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Rosetta 3 - Applications

Topic / Topic starter Replies Viewssort descending Last post
Normal topic Enzdes score file discrepancy between generated pdb and scores.out
by eyong123 » Wed, 2015-03-25 08:52
6
7,256 by eyong123
Mon, 2015-06-29 04:44
Normal topic ligand docking, how to combine some silent.out files into a silent_all.out file
by Ryhon Wang » Fri, 2013-12-06 01:53
6
7,288 by rmoretti
Wed, 2017-01-11 12:53
Normal topic SnugDock - What protocol should I use?
by dfcoelho » Tue, 2018-11-27 07:32
8
7,295 by dfcoelho
Wed, 2018-11-28 08:07
Normal topic How to find cluster core structure?
by assignfit » Thu, 2012-03-29 20:35
7
7,299 by attesor
Wed, 2017-06-14 07:32
Normal topic RosettaCM Biological Assembly
by jrcf » Mon, 2015-10-26 11:01
5
7,321 by rmoretti
Tue, 2015-11-24 15:30
Normal topic "OSError: [Errno 2]” in “clustering.py”
by lanselibai » Sat, 2014-10-11 14:30
4
7,424 by lanselibai
Fri, 2014-10-17 05:10
Normal topic Noncanonical amino acids
by wsgosal » Tue, 2014-03-18 05:29
8
7,474 by e3lm
Thu, 2022-05-26 12:51
Normal topic mover "RepackMinimize" does not support chains > 2?
by jarod » Mon, 2013-05-20 02:17
6
7,500 by jarod
Mon, 2014-04-21 06:47
Normal topic RosettaRemodel can not work now?
by myputer » Tue, 2013-08-13 16:56
7
7,502 by rmoretti
Mon, 2014-04-21 06:48
Normal topic segmentation fault after core.kinematics.FoldTree in homology modeling
by pdbb » Mon, 2012-10-08 14:27
7
7,502 by rmoretti
Mon, 2014-04-21 06:47
Normal topic problem creating lips4 file using run_lips.pl
by adva » Sun, 2015-02-15 06:22
5
7,518 by linucks
Mon, 2016-06-20 12:02
Normal topic Abinitio (3.4) Error: no fragment to compute secondary structure
by skovacs » Tue, 2012-09-18 13:49
6
7,537 by skovacs
Mon, 2014-04-21 06:47
Normal topic Abinitio Relax Error from -kill_hairpins
by attesor » Tue, 2014-10-28 05:33
7
7,560 by rmoretti
Tue, 2014-11-04 10:28
Normal topic About scorefunction.
by Run » Mon, 2013-09-09 23:08
7
7,565 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Incorrect Jump being set in RosettaScripts docking mover
by weehee » Fri, 2012-06-08 10:23
6
7,612 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Including waters in RosettaCM
by ajkal » Thu, 2017-04-27 11:59
9
7,649 by rpavlov
Tue, 2017-06-06 11:45
Normal topic parameterizing new residues
by chiendarret » Fri, 2012-02-03 22:59
3
7,658 by rmoretti
Mon, 2014-04-21 06:47
Normal topic protein structure prediction using relax -- high-powered jobs
by rfieldhouse » Mon, 2011-05-30 18:29
7
7,666 by dimaio
Mon, 2014-04-21 06:47
Normal topic Error while running "make_fragments.pl".....[blastpgp] ERROR: Arguments must start with '-'
by AG88 » Thu, 2011-11-03 01:25
4
7,667 by weitzner
Mon, 2014-04-21 06:47
Normal topic symmetric docking and constraints
by ytao » Thu, 2013-05-02 12:08
5
7,677 by attesor
Wed, 2015-10-21 13:53
Normal topic An error with score app
by Genta » Tue, 2019-10-29 18:46
0
7,678 by Genta
Tue, 2019-10-29 18:46
Normal topic Problem about energy score
by tfliu » Tue, 2013-11-05 02:09
7
7,704 by Ora Schueler-Furman
Mon, 2014-04-21 06:48
Normal topic How can I prevent coordinates shift when using "loopmodel.linuxgccrelease"?
by lanselibai » Tue, 2014-11-04 14:56
7
7,735 by lanselibai
Wed, 2014-11-12 11:17
Normal topic Cannot get a negative score after relax
by kxiao » Tue, 2014-01-28 22:28
6
7,837 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Why do non proten ligands get a very high score in kinematic loop modeling/ in general?
by a_s_a » Wed, 2011-06-15 00:03
8
7,872 by a_s_a
Mon, 2014-04-21 06:47
Normal topic fixbb design using damped LJ
by Anonymous » Fri, 2012-08-17 03:51
8
7,904 by Anonymous
Mon, 2014-04-21 06:47
Normal topic Docking with constraints
by ytao » Tue, 2013-04-02 09:45
6
7,981 by smlewis
Mon, 2014-04-21 06:47
Normal topic [SOLVED]core.io.silent: [ WARNING ] ...
by fred » Wed, 2011-10-05 07:38
8
7,994 by fred
Mon, 2014-04-21 06:47
Normal topic cluster.mpi.linuxgccrelease failed
by fred » Mon, 2014-02-24 12:11
3
8,052 by fred
Thu, 2014-03-27 11:29
Normal topic Fold tree C->N: RosettaScripts
by aroop » Wed, 2013-02-13 10:31
8
8,094 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to define pi-pi stacking in cst file?
by lzx32 » Mon, 2011-07-04 23:47
6
8,108 by lzx32
Mon, 2014-04-21 06:47
Normal topic Distinctions between InterfaceAnalyzer and RosettaScript
by achambe » Wed, 2015-06-17 10:14
6
8,340 by rmoretti
Wed, 2015-09-02 12:43
Normal topic Inserting residues using RosettaRemodel
by eleishaj » Tue, 2015-11-24 08:54
7
8,405 by eyong123
Wed, 2015-12-09 07:17
Normal topic Ensemble Docking in Rosetta3.5?
by protos_heis » Fri, 2015-05-22 06:42
7
8,497 by protos_heis
Mon, 2015-06-08 07:00
Normal topic modeling phosphorylated residue
by rosetter » Fri, 2011-03-18 08:13
7
8,524 by smlewis
Mon, 2014-04-21 06:47
Normal topic rosetta_2013wk52: make_fragments.pl failed
by fred » Thu, 2014-01-30 12:41
6
8,594 by rmoretti
Fri, 2014-02-07 08:01
Normal topic problems in InterfaceAnalyzer analysis
by chenchaozhao » Fri, 2011-12-02 23:36
9
8,619 by smlewis
Mon, 2014-04-21 06:47
Normal topic cryptic error message from remodel in rosetta_scripts
by petrikigor » Mon, 2012-12-03 15:13
9
8,626 by petrikigor
Mon, 2014-04-21 06:47
Normal topic to create the template pdb file
by benniu2004 » Sat, 2012-12-29 23:04
8
8,643 by benniu2004
Mon, 2014-04-21 06:47
Normal topic Surface Docking Application Crash
by dkozuch » Sat, 2017-09-02 18:32
12
8,648 by Anpu
Tue, 2018-09-25 19:06
Normal topic Segmentation fault (core dumped) in rosetta_scripts.default.linuxgccrelease after blueprint file reading
by Corvin » Tue, 2020-06-30 00:36
12
8,695 by Corvin
Tue, 2020-11-10 01:22
Normal topic Where is the RosettaHoles2 executable?
by lah435 » Mon, 2012-06-04 15:15
11
8,723 by smlewis
Mon, 2014-04-21 06:47
Normal topic how to repacking loop while freezing other residues?
by jfhuang » Wed, 2012-07-25 06:59
10
8,769 by jfhuang
Mon, 2014-04-21 06:47
Normal topic Problems with Ligand Docking
by saxen » Fri, 2011-08-19 00:19
8
8,785 by glemmon
Mon, 2014-04-21 06:47
Normal topic loop re-modeling std::out_of_range
by rlwoltz » Tue, 2013-03-12 18:11
9
8,864 by smlewis
Mon, 2014-04-21 06:47
Normal topic neutral N-term and C-term
by nawsad » Sun, 2013-06-09 10:20
7
8,983 by helenah
Thu, 2020-10-08 05:29
Normal topic Rosetta residue design for DNA binding
by deltag » Wed, 2012-12-12 11:35
5
9,141 by deltag
Mon, 2014-04-21 06:47
Normal topic ORBITAL records in self generated .params (ligands)
by ast » Thu, 2014-03-06 07:22
9
9,147 by ast
Thu, 2014-03-13 07:17
Normal topic Should FastRelax be commented out in Calculate_protein_protein_ddg demo?
by cossio » Mon, 2016-10-31 12:01
11
9,415 by cossio
Mon, 2016-11-21 07:56
Normal topic Parse error while reading in XML file in ROSETTA Scripts
by rweisse » Fri, 2014-08-29 03:24
5
9,427 by a-eatemadi@razi...
Sun, 2017-08-06 03:49
Normal topic ab initio membrane error (frag9 file...)
by almeida » Mon, 2012-07-30 08:53
9
9,491 by rmoretti
Tue, 2014-08-12 08:15
Normal topic RosettaDNA error
by deltag » Fri, 2012-12-07 06:09
10
9,788 by deltag
Mon, 2014-04-21 06:47
Normal topic docking energies - deltadeltaG calculation
by ast » Fri, 2013-07-19 07:30
5
9,792 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Rosetta scoring
by Dimitrov » Thu, 2012-09-20 01:54
7
9,844 by attesor
Mon, 2014-04-21 06:47
Normal topic Syntax to build a silent file
by lanselibai » Fri, 2014-09-26 09:13
8
9,900 by lanselibai
Tue, 2014-09-30 03:45
Normal topic Don't know how to extract scores from a RNA de novo silent file.
by Basantab » Wed, 2011-11-23 17:27
10
9,940 by smlewis
Mon, 2014-04-21 06:47
Hot topic Folppy Tail and Constraints
by sfulad2 » Fri, 2017-05-12 12:23
15
10,099 by smlewis
Fri, 2017-09-08 09:16
Normal topic Missing "Bio.PDB" module when running "remove_loop_coords.py"
by lanselibai » Mon, 2014-09-29 04:34
6
10,212 by lanselibai
Wed, 2014-10-01 02:13
Normal topic Camelid antibody (VHH) modelling
by Ayoub Ksouri » Tue, 2017-04-04 22:52
13
10,486 by Ayoub Ksouri
Wed, 2017-04-19 15:16
Normal topic How to use -cst_fa_file and -relax:constrain_relax_to_native_coords at the same time
by Anatol » Thu, 2012-11-29 14:12
11
10,520 by smlewis
Mon, 2014-04-21 06:47
Normal topic Questions for "modeling_instructions.pdf" in "Homology or Loop Modelling"
by lanselibai » Sun, 2014-09-21 09:02
10
10,758 by lanselibai
Tue, 2014-10-07 02:58
Normal topic "ddg_monomer.linuxgccrelease" by following "High Resolution Protocol"
by lanselibai » Wed, 2014-10-01 09:54
7
10,774 by lanselibai
Sat, 2015-01-03 08:18
Normal topic fragment picker does not follow dihedral constraints
by attesor » Tue, 2016-05-24 23:22
12
10,845 by smlewis
Wed, 2016-08-17 07:56
Normal topic Error while running Enzyme Design
by saxen » Fri, 2011-10-21 15:46
11
10,963 by akpole
Mon, 2014-04-21 06:47
Normal topic A problem with "molfile_to_params.py"
by Rosettasz » Mon, 2013-08-19 19:35
10
11,088 by egecav
Mon, 2021-01-18 05:41
Normal topic AbinitioRelax usage (3.4)
by atruong » Fri, 2012-10-12 13:38
12
11,115 by atruong
Mon, 2014-04-21 06:47
Normal topic demo of molecular replacement with rosetta (mr_rosetta)
by wenchangyu2008 » Sun, 2011-03-20 05:23
8
11,148 by astrofunk12
Mon, 2014-04-21 06:47
Normal topic Runnig Abinitio & score app
by Gaurav_kumar » Wed, 2011-11-23 20:45
9
11,636 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Symmetry Docking and Clustering with Ligands
by skovacs » Wed, 2012-03-07 16:46
9
11,658 by Anonymous
Mon, 2014-04-21 06:47
Normal topic fixing disulfides in homolgy modeling
by pdbb » Wed, 2013-02-13 11:43
10
11,925 by kamau
Mon, 2014-09-22 09:39
Normal topic Ab-initio peptide-protein docking
by suhail » Sun, 2013-06-23 16:20
9
11,947 by rmoretti
Fri, 2016-04-29 08:57
Normal topic No output pdb files after docking protein and DNA/RNA
by yzq » Thu, 2012-10-25 08:23
11
12,054 by rmoretti
Fri, 2016-06-17 10:22
Normal topic [SOLVED] swamped memory
by fred » Fri, 2011-09-16 08:19
13
12,164 by fred
Mon, 2014-04-21 06:47
Hot topic Errors in Getting Erraser to run
by belousoff » Thu, 2017-06-01 16:13
15
12,281 by belousoff
Mon, 2017-06-26 16:46
Normal topic ddg_monomer problem
by deltag » Wed, 2012-04-04 07:53
11
12,306 by smlewis
Mon, 2014-04-21 06:47
Normal topic in silico affinity maturation design
by jarod » Mon, 2013-05-20 02:07
11
12,443 by jarod
Mon, 2014-04-21 06:47
Normal topic RosettaDock - Constraints File
by edpryor » Wed, 2012-09-19 06:23
9
12,612 by joeg
Mon, 2014-04-21 06:47
Normal topic About loophash and batchrelax.
by Run » Mon, 2013-07-22 23:54
14
13,156 by Run
Mon, 2014-04-21 06:48
Normal topic How to model missing residues on a protein from multiple PDB files?
by cossio » Fri, 2015-08-21 07:18
6
13,156 by rmoretti
Fri, 2015-09-11 13:27
Normal topic fragment_picker.mpi.linuxgccrelease can't find : libsqlite3.so
by starone » Mon, 2016-06-20 19:22
11
13,432 by starone
Fri, 2016-06-24 18:29
Normal topic Scoring residue vs. organic ligand
by almeida » Tue, 2014-04-08 12:18
12
13,696 by rmoretti
Thu, 2014-04-24 14:43
Normal topic loop_length_changing
by lanselibai » Tue, 2014-10-14 04:10
14
13,712 by lanselibai
Fri, 2014-11-07 02:06
Normal topic the extracted pdb file
by benniu2004 » Fri, 2013-01-04 17:55
12
13,809 by benniu2004
Mon, 2014-04-21 06:47
Normal topic Single Strand DNA (ssDNA) 3D structure prediction
by mkoohim » Fri, 2012-04-06 00:52
4
14,539 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta-Holes Scoring Function
by kroberts » Fri, 2011-05-13 14:05
11
14,710 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Problems when running Rosetta VIP with cofactors
by Basantab » Fri, 2013-04-26 13:31
14
14,952 by Basantab
Mon, 2014-04-21 06:47
Hot topic membrane scoring function performance
by tevang » Wed, 2013-03-20 08:40
15
15,060 by smlewis
Mon, 2014-04-21 06:47
Hot topic Fixbb Multiple Resfiles
by protos_heis » Mon, 2012-10-15 10:34
18
15,152 by protos_heis
Mon, 2014-04-21 06:47
Hot topic FloppyTail bugs for N-terminal tails
by Dave C » Thu, 2012-03-01 13:06
18
15,826 by bbarryabc
Mon, 2014-04-21 06:47
Normal topic Abinitio error: ERROR: Value of inactive option accessed: -in:file:frag9
by rlwoltz » Tue, 2012-09-18 14:04
11
16,200 by RAGHURAMAN
Fri, 2014-08-08 02:19
Hot topic rosettaCM not recognizing Mn atom
by banshee » Mon, 2016-09-12 23:33
20
16,533 by rmoretti
Wed, 2018-11-21 15:45
Normal topic ddg_monomer mutations list: How to specify chain ID?
by cossio » Tue, 2014-12-09 14:26
13
16,774 by rmoretti
Thu, 2016-04-28 16:43
Hot topic usage of score3
by Run » Sat, 2013-09-28 02:06
16
16,990 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic -kill_hairpin error
by jadolfbr » Wed, 2011-10-05 18:53
11
17,276 by rmoretti
Mon, 2015-09-28 15:00
Hot topic homology modeling with end extension
by fred » Mon, 2012-10-08 14:19
19
17,612 by xpzhang
Mon, 2014-04-21 06:47
Hot topic Run AbinitioRelax (rosetta 3.3) on cluster
by grisha » Mon, 2011-12-12 14:20
18
17,643 by grisha
Mon, 2014-04-21 06:47
Hot topic Garbled Ligands from docking_protocol
by skovacs » Tue, 2011-12-20 07:55
21
19,165 by skovacs
Mon, 2014-04-21 06:47
Hot topic A problem with RosettaLigand
by Rosettasz » Fri, 2013-07-19 16:09
16
19,178 by Rosettasz
Mon, 2014-04-21 06:48
Hot topic Rosetta Scripts: Loop Modeling w. Selective Repacking
by aroop » Mon, 2013-01-07 08:45
24
19,475 by aroop
Mon, 2014-04-21 06:47
Hot topic Ab initio with multiple metal ions
by cheyuk » Sun, 2013-12-29 17:58
19
20,239 by masterofpuppets
Tue, 2015-01-27 04:26
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