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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
4,227 by matteoferla
Mon, 2021-07-19 06:13
Normal topic How to find cluster core structure?
by assignfit » Thu, 2012-03-29 20:35
7
5,785 by attesor
Wed, 2017-06-14 07:32
Normal topic neutral N-term and C-term
by nawsad » Sun, 2013-06-09 10:20
7
7,400 by helenah
Thu, 2020-10-08 05:29
Normal topic protein structure prediction using relax -- high-powered jobs
by rfieldhouse » Mon, 2011-05-30 18:29
7
6,350 by dimaio
Mon, 2014-04-21 06:47
Normal topic Abinitio Relax Error from -kill_hairpins
by attesor » Tue, 2014-10-28 05:33
7
6,032 by rmoretti
Tue, 2014-11-04 10:28
Normal topic Inserting residues using RosettaRemodel
by eleishaj » Tue, 2015-11-24 08:54
7
6,605 by eyong123
Wed, 2015-12-09 07:17
Normal topic where is pdb2vall.py
by tevang » Thu, 2013-01-24 13:35
7
5,786 by dktest
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
1,720 by aloshbau
Mon, 2021-03-01 20:06
Normal topic suppress pdb output from backrub
by attesor » Mon, 2014-10-27 11:16
7
5,512 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
5,634 by lanselibai
Tue, 2014-12-02 09:43
Normal topic Cannot get a negative score after relax
by kxiao » Tue, 2014-01-28 22:28
6
6,578 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
2,618 by Jacob_Verburgt
Tue, 2020-03-10 14:39
Normal topic Enzyme design with variable CST blocks possible?
by petrikigor » Thu, 2011-10-06 11:24
6
5,864 by petrikigor
Mon, 2014-04-21 06:47
Normal topic Multistate design output
by tong » Wed, 2018-06-20 00:21
6
2,822 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
5,208 by syoifczeri
Sat, 2015-11-07 21:42
Normal topic Distinctions between InterfaceAnalyzer and RosettaScript
by achambe » Wed, 2015-06-17 10:14
6
6,437 by rmoretti
Wed, 2015-09-02 12:43
Normal topic docking in rosetta 3.3
by Ammu » Thu, 2012-03-15 12:03
6
4,829 by smlewis
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
10,953 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
3,082 by rmoretti
Fri, 2017-12-01 12:05
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
5,960 by rmoretti
Wed, 2017-01-11 12:53
Normal topic the ddg of mutant is same as the wt
by deepanshuiitb » Wed, 2015-03-04 11:56
6
5,420 by jadolfbr
Tue, 2015-04-07 10:50
Normal topic Relax a structure with >1 copy of a modified residue fails [Solved]
by franfdez » Wed, 2012-02-08 00:47
6
5,287 by franfdez
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
4,755 by msardejani
Sat, 2016-10-01 12:55
Normal topic Loop modeling - the appropriate way to model a peptide insertion?
by xding » Thu, 2018-08-02 15:30
6
3,392 by smlewis
Wed, 2018-08-08 15:48
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
4,212 by Corvin
Tue, 2019-10-15 01:12
Normal topic CS-HM-Rosetta
by pwurm » Thu, 2013-03-07 12:56
6
5,744 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
5,207 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
6
4,200 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
2,000 by rmoretti
Tue, 2020-07-14 10:54
Normal topic Abinitio doesn't run but does not give output or error
by Irving » Fri, 2016-10-28 10:04
6
4,454 by rmoretti
Mon, 2017-01-23 08:52
Normal topic enzyme design and output_matchres_only
by petrikigor » Wed, 2012-10-24 18:45
6
4,146 by petrikigor
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
6,704 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
3,471 by fradom
Tue, 2017-12-05 01:52
Normal topic ab inito memberane(error in alignblast.pl)
by kingljy » Tue, 2011-05-03 23:41
6
5,862 by karthishanmugam
Mon, 2014-04-21 06:47
Normal topic RosettaLigand - strange score behavior
by Gerdes » Mon, 2014-02-03 02:24
6
5,533 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
1,462 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
1,769 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
5,841 by eyong123
Mon, 2015-06-29 04:44
Normal topic Help with enzyme design
by lzx32 » Fri, 2011-04-08 22:29
6
5,161 by lzx32
Mon, 2014-04-21 06:47
Normal topic Results of enzyme_design not consistent with Resfile
by yogeshkd » Thu, 2013-02-14 15:56
6
5,379 by yogeshkd
Mon, 2014-04-21 06:47
Normal topic pepspec anchor dock
by Astghik » Tue, 2020-10-20 05:31
6
1,834 by Pappmaschee
Thu, 2020-12-17 02:24
Normal topic Rotamers used in fixbb
by lanselibai » Thu, 2014-11-06 02:47
6
4,801 by lanselibai
Tue, 2014-11-11 15:28
Normal topic rosetta_2013wk52: make_fragments.pl failed
by fred » Thu, 2014-01-30 12:41
6
7,246 by rmoretti
Fri, 2014-02-07 08:01
Normal topic scoring of beta sandwich protein
by attesor » Mon, 2014-11-17 08:24
6
4,719 by rmoretti
Thu, 2014-11-20 10:46
Normal topic Incorrect Jump being set in RosettaScripts docking mover
by weehee » Fri, 2012-06-08 10:23
6
6,410 by rmoretti
Mon, 2014-04-21 06:47
Normal topic mover "RepackMinimize" does not support chains > 2?
by jarod » Mon, 2013-05-20 02:17
6
6,242 by jarod
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
5,172 by eskici
Mon, 2014-04-21 06:47
Normal topic Docking with constraints
by ytao » Tue, 2013-04-02 09:45
6
6,760 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
4,363 by Loki01
Thu, 2018-02-15 13:54
Normal topic Abinitio (3.4) Error: no fragment to compute secondary structure
by skovacs » Tue, 2012-09-18 13:49
6
6,100 by skovacs
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
8,590 by lanselibai
Wed, 2014-10-01 02:13
Normal topic loop modeling during enzyme design?
by lzx32 » Wed, 2011-11-16 00:30
6
4,701 by lzx32
Mon, 2014-04-21 06:47
Normal topic Problem with hotspot constraints.
by jarek » Wed, 2012-10-17 03:22
6
4,472 by xfliu
Mon, 2014-04-21 06:47
Normal topic protein docking failed
by albumns » Thu, 2012-11-08 02:59
6
5,013 by rmoretti
Mon, 2014-04-21 06:47
Normal topic symmetric docking and constraints
by ytao » Thu, 2013-05-02 12:08
5
6,491 by attesor
Wed, 2015-10-21 13:53
Normal topic Error during single state design
by sujigeorge1979 » Sat, 2020-01-18 00:37
5
2,840 by rmoretti
Thu, 2020-01-30 15:42
Normal topic Does linker modeling exist?
by aroop » Wed, 2012-02-22 07:34
5
4,343 by smlewis
Mon, 2014-04-21 06:47
Normal topic extract silent error - tag mismatch
by shrutikhare » Thu, 2014-04-03 00:13
5
5,795 by rmoretti
Mon, 2014-04-21 10:47
Normal topic RosettaVIP: ERROR: seqpos <= size()
by Anonymous » Thu, 2012-07-26 07:30
5
5,508 by Anonymous
Mon, 2014-04-21 06:47
Normal topic Error with the mpi version of simple_cycpep_predict
by Florent Langenfeld » Wed, 2020-02-05 05:16
5
1,960 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
3,105 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
1,986 by smlewis
Mon, 2019-09-23 11:42
Normal topic Snugdock_input
by luicui » Wed, 2017-01-18 16:48
5
3,215 by smlewis
Fri, 2017-01-20 08:14
Normal topic How to choose designed antibody
by Sunyp_IM » Wed, 2020-06-24 10:06
5
1,868 by jadolfbr
Fri, 2020-07-24 07:24
Normal topic PDB format for RosettaDNA
by brspurri » Thu, 2013-05-30 11:21
5
5,454 by brspurri
Mon, 2014-04-21 06:47
Normal topic ddg dG_separate
by gw » Wed, 2012-08-22 11:25
5
4,820 by smlewis
Mon, 2014-04-21 06:47
Normal topic flexpep docking problem
by michael_luntan » Mon, 2011-04-18 17:15
5
4,605 by michael_luntan
Mon, 2014-04-21 06:47
Normal topic Ligand Docking with Rosetta Scripts memory problem
by Swillard » Thu, 2017-08-17 14:59
5
3,595 by rmoretti
Mon, 2018-11-12 14:31
Normal topic RosettaCM -weights, fragments and relax
by jsv » Tue, 2017-05-09 10:20
5
3,800 by rmoretti
Thu, 2017-06-01 08:52
Normal topic Cartesian-space refinement
by sjyang7 » Wed, 2017-05-31 19:34
5
4,140 by sjyang7
Sat, 2017-06-03 06:09
Normal topic cyclization_type flag in simple_cycpep_predict
by Florent Langenfeld » Thu, 2018-01-04 09:22
5
3,100 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
4,904 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
4,620 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
3,531 by David Weis
Mon, 2017-03-13 10:59
Normal topic domain:domain fusion
by felipet » Thu, 2017-06-15 13:13
5
3,963 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
1,740 by jadolfbr
Wed, 2020-05-06 11:37
Normal topic RosettaScripts LinkResidues
by Yero » Fri, 2019-05-17 05:26
5
2,819 by Yero
Thu, 2019-07-18 01:39
Normal topic rna structure prediction
by cbala » Thu, 2011-04-14 07:42
5
4,695 by mkoohim
Mon, 2014-04-21 06:47
Normal topic Parse error while reading in XML file in ROSETTA Scripts
by rweisse » Fri, 2014-08-29 03:24
5
7,738 by a-eatemadi@razi...
Sun, 2017-08-06 03:49
Normal topic Rosetta dock irmsd
by Pernille » Sun, 2015-04-26 13:51
5
5,582 by rmoretti
Mon, 2015-10-12 15:10
Normal topic [TopologyBroker Exception]: BBTorsion at pos 468unitialized...unclaimed
by tevang » Wed, 2013-04-10 15:07
5
3,827 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
5,071 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
4,180 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
2,982 by dfcoelho
Tue, 2018-10-16 09:05
Normal topic ab initio protein prediction using homologs
by justin » Mon, 2012-02-13 07:52
5
4,585 by justin
Mon, 2014-04-21 06:47
Normal topic conway2016 correction on beta-nov15?
by attesor » Wed, 2017-03-15 05:26
5
3,223 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
2,003 by danpf
Tue, 2020-05-12 10:58
Normal topic Scoring functions: talaris2013 incompatible versions
by Smbat » Tue, 2020-10-13 06:18
5
1,735 by Astghik
Thu, 2020-10-15 00:48
Normal topic how to do alanine scanning
by xinmiaohe » Mon, 2019-08-26 17:40
5
3,160 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
4,085 by rmoretti
Mon, 2015-02-09 12:04
Normal topic Steric clashes in RNA minimization
by brianmlee » Tue, 2014-11-18 18:29
5
4,893 by brianmlee
Mon, 2014-11-24 19:40
Normal topic Symmetric Minimization
by aroop » Mon, 2012-12-17 11:45
5
3,691 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
3,018 by SenyorDrew
Fri, 2017-06-30 09:47
Normal topic Problems with ligand when running RosettaLigand
by Cat » Mon, 2013-05-20 15:58
5
5,238 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic ndruns and nstruct in fixbb
by Anonymous » Tue, 2012-08-07 01:52
5
5,157 by Anonymous
Mon, 2014-04-21 06:47
Normal topic ddg_monomer conformational search...
by yperez » Wed, 2012-05-09 11:10
5
3,964 by yperez
Mon, 2014-04-21 06:47
Normal topic rosetta app
by MA » Wed, 2017-07-05 06:52
5
2,956 by smlewis
Tue, 2017-07-11 07:53
Normal topic trRosetta protocol Segmentation Fault
by nc-ring » Wed, 2021-04-28 11:57
5
1,220 by nc-ring
Tue, 2021-05-04 12:26
Normal topic a question about ligand docking
by yzhou » Wed, 2012-05-30 18:57
5
3,787 by yzhou
Mon, 2014-04-21 06:47
Normal topic How do you use two patches simulataneously with ab initio folding?
by smiruthi » Wed, 2011-12-21 15:24
5
4,293 by wangyr
Mon, 2014-04-21 06:47
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