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Rosetta 3 - Applications

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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
7
5,800 by matteoferla
Mon, 2021-07-19 06:13
Normal topic Problem about energy score
by tfliu » Tue, 2013-11-05 02:09
7
7,337 by Ora Schueler-Furman
Mon, 2014-04-21 06:48
Normal topic Abinitio Relax Error from -kill_hairpins
by attesor » Tue, 2014-10-28 05:33
7
7,086 by rmoretti
Tue, 2014-11-04 10:28
Normal topic Inserting residues using RosettaRemodel
by eleishaj » Tue, 2015-11-24 08:54
7
7,873 by eyong123
Wed, 2015-12-09 07:17
Normal topic Fragment files for membrane_abinitio application
by sumukh21 » Sun, 2011-02-13 20:34
7
6,414 by yarovoy
Mon, 2014-04-21 06:47
Normal topic How to find cluster core structure?
by assignfit » Thu, 2012-03-29 20:35
7
6,837 by attesor
Wed, 2017-06-14 07:32
Normal topic modeling phosphorylated residue
by rosetter » Fri, 2011-03-18 08:13
7
8,085 by smlewis
Mon, 2014-04-21 06:47
Normal topic neutral N-term and C-term
by nawsad » Sun, 2013-06-09 10:20
7
8,525 by helenah
Thu, 2020-10-08 05:29
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
2,911 by aloshbau
Mon, 2021-03-01 20:06
Normal topic suppress pdb output from backrub
by attesor » Mon, 2014-10-27 11:16
7
6,631 by rmoretti
Mon, 2014-11-03 15:47
Normal topic If "clustering.py" can be used for PDBs contain two chains?
by lanselibai » Wed, 2014-11-05 06:05
7
6,697 by lanselibai
Tue, 2014-12-02 09:43
Normal topic "sparks failed" error when running "make_fragments.pl"?
by Danielsebas » Tue, 2019-09-03 03:43
6
3,607 by Jacob_Verburgt
Tue, 2020-03-10 14:39
Normal topic Multistate design output
by tong » Wed, 2018-06-20 00:21
6
3,675 by tong
Sun, 2018-06-24 23:30
Normal topic FloppyTail :How to specify range of design(mutation)
by syoifczeri » Mon, 2015-11-02 04:14
6
6,049 by syoifczeri
Sat, 2015-11-07 21:42
Normal topic rosetta_2013wk52: make_fragments.pl failed
by fred » Thu, 2014-01-30 12:41
6
8,176 by rmoretti
Fri, 2014-02-07 08:01
Normal topic Incorrect Jump being set in RosettaScripts docking mover
by weehee » Fri, 2012-06-08 10:23
6
7,284 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Distinctions between InterfaceAnalyzer and RosettaScript
by achambe » Wed, 2015-06-17 10:14
6
7,748 by rmoretti
Wed, 2015-09-02 12:43
Normal topic errors about RIFdocking
by sia » Sun, 2022-07-24 20:45
6
1,662 by sia
Tue, 2022-08-02 20:08
Normal topic mover "RepackMinimize" does not support chains > 2?
by jarod » Mon, 2013-05-20 02:17
6
7,128 by jarod
Mon, 2014-04-21 06:47
Normal topic How to model missing residues on a protein from multiple PDB files?
by cossio » Fri, 2015-08-21 07:18
6
12,521 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
4,031 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
3,422 by chandana
Tue, 2022-08-09 20:27
Normal topic Comparative modeling stops with "no more batches to process... " / no output
by eskici » Tue, 2012-08-28 12:13
6
5,974 by eskici
Mon, 2014-04-21 06:47
Normal topic Docking with constraints
by ytao » Tue, 2013-04-02 09:45
6
7,629 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to define pi-pi stacking in cst file?
by lzx32 » Mon, 2011-07-04 23:47
6
7,717 by lzx32
Mon, 2014-04-21 06:47
Normal topic symmetric design in the presence of a nonsymmetric ligand
by msardejani » Fri, 2016-09-30 15:17
6
5,698 by msardejani
Sat, 2016-10-01 12:55
Normal topic the ddg of mutant is same as the wt
by deepanshuiitb » Wed, 2015-03-04 11:56
6
6,287 by jadolfbr
Tue, 2015-04-07 10:50
Normal topic Abinitio (3.4) Error: no fragment to compute secondary structure
by skovacs » Tue, 2012-09-18 13:49
6
7,138 by skovacs
Mon, 2014-04-21 06:47
Normal topic Problem with hotspot constraints.
by jarek » Wed, 2012-10-17 03:22
6
5,396 by xfliu
Mon, 2014-04-21 06:47
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
5,640 by Corvin
Tue, 2019-10-15 01:12
Normal topic ab inito memberane(error in alignblast.pl)
by kingljy » Tue, 2011-05-03 23:41
6
6,713 by karthishanmugam
Mon, 2014-04-21 06:47
Normal topic Loop modeling - the appropriate way to model a peptide insertion?
by xding » Thu, 2018-08-02 15:30
6
4,307 by smlewis
Wed, 2018-08-08 15:48
Normal topic Error src/core/scoring/MembraneTopology.cc line: 139
by Daniel Hall » Thu, 2017-07-13 04:58
6
5,366 by rmoretti
Tue, 2017-07-18 09:00
Normal topic protein docking failed
by albumns » Thu, 2012-11-08 02:59
6
5,825 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Translate mover chain X doesnot exist.
by surya » Thu, 2020-07-09 08:36
6
2,938 by rmoretti
Tue, 2020-07-14 10:54
Normal topic Cannot get a negative score after relax
by kxiao » Tue, 2014-01-28 22:28
6
7,485 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Abinitio doesn't run but does not give output or error
by Irving » Fri, 2016-10-28 10:04
6
5,364 by rmoretti
Mon, 2017-01-23 08:52
Normal topic Help with enzyme design
by lzx32 » Fri, 2011-04-08 22:29
6
6,092 by lzx32
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
6
4,463 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
303 by yueyuedake
Sun, 2023-07-16 19:17
Normal topic docking in rosetta 3.3
by Ammu » Thu, 2012-03-15 12:03
6
5,707 by smlewis
Mon, 2014-04-21 06:47
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
6,875 by rmoretti
Wed, 2017-01-11 12:53
Normal topic Can't generate a cst file to use with ddg_monomer application
by ctqwong » Sat, 2021-03-13 03:53
6
2,504 by ctqwong
Thu, 2021-03-18 02:04
Normal topic Can I believe the antibody design result?
by Sunyp_IM » Mon, 2020-11-30 03:29
6
2,702 by jadolfbr
Sun, 2020-12-06 17:41
Normal topic EMERALD method not working, Rosetta version not available for download
by seba » Thu, 2023-05-04 08:14
6
586 by rmoretti
Mon, 2023-07-10 08:57
Normal topic Relax a structure with >1 copy of a modified residue fails [Solved]
by franfdez » Wed, 2012-02-08 00:47
6
6,129 by franfdez
Mon, 2014-04-21 06:47
Normal topic Enzdes score file discrepancy between generated pdb and scores.out
by eyong123 » Wed, 2015-03-25 08:52
6
6,771 by eyong123
Mon, 2015-06-29 04:44
Normal topic pepspec anchor dock
by Astghik » Tue, 2020-10-20 05:31
6
2,941 by Pappmaschee
Thu, 2020-12-17 02:24
Normal topic CS-HM-Rosetta
by pwurm » Thu, 2013-03-07 12:56
6
6,706 by Marius1987
Fri, 2016-02-05 07:20
Normal topic the flexpepdock refinement and ab-initio
by tfliu » Mon, 2013-12-23 19:17
6
6,065 by tfliu
Mon, 2014-04-21 06:48
Normal topic enzyme design and output_matchres_only
by petrikigor » Wed, 2012-10-24 18:45
6
4,925 by petrikigor
Mon, 2014-04-21 06:47
Normal topic Rotamers used in fixbb
by lanselibai » Thu, 2014-11-06 02:47
6
5,706 by lanselibai
Tue, 2014-11-11 15:28
Normal topic loop modeling during enzyme design?
by lzx32 » Wed, 2011-11-16 00:30
6
5,527 by lzx32
Mon, 2014-04-21 06:47
Normal topic scoring of beta sandwich protein
by attesor » Mon, 2014-11-17 08:24
6
5,620 by rmoretti
Thu, 2014-11-20 10:46
Normal topic RosettaLigand - strange score behavior
by Gerdes » Mon, 2014-02-03 02:24
6
6,474 by Gerdes
Fri, 2014-02-07 06:48
Normal topic Problems with ligand when running RosettaLigand
by Cat » Mon, 2013-05-20 15:58
6
6,227 by Aben
Tue, 2023-04-18 01:31
Normal topic Enzyme design with variable CST blocks possible?
by petrikigor » Thu, 2011-10-06 11:24
6
6,787 by petrikigor
Mon, 2014-04-21 06:47
Normal topic Line search failed even after resetting Hessian
by Loki01 » Wed, 2017-12-13 16:52
6
5,438 by Loki01
Thu, 2018-02-15 13:54
Normal topic Results of enzyme_design not consistent with Resfile
by yogeshkd » Thu, 2013-02-14 15:56
6
6,202 by yogeshkd
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
9,792 by lanselibai
Wed, 2014-10-01 02:13
Normal topic Error during single state design
by sujigeorge1979 » Sat, 2020-01-18 00:37
5
4,465 by rmoretti
Thu, 2020-01-30 15:42
Normal topic rna structure prediction
by cbala » Thu, 2011-04-14 07:42
5
5,504 by mkoohim
Mon, 2014-04-21 06:47
Normal topic Antibody protocol: unusual antibodies, and chainbreaks
by Cyril Cros » Mon, 2014-07-21 17:03
5
5,837 by Cyril Cros
Tue, 2014-11-25 08:21
Normal topic Error with the mpi version of simple_cycpep_predict
by Florent Langenfeld » Wed, 2020-02-05 05:16
5
2,808 by vmulligan
Fri, 2020-04-10 02:54
Normal topic Rosetta RNA denovo huge memory usage (probable memory leak)
by cdegut » Mon, 2017-10-30 16:41
5
3,899 by cdegut
Fri, 2017-11-03 05:50
Normal topic Rosetta ab initio run gives 0.00 RMSD for generated 2000 models? (run still in progress)
by Danielsebas » Mon, 2019-09-23 03:24
5
2,826 by smlewis
Mon, 2019-09-23 11:42
Normal topic Rosetta residue design for DNA binding
by deltag » Wed, 2012-12-12 11:35
5
8,837 by deltag
Mon, 2014-04-21 06:47
Normal topic Snugdock_input
by luicui » Wed, 2017-01-18 16:48
5
3,988 by smlewis
Fri, 2017-01-20 08:14
Normal topic symmetrical membrane modeling
by rlwoltz » Tue, 2013-10-29 03:41
5
5,710 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic Ligand Docking with Rosetta Scripts memory problem
by Swillard » Thu, 2017-08-17 14:59
5
4,452 by rmoretti
Mon, 2018-11-12 14:31
Normal topic RosettaCM -weights, fragments and relax
by jsv » Tue, 2017-05-09 10:20
5
4,602 by rmoretti
Thu, 2017-06-01 08:52
Normal topic cyclization_type flag in simple_cycpep_predict
by Florent Langenfeld » Thu, 2018-01-04 09:22
5
4,197 by Florent Langenfeld
Tue, 2018-03-27 11:44
Normal topic P-P docking with suitable constraint type
by Yao Wu » Tue, 2012-11-13 18:03
5
6,650 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Cartesian-space refinement
by sjyang7 » Wed, 2017-05-31 19:34
5
5,165 by sjyang7
Sat, 2017-06-03 06:09
Normal topic RosettaLigand: How to score native pose in protein-ligand docking experiment?
by Ryhon Wang » Tue, 2015-11-10 01:30
5
5,441 by Ryhon Wang
Mon, 2016-01-04 19:59
Normal topic Rosetta ScriptsFeatures Reporter issue
by David Weis » Sun, 2017-03-12 08:19
5
4,355 by David Weis
Mon, 2017-03-13 10:59
Normal topic Enzdes: increase weight of energy term for steric clashes with ligand
by eyong123 » Wed, 2015-03-25 09:12
5
5,712 by rmoretti
Fri, 2015-04-24 12:02
Normal topic docking energies - deltadeltaG calculation
by ast » Fri, 2013-07-19 07:30
5
9,403 by rmoretti
Mon, 2014-04-21 06:48
Normal topic RosettaScripts LinkResidues
by Yero » Fri, 2019-05-17 05:26
5
3,748 by Yero
Thu, 2019-07-18 01:39
Normal topic domain:domain fusion
by felipet » Thu, 2017-06-15 13:13
5
4,981 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
2,568 by jadolfbr
Wed, 2020-05-06 11:37
Normal topic Parse error while reading in XML file in ROSETTA Scripts
by rweisse » Fri, 2014-08-29 03:24
5
8,945 by a-eatemadi@razi...
Sun, 2017-08-06 03:49
Normal topic Rosetta dock irmsd
by Pernille » Sun, 2015-04-26 13:51
5
6,492 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
5
1,887 by lei
Fri, 2023-01-20 08:11
Normal topic Using MoveMap within Relax Application?
by m_grisewood » Mon, 2012-08-13 12:21
5
6,796 by m_grisewood
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
5,223 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
4,031 by dfcoelho
Tue, 2018-10-16 09:05
Normal topic conway2016 correction on beta-nov15?
by attesor » Wed, 2017-03-15 05:26
5
4,039 by attesor
Thu, 2017-03-16 01:21
Normal topic symmetric docking and constraints
by ytao » Thu, 2013-05-02 12:08
5
7,343 by attesor
Wed, 2015-10-21 13:53
Normal topic Does linker modeling exist?
by aroop » Wed, 2012-02-22 07:34
5
5,049 by smlewis
Mon, 2014-04-21 06:47
Normal topic extract silent error - tag mismatch
by shrutikhare » Thu, 2014-04-03 00:13
5
6,638 by rmoretti
Mon, 2014-04-21 10:47
Normal topic RosettaVIP: ERROR: seqpos <= size()
by Anonymous » Thu, 2012-07-26 07:30
5
6,199 by Anonymous
Mon, 2014-04-21 06:47
Normal topic How to concatenate the 3-mer and 9-mer files for RosettaCM?
by lanselibai » Fri, 2020-05-08 05:38
5
2,855 by danpf
Tue, 2020-05-12 10:58
Normal topic Scoring functions: talaris2013 incompatible versions
by Smbat » Tue, 2020-10-13 06:18
5
2,661 by Astghik
Thu, 2020-10-15 00:48
Normal topic how to do alanine scanning
by xinmiaohe » Mon, 2019-08-26 17:40
5
4,560 by xinmiaohe
Fri, 2019-10-04 08:54
Normal topic -score_app:linmin flag not working
by fglaser » Tue, 2011-03-01 06:04
5
5,150 by smlewis
Mon, 2014-04-21 06:47
Normal topic Is there a way to restrict memory usage of ddg_monomer?
by cossio » Fri, 2015-01-30 14:35
5
4,848 by rmoretti
Mon, 2015-02-09 12:04
Normal topic PDB format for RosettaDNA
by brspurri » Thu, 2013-05-30 11:21
5
6,132 by brspurri
Mon, 2014-04-21 06:47
Normal topic ddg dG_separate
by gw » Wed, 2012-08-22 11:25
5
5,766 by smlewis
Mon, 2014-04-21 06:47
Normal topic Steric clashes in RNA minimization
by brianmlee » Tue, 2014-11-18 18:29
5
5,751 by brianmlee
Mon, 2014-11-24 19:40
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