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Rosetta 3 - Applications

Topic / Topic starter Replies Views Last postsort ascending
Normal topic Protein/Protein Ddg demo: How to write predicted mutant structures?
by cossio » Wed, 2015-11-04 20:14
1
571 by rmoretti
Tue, 2015-11-10 11:10
Normal topic FloppyTail :How to specify range of design(mutation)
by syoifczeri » Mon, 2015-11-02 04:14
6
2,288 by syoifczeri
Sat, 2015-11-07 21:42
Normal topic JD2 MPI
by jrcf » Wed, 2015-10-28 14:45
1
726 by rmoretti
Sat, 2015-10-31 08:57
Normal topic Can I change high-resolution filter in SymDock
by attesor » Fri, 2015-10-23 07:35
2
794 by attesor
Mon, 2015-10-26 09:01
Normal topic heads up for constraints using GAUSSIANFUNC
by attesor » Thu, 2015-10-22 07:30
1
565 by smlewis
Thu, 2015-10-22 08:04
Normal topic symmetric docking and constraints
by ytao » Thu, 2013-05-02 12:08
5
3,724 by attesor
Wed, 2015-10-21 13:53
Normal topic Rosetta Holes
by zsun12 » Wed, 2015-09-30 11:40
1
1,181 by rmoretti
Mon, 2015-10-12 15:20
Normal topic Rosetta dock irmsd
by Pernille » Sun, 2015-04-26 13:51
5
2,579 by rmoretti
Mon, 2015-10-12 15:10
Normal topic Generate fragment file on my computer
by jrcf » Mon, 2015-09-21 15:41
2
1,021 by jrcf
Mon, 2015-10-05 21:32
Normal topic ddg_monomer "ERROR: seqpos >= 1"
by cossio » Fri, 2015-10-02 12:20
1
744 by rmoretti
Fri, 2015-10-02 12:30
Normal topic -kill_hairpin error
by jadolfbr » Wed, 2011-10-05 18:53
11
6,500 by rmoretti
Mon, 2015-09-28 15:00
Normal topic fixbb algorithm reference?
by tylerborrman » Wed, 2015-09-23 10:20
4
1,807 by tylerborrman
Mon, 2015-09-28 09:30
Normal topic score:weights for fixbb application in Rosetta 3.5
by tylerborrman » Tue, 2015-07-28 14:16
2
976 by tylerborrman
Wed, 2015-09-23 10:51
Normal topic Not found some Flags
by jrcf » Sat, 2015-09-19 12:08
2
1,167 by jrcf
Mon, 2015-09-21 11:10
Normal topic Fnat and Irms are nan in score.sc from docking_protocol?
by cossio » Sun, 2015-09-13 07:34
2
964 by rmoretti
Thu, 2015-09-17 12:47
Normal topic Use NMR ensemble in protein-protein docking?
by cossio » Sun, 2015-09-13 07:57
2
1,025 by cossio
Tue, 2015-09-15 12:48
Normal topic How to model missing residues on a protein from multiple PDB files?
by cossio » Fri, 2015-08-21 07:18
6
4,987 by rmoretti
Fri, 2015-09-11 13:27
Normal topic Antibody Docking application
by Maryam_tabasinezhad » Sat, 2015-09-05 09:58
1
791 by jadolfbr
Wed, 2015-09-09 12:35
Normal topic Antibody modeling
by Maryam_tabasinezhad » Fri, 2015-09-04 11:00
4
1,879 by rmoretti
Wed, 2015-09-09 12:08
Normal topic Is it possible to restart the ddg_monomer.linuxgccrelease?
by lanselibai » Mon, 2015-09-07 03:46
1
653 by rmoretti
Wed, 2015-09-09 12:01
Normal topic ERROR: Rosetta does not recognize the property: SIDECHAIN_THIOL, when running minimize_with_cst.linuxgccrelease
by cossio » Thu, 2015-09-03 08:46
1
919 by rmoretti
Fri, 2015-09-04 10:25
Normal topic InterfaceAnalyzer dSasa calculation
by mintseris » Wed, 2015-09-02 09:43
2
1,432 by jadolfbr
Thu, 2015-09-03 16:18
Normal topic Distinctions between InterfaceAnalyzer and RosettaScript
by achambe » Wed, 2015-06-17 10:14
6
2,665 by rmoretti
Wed, 2015-09-02 12:43
Normal topic Per residue scoring
by chelsell » Mon, 2015-08-17 14:43
3
1,327 by rmoretti
Wed, 2015-09-02 12:33
Normal topic Abinitio protocol and X-Ray diffraction data
by allan.ferrari » Wed, 2015-08-12 12:49
2
968 by allan.ferrari
Fri, 2015-08-28 12:07
Normal topic autoNOE peak lists
by aep » Thu, 2015-08-06 06:15
1
725 by sgourn
Tue, 2015-08-18 18:25
Normal topic variable length fragments for Ab initio
by attesor » Wed, 2015-07-01 06:13
7
2,426 by rmoretti
Tue, 2015-08-18 16:47
Normal topic Homology modelling applies alignment wrong
by bernhardcl » Thu, 2015-08-06 09:39
1
747 by bernhardcl
Tue, 2015-08-11 09:11
Normal topic homology modeling with threading says length mismatch between sequence and alignment
by rqliang » Thu, 2015-08-06 11:46
2
1,046 by jharamesh
Sat, 2015-08-08 19:51
Normal topic how to generate Fragments using up to 2001 structures only
by oppopomoz » Sat, 2015-07-25 00:43
1
698 by rmoretti
Thu, 2015-08-06 08:57
Normal topic molfile_to_params script error
by pablogalazdavison » Tue, 2015-07-07 21:22
1
844 by rmoretti
Tue, 2015-07-14 14:59
Normal topic How to use Rosetta to DISCARD a protein-protein docking interface?
by cossio » Tue, 2015-05-26 06:24
2
1,171 by rmoretti
Sat, 2015-07-11 13:38
Normal topic Docking with loop rebuilding
by kxiao » Sun, 2015-06-28 19:37
1
764 by rmoretti
Fri, 2015-07-03 14:41
Normal topic Enzdes score file discrepancy between generated pdb and scores.out
by eyong123 » Wed, 2015-03-25 08:52
6
2,744 by eyong123
Mon, 2015-06-29 04:44
Normal topic docking with constraints and flexible bb
by mintseris » Mon, 2015-06-22 09:07
2
1,051 by mintseris
Wed, 2015-06-24 22:04
Normal topic auto_setup_metals flag with loop modeling application fails
by beowulfey » Wed, 2015-06-10 07:44
3
1,522 by beowulfey
Tue, 2015-06-23 16:10
Normal topic Loop modeling: KIC with fragments producing unusual models
by kamau » Mon, 2015-06-01 12:06
1
777 by rmoretti
Sat, 2015-06-20 20:07
Normal topic folding ectodomain in membrane ab initio
by freedman » Mon, 2015-05-25 21:09
3
1,431 by rmoretti
Fri, 2015-06-19 13:53
Normal topic Ensemble Docking in Rosetta3.5?
by protos_heis » Fri, 2015-05-22 06:42
7
3,057 by protos_heis
Mon, 2015-06-08 07:00
Normal topic Resfile as a input for InterfaceAnalyzer
by palak8669 » Sun, 2015-06-07 21:46
1
670 by smlewis
Mon, 2015-06-08 06:35
Normal topic rotamer library in coupled_moves
by mtyras » Fri, 2015-05-29 07:46
2
1,340 by mtyras
Mon, 2015-06-08 03:18
Normal topic Trouble enforcing a disulfide in loop building
by chelsell » Sun, 2015-05-10 16:31
2
1,229 by chelsell
Wed, 2015-05-27 14:36
Normal topic Should I trust the score output from relax used with a protein complex?
by cossio » Thu, 2015-05-07 06:08
1
734 by rmoretti
Mon, 2015-05-25 12:37
Normal topic Loopmodel with DNA has no energy score
by Nicky_Learning_... » Sun, 2015-05-10 19:31
1
787 by rmoretti
Mon, 2015-05-25 12:30
Normal topic SymDock with constraints
by felipet » Thu, 2015-05-14 09:01
1
1,232 by rmoretti
Mon, 2015-05-25 11:49
Normal topic loop modeling scoring
by Nicky_Learning_... » Wed, 2015-05-13 20:00
1
945 by rmoretti
Mon, 2015-05-25 11:30
Normal topic Error while reading in silent file
by rweisse » Mon, 2015-04-20 00:31
4
1,844 by rmoretti
Thu, 2015-04-30 16:46
Normal topic Failing Fragment libraries us Chemical shifts with Robettaa
by kalabharath » Tue, 2015-04-28 19:33
2
939 by kalabharath
Wed, 2015-04-29 16:21
Normal topic Pepspec options
by shaunmk » Mon, 2015-04-27 02:33
0
635 by shaunmk
Mon, 2015-04-27 02:33
Normal topic JobDistributor problem in antibody modeling
by Wizard » Wed, 2015-04-22 00:35
2
1,247 by Wizard
Sun, 2015-04-26 22:36
Normal topic Enzdes: increase weight of energy term for steric clashes with ligand
by eyong123 » Wed, 2015-03-25 09:12
5
2,310 by rmoretti
Fri, 2015-04-24 12:02
Normal topic Enzdes scorefile lost, can I recreate it
by eyong123 » Wed, 2015-04-15 05:55
2
842 by eyong123
Wed, 2015-04-22 11:33
Normal topic Can't append or prepend with pepspec
by danzinho » Tue, 2015-03-31 01:19
3
1,380 by dswhit
Tue, 2015-04-21 10:14
Normal topic ddg_monomer: what is the meaning of "total score" and "score"?
by lanselibai » Tue, 2015-01-13 14:49
4
2,542 by rmoretti
Thu, 2015-04-16 11:23
Normal topic Enzdes constraint file not defined correctly
by eyong123 » Fri, 2015-03-27 07:16
3
1,289 by rmoretti
Thu, 2015-04-16 10:38
Normal topic Repeatability of DDG calculation
by jennifer » Wed, 2015-04-08 05:29
0
676 by jennifer
Wed, 2015-04-08 05:29
Normal topic the ddg of mutant is same as the wt
by deepanshuiitb » Wed, 2015-03-04 11:56
6
2,575 by jadolfbr
Tue, 2015-04-07 10:50
Normal topic Conformers in EnzDes
by JorickF » Fri, 2015-03-06 04:41
5
2,709 by rmoretti
Tue, 2015-03-31 08:56
Normal topic Warning messages in Interface analyzer output
by Pernille » Wed, 2015-03-25 00:53
4
1,583 by rmoretti
Tue, 2015-03-31 08:20
Normal topic Total score problems with high-res ddg_monomer
by jklesmith » Tue, 2015-03-10 15:54
2
1,262 by jennifer
Fri, 2015-03-27 05:56
Normal topic Design a peptide linked to small molecule ligand
by shaunmk » Mon, 2015-03-02 09:05
1
989 by rmoretti
Wed, 2015-03-25 12:39
Normal topic References where Rosetta is used to compute ddG of binding after mutation?
by cossio » Tue, 2015-03-17 05:13
1
1,042 by rmoretti
Wed, 2015-03-25 11:33
Normal topic Calculate_protein_protein_ddg
by kamau » Fri, 2015-01-30 11:27
2
1,095 by deepanshuiitb
Thu, 2015-03-19 19:14
Normal topic Floppy tail: sidechain mutation during calculation
by syoifczeri » Mon, 2015-03-09 19:01
2
1,181 by syoifczeri
Tue, 2015-03-10 23:08
Normal topic ddg_monomer: How the ddG is actually calculated based on the 50 trajectories? What scorefunction is used?
by lanselibai » Tue, 2015-02-24 02:38
4
2,484 by lanselibai
Sun, 2015-03-01 15:00
Normal topic Filter ddg_filter reports failure!
by deepanshuiitb » Fri, 2015-02-27 18:19
2
1,036 by deepanshuiitb
Sat, 2015-02-28 19:24
Normal topic Executing the clean_pdb.py script
by Rkfoury » Fri, 2015-02-20 10:16
1
1,225 by lanselibai
Tue, 2015-02-24 02:36
Normal topic Pmut_scan with symmetry
by felipet » Thu, 2015-02-05 08:53
5
1,969 by felipet
Wed, 2015-02-11 05:13
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
881 by rmoretti
Mon, 2015-02-09 12:33
Normal topic Is there a way to restrict memory usage of ddg_monomer?
by cossio » Fri, 2015-01-30 14:35
5
1,715 by rmoretti
Mon, 2015-02-09 12:04
Normal topic minirosetta: how to reserve (inter-chain) disulfides after relax ?
by lanselibai » Sat, 2015-01-24 10:56
0
917 by lanselibai
Thu, 2015-01-29 00:50
Hot topic Ab initio with multiple metal ions
by cheyuk » Sun, 2013-12-29 17:58
19
8,632 by masterofpuppets
Tue, 2015-01-27 04:26
Normal topic extract_pdbs fails to open silent file when -auto_setup_metals enabled
by attesor » Thu, 2015-01-15 03:22
4
1,912 by attesor
Tue, 2015-01-27 02:20
Normal topic Relax with a ligand is messing up the coordinates of the ligand
by brspurri » Sat, 2015-01-24 12:39
1
1,048 by rmoretti
Mon, 2015-01-26 12:15
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
1,179 by lanselibai
Wed, 2015-01-21 02:40
Normal topic Different scoring applications (score vs score_aln vs score_jd2, etc.)?
by cossio » Fri, 2014-12-26 07:19
2
1,315 by cossio
Tue, 2015-01-20 06:40
Normal topic Reproduce Robetta's ddg values of interface alanine scan using Rosetta?
by cossio » Mon, 2015-01-19 07:14
0
1,813 by cossio
Mon, 2015-01-19 07:14
Normal topic How to output all iteration structures from ddg_monomer?
by cossio » Fri, 2014-12-26 13:40
4
1,678 by cossio
Mon, 2015-01-19 07:10
Normal topic FloppyTail as a rosettascripts file
by tiagogomes89 » Mon, 2015-01-19 02:45
0
530 by tiagogomes89
Mon, 2015-01-19 02:45
Normal topic remodel: what are the exact meanings of notations for secondary structure?
by lanselibai » Sat, 2015-01-17 04:53
0
533 by lanselibai
Sat, 2015-01-17 07:57
Normal topic Does relax.linuxgccrelease fully relax the structure compared to ddg_monomer.linuxgccrelease?
by lanselibai » Thu, 2015-01-08 03:23
3
1,256 by lanselibai
Tue, 2015-01-13 14:25
Normal topic ddg_monomer with -ddg::local_opt_only true, will it affect other chains that are close?
by cossio » Fri, 2014-12-26 13:11
1
769 by rmoretti
Tue, 2015-01-13 07:44
Normal topic ddg_monomer: if MPI executable is reproducible and efficient?
by lanselibai » Sun, 2015-01-11 09:48
0
526 by lanselibai
Sun, 2015-01-11 10:50
Normal topic "ddg_monomer.linuxgccrelease" by following "High Resolution Protocol"
by lanselibai » Wed, 2014-10-01 09:54
7
4,687 by lanselibai
Sat, 2015-01-03 08:18
Normal topic Segmentation fault when running Abinito Relax
by Hongtham » Mon, 2014-12-15 07:16
1
1,219 by rmoretti
Fri, 2015-01-02 11:45
Normal topic score application
by Hongtham » Tue, 2014-12-23 06:38
1
676 by rmoretti
Fri, 2015-01-02 11:06
Normal topic Docking with constraint
by Hongtham » Sat, 2014-12-27 09:56
2
981 by rmoretti
Fri, 2015-01-02 09:43
Normal topic algebric library for rosetta
by yigallah » Mon, 2014-12-15 08:46
0
489 by yigallah
Mon, 2014-12-15 08:46
Normal topic csrosetta.org login
by jfeuva » Tue, 2014-12-09 14:49
0
23,373 by jfeuva
Tue, 2014-12-09 14:49
Normal topic Checkpoint with rosetta3.4
by AmelieH » Mon, 2014-12-01 15:51
1
807 by rmoretti
Wed, 2014-12-03 19:07
Normal topic crazy loopmodel: linear output pdbs
by fred » Wed, 2014-12-03 12:27
0
525 by fred
Wed, 2014-12-03 12:28
Hot topic Syntax for relax.linuxgccrelease
by lanselibai » Wed, 2014-09-24 04:34
18
9,723 by lanselibai
Tue, 2014-12-02 09:46
Normal topic If "clustering.py" can be used for PDBs contain two chains?
by lanselibai » Wed, 2014-11-05 06:05
7
2,381 by lanselibai
Tue, 2014-12-02 09:43
Normal topic Error encountered during Rosetta loop modeling
by max » Tue, 2014-11-25 02:17
3
1,316 by max
Thu, 2014-11-27 02:56
Normal topic Instructing design scripts to use noncanonical AA instead of canonical
by zcrook » Tue, 2014-11-25 10:43
1
655 by rmoretti
Wed, 2014-11-26 07:51
Normal topic Disulfide prediction from primary sequence
by zcrook » Wed, 2014-11-12 14:44
2
1,868 by zcrook
Tue, 2014-11-25 10:27
Normal topic Antibody protocol: unusual antibodies, and chainbreaks
by Cyril Cros » Mon, 2014-07-21 17:03
5
2,477 by Cyril Cros
Tue, 2014-11-25 08:21
Normal topic Steric clashes in RNA minimization
by brianmlee » Tue, 2014-11-18 18:29
5
2,353 by brianmlee
Mon, 2014-11-24 19:40
Normal topic scoring of beta sandwich protein
by attesor » Mon, 2014-11-17 08:24
6
1,924 by rmoretti
Thu, 2014-11-20 10:46
Normal topic Syntax for python-based (.py) command line on cluster
by lanselibai » Fri, 2014-11-14 09:32
2
3,062 by lanselibai
Thu, 2014-11-20 02:15
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