848 by msardejani
Sat, 2016-10-01 12:55
Normal topic Make error during installation of updated ncbi-blast-2.9.0+-src plus error with nr-database
by Corvin » Tue, 2019-10-01 02:04
6
5,828 by Corvin
Tue, 2019-10-15 01:12
Normal topic Loop modeling - the appropriate way to model a peptide insertion?
by xding » Thu, 2018-08-02 15:30
6
4,449 by smlewis
Wed, 2018-08-08 15:48
Normal topic Incorrect Jump being set in RosettaScripts docking mover
by weehee » Fri, 2012-06-08 10:23
6
7,384 by rmoretti
Mon, 2014-04-21 06:47
Normal topic CS-HM-Rosetta
by pwurm » Thu, 2013-03-07 12:56
6
6,827 by Marius1987
Fri, 2016-02-05 07:20
Normal topic the flexpepdock refinement and ab-initio
by tfliu » Mon, 2013-12-23 19:17
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6,165 by tfliu
Mon, 2014-04-21 06:48
Normal topic Error src/core/scoring/MembraneTopology.cc line: 139
by Daniel Hall » Thu, 2017-07-13 04:58
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5,554 by rmoretti
Tue, 2017-07-18 09:00
Normal topic Translate mover chain X doesnot exist.
by surya » Thu, 2020-07-09 08:36
6
3,081 by rmoretti
Tue, 2020-07-14 10:54
Normal topic loop modeling during enzyme design?
by lzx32 » Wed, 2011-11-16 00:30
6
5,682 by lzx32
Mon, 2014-04-21 06:47
Normal topic Comparative modeling stops with "no more batches to process... " / no output
by eskici » Tue, 2012-08-28 12:13
6
6,085 by eskici
Mon, 2014-04-21 06:47
Normal topic Abinitio doesn't run but does not give output or error
by Irving » Fri, 2016-10-28 10:04
6
5,534 by rmoretti
Mon, 2017-01-23 08:52
Normal topic Abinitio (3.4) Error: no fragment to compute secondary structure
by skovacs » Tue, 2012-09-18 13:49
6
7,275 by skovacs
Mon, 2014-04-21 06:47
Normal topic jd2 quits before reaching -nstruct # in roseta_scripts.mpi.linuxgccrelease
by fradom » Mon, 2017-11-27 02:55
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4,624 by fradom
Tue, 2017-12-05 01:52
Normal topic fragment_picker:[ ERROR ] UtilityExitException ERROR: can't open file: $ROSETTA/tools/fragment_tools/vall.jul19.2011.gz
by yueyuedake » Wed, 2023-07-12 03:36
6
520 by yueyuedake
Sun, 2023-07-16 19:17
Normal topic Enzyme design with variable CST blocks possible?
by petrikigor » Thu, 2011-10-06 11:24
6
6,928 by petrikigor
Mon, 2014-04-21 06:47
Normal topic Problem with hotspot constraints.
by jarek » Wed, 2012-10-17 03:22
6
5,540 by xfliu
Mon, 2014-04-21 06:47
Normal topic RosettaLigand - strange score behavior
by Gerdes » Mon, 2014-02-03 02:24
6
6,616 by Gerdes
Fri, 2014-02-07 06:48
Normal topic Can't generate a cst file to use with ddg_monomer application
by ctqwong » Sat, 2021-03-13 03:53
6
2,661 by ctqwong
Thu, 2021-03-18 02:04
Normal topic protein docking failed
by albumns » Thu, 2012-11-08 02:59
6
5,940 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Can I believe the antibody design result?
by Sunyp_IM » Mon, 2020-11-30 03:29
6
2,850 by jadolfbr
Sun, 2020-12-06 17:41
Normal topic Enzdes score file discrepancy between generated pdb and scores.out
by eyong123 » Wed, 2015-03-25 08:52
6
6,978 by eyong123
Mon, 2015-06-29 04:44
Normal topic EMERALD method not working, Rosetta version not available for download
by seba » Thu, 2023-05-04 08:14
6
914 by rmoretti
Mon, 2023-07-10 08:57
Normal topic Problems with ligand when running RosettaLigand
by Cat » Mon, 2013-05-20 15:58
6
6,490 by Aben
Tue, 2023-04-18 01:31
Normal topic Results of enzyme_design not consistent with Resfile
by yogeshkd » Thu, 2013-02-14 15:56
6
6,313 by yogeshkd
Mon, 2014-04-21 06:47
Normal topic pepspec anchor dock
by Astghik » Tue, 2020-10-20 05:31
6
3,122 by Pappmaschee
Thu, 2020-12-17 02:24
Normal topic docking in rosetta 3.3
by Ammu » Thu, 2012-03-15 12:03
6
5,823 by smlewis
Mon, 2014-04-21 06:47
Normal topic Relax a structure with >1 copy of a modified residue fails [Solved]
by franfdez » Wed, 2012-02-08 00:47
6
6,233 by franfdez
Mon, 2014-04-21 06:47
Normal topic Rotamers used in fixbb
by lanselibai » Thu, 2014-11-06 02:47
6
5,855 by lanselibai
Tue, 2014-11-11 15:28
Normal topic How to define pi-pi stacking in cst file?
by lzx32 » Mon, 2011-07-04 23:47
6
7,868 by lzx32
Mon, 2014-04-21 06:47
Normal topic rosetta_2013wk52: make_fragments.pl failed
by fred » Thu, 2014-01-30 12:41
6
8,308 by rmoretti
Fri, 2014-02-07 08:01
Normal topic scoring of beta sandwich protein
by attesor » Mon, 2014-11-17 08:24
6
5,759 by rmoretti
Thu, 2014-11-20 10:46
Normal topic mover "RepackMinimize" does not support chains > 2?
by jarod » Mon, 2013-05-20 02:17
6
7,251 by jarod
Mon, 2014-04-21 06:47
Normal topic ab inito memberane(error in alignblast.pl)
by kingljy » Tue, 2011-05-03 23:41
6
6,827 by karthishanmugam
Mon, 2014-04-21 06:47
Normal topic How to write down a connection between ligand's atom and metal ion from enzyme?
by Corvin » Mon, 2021-02-15 06:54
7
3,094 by aloshbau
Mon, 2021-03-01 20:06
Normal topic suppress pdb output from backrub
by attesor » Mon, 2014-10-27 11:16
7
6,791 by rmoretti
Mon, 2014-11-03 15:47
Normal topic protein structure prediction using relax -- high-powered jobs
by rfieldhouse » Mon, 2011-05-30 18:29
7
7,443 by dimaio
Mon, 2014-04-21 06:47
Normal topic If "clustering.py" can be used for PDBs contain two chains?
by lanselibai » Wed, 2014-11-05 06:05
7
6,856 by lanselibai
Tue, 2014-12-02 09:43
Normal topic How to find cluster core structure?
by assignfit » Thu, 2012-03-29 20:35
7
7,030 by attesor
Wed, 2017-06-14 07:32
Normal topic Ensemble Docking in Rosetta3.5?
by protos_heis » Fri, 2015-05-22 06:42
7
8,187 by protos_heis
Mon, 2015-06-08 07:00
Normal topic "ddg_monomer.linuxgccrelease" by following "High Resolution Protocol"
by lanselibai » Wed, 2014-10-01 09:54
7
10,433 by lanselibai
Sat, 2015-01-03 08:18
Normal topic ddg_monomer consumes massive RAM
by cossio » Fri, 2018-03-09 17:02
7
5,901 by rmoretti
Mon, 2018-03-19 12:12
Normal topic Write one's own constraint type
by djpittdj » Thu, 2012-11-08 12:29
7
6,437 by smlewis
Mon, 2014-04-21 06:47
Normal topic RosettaRemodel can not work now?
by myputer » Tue, 2013-08-13 16:56
7
7,244 by rmoretti
Mon, 2014-04-21 06:48
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