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Rosetta 3 - Applications

Topic / Topic starter Repliessort descending Views Last post
Normal topic Relax with RDC data gives segmentation fault
by sn » Mon, 2018-07-23 11:39
1
1,010 by rmoretti
Fri, 2018-08-03 07:54
Normal topic I need some help for using pHDock applications(histidine protonation / pH-dependent binding)
by leygkn » Tue, 2020-09-22 18:40
1
531 by leygkn
Tue, 2020-09-22 22:46
Normal topic Incorporating iron-sulfur cluster into ROSETTA applications
by Derek Smith » Thu, 2014-08-14 23:12
1
1,996 by rmoretti
Fri, 2014-08-15 08:06
Normal topic Fixing part of a ligand in dock-design
by hssnzdh2 » Mon, 2015-11-23 17:14
1
1,636 by rmoretti
Tue, 2015-11-24 16:16
Normal topic Packstat application output
by Vedasheersh » Mon, 2017-07-03 02:45
1
1,355 by rmoretti
Mon, 2017-07-03 09:17
Normal topic antibody - sequence position requested was 0
by jremmel » Mon, 2021-09-27 12:26
1
189 by nannemdp
Mon, 2021-09-27 14:22
Normal topic No interface for protein - Interface Analyzer
by aloshbau » Tue, 2013-05-21 21:00
1
2,285 by jarod
Mon, 2014-04-21 06:47
Normal topic ambiguous constraints
by shrutikhare » Mon, 2014-05-12 04:42
1
2,662 by rmoretti
Mon, 2014-05-12 08:25
Normal topic How to build disulfide bond between two cysteine, i.e. change two "-SH" (sulfydryl) into "-S-S-"?
by lanselibai » Sat, 2015-01-17 11:19
1
2,455 by lanselibai
Wed, 2015-01-21 02:40
Normal topic Coding denovo prediction from density maps in PyRosetta
by ahmadkhalifa » Tue, 2018-04-10 11:43
1
986 by rmoretti
Tue, 2018-04-10 15:29
Normal topic Filtering while clustering
by David Hoover » Wed, 2011-03-30 07:03
1
2,074 by smlewis
Mon, 2014-04-21 06:47
Normal topic ProteinInterfaceDesign algorithm questions
by tsztain » Mon, 2019-02-18 14:10
1
1,063 by rmoretti
Sun, 2019-08-25 19:15
Normal topic denovo modelling on a virus-coat protein dimer
by aseem121 » Wed, 2019-10-16 06:55
1
803 by danpf
Wed, 2019-10-16 13:03
Normal topic Snugdock_error
by luicui » Thu, 2017-02-09 21:06
1
1,172 by smlewis
Thu, 2017-02-09 21:50
Normal topic Output structures from docking_prepack_protocol: initial__*.pdb vs prepack__*.pdb, which one should I send to docking_protocol?
by cossio » Thu, 2015-02-05 07:10
1
1,728 by rmoretti
Mon, 2015-02-09 12:33
Normal topic Enzyme Design FlexBB Protocol Bug: DNA/RNA handling
by kettner » Fri, 2019-06-14 14:16
1
1,233 by rmoretti
Mon, 2019-06-24 13:46
Normal topic residue_energy_breakdown of a protein-ligand complex.
by sam_dc » Tue, 2021-05-18 04:45
1
351 by rmoretti
Tue, 2021-05-18 07:21
Normal topic Interface Analyzer Segmentation Fault
by h_trasatti » Tue, 2017-02-21 12:48
1
1,628 by smlewis
Tue, 2017-02-21 14:10
Normal topic Warning: Fold tree is not set properly for density scoring
by ahansel » Mon, 2020-07-13 10:50
1
623 by danpf
Tue, 2020-07-14 10:27
Normal topic Using different number of 9-mers (UPDATED)
by JadAbbass » Mon, 2017-08-28 07:20
1
1,284 by rmoretti
Mon, 2017-09-04 10:33
Normal topic docking with capping groups
by xavierfradera » Sun, 2018-11-04 16:17
1
899 by maral.adeli-kou...
Wed, 2020-01-22 12:41
Normal topic Undesirable behaviour of PoseFromSFRBuilder regarding Hydrogen atoms
by Corvin » Wed, 2020-12-02 04:00
1
475 by rmoretti
Wed, 2020-12-02 07:27
Normal topic trouble in floppytail modelling
by ytao » Thu, 2013-06-27 13:15
1
1,918 by ytao
Mon, 2014-04-21 06:48
Normal topic Holes output interpretation
by lah435 » Mon, 2012-06-04 15:02
1
1,918 by smlewis
Mon, 2014-04-21 06:47
Normal topic Question on restraining receptor symmetry when docking ligand
by subha » Fri, 2018-07-06 21:59
1
941 by rmoretti
Fri, 2018-08-03 08:16
Normal topic RosettaMatch
by xingqing326 » Mon, 2019-07-22 13:14
1
1,077 by rmoretti
Mon, 2019-08-26 12:57
Normal topic How to use base_pair_constraint for RNA as a constraint term?
by yels » Sat, 2021-04-03 01:19
1
387 by everyday847
Sun, 2021-04-04 12:48
Normal topic Design with limited number of aminoacids at given position
by sdh_h » Sun, 2016-12-04 03:44
1
1,326 by smlewis
Thu, 2016-12-08 15:50
Normal topic dssp
by MA » Thu, 2017-10-05 09:34
1
1,179 by rmoretti
Tue, 2017-10-10 09:54
Normal topic [LoopModelerMover] ERROR: Can't build a fold tree from a loop with an unspecified cut point.
by dgm3 » Sun, 2021-12-26 18:32
1
94 by dgm3
Fri, 2021-12-31 17:42
Normal topic score and relax
by Prasanth Kumar » Thu, 2013-05-02 05:09
1
2,710 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic relax VS. backrub
by jiongzhang » Mon, 2012-07-02 14:52
1
1,958 by smlewis
Mon, 2014-04-21 06:47
Normal topic InterfaceAnalyzer -resfile
by gw » Wed, 2011-11-02 16:01
1
2,286 by smlewis
Mon, 2014-04-21 06:47
Normal topic duplex RNA
by amir_tagh » Thu, 2021-08-05 06:34
1
288 by everyday847
Mon, 2021-08-16 10:43
Normal topic modeling 4 linkers between 2 domains
by pdbb » Thu, 2013-05-16 08:23
1
1,907 by smlewis
Mon, 2014-04-21 06:47
Normal topic cluster error
by sudhar » Fri, 2011-06-17 05:58
1
2,297 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Surface accessible residue as a constraint.
by arthuc01 » Fri, 2012-03-09 23:27
1
1,743 by smlewis
Mon, 2014-04-21 06:47
Normal topic splitfile.py
by saladi » Fri, 2018-03-30 10:31
1
1,131 by rmoretti
Tue, 2018-04-10 15:34
Normal topic How can I model ligands in comparative modeling
by Morrian_Lynn » Thu, 2020-02-20 09:57
1
637 by danpf
Fri, 2020-02-21 17:05
Normal topic Docking Analysis and Metrics in RosettaLigand.
by sam_dc » Tue, 2021-04-20 03:54
1
454 by rmoretti
Tue, 2021-04-20 13:27
Normal topic problem with modelling of protein (140 and 150 residues respectively)
by krlitros87 » Wed, 2014-10-22 09:39
1
1,590 by rmoretti
Thu, 2014-10-23 13:55
Normal topic Homology modelling applies alignment wrong
by bernhardcl » Thu, 2015-08-06 09:39
1
1,517 by bernhardcl
Tue, 2015-08-11 09:11
Normal topic comparative modeling of a homodimer
by banshee » Mon, 2017-01-09 18:34
1
1,695 by rmoretti
Wed, 2017-01-11 13:00
Normal topic [Solved] Resetting a pose with RigidBodyTransMover
by bjharris » Wed, 2021-01-13 14:01
1
449 by bjharris
Fri, 2021-01-22 17:34
Normal topic RoseTTaFold
by ozsolomon » Thu, 2021-10-07 05:27
2
407 by ozsolomon
Thu, 2021-10-07 14:25
Normal topic flexpepdock flag "-packing:unboundrot"
by gw » Mon, 2011-07-11 12:23
2
3,144 by Ora Schueler-Furman
Mon, 2014-04-21 06:47
Normal topic creating compound task mover
by aaj » Wed, 2016-02-24 04:48
2
1,825 by aaj
Wed, 2016-02-24 07:37
Normal topic Strong bias in sampling observed in RosettaDock
by chenna » Thu, 2020-08-27 22:23
2
711 by chenna
Tue, 2021-10-12 20:51
Normal topic GrowLigand
by allan.ferrari » Sat, 2019-10-19 05:32
2
1,214 by allan.ferrari
Tue, 2019-11-05 16:52
Normal topic membrane ab initio modeling application with constraints
by ytao » Thu, 2012-11-08 11:56
2
3,529 by ytao
Mon, 2014-04-21 06:47
Normal topic Syntax for python-based (.py) command line on cluster
by lanselibai » Fri, 2014-11-14 09:32
2
4,336 by lanselibai
Thu, 2014-11-20 02:15
Normal topic Error from clean_pdb.py
by code_Monkey » Mon, 2021-03-01 17:00
2
513 by code_Monkey
Thu, 2021-03-04 12:14
Normal topic RMS determination using Rosetta 3.3
by adraney » Thu, 2011-12-08 12:44
2
2,556 by mark.wilson
Mon, 2014-04-21 06:47
Normal topic refining crystal structure using phenix without CIF file
by banshee » Fri, 2016-09-09 01:14
2
2,250 by banshee
Mon, 2016-09-12 23:41
Normal topic Regarding the efficiency of the new low resolution ligand-docking movement “Transform”.
by Martin Floor » Mon, 2017-05-15 09:19
2
1,790 by Martin Floor
Mon, 2017-05-15 11:13
Normal topic The question about ligand score function
by asbelx » Sun, 2018-06-17 02:07
2
1,996 by asbelx
Mon, 2018-06-18 22:34
Normal topic Number of max allowed mutations from WT sequence
by mouung » Fri, 2020-09-04 02:33
2
838 by amorin
Fri, 2021-02-12 08:53
Normal topic kinematic loop modeling multiple input: possible?
by a_s_a » Thu, 2011-05-12 09:33
2
2,585 by a_s_a
Mon, 2014-04-21 06:47
Normal topic KeyError: 'subject-id' in antibody modelling
by bogac » Mon, 2017-03-06 02:00
2
2,106 by bogac
Tue, 2017-03-07 02:11
Normal topic Membrane homology modeling loop building gives very strange outputs
by chelsell » Tue, 2014-09-30 14:46
2
2,411 by chelsell
Wed, 2014-10-08 12:25
Normal topic The usage of antibody_H3.linuxgccrelease
by Sunyp_IM » Thu, 2020-05-28 22:50
2
943 by Sunyp_IM
Thu, 2020-06-04 08:20
Normal topic getting a3m files
by alonwenger » Wed, 2021-12-15 02:38
2
151 by alonwenger
Sat, 2021-12-18 12:32
Normal topic Fold and Dock - chains not in contact
by arthuc01 » Wed, 2012-06-13 01:45
2
2,384 by smlewis
Mon, 2014-04-21 06:47
Normal topic Remodel: neighbor cutoff
by felipet » Wed, 2014-07-16 08:11
2
1,947 by felipet
Thu, 2014-07-17 10:13
Normal topic Total score problems with high-res ddg_monomer
by jklesmith » Tue, 2015-03-10 15:54
2
2,607 by jennifer
Fri, 2015-03-27 05:56
Normal topic where to look for positive sign for solution in mr-rosetta3.4?
by lchen » Tue, 2012-07-10 09:38
2
2,416 by lchen
Mon, 2014-04-21 06:47
Normal topic FlexPepDock Concatenation
by cam11 » Mon, 2014-08-11 07:39
2
2,056 by cam11
Wed, 2014-08-13 10:06
Normal topic score_jd2.mpi.linuxgccrelease failed
by fred » Wed, 2014-03-26 13:54
2
4,229 by fred
Tue, 2014-04-01 08:24
Normal topic Homology Modeling-no PDB output
by jlawrie » Wed, 2020-08-12 06:30
2
840 by jlawrie
Wed, 2020-08-12 08:56
Normal topic GeneralizedKIC loop closure error
by chenna » Sat, 2021-04-10 00:21
2
471 by chenna
Mon, 2021-04-12 22:08
Normal topic How to eliminate "NUL"s when scoring PDBs?
by lanselibai » Tue, 2014-10-14 10:04
2
2,218 by lanselibai
Fri, 2014-10-17 03:36
Normal topic How to scan double mutations in RosettaScripts?
by msardejani » Mon, 2016-12-12 16:52
2
1,703 by msardejani
Mon, 2016-12-12 17:48
Normal topic symmetric fixbb design with design_hpatch
by sdh_h » Sat, 2013-02-02 01:48
2
2,195 by ronj
Mon, 2014-04-21 06:47
Normal topic Trouble running MPI docking protocol, please help!
by Rob_Barringer » Tue, 2020-08-18 06:40
2
1,115 by Rob_Barringer
Fri, 2020-09-25 05:45
Normal topic Generalized KIC loop closure affects downstream residues without perturbations
by chenna » Mon, 2021-04-26 02:16
2
434 by chenna
Wed, 2021-04-28 07:18
Normal topic Score - Strange message
by Ashafix » Wed, 2013-11-20 15:23
2
2,761 by Ashafix
Mon, 2014-04-21 06:48
Normal topic Got error when running minirosetta.linuxgccrelease on cluster but fine on Ubuntu
by lanselibai » Mon, 2014-11-10 08:12
2
2,179 by lanselibai
Tue, 2014-11-11 04:42
Normal topic Fnat and Irms are nan in score.sc from docking_protocol?
by cossio » Sun, 2015-09-13 07:34
2
2,605 by rmoretti
Thu, 2015-09-17 12:47
Normal topic Collecting all decoys from batch files
by aep » Sun, 2016-08-07 12:23
2
1,766 by aep
Sat, 2016-08-13 13:03
Normal topic Ligand params file proton_chi parameters
by staciekim » Thu, 2017-08-17 14:50
2
1,985 by staciekim
Thu, 2017-08-17 17:06
Normal topic RosettaAntibody core.pose.util error
by rishibedi » Fri, 2018-10-05 01:31
2
1,634 by esozdemir
Thu, 2019-06-13 12:19
Normal topic How to add additional rounds of design and optimization in Rosetta scripts?
by Nicole Deng » Tue, 2020-11-03 19:05
2
658 by Nicole Deng
Thu, 2020-11-05 03:04
Normal topic Multiple Chain Comparative Modeling - End result is not even close to template structure
by eskici » Wed, 2012-08-29 08:09
2
3,083 by eskici
Mon, 2014-04-21 06:47
Normal topic ProteinLigandInterfaceUpweighter for protein-protein interactions?
by ahonegger » Mon, 2014-06-02 06:53
2
2,423 by ahonegger
Fri, 2014-06-06 09:31
Normal topic cartesian_ddg error: "Assertion `files.size() == 1` failed."
by cossio » Fri, 2018-05-11 09:59
2
1,937 by cossio
Fri, 2018-05-18 09:51
Normal topic Question about fastsaxs and saxs_score
by orionshih » Thu, 2019-06-13 02:30
2
1,064 by orionshih
Wed, 2019-06-26 03:54
Normal topic make_fragments.pl error
by almeida85 » Mon, 2020-08-31 04:39
2
906 by almeida85
Tue, 2020-09-01 01:29
Normal topic ERROR: Specified chain does not exist.
by ajaniharesh » Fri, 2019-04-05 11:14
2
1,504 by ajaniharesh
Tue, 2019-04-09 06:53
Normal topic How to use Rosetta to DISCARD a protein-protein docking interface?
by cossio » Tue, 2015-05-26 06:24
2
2,439 by rmoretti
Sat, 2015-07-11 13:38
Normal topic RMSD calculation
by hamedkhakzad » Tue, 2016-09-13 04:56
2
2,904 by rmoretti
Wed, 2016-09-14 02:05
Normal topic "Make_fragments.pl" can't connect to dependencies links
by Corvin » Wed, 2019-09-04 23:54
2
1,257 by Corvin
Thu, 2019-10-10 01:12
Normal topic RosettaRemodel
by gw » Wed, 2011-09-14 13:24
2
2,737 by smlewis
Mon, 2014-04-21 06:47
Normal topic cross correlation calculation
by jingwei xu » Sat, 2016-04-16 19:11
2
1,943 by jingwei xu
Wed, 2016-05-04 23:26
Normal topic Segmentation Fault in Fragment picking
by ashu4487 » Fri, 2018-07-06 20:47
2
2,161 by ashu4487
Mon, 2018-07-16 19:24
Normal topic De novo structure building with medium resolution map
by BuddySphinx » Tue, 2019-07-02 09:07
2
1,127 by BuddySphinx
Tue, 2019-07-02 12:03
Normal topic Remodel with residue constraints
by sn » Fri, 2017-03-10 01:40
2
1,629 by rmoretti
Mon, 2017-03-13 08:01
Normal topic problems with generating the params file
by dyu » Thu, 2017-09-28 13:34
2
1,507 by dyu
Thu, 2017-09-28 18:54
Normal topic Error with Formatdb of legacy blast when running "install_dependencies.pl"?
by Danielsebas » Mon, 2019-09-16 09:30
2
908 by Danielsebas
Tue, 2019-09-17 01:03
Normal topic setup_RosettaCM.py
by browns02 » Mon, 2021-06-28 07:13
2
330 by browns02
Tue, 2021-06-29 11:41
Normal topic Membrane protein protocol on PyRosetta
by jlapin » Sat, 2018-07-28 14:41
2
1,303 by jlapin
Wed, 2018-08-01 07:15
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