You are here
Rosetta 3 - Applications
Log in to post new content in the forum.
| Topic / Topic starter | Replies | Views |
Last post |
|
|---|---|---|---|---|
|
Global Docking with carbohydrates by ChiauShu » Sat, 2020-08-22 20:16 |
0 |
976 |
by ChiauShu Sat, 2020-08-22 20:16 |
|
|
Successful RosettaCM? by jlawrie » Wed, 2020-08-19 06:53 |
2 |
1,832 |
by jlawrie Thu, 2020-08-20 11:00 |
|
|
Fewer than expected structures in clustering output by fabiotrovato » Thu, 2020-08-20 00:59 |
0 |
840 |
by fabiotrovato Thu, 2020-08-20 00:59 |
|
|
RosettaAntibody3 is failing with "Error: no input sequences were specified!" by brspurri » Sun, 2020-08-16 16:16 |
4 |
2,791 |
by brspurri Tue, 2020-08-18 09:57 |
|
|
clustering output file has few structures by fabiotrovato » Mon, 2020-08-17 11:37 |
0 |
790 |
by fabiotrovato Mon, 2020-08-17 11:37 |
|
|
RosettaCM by jlawrie » Fri, 2020-08-14 14:09 |
0 |
1,526 |
by jlawrie Fri, 2020-08-14 14:09 |
|
|
mpirun docking_protocol by NanB » Mon, 2020-08-03 11:38 |
1 |
2,915 |
by ssrb Fri, 2020-08-14 09:18 |
|
|
Docking-I_sc values do not correlate by jlawrie » Wed, 2020-08-12 08:08 |
2 |
1,800 |
by jlawrie Wed, 2020-08-12 08:57 |
|
|
Homology Modeling-no PDB output by jlawrie » Wed, 2020-08-12 06:30 |
2 |
1,889 |
by jlawrie Wed, 2020-08-12 08:56 |
|
|
Modeling-Using RosettaCM by jlawrie » Wed, 2020-08-12 08:46 |
1 |
1,133 |
by jlawrie Wed, 2020-08-12 08:47 |
|
|
Docking-RMS value nan by jlawrie » Wed, 2020-08-12 07:03 |
2 |
1,889 |
by jlawrie Wed, 2020-08-12 07:27 |
|
|
Error when trying docking protocol with different ligand by scyphs » Wed, 2020-08-05 04:37 |
2 |
1,618 |
by scyphs Mon, 2020-08-10 08:09 |
|
|
how to know the precedure of solving a actural bio problem? like interface design? by qq7678500549 » Thu, 2020-08-06 18:45 |
2 |
1,594 |
by qq7678500549 Sun, 2020-08-09 18:59 |
|
|
De novo water predictions using SPaDES by MNP1986 » Mon, 2019-03-25 07:53 |
1 |
1,827 |
by matteoferla Tue, 2020-08-04 09:30 |
|
|
Bug Report - Encoding issue by daniloboskovic » Tue, 2020-08-04 07:02 |
0 |
773 |
by daniloboskovic Tue, 2020-08-04 07:02 |
|
|
pepspec anchor dock by Andre Serobian » Tue, 2020-07-28 05:51 |
1 |
1,252 |
by Andre Serobian Tue, 2020-07-28 23:26 |
|
|
Zero residues error in docking by cjy318 » Tue, 2020-07-28 19:47 |
0 |
1,126 |
by cjy318 Tue, 2020-07-28 19:47 |
|
|
RosettaAntibody3 core.pose.util error by linhhoang157 » Tue, 2020-07-28 12:40 |
0 |
1,013 |
by linhhoang157 Tue, 2020-07-28 12:40 |
|
|
clean_pdb not working by Andre Serobian » Thu, 2020-07-23 04:48 |
3 |
2,592 |
by rmoretti Tue, 2020-07-28 08:24 |
|
|
Comparative modeling of metalloproteins by ctqwong » Sun, 2020-07-12 13:51 |
3 |
2,135 |
by ctqwong Mon, 2020-07-27 01:48 |
|
|
How many iterations of remodel is enough? by daniloboskovic » Thu, 2020-07-16 08:07 |
0 |
848 |
by daniloboskovic Thu, 2020-07-16 08:14 |
|
|
Translate mover chain X doesnot exist. by surya » Thu, 2020-07-09 08:36 |
6 |
3,443 |
by rmoretti Tue, 2020-07-14 10:54 |
|
|
Warning: Fold tree is not set properly for density scoring by ahansel » Mon, 2020-07-13 10:50 |
1 |
1,381 |
by danpf Tue, 2020-07-14 10:27 |
|
|
Problem with mpirun/mpiexec by ahansel » Fri, 2020-07-10 08:37 |
1 |
3,771 |
by rmoretti Fri, 2020-07-10 09:59 |
|
|
Segmentation Fault during prepacking by Sunyp_IM » Fri, 2020-06-12 11:24 |
4 |
3,329 |
by Sunyp_IM Thu, 2020-07-09 18:40 |
|
|
Metal Ion in symmetric design by tschiex » Wed, 2020-07-08 05:28 |
0 |
894 |
by tschiex Wed, 2020-07-08 05:28 |
|
|
PEPSPEC by Neeraj » Wed, 2018-01-03 02:24 |
1 |
1,840 |
by Andre Serobian Wed, 2020-07-08 04:44 |
|
|
Does antibody_numbering_converter support camelid antibody? by mxp » Tue, 2020-07-07 01:21 |
0 |
905 |
by mxp Tue, 2020-07-07 01:21 |
|
|
zero standard deviation of I_sc in protein-protein docking by rohi » Fri, 2020-07-03 22:19 |
0 |
848 |
by rohi Fri, 2020-07-03 22:20 |
|
|
OptimizeMembranePositionMover - This element is not expected by bjharris » Wed, 2020-07-01 23:21 |
2 |
1,961 |
by bjharris Thu, 2020-07-02 11:09 |
|
|
LoopModeler mover unable to determine cut point by gszwabowski » Mon, 2020-06-01 13:12 |
1 |
1,625 |
by matteoferla Thu, 2020-07-02 07:27 |
|
|
ligand_docking: ligand preparation by Alison_Yajie » Thu, 2020-07-02 07:05 |
0 |
917 |
by Alison_Yajie Thu, 2020-07-02 07:10 |
|
|
kcenters_clustering_of_fragments by bjharris » Mon, 2019-07-01 16:16 |
1 |
1,549 |
by bjharris Wed, 2020-07-01 23:25 |
|
|
Scoring after HBNet by HHL_SIUC » Wed, 2020-07-01 10:49 |
0 |
878 |
by HHL_SIUC Wed, 2020-07-01 10:49 |
|
|
"core.kinematics.FoldTree" error upon running RAbD by Sunyp_IM » Fri, 2020-06-26 17:27 |
2 |
1,825 |
by Sunyp_IM Fri, 2020-06-26 20:57 |
|
|
ligand_docking ligand preparation by Alison_Yajie » Thu, 2020-05-21 10:21 |
2 |
1,668 |
by Alison_Yajie Wed, 2020-06-24 12:38 |
|
|
Ligand docking with constraint by Alison_Yajie » Wed, 2020-06-24 12:34 |
0 |
875 |
by Alison_Yajie Wed, 2020-06-24 12:34 |
|
|
How to create a native file for Protein-Protein docking by Kotimedidhi » Fri, 2020-06-19 08:58 |
2 |
1,767 |
by Kotimedidhi Mon, 2020-06-22 16:19 |
|
|
How to select docked models by Sunyp_IM » Mon, 2020-06-22 00:50 |
1 |
1,233 |
by ssrb Mon, 2020-06-22 13:12 |
|
|
Coupled Moves crash with Membrane Protein - residue_edge is undefined for root vertex by benhardy » Mon, 2020-06-15 09:33 |
3 |
2,218 |
by benhardy Fri, 2020-06-19 07:55 |
|
|
Residue selector by Alison_Yajie » Wed, 2020-06-17 19:57 |
0 |
884 |
by Alison_Yajie Thu, 2020-06-18 09:47 |
|
|
Constraint generator by Alison_Yajie » Wed, 2020-06-17 20:14 |
1 |
1,210 |
by Alison_Yajie Wed, 2020-06-17 20:35 |
|
|
metalloprotein ab initio with glutamic acid by inorgchem » Tue, 2020-06-16 20:45 |
0 |
738 |
by inorgchem Tue, 2020-06-16 20:45 |
|
|
RosettaCM: An internal error has occurred when "Running the Hybridize mover" by haom » Mon, 2020-06-15 05:56 |
4 |
2,509 |
by haom Tue, 2020-06-16 05:55 |
|
|
The difference between the H1 regions of modeled camelid antibody and the crystal structure. by Sunyp_IM » Sun, 2020-06-07 02:34 |
1 |
1,374 |
by nannemdp Sun, 2020-06-07 08:01 |
|
|
The usage of antibody_H3.linuxgccrelease by Sunyp_IM » Thu, 2020-05-28 22:50 |
2 |
2,026 |
by Sunyp_IM Thu, 2020-06-04 08:20 |
|
|
"Residue 7 was disulfide bonded but had no partner" with antibody.linuxgccrelease by Sunyp_IM » Thu, 2020-06-04 05:53 |
0 |
897 |
by Sunyp_IM Thu, 2020-06-04 05:54 |
|
|
RosettaAntibodyDesign: How can I run the protocol without allowing design? by brspurri » Tue, 2020-05-26 08:12 |
5 |
3,019 |
by brspurri Wed, 2020-06-03 13:20 |
|
|
AbinitioRelax detect_disulf_tolerance by aarono » Tue, 2020-06-02 00:13 |
0 |
931 |
by aarono Tue, 2020-06-02 00:13 |
|
|
ligand_docking_error by Alison_Yajie » Mon, 2020-04-20 12:27 |
3 |
2,305 |
by YuFei Sat, 2020-05-30 00:12 |
|
|
Problems with mpi version of antibody.linuxgccrelease by Sunyp_IM » Thu, 2020-05-28 23:06 |
0 |
1,115 |
by Sunyp_IM Thu, 2020-05-28 23:07 |
|
|
mp_transform optimize with franklin2019 scoring by benhardy » Thu, 2020-05-28 08:35 |
0 |
1,262 |
by benhardy Thu, 2020-05-28 08:45 |
|
|
What is a rational minimal value for the "-nstruct" option by Sunyp_IM » Fri, 2020-05-22 01:28 |
3 |
2,224 |
by nannemdp Sun, 2020-05-24 14:46 |
|
|
cartesian_ddg crashes when the mutfile contains multiple mutations to non-canonical residues by ValentinaSora » Sun, 2020-05-24 12:32 |
0 |
1,453 |
by ValentinaSora Sun, 2020-05-24 12:32 |
|
|
relax and movemap by Alison_Yajie » Wed, 2020-05-20 21:27 |
3 |
2,357 |
by smlewis Thu, 2020-05-21 21:05 |
|
|
Changing rosetta scoring to favour less hydrophobic areas by daniloboskovic » Thu, 2020-05-21 03:03 |
1 |
1,255 |
by vmulligan Thu, 2020-05-21 18:33 |
|
|
ligand_docking: ligand preparation by Alison_Yajie » Thu, 2020-05-21 09:42 |
0 |
974 |
by Alison_Yajie Thu, 2020-05-21 09:42 |
|
|
Modelling temperature dependent RNA structures by tuleshwori » Tue, 2020-05-19 01:16 |
2 |
1,745 |
by tuleshwori Thu, 2020-05-21 02:08 |
|
|
Rosetta Antibody Design: Error with foldtree: problem with the fold_tree:biggest_label != num_jump 2 1 by cm21 » Wed, 2020-05-20 08:55 |
2 |
1,833 |
by cm21 Wed, 2020-05-20 11:22 |
|
|
Rna Denovo by helderveras » Wed, 2020-05-06 08:40 |
5 |
3,139 |
by everyday847 Wed, 2020-05-20 08:52 |
|
|
Side-chain grafting at the fixed protein and position by Kazu » Wed, 2020-05-20 08:49 |
0 |
833 |
by Kazu Wed, 2020-05-20 08:49 |
|
|
Transmembrane helix fold-and-dock? by sarah_b » Tue, 2020-05-12 02:09 |
3 |
2,375 |
by jkleman Tue, 2020-05-19 15:02 |
|
|
protein relax by Alison_Yajie » Tue, 2020-05-19 08:29 |
0 |
914 |
by Alison_Yajie Tue, 2020-05-19 08:29 |
|
|
RosettaAntibodyDesign] How can I use run_relax and run_snugdock as part of my command and workflow? by brspurri » Thu, 2020-05-14 11:15 |
2 |
1,693 |
by brspurri Thu, 2020-05-14 12:24 |
|
|
Flex_ddG crashes when attempting to move 2 chains (e.g. chains_to_move = A,C) by jcampecino » Wed, 2020-05-13 12:22 |
0 |
1,097 |
by jcampecino Wed, 2020-05-13 12:22 |
|
|
How to run partial_thread in RosettaCM when residure are more than 9999? by lanselibai » Mon, 2020-05-11 22:43 |
2 |
2,265 |
by lanselibai Tue, 2020-05-12 20:25 |
|
|
How to concatenate the 3-mer and 9-mer files for RosettaCM? by lanselibai » Fri, 2020-05-08 05:38 |
5 |
3,380 |
by danpf Tue, 2020-05-12 10:58 |
|
|
Template/Input length mismatch error during RosettaCM by marinok » Mon, 2020-05-04 13:12 |
4 |
2,791 |
by marinok Mon, 2020-05-11 12:48 |
|
|
General question regarding ligand-docking by Alison_Yajie » Thu, 2020-05-07 09:48 |
0 |
820 |
by Alison_Yajie Thu, 2020-05-07 09:48 |
|
|
Can the Rosetta Antibody Design (RAbD) protocol incorporate glycans? by ccottrell » Tue, 2020-05-05 20:30 |
5 |
3,042 |
by jadolfbr Wed, 2020-05-06 11:37 |
|
|
Ligand docking at specific orientation by ShiranBZ » Mon, 2020-04-13 20:46 |
1 |
1,262 |
by matteoferla Mon, 2020-05-04 02:02 |
|
|
can remodel add loops in one chain in multichain PDB structure? by ksteczk » Fri, 2020-05-01 06:26 |
1 |
1,482 |
by matteoferla Mon, 2020-05-04 01:43 |
|
|
BUG REPORT: Remodel Resfile ERROR: LEU was added more than once? by daniloboskovic » Wed, 2020-04-29 01:17 |
2 |
1,834 |
by daniloboskovic Wed, 2020-04-29 05:51 |
|
|
RosettaDesign error with Option file open failed by xingqing326 » Sun, 2020-04-19 01:56 |
4 |
4,055 |
by xingqing326 Tue, 2020-04-21 19:11 |
|
|
DNA-protein docking by ksteczk » Sat, 2020-04-11 11:23 |
0 |
1,423 |
by ksteczk Sat, 2020-04-11 11:23 |
|
|
Use membrane or non-membrane weights in RosettaCM for a hexon in virus capsid? by lanselibai » Sat, 2020-04-11 02:10 |
0 |
991 |
by lanselibai Sat, 2020-04-11 02:10 |
|
|
Rosetta remodel - including an RNA ligand by daniloboskovic » Fri, 2020-04-10 04:24 |
0 |
1,000 |
by daniloboskovic Fri, 2020-04-10 04:24 |
|
|
Error with the mpi version of simple_cycpep_predict by Florent Langenfeld » Wed, 2020-02-05 05:16 |
5 |
3,300 |
by vmulligan Fri, 2020-04-10 02:54 |
|
|
What means "[ ERROR ] TIME_STAMP: AbrelaxMover: finished ...NO_BATCH S_0001." by Corvin » Thu, 2020-04-02 00:16 |
0 |
1,003 |
by Corvin Thu, 2020-04-02 00:16 |
|
|
Docking of multichain oligomers by sdh_h » Wed, 2020-03-25 12:43 |
0 |
1,103 |
by sdh_h Wed, 2020-03-25 12:43 |
|
|
Any progress on getting intermediate structures during a design? by broomsday » Mon, 2020-03-16 06:46 |
2 |
1,934 |
by vmulligan Tue, 2020-03-17 11:35 |
|
|
application for affinity optimization by wentlewi » Fri, 2020-03-13 03:24 |
0 |
1,008 |
by wentlewi Fri, 2020-03-13 03:24 |
|
|
Is native.pdb necess for fragment_picker？ by ylwang » Thu, 2020-03-12 00:57 |
2 |
1,937 |
by ylwang Thu, 2020-03-12 20:42 |
|
|
"sparks failed" error when running "make_fragments.pl"? by Danielsebas » Tue, 2019-09-03 03:43 |
6 |
4,209 |
by Jacob_Verburgt Tue, 2020-03-10 14:39 |
|
|
score is 0 in the output? - RosettaScripts by chrisHKL » Thu, 2020-03-05 09:33 |
0 |
985 |
by chrisHKL Thu, 2020-03-05 12:58 |
|
|
RosettaScript Segmentation Fault (crash log attached) by chrisHKL » Thu, 2020-03-05 07:21 |
2 |
2,472 |
by chrisHKL Thu, 2020-03-05 09:11 |
|
|
std::bad_alloc error after changing .xml script? by chrisHKL » Wed, 2020-03-04 11:44 |
10 |
5,717 |
by jadolfbr Thu, 2020-03-05 07:02 |
|
|
nstruct vs. trials? by chrisHKL » Mon, 2020-03-02 13:22 |
2 |
1,768 |
by chrisHKL Wed, 2020-03-04 10:49 |
|
|
Comparative Modeling Templates for Protein with Multiple Domains by Morrian_Lynn » Wed, 2020-03-04 10:42 |
0 |
900 |
by Morrian_Lynn Wed, 2020-03-04 10:42 |
|
|
Ddg filter threshold value? by chrisHKL » Fri, 2020-02-28 15:01 |
1 |
1,318 |
by rmoretti Wed, 2020-03-04 09:56 |
|
|
Imitating induced fit protocol in SymDock2 without any symmetry constraints by chenna » Fri, 2020-02-14 01:35 |
2 |
1,991 |
by chenna Wed, 2020-03-04 03:24 |
|
|
Filter for fixed-bb design using RosettaScript? by chrisHKL » Fri, 2020-02-28 19:47 |
4 |
2,589 |
by vmulligan Mon, 2020-03-02 13:40 |
|
|
antibody_numbering_converter cannot recognize the IMGT scheme by cryosky » Sat, 2020-02-29 23:12 |
4 |
3,077 |
by jadolfbr Sun, 2020-03-01 14:54 |
|
|
What is interface_cutoff_distance? And why did my residues outside this value get designed? by chrisHKL » Fri, 2020-02-28 14:52 |
0 |
1,046 |
by chrisHKL Fri, 2020-02-28 14:52 |
|
|
remodel ERROR: unrecognized mm_atom_type_name RGU by daniloboskovic » Sat, 2020-02-22 11:55 |
1 |
1,518 |
by daniloboskovic Tue, 2020-02-25 08:28 |
|
|
Rosetta scripts crash in CM workflow by jlburkhead » Tue, 2019-12-03 22:55 |
1 |
1,660 |
by danpf Fri, 2020-02-21 18:37 |
|
|
Options "-out:prefix" didn't work by maruhuang » Tue, 2019-09-10 05:42 |
4 |
2,907 |
by danpf Fri, 2020-02-21 18:32 |
|
|
Protein-Protein Docking or Comparative Modeling by Morrian_Lynn » Wed, 2020-01-29 19:01 |
1 |
1,404 |
by danpf Fri, 2020-02-21 18:23 |
|
|
How can I model ligands in comparative modeling by Morrian_Lynn » Thu, 2020-02-20 09:57 |
1 |
1,298 |
by danpf Fri, 2020-02-21 17:05 |
|
|
get an increased energy after energy minimization when using different score functions for repacking and energy minimization by xinmiaohe » Fri, 2020-02-07 11:59 |
1 |
1,428 |
by xinmiaohe Fri, 2020-02-07 13:52 |
Log in to post new content in the forum.
