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Rosetta 3 - Applications

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Normal topic An error with score app
by Genta » Tue, 2019-10-29 18:46
0
8,820 by Genta
Tue, 2019-10-29 18:46
Normal topic cryptic error "Got some signal... It is:15" -- an issue with 'fixbb', or something else?
by dantimatter » Wed, 2019-10-16 14:59
5
3,707 by dantimatter
Wed, 2019-10-30 09:43
Normal topic Symmetry mode in Remodel for N-terminal extension
by yvonne.chan2 » Mon, 2019-11-04 13:41
0
1,320 by yvonne.chan2
Mon, 2019-11-04 13:41
Normal topic Warnings during relax
by cossio » Thu, 2018-10-11 14:42
2
3,718 by rmoretti
Mon, 2019-11-04 13:56
Normal topic GrowLigand
by allan.ferrari » Sat, 2019-10-19 05:32
2
2,194 by allan.ferrari
Tue, 2019-11-05 16:52
Normal topic Alanine Scanning for 1 Protein (no interface)
by mags33 » Fri, 2019-10-25 10:08
2
2,579 by mags33
Wed, 2019-11-06 09:35
Normal topic running in MPI mode and multiple scores per output PDB file?
by dantimatter » Wed, 2019-10-30 09:42
7
5,602 by dantimatter
Wed, 2019-11-06 09:51
Normal topic Issue with Rosetta LinkResidues Script
by adityapadhi » Wed, 2019-11-20 22:00
1
1,495 by JackMaguire
Fri, 2019-11-22 13:45
Normal topic Docking the border segments of coiled coils in parallel orientation
by Corvin » Mon, 2019-12-02 02:00
0
1,036 by Corvin
Mon, 2019-12-02 02:00
Normal topic using piper-flexpepdock
by syntekabio2019 » Thu, 2019-12-12 01:22
0
1,424 by syntekabio2019
Thu, 2019-12-12 01:22
Normal topic using DARC in rosetta
by syntekabio2019 » Thu, 2019-12-12 01:27
0
1,050 by syntekabio2019
Thu, 2019-12-12 01:27
Normal topic Error Implementing Match Style Constraints
by pwging13 » Thu, 2019-12-19 09:53
0
1,076 by pwging13
Thu, 2019-12-19 09:53
Normal topic RosettaCM hybridize mover error after fragment picking
by amorin » Thu, 2018-09-06 11:03
2
2,577 by dnamkr
Thu, 2019-12-26 10:22
Normal topic Remodel: the pose does not have residue with chain=H, PDBnum=114
by lanselibai » Wed, 2019-12-25 13:35
1
2,421 by lanselibai
Fri, 2019-12-27 09:38
Normal topic Can remodel really handle multiple insertions in one simulation?
by lanselibai » Sat, 2019-12-28 12:51
0
973 by lanselibai
Sat, 2019-12-28 12:51
Normal topic cartfrag_overlap error while running hybridize protocol
by sn » Thu, 2017-12-21 10:24
2
2,417 by dnamkr
Mon, 2019-12-30 11:43
Normal topic How to freeze ligand during FastRelax?
by dnamkr » Thu, 2020-01-02 14:53
1
1,745 by aloshbau
Fri, 2020-01-10 16:48
Normal topic Centroid mode minimization
by Martin Floor » Tue, 2020-01-21 07:34
2
2,206 by Martin Floor
Tue, 2020-01-21 11:15
Normal topic docking with capping groups
by xavierfradera » Sun, 2018-11-04 16:17
1
1,721 by maral.adeli-kou...
Wed, 2020-01-22 12:41
Normal topic Limit on backbone movement in relax?
by SWM » Fri, 2020-01-24 07:35
0
984 by SWM
Fri, 2020-01-24 07:35
Normal topic appropriate sampling for protein docking to a multi chain assembly
by SWM » Fri, 2020-01-24 11:22
0
910 by SWM
Fri, 2020-01-24 11:22
Normal topic fixing sequence during grafting in antibody_designer
by COM » Fri, 2020-01-24 11:38
1
1,512 by jadolfbr
Tue, 2020-01-28 09:13
Normal topic Error during single state design
by sujigeorge1979 » Sat, 2020-01-18 00:37
5
5,626 by rmoretti
Thu, 2020-01-30 15:42
Normal topic error: Unable to open weights/patch file in using ddg_monomer.linuxgccrelease
by xinmiaohe » Thu, 2020-01-30 22:09
1
2,180 by xinmiaohe
Fri, 2020-01-31 08:23
Normal topic 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
1,507 by xinmiaohe
Fri, 2020-02-07 13:52
Normal topic How can I model ligands in comparative modeling
by Morrian_Lynn » Thu, 2020-02-20 09:57
1
1,380 by danpf
Fri, 2020-02-21 17:05
Normal topic Protein-Protein Docking or Comparative Modeling
by Morrian_Lynn » Wed, 2020-01-29 19:01
1
1,498 by danpf
Fri, 2020-02-21 18:23
Normal topic Options "-out:prefix" didn't work
by maruhuang » Tue, 2019-09-10 05:42
4
3,091 by danpf
Fri, 2020-02-21 18:32
Normal topic Rosetta scripts crash in CM workflow
by jlburkhead » Tue, 2019-12-03 22:55
1
1,766 by danpf
Fri, 2020-02-21 18:37
Normal topic remodel ERROR: unrecognized mm_atom_type_name RGU
by daniloboskovic » Sat, 2020-02-22 11:55
1
1,610 by daniloboskovic
Tue, 2020-02-25 08:28
Normal topic What is interface_cutoff_distance? And why did my residues outside this value get designed?
by chrisHKL » Fri, 2020-02-28 14:52
0
1,141 by chrisHKL
Fri, 2020-02-28 14:52
Normal topic antibody_numbering_converter cannot recognize the IMGT scheme
by cryosky » Sat, 2020-02-29 23:12
4
3,306 by jadolfbr
Sun, 2020-03-01 14:54
Normal topic Filter for fixed-bb design using RosettaScript?
by chrisHKL » Fri, 2020-02-28 19:47
4
2,803 by vmulligan
Mon, 2020-03-02 13:40
Normal topic Imitating induced fit protocol in SymDock2 without any symmetry constraints
by chenna » Fri, 2020-02-14 01:35
2
2,136 by chenna
Wed, 2020-03-04 03:24
Normal topic Ddg filter threshold value?
by chrisHKL » Fri, 2020-02-28 15:01
1
1,404 by rmoretti
Wed, 2020-03-04 09:56
Normal topic Comparative Modeling Templates for Protein with Multiple Domains
by Morrian_Lynn » Wed, 2020-03-04 10:42
0
944 by Morrian_Lynn
Wed, 2020-03-04 10:42
Normal topic nstruct vs. trials?
by chrisHKL » Mon, 2020-03-02 13:22
2
1,888 by chrisHKL
Wed, 2020-03-04 10:49
Normal topic std::bad_alloc error after changing .xml script?
by chrisHKL » Wed, 2020-03-04 11:44
10
6,176 by jadolfbr
Thu, 2020-03-05 07:02
Normal topic RosettaScript Segmentation Fault (crash log attached)
by chrisHKL » Thu, 2020-03-05 07:21
2
2,638 by chrisHKL
Thu, 2020-03-05 09:11
Normal topic score is 0 in the output? - RosettaScripts
by chrisHKL » Thu, 2020-03-05 09:33
0
1,041 by chrisHKL
Thu, 2020-03-05 12:58
Normal topic "sparks failed" error when running "make_fragments.pl"?
by Danielsebas » Tue, 2019-09-03 03:43
6
4,470 by Jacob_Verburgt
Tue, 2020-03-10 14:39
Normal topic Is native.pdb necess for fragment_picker?
by ylwang » Thu, 2020-03-12 00:57
2
2,072 by ylwang
Thu, 2020-03-12 20:42
Normal topic application for affinity optimization
by wentlewi » Fri, 2020-03-13 03:24
0
1,070 by wentlewi
Fri, 2020-03-13 03:24
Normal topic Any progress on getting intermediate structures during a design?
by broomsday » Mon, 2020-03-16 06:46
2
2,070 by vmulligan
Tue, 2020-03-17 11:35
Normal topic Docking of multichain oligomers
by sdh_h » Wed, 2020-03-25 12:43
0
1,167 by sdh_h
Wed, 2020-03-25 12:43
Normal topic What means "[ ERROR ] TIME_STAMP: AbrelaxMover: finished ...NO_BATCH S_0001."
by Corvin » Thu, 2020-04-02 00:16
0
1,061 by Corvin
Thu, 2020-04-02 00:16
Normal topic Error with the mpi version of simple_cycpep_predict
by Florent Langenfeld » Wed, 2020-02-05 05:16
5
3,506 by vmulligan
Fri, 2020-04-10 02:54
Normal topic Rosetta remodel - including an RNA ligand
by daniloboskovic » Fri, 2020-04-10 04:24
0
1,050 by daniloboskovic
Fri, 2020-04-10 04:24
Normal topic Use membrane or non-membrane weights in RosettaCM for a hexon in virus capsid?
by lanselibai » Sat, 2020-04-11 02:10
0
1,044 by lanselibai
Sat, 2020-04-11 02:10
Normal topic DNA-protein docking
by ksteczk » Sat, 2020-04-11 11:23
0
1,533 by ksteczk
Sat, 2020-04-11 11:23
Normal topic RosettaDesign error with Option file open failed
by xingqing326 » Sun, 2020-04-19 01:56
4
4,350 by xingqing326
Tue, 2020-04-21 19:11
Normal topic BUG REPORT: Remodel Resfile ERROR: LEU was added more than once?
by daniloboskovic » Wed, 2020-04-29 01:17
2
1,958 by daniloboskovic
Wed, 2020-04-29 05:51
Normal topic can remodel add loops in one chain in multichain PDB structure?
by ksteczk » Fri, 2020-05-01 06:26
1
1,558 by matteoferla
Mon, 2020-05-04 01:43
Normal topic Ligand docking at specific orientation
by ShiranBZ » Mon, 2020-04-13 20:46
1
1,345 by matteoferla
Mon, 2020-05-04 02:02
Normal topic Can the Rosetta Antibody Design (RAbD) protocol incorporate glycans?
by ccottrell » Tue, 2020-05-05 20:30
5
3,255 by jadolfbr
Wed, 2020-05-06 11:37
Normal topic General question regarding ligand-docking
by Alison_Yajie » Thu, 2020-05-07 09:48
0
884 by Alison_Yajie
Thu, 2020-05-07 09:48
Normal topic Template/Input length mismatch error during RosettaCM
by marinok » Mon, 2020-05-04 13:12
4
2,999 by marinok
Mon, 2020-05-11 12:48
Normal topic How to concatenate the 3-mer and 9-mer files for RosettaCM?
by lanselibai » Fri, 2020-05-08 05:38
5
3,633 by danpf
Tue, 2020-05-12 10:58
Normal topic How to run partial_thread in RosettaCM when residure are more than 9999?
by lanselibai » Mon, 2020-05-11 22:43
2
2,399 by lanselibai
Tue, 2020-05-12 20:25
Normal topic 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
1,171 by jcampecino
Wed, 2020-05-13 12:22
Normal topic 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
1,801 by brspurri
Thu, 2020-05-14 12:24
Normal topic protein relax
by Alison_Yajie » Tue, 2020-05-19 08:29
0
977 by Alison_Yajie
Tue, 2020-05-19 08:29
Normal topic Transmembrane helix fold-and-dock?
by sarah_b » Tue, 2020-05-12 02:09
3
2,540 by jkleman
Tue, 2020-05-19 15:02
Normal topic Side-chain grafting at the fixed protein and position
by Kazu » Wed, 2020-05-20 08:49
0
883 by Kazu
Wed, 2020-05-20 08:49
Normal topic Rna Denovo
by helderveras » Wed, 2020-05-06 08:40
5
3,353 by everyday847
Wed, 2020-05-20 08:52
Normal topic 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
1,960 by cm21
Wed, 2020-05-20 11:22
Normal topic Modelling temperature dependent RNA structures
by tuleshwori » Tue, 2020-05-19 01:16
2
1,854 by tuleshwori
Thu, 2020-05-21 02:08
Normal topic ligand_docking: ligand preparation
by Alison_Yajie » Thu, 2020-05-21 09:42
0
1,039 by Alison_Yajie
Thu, 2020-05-21 09:42
Normal topic Changing rosetta scoring to favour less hydrophobic areas
by daniloboskovic » Thu, 2020-05-21 03:03
1
1,335 by vmulligan
Thu, 2020-05-21 18:33
Normal topic relax and movemap
by Alison_Yajie » Wed, 2020-05-20 21:27
3
2,557 by smlewis
Thu, 2020-05-21 21:05
Normal topic cartesian_ddg crashes when the mutfile contains multiple mutations to non-canonical residues
by ValentinaSora » Sun, 2020-05-24 12:32
0
1,584 by ValentinaSora
Sun, 2020-05-24 12:32
Normal topic What is a rational minimal value for the "-nstruct" option
by Sunyp_IM » Fri, 2020-05-22 01:28
3
2,389 by nannemdp
Sun, 2020-05-24 14:46
Normal topic mp_transform optimize with franklin2019 scoring
by benhardy » Thu, 2020-05-28 08:35
0
1,359 by benhardy
Thu, 2020-05-28 08:45
Normal topic Problems with mpi version of antibody.linuxgccrelease
by Sunyp_IM » Thu, 2020-05-28 23:06
0
1,202 by Sunyp_IM
Thu, 2020-05-28 23:07
Normal topic ligand_docking_error
by Alison_Yajie » Mon, 2020-04-20 12:27
3
2,463 by YuFei
Sat, 2020-05-30 00:12
Normal topic AbinitioRelax detect_disulf_tolerance
by aarono » Tue, 2020-06-02 00:13
0
985 by aarono
Tue, 2020-06-02 00:13
Normal topic RosettaAntibodyDesign: How can I run the protocol without allowing design?
by brspurri » Tue, 2020-05-26 08:12
5
3,218 by brspurri
Wed, 2020-06-03 13:20
Normal topic "Residue 7 was disulfide bonded but had no partner" with antibody.linuxgccrelease
by Sunyp_IM » Thu, 2020-06-04 05:53
0
956 by Sunyp_IM
Thu, 2020-06-04 05:54
Normal topic The usage of antibody_H3.linuxgccrelease
by Sunyp_IM » Thu, 2020-05-28 22:50
2
2,172 by Sunyp_IM
Thu, 2020-06-04 08:20
Normal topic The difference between the H1 regions of modeled camelid antibody and the crystal structure.
by Sunyp_IM » Sun, 2020-06-07 02:34
1
1,464 by nannemdp
Sun, 2020-06-07 08:01
Normal topic RosettaCM: An internal error has occurred when "Running the Hybridize mover"
by haom » Mon, 2020-06-15 05:56
4
2,689 by haom
Tue, 2020-06-16 05:55
Normal topic metalloprotein ab initio with glutamic acid
by inorgchem » Tue, 2020-06-16 20:45
0
787 by inorgchem
Tue, 2020-06-16 20:45
Normal topic Constraint generator
by Alison_Yajie » Wed, 2020-06-17 20:14
1
1,284 by Alison_Yajie
Wed, 2020-06-17 20:35
Normal topic Residue selector
by Alison_Yajie » Wed, 2020-06-17 19:57
0
937 by Alison_Yajie
Thu, 2020-06-18 09:47
Normal topic Coupled Moves crash with Membrane Protein - residue_edge is undefined for root vertex
by benhardy » Mon, 2020-06-15 09:33
3
2,370 by benhardy
Fri, 2020-06-19 07:55
Normal topic How to select docked models
by Sunyp_IM » Mon, 2020-06-22 00:50
1
1,318 by ssrb
Mon, 2020-06-22 13:12
Normal topic How to create a native file for Protein-Protein docking
by Kotimedidhi » Fri, 2020-06-19 08:58
2
1,907 by Kotimedidhi
Mon, 2020-06-22 16:19
Normal topic Ligand docking with constraint
by Alison_Yajie » Wed, 2020-06-24 12:34
0
930 by Alison_Yajie
Wed, 2020-06-24 12:34
Normal topic ligand_docking ligand preparation
by Alison_Yajie » Thu, 2020-05-21 10:21
2
1,777 by Alison_Yajie
Wed, 2020-06-24 12:38
Normal topic "core.kinematics.FoldTree" error upon running RAbD
by Sunyp_IM » Fri, 2020-06-26 17:27
2
1,943 by Sunyp_IM
Fri, 2020-06-26 20:57
Normal topic Scoring after HBNet
by HHL_SIUC » Wed, 2020-07-01 10:49
0
938 by HHL_SIUC
Wed, 2020-07-01 10:49
Normal topic kcenters_clustering_of_fragments
by bjharris » Mon, 2019-07-01 16:16
1
1,633 by bjharris
Wed, 2020-07-01 23:25
Normal topic ligand_docking: ligand preparation
by Alison_Yajie » Thu, 2020-07-02 07:05
0
976 by Alison_Yajie
Thu, 2020-07-02 07:10
Normal topic LoopModeler mover unable to determine cut point
by gszwabowski » Mon, 2020-06-01 13:12
1
1,720 by matteoferla
Thu, 2020-07-02 07:27
Normal topic OptimizeMembranePositionMover - This element is not expected
by bjharris » Wed, 2020-07-01 23:21
2
2,078 by bjharris
Thu, 2020-07-02 11:09
Normal topic zero standard deviation of I_sc in protein-protein docking
by rohi » Fri, 2020-07-03 22:19
0
924 by rohi
Fri, 2020-07-03 22:20
Normal topic Does antibody_numbering_converter support camelid antibody?
by mxp » Tue, 2020-07-07 01:21
0
955 by mxp
Tue, 2020-07-07 01:21
Normal topic PEPSPEC
by Neeraj » Wed, 2018-01-03 02:24
1
1,944 by Andre Serobian
Wed, 2020-07-08 04:44
Normal topic Metal Ion in symmetric design
by tschiex » Wed, 2020-07-08 05:28
0
977 by tschiex
Wed, 2020-07-08 05:28
Normal topic Segmentation Fault during prepacking
by Sunyp_IM » Fri, 2020-06-12 11:24
4
3,572 by Sunyp_IM
Thu, 2020-07-09 18:40
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