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Rosetta 3 - Applications

Topic / Topic starter Replies Views Last postsort descending
Normal topic Filter based on ligand_is_touching
by Swillard » Mon, 2017-09-11 19:00
3
1,503 by rmoretti
Mon, 2018-11-12 14:35
Normal topic denovo_density don't output a pdb file
by ylwang » Sun, 2018-11-18 17:51
0
417 by ylwang
Sun, 2018-11-18 17:51
Normal topic ProteinInterfaceMS
by rbjacob » Wed, 2018-10-24 11:31
1
569 by rmoretti
Wed, 2018-11-21 15:10
Normal topic Problem passing a list of PDB files to minimize_with_cst
by dolevrahat » Sun, 2018-11-18 16:13
1
675 by rmoretti
Wed, 2018-11-21 15:31
Normal topic Using residue patches in AbinitioRelax
by kent » Fri, 2018-11-02 11:19
1
818 by rmoretti
Wed, 2018-11-21 15:40
Hot topic rosettaCM not recognizing Mn atom
by banshee » Mon, 2016-09-12 23:33
20
8,813 by rmoretti
Wed, 2018-11-21 15:45
Normal topic AbinitioRelax - Error with flags
by jmschu » Wed, 2018-11-21 17:36
1
849 by rmoretti
Fri, 2018-11-23 07:59
Normal topic Extract PDB structures from database
by cossio » Mon, 2018-01-29 09:30
3
1,628 by rmoretti
Fri, 2018-11-23 11:23
Normal topic Relax multiple PDB files with MPI, jd2, and a pdblist on TACC Stampede2
by AJVincelli » Sat, 2018-07-14 13:14
1
875 by AJVincelli
Sun, 2018-11-25 11:29
Normal topic SnugDock - What protocol should I use?
by dfcoelho » Tue, 2018-11-27 07:32
8
2,580 by dfcoelho
Wed, 2018-11-28 08:07
Normal topic docking parse error
by dave » Tue, 2018-12-04 08:41
1
784 by rmoretti
Tue, 2018-12-04 08:55
Normal topic Weighted scores??
by sizhang » Wed, 2018-12-05 15:22
0
432 by sizhang
Wed, 2018-12-05 15:22
Normal topic ddG calculations to study point mutations
by N.Chopra » Fri, 2018-12-07 12:36
1
794 by jeliazkov
Fri, 2018-12-07 12:51
Normal topic molfile to params polymer python errors
by tsztain » Sun, 2018-12-02 15:38
5
1,933 by tsztain
Tue, 2018-12-11 13:41
Normal topic Model truncated proteins
by BuddySphinx » Wed, 2018-12-12 10:32
3
1,034 by smlewis
Wed, 2018-12-12 16:51
Normal topic rosetta remodel and designing helix extension
by dhirajks » Thu, 2018-12-13 19:34
0
494 by dhirajks
Thu, 2018-12-13 19:34
Normal topic Model monomer to fit cryo density map of a filament
by BuddySphinx » Wed, 2018-12-12 18:58
2
853 by BuddySphinx
Sun, 2018-12-30 16:49
Normal topic Chemically bound ligand connection error
by tsztain » Tue, 2019-01-01 18:40
2
942 by tsztain
Mon, 2019-02-18 09:55
Normal topic How to correctly incorporate constraint information into ab initio structure prediction?
by johnnytam100 » Tue, 2019-02-19 03:13
2
939 by johnnytam100
Fri, 2019-03-01 01:36
Normal topic Any backrub expert?
by johnnytam100 » Fri, 2019-03-01 01:58
4
1,316 by johnnytam100
Sun, 2019-03-03 23:42
Normal topic Adding bridged water interaction in constraint file
by purvi24 » Thu, 2019-02-28 07:01
8
1,932 by purvi24
Mon, 2019-03-11 06:43
Normal topic help surface_docking peptide on ice
by engand93 » Wed, 2019-03-27 02:43
0
393 by engand93
Wed, 2019-03-27 02:43
Normal topic Specifying resfile in rosetta scripts
by johnnytam100 » Mon, 2019-03-18 02:19
4
1,373 by rmoretti
Fri, 2019-03-29 09:30
Normal topic hybrid approach - comparative and ab initio modelling
by eprates » Wed, 2019-03-20 11:58
1
567 by rmoretti
Fri, 2019-03-29 09:45
Normal topic Two questions on the RosettaScripts flexbb-interfacedesign.xml
by johnnytam100 » Fri, 2019-03-15 04:54
1
653 by rmoretti
Fri, 2019-03-29 09:58
Normal topic Unexpected Error with RosettaCM -
by terry » Fri, 2019-02-22 14:26
1
1,641 by rmoretti
Fri, 2019-03-29 12:25
Normal topic Missing atoms and cannot find atom pose when refining ligand position with EM density
by BuddySphinx » Mon, 2018-12-31 16:22
1
1,077 by rmoretti
Fri, 2019-03-29 13:06
Normal topic reporting bugs? (erraser in rosetta 3.10)
by meyer » Fri, 2018-12-14 09:40
2
729 by everyday847
Fri, 2019-03-29 13:13
Normal topic Threading with Ligand
by ekwan » Thu, 2018-12-06 15:10
1
622 by rmoretti
Fri, 2019-03-29 13:21
Normal topic Threading a sequence onto a template with ligands/metal ions included
by ajkal » Wed, 2017-04-19 11:53
3
1,950 by ahmadkhalifa
Sun, 2019-03-31 23:27
Normal topic Segmentation Fault
by ajaniharesh » Fri, 2019-03-29 11:21
4
2,137 by ajaniharesh
Thu, 2019-04-04 07:07
Normal topic Abinitio the Broker protocol
by ac.research » Sun, 2019-03-24 03:56
1
587 by rmoretti
Fri, 2019-04-05 00:18
Normal topic ERROR: Specified chain does not exist.
by ajaniharesh » Fri, 2019-04-05 11:14
2
964 by ajaniharesh
Tue, 2019-04-09 06:53
Normal topic How to specify only design surface residues and loops by RosettaScripts?
by johnnytam100 » Sun, 2019-04-07 21:47
4
1,085 by johnnytam100
Wed, 2019-04-10 02:48
Normal topic input file for loop modeling
by Negarsardar » Tue, 2019-04-16 10:21
1
577 by rmoretti
Tue, 2019-04-16 11:07
Normal topic Highly negative total score
by Ruchi_P_Jain » Wed, 2019-04-24 19:55
1
629 by nannemdp
Thu, 2019-04-25 07:58
Normal topic Coverage of sequence space?
by johnnytam100 » Sun, 2019-04-21 23:25
4
1,183 by johnnytam100
Thu, 2019-04-25 19:28
Normal topic missing atom number 5 atom name CB
by ajaniharesh » Fri, 2019-04-26 12:08
1
578 by rmoretti
Fri, 2019-04-26 12:13
Normal topic Protein Protein Docking with Constraints
by ajaniharesh » Wed, 2019-04-10 07:26
1
593 by rmoretti
Thu, 2019-05-09 15:40
Normal topic loop design for Conformational bias
by dhirajks » Thu, 2019-05-09 21:22
1
595 by jadolfbr
Fri, 2019-05-10 07:53
Normal topic protein protein interaction design
by Negarsardar » Wed, 2019-05-15 06:13
3
1,185 by ajasja
Wed, 2019-05-15 15:40
Normal topic Behavior of nstruct
by johnnytam100 » Wed, 2019-05-15 22:22
3
1,066 by johnnytam100
Tue, 2019-05-21 20:48
Normal topic Choosing weight file for interface design?
by johnnytam100 » Tue, 2019-05-07 00:47
2
729 by johnnytam100
Tue, 2019-05-21 22:33
Normal topic Sampling a wider range of RMSD of poses by Rosetta Dock
by johnnytam100 » Tue, 2019-05-21 22:28
1
578 by johnnytam100
Thu, 2019-05-23 20:52
Normal topic protein interface design
by Negarsardar » Tue, 2019-05-28 07:04
2
772 by Negarsardar
Thu, 2019-05-30 23:46
Normal topic SEWING and motif file generation
by rbjacob » Thu, 2018-07-12 07:28
10
2,781 by zhangying1990
Tue, 2019-06-04 18:04
Normal topic How can I set ref2015 and ligand.wts(-restore_pre_talaris_2013_behavior )
by asbelx » Sat, 2019-06-08 00:07
2
743 by asbelx
Sat, 2019-06-08 17:03
Normal topic Write error during saving of PDB-file after working with it in the Rosetta through Unix terminal
by Corvin » Thu, 2019-04-25 01:20
2
774 by Corvin
Wed, 2019-06-12 00:04
Normal topic RosettaAntibody core.pose.util error
by rishibedi » Fri, 2018-10-05 01:31
2
1,086 by esozdemir
Thu, 2019-06-13 12:19
Normal topic AddHelixSequenceConstraints Mover
by Negarsardar » Thu, 2019-05-30 03:17
2
616 by vmulligan
Thu, 2019-06-13 14:59
Normal topic AddHelixSequenceConstraints Mover2
by Negarsardar » Sat, 2019-06-01 01:54
1
498 by vmulligan
Thu, 2019-06-13 15:01
Normal topic VH-VL Orientation in antibody
by sujigeorge1979 » Mon, 2019-06-17 01:23
1
575 by jeliazkov
Mon, 2019-06-17 06:03
Normal topic Rosetta_cm Partial Threading Removing Parts of Sequence
by gszwabowski » Thu, 2019-06-20 12:30
1
563 by rmoretti
Mon, 2019-06-24 13:43
Normal topic Enzyme Design FlexBB Protocol Bug: DNA/RNA handling
by kettner » Fri, 2019-06-14 14:16
1
918 by rmoretti
Mon, 2019-06-24 13:46
Normal topic Membrane ab-initio modelling of a beta-strand
by hzhekova » Mon, 2019-06-10 14:22
1
584 by rmoretti
Mon, 2019-06-24 14:39
Normal topic The relax qustion of Rosetta VIP
by asbelx » Mon, 2019-06-10 07:52
1
513 by rmoretti
Mon, 2019-06-24 14:42
Normal topic Relax with multiple small molecules
by jharamesh » Sun, 2019-05-26 19:34
1
592 by rmoretti
Mon, 2019-06-24 15:19
Normal topic Question about fastsaxs and saxs_score
by orionshih » Thu, 2019-06-13 02:30
2
664 by orionshih
Wed, 2019-06-26 03:54
Normal topic Rosetta_cm Segmentation Fault
by gszwabowski » Thu, 2019-06-20 12:55
2
988 by gszwabowski
Wed, 2019-06-26 10:25
Normal topic De novo structure building with medium resolution map
by BuddySphinx » Tue, 2019-07-02 09:07
2
669 by BuddySphinx
Tue, 2019-07-02 12:03
Normal topic Error with talaris2014.wts, which leads to a garbade scorefunction in loop modelling for protein-protein docking
by Corvin » Wed, 2019-06-19 08:40
5
1,318 by rmoretti
Tue, 2019-07-09 10:13
Normal topic Mutating phosphorylated residues to "canonical" residues and vice versa
by ValentinaSora » Mon, 2019-05-20 05:58
1
769 by rmoretti
Wed, 2019-07-10 09:22
Normal topic protein interction design
by Negarsardar » Wed, 2019-05-15 12:01
1
560 by rmoretti
Wed, 2019-07-10 09:24
Normal topic is it necessary to always run relax before any Rosetta
by mainzer » Fri, 2019-04-12 01:35
1
718 by rmoretti
Wed, 2019-07-10 09:47
Normal topic Usage of the TaskOperations "RestrictToCDRsAndNeighbors"
by johnnytam100 » Wed, 2019-04-10 02:58
1
609 by rmoretti
Wed, 2019-07-10 10:10
Normal topic RosettaScripts LinkResidues
by Yero » Fri, 2019-05-17 05:26
5
1,670 by Yero
Thu, 2019-07-18 01:39
Normal topic InterfaceAnalyzer:“too many tries in fill_missing_atoms!”
by mxp » Tue, 2019-08-06 00:41
8
1,743 by mxp
Mon, 2019-08-12 18:42
Normal topic new BUNS for FunFolDes run
by tatsiana.bylund » Wed, 2019-08-14 20:57
0
350 by tatsiana.bylund
Wed, 2019-08-14 20:57
Normal topic Does it make sense if I do backrub after sequence design?
by johnnytam100 » Thu, 2019-08-15 05:15
3
808 by johnnytam100
Fri, 2019-08-16 00:20
Normal topic How does the label in pdb files looks like when using ResiduePDBInfoHasLabel?
by johnnytam100 » Fri, 2019-08-16 00:25
1
586 by JackMaguire
Fri, 2019-08-16 07:41
Normal topic RNP structure prediction flags
by daniloboskovic » Fri, 2019-08-16 11:10
0
375 by daniloboskovic
Fri, 2019-08-16 11:17
Normal topic Adding positional restraints to pure RNA system in DRRAFTER and rna_denovo
by zharmad » Fri, 2019-08-23 01:16
1
420 by everyday847
Fri, 2019-08-23 04:08
Normal topic ProteinInterfaceDesign algorithm questions
by tsztain » Mon, 2019-02-18 14:10
1
711 by rmoretti
Sun, 2019-08-25 19:15
Normal topic how to run ala_scan.xml
by xinmiaohe » Mon, 2019-08-26 09:38
0
342 by xinmiaohe
Mon, 2019-08-26 09:38
Normal topic Do partner1 and partner2 in mover BackrubDD mean chain1 and chain2 respectively?
by johnnytam100 » Fri, 2019-08-23 21:10
1
440 by rmoretti
Mon, 2019-08-26 12:03
Normal topic PDB file name too long to be handled by file system
by dave » Thu, 2019-08-08 03:10
1
410 by rmoretti
Mon, 2019-08-26 12:17
Normal topic "Angle constraint: 0-length bonds" error
by purvi24 » Sun, 2019-07-28 10:09
1
527 by rmoretti
Mon, 2019-08-26 12:49
Normal topic RosettaMatch
by xingqing326 » Mon, 2019-07-22 13:14
1
632 by rmoretti
Mon, 2019-08-26 12:57
Normal topic can anyone help me correct this script to do alanine scanning
by xinmiaohe » Mon, 2019-08-26 17:23
1
561 by xinmiaohe
Mon, 2019-08-26 18:16
Normal topic A problem with "make_fragments.pl" script dependencies
by Corvin » Fri, 2019-08-16 04:30
2
846 by Corvin
Tue, 2019-08-27 00:46
Normal topic how to find help informations on rosetta_scripts in rosetta3.10
by xinmiaohe » Mon, 2019-08-26 14:48
5
985 by xinmiaohe
Tue, 2019-08-27 08:37
Normal topic Rosetta fragment tools installation error
by Danielsebas » Thu, 2019-08-29 02:17
2
589 by Danielsebas
Sun, 2019-09-01 02:38
Normal topic /database folder after running "install_dependencies.pl" size 657 GB?
by Danielsebas » Tue, 2019-09-03 03:32
1
407 by danpf
Tue, 2019-09-03 10:15
Normal topic Rosetta make_fragments.pl error?
by Danielsebas » Mon, 2019-09-02 07:51
3
821 by Danielsebas
Thu, 2019-09-05 03:35
Normal topic ligand docking with MPI
by Ruska322 » Wed, 2019-09-04 03:47
2
619 by Ruska322
Fri, 2019-09-06 07:13
Normal topic Unable to understand fragment picking tutorial points.
by Danielsebas » Thu, 2019-09-05 03:44
4
889 by danpf
Fri, 2019-09-06 11:29
Normal topic extract docking pose from ligand docking silent file
by Ruska322 » Sat, 2019-09-07 05:21
0
375 by Ruska322
Sat, 2019-09-07 05:21
Normal topic "make" error in "pdb2vall/structure_profile_scripts/DEPTH-CLONE-2.8.7"
by Danielsebas » Mon, 2019-09-02 08:14
2
678 by Danielsebas
Sun, 2019-09-08 02:08
Normal topic How to make new VALL database?
by Danielsebas » Sun, 2019-09-08 02:16
2
827 by Danielsebas
Wed, 2019-09-11 00:44
Normal topic "Install_dependencies.pl" gives "Aborted" when downloading "nr" database?
by Danielsebas » Sat, 2019-09-14 08:53
3
680 by danpf
Mon, 2019-09-16 09:51
Normal topic How to analyse multiple silent files from "Abinitiorelax" output to find best models?
by Danielsebas » Tue, 2019-09-10 10:01
1
414 by smlewis
Mon, 2019-09-16 12:22
Normal topic Error with Formatdb of legacy blast when running "install_dependencies.pl"?
by Danielsebas » Mon, 2019-09-16 09:30
2
505 by Danielsebas
Tue, 2019-09-17 01:03
Normal topic how to make "static" built binaries use multiple cpus like "mpi"?
by Danielsebas » Wed, 2019-09-18 06:41
3
825 by rmoretti
Wed, 2019-09-18 10:21
Normal topic Can I use rosetta binaries built in one linux system to another linux system?
by Danielsebas » Wed, 2019-09-18 06:49
1
452 by rmoretti
Wed, 2019-09-18 10:36
Normal topic Error with RosettaAntibodyDesign when running antibody_designer.linuxgccrelease
by bdzhh » Tue, 2019-09-17 17:02
1
482 by jadolfbr
Thu, 2019-09-19 08:53
Normal topic antibody modeling error
by mxp » Mon, 2019-09-16 18:29
2
637 by mxp
Mon, 2019-09-23 01:40
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
1,004 by smlewis
Mon, 2019-09-23 11:42
Normal topic how to "rescore" the models using lowest energy model from rosetta run as native, for RMSD vs Score plot?
by Danielsebas » Tue, 2019-09-24 03:51
1
456 by smlewis
Tue, 2019-09-24 12:43
Normal topic Structure prediction using true distance and angle constraint
by maruhuang » Wed, 2019-08-21 02:29
4
772 by maruhuang
Thu, 2019-09-26 18:52
Normal topic Energy function and iteration script files
by michelleqyh » Fri, 2019-09-27 09:06
1
413 by smlewis
Fri, 2019-09-27 11:54
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