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Rosetta 3 - General

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Sticky topic Sticky: FAQ
by admin » Mon, 2010-08-30 04:16
0
7,851 by admin
Fri, 2015-09-04 16:17
Hot topic Re: Using a database of loop conformations together with de novo folding protocol (Page: 1, 2)
by bharat_46010 » Mon, 2013-03-25 01:47
55
54,640 by bharat_46010
Mon, 2014-04-21 06:47
Closed topic protein docking question (Page: 1, 2)
by bo » Tue, 2012-07-24 13:19
51
59,469 by rmoretti
Fri, 2015-07-03 13:29
Hot topic Re: Multigraft
by bharat_46010 » Wed, 2011-12-07 17:24
35
31,631 by rmoretti
Mon, 2014-04-21 06:47
Hot topic protein design question
by bo » Fri, 2012-08-24 10:41
33
33,549 by jyy
Wed, 2019-02-20 00:30
Hot topic RNA Denovo RMSD data
by eremma » Thu, 2012-08-02 01:40
31
26,397 by eremma
Mon, 2014-04-21 06:47
Hot topic Speeding up docking to a large complex
by skovacs » Thu, 2012-05-10 20:50
30
27,515 by smlewis
Mon, 2014-04-21 06:47
Hot topic SCons compilation error (Windows XP, 32bit)
by CRickert » Mon, 2009-08-03 00:57
28
24,521 by Marsia
Mon, 2014-04-21 06:47
Hot topic Fix back bone design fixbb
by Lindsay » Tue, 2012-03-06 12:30
26
22,371 by Anonymous
Mon, 2014-04-21 06:47
Hot topic problems with terminal caps
by omirus » Tue, 2013-06-25 08:55
26
28,655 by omirus
Mon, 2014-04-21 06:48
Hot topic Can't make NCAA's and D-aminoacids work
by jarek » Fri, 2012-10-26 09:10
26
24,224 by rmoretti
Mon, 2014-04-21 06:47
Hot topic mpi / jd2 with AbinitioRelax and relax (3.2)
by smg3d » Wed, 2011-02-09 10:39
25
24,366 by Gaurav_kumar
Mon, 2014-04-21 06:47
Hot topic New parametrization problems
by DmitriiN » Wed, 2016-06-08 05:09
25
20,350 by smlewis
Tue, 2016-06-28 09:05
Hot topic how to make benchmark?
by albumns » Wed, 2012-04-04 05:23
23
29,330 by rmoretti
Mon, 2014-04-21 06:47
Hot topic Collecting 3.2 documentation holes
by smlewis » Wed, 2011-01-26 10:39
23
18,881 by FrankVerdin86
Mon, 2014-04-21 06:47
Hot topic packstat in InterfaceAnalyzer
by Anonymous » Mon, 2012-08-20 03:19
22
18,729 by Anonymous
Mon, 2014-04-21 06:47
Hot topic about constraints
by jiongzhang » Wed, 2011-02-23 15:59
21
24,146 by rmoretti
Wed, 2015-02-18 09:23
Hot topic loop model error
by albumns » Sun, 2011-04-03 00:26
21
19,753 by rmoretti
Fri, 2015-12-18 14:26
Hot topic Is it possible to do alanine scanning in Rosetta 3.2.1.?
by monos_morpheus » Tue, 2011-04-12 02:36
21
21,490 by smlewis
Mon, 2014-04-21 06:47
Hot topic Modeling phosphate ion binding site in protein.
by bharat_46010 » Tue, 2011-05-17 19:08
19
19,874 by rmoretti
Mon, 2014-04-21 06:47
Hot topic RE: Loop Modeling and Beta-strand design
by bharat_46010 » Sun, 2012-02-12 16:34
19
16,171 by smlewis
Mon, 2014-04-21 06:47
Hot topic membrane abinitio on heteromultimeric complexes
by omirus » Fri, 2013-04-26 14:48
19
17,039 by pledor
Mon, 2014-04-21 06:47
Hot topic problem compiling rosetta3.1 in windows vista 32 bit using cygwin 1.7.5-1
by Marsia » Thu, 2010-07-22 22:49
18
15,585 by smlewis
Mon, 2014-04-21 06:47
Hot topic Creating centroid patches for Proline (pro_hydroxylated_case1 and pro_hydroxylated_case2)
by skovacs » Thu, 2012-05-10 20:10
18
17,103 by aaj
Fri, 2016-04-22 15:20
Hot topic Submit job in parallel : MPI and jd2 ?
by anusmita_sahoo » Wed, 2010-03-31 00:18
18
18,667 by jadolfbr
Wed, 2014-05-14 08:51
Hot topic modified Serine: FoldTree::reorder( 1 ) failed, new/old edge_list_ size mismatch error
by Karol » Wed, 2016-05-04 08:47
17
15,918 by smlewis
Tue, 2016-05-17 08:06
Hot topic high resolution protein docking doesn't work
by albumns » Thu, 2010-12-02 02:36
17
13,850 by albumns
Mon, 2014-04-21 06:47
Hot topic protein interface design for multi-chain complex
by jarod » Sun, 2013-05-05 23:18
16
15,403 by rmoretti
Mon, 2014-04-21 06:47
Hot topic Ligand Docking Positive Control: wt ligand
by Basantab » Thu, 2011-10-27 13:36
16
13,870 by Basantab
Mon, 2014-04-21 06:47
Hot topic Docking a protein into a symmetrical complex
by saxen » Fri, 2011-04-08 22:24
15
13,192 by saxen
Mon, 2014-04-21 06:47
Hot topic Steps to use D-amino acids
by tevang » Mon, 2012-09-10 15:42
15
16,197 by tevang
Mon, 2014-04-21 06:47
Hot topic ERROR: Option matching -s not found in command line top-level context
by xxx » Wed, 2011-04-20 05:38
15
19,301 by rmoretti
Mon, 2014-04-21 06:47
Normal topic How to relax only one domain of a protein and keep the rest of them fixed
by tevang » Sun, 2011-04-10 03:16
14
14,236 by smlewis
Mon, 2014-04-21 06:47
Normal topic ERROR when run prepacking pdbfile in Rosetta 3.4
by phanvy » Thu, 2014-04-17 00:04
14
14,559 by phanvy
Wed, 2014-06-18 07:50
Normal topic Warning when running cluster program
by Anonymous » Fri, 2012-06-15 02:39
14
11,438 by Anonymous
Mon, 2014-04-21 06:47
Normal topic Ab Initio Modelling of Protein with Small-Molecule Cofactor
by jurkm » Thu, 2011-03-10 06:56
14
15,931 by jseco
Mon, 2021-03-08 03:46
Normal topic How to put rdc data in refinement protocol?
by zhisheng » Tue, 2012-11-20 03:55
13
11,697 by rmoretti
Mon, 2014-04-21 06:47
Normal topic fragment_picker problem
by adva » Tue, 2012-12-18 01:15
13
12,464 by sabine
Mon, 2014-04-21 06:47
Normal topic Copying angles (pose.set_phi()) from a substructure with the same sequence to pose doesn't produce the exact same substructure?
by resiros » Wed, 2012-08-22 07:20
13
10,614 by smlewis
Mon, 2014-04-21 06:47
Normal topic Modeling circular permutation and domain insertion
by bharat_46010 » Sun, 2011-04-10 19:54
13
11,296 by bharat_46010
Mon, 2014-04-21 06:47
Normal topic fixbb minimize sidechains with symmetric pose - recompile?
by Anonymous » Wed, 2012-08-22 06:14
13
10,792 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic lysine-aspartate isopeptide bond
by matteoferla » Tue, 2016-11-01 10:54
13
12,560 by ablakely7
Wed, 2019-09-11 15:33
Normal topic minirosetta segmentation fault
by sabine » Wed, 2013-12-11 13:08
13
16,002 by rmoretti
Tue, 2014-11-11 13:56
Normal topic ERROR: Assertion Fdensity.u2 and Fdensity.u3 failed
by ahmadkhalifa » Wed, 2017-12-06 07:38
13
8,773 by brandon.frenz
Thu, 2018-03-08 09:28
Normal topic Docking an iron atom to a peptide
by buzb » Wed, 2011-01-26 09:49
12
14,110 by smlewis
Mon, 2014-04-21 06:47
Normal topic covalent ligand docking in Rosetta
by rohi » Mon, 2021-06-07 06:39
12
11,249 by matteoferla
Wed, 2021-07-14 04:03
Normal topic I'm a total beginner to Rosetta 3.2 and there are no tutorials for me to follow. Can someone help.? =)
by monos_morpheus » Wed, 2011-02-02 08:11
12
10,937 by monos_morpheus
Mon, 2014-04-21 06:47
Normal topic make_fragment.pl Error!
by Apiwat » Sat, 2014-02-15 13:35
12
14,101 by Apiwat
Tue, 2014-03-11 09:42
Normal topic Why are all source codes .gz and not .tgz
by jasnyderjr » Tue, 2016-12-20 21:23
12
9,898 by smlewis
Thu, 2016-12-22 13:11
Normal topic Error when running FRAGMENT generation
by phanvy » Sat, 2014-09-20 17:53
12
13,396 by rmoretti
Mon, 2014-10-06 16:50
Normal topic Anyone here knows what is the protocol capture archive???????!!
by MajorID » Thu, 2011-06-02 01:50
12
12,129 by rmoretti
Fri, 2015-04-24 12:15
Normal topic Missing atoms, unable to fill in missing atoms
by kwu030 » Fri, 2023-05-05 12:58
12
2,708 by kwu030
Thu, 2023-05-18 08:31
Normal topic B1_SampleSegment1.sh from RosettaES tutorial crashes
by ab » Tue, 2017-07-04 08:42
12
9,187 by brandon.frenz
Sat, 2017-07-08 13:49
Normal topic How to obtain alignment file for comparative modeling under Rosetta 3.1?
by lennylv » Tue, 2010-05-25 01:29
11
17,221 by sabine
Mon, 2014-04-21 06:47
Normal topic InterfaceAnalyzer packstat score = 0.000
by vmc99 » Fri, 2018-11-16 11:30
11
8,425 by SenyorDrew
Wed, 2019-06-12 14:10
Normal topic Error when running prepack of PLEXPEPDOCKING
by phanvy » Wed, 2014-06-18 07:11
11
11,337 by G Mustafa
Fri, 2021-09-10 08:20
Normal topic What is the general protocol for antibody-antigen docking without the native antibody-antigen structures?
by Sunyp_IM » Sun, 2017-08-13 05:42
11
8,183 by smlewis
Tue, 2017-08-29 08:56
Normal topic Is it possible to do Abinitio folding from a linear structure.?
by monos_morpheus » Sat, 2011-04-16 09:13
11
9,406 by monos_morpheus
Mon, 2014-04-21 06:47
Normal topic Rosetta 3.1 compile error, Linux 32 bit
by viochemist » Thu, 2010-07-29 08:40
11
12,331 by smlewis
Mon, 2014-04-21 06:47
Normal topic CryoEM model refinement with covalent conjugated prosthetic Phosphopantetheine carrying acyl group
by ZhijunW » Thu, 2020-09-03 18:36
11
5,883 by matteoferla
Sat, 2020-09-12 03:02
Normal topic AB INITIO WITH METALLOPROTEIN
by kaue » Sun, 2012-06-17 14:04
11
12,444 by masterofpuppets
Tue, 2015-02-10 01:33
Normal topic Histidine protonation
by DmitriiN » Mon, 2016-09-26 13:15
11
18,152 by rmoretti
Mon, 2018-01-15 15:37
Normal topic -dock_pert problem
by mahajanr » Mon, 2010-07-19 15:45
11
10,821 by weitzner
Mon, 2014-04-21 06:47
Normal topic type of docking
by rohi » Mon, 2020-07-06 06:55
11
7,747 by rohi
Sun, 2020-07-26 17:03
Normal topic How to do ab initio with fixed part of protein
by eunwook » Tue, 2013-04-16 03:00
11
12,251 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Constraints in Loop Modeling
by Julix » Wed, 2012-12-05 07:08
11
10,418 by rmoretti
Mon, 2014-04-21 06:47
Normal topic fragment-based loop modeling to get a helix at the loop site
by berk » Wed, 2013-05-29 06:00
11
10,159 by rmoretti
Mon, 2014-04-21 06:47
Normal topic how to design a protein complex
by Lindsay » Tue, 2013-11-05 20:24
11
12,465 by Lindsay
Mon, 2014-04-21 06:48
Normal topic Remote access to Rosetta on Blue Gene or another HPC system?
by rfieldhouse » Mon, 2011-05-16 08:40
10
9,222 by rfieldhouse
Mon, 2014-04-21 06:47
Normal topic error during docking
by zhisheng » Thu, 2012-02-02 12:10
10
9,204 by smlewis
Mon, 2014-04-21 06:47
Normal topic Using Degenerate Protons in Rosetta3.x
by jurkm » Wed, 2011-06-08 03:25
10
11,133 by jurkm
Mon, 2014-04-21 06:47
Normal topic Relax Refinement for complecated targets
by jiongzhang » Fri, 2012-01-20 09:57
10
8,014 by jiongzhang
Mon, 2014-04-21 06:47
Normal topic latest version of rosetta--unable to build models
by pramod » Mon, 2014-11-03 11:40
10
10,681 by jadolfbr
Wed, 2014-11-26 11:40
Normal topic disulfide bonds using abinitio folding module
by crfenollar » Wed, 2010-02-24 03:26
10
12,956 by lanselibai
Tue, 2015-02-10 14:03
Normal topic Modeling of a Multi-Domain Dimer
by jurkm » Mon, 2011-08-29 01:39
10
10,951 by jurkm
Mon, 2014-04-21 06:47
Normal topic ERROR: Unused "free" argument specified: GDP.fa.tors
by ahmadkhalifa » Fri, 2018-06-15 11:27
10
8,037 by smlewis
Tue, 2018-06-19 09:28
Normal topic Does the fold count reset if abinitio is restarted?
by burkheadlab » Mon, 2011-06-13 11:39
10
9,598 by rmoretti
Thu, 2017-02-02 08:32
Normal topic what is "-relax:sequence" ?
by Anonymous » Fri, 2012-06-08 06:31
10
9,043 by smlewis
Mon, 2014-04-21 06:47
Normal topic How do you implement phosphoserine in ab -initio folding?
by smiruthi » Fri, 2011-12-16 14:45
10
9,836 by brspurri
Mon, 2014-04-21 06:47
Normal topic pNNMAKE compilation
by adva » Sun, 2012-12-02 03:59
10
8,728 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta reference energy
by Lindsay » Mon, 2012-05-07 07:56
9
9,346 by Lindsay
Mon, 2014-04-21 06:47
Normal topic MPI stall
by jadolfbr » Thu, 2013-10-10 18:59
9
10,361 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic Change in binding energy after mutation in interface?
by cossio » Mon, 2014-12-01 06:27
9
11,120 by rmoretti
Thu, 2015-04-30 16:25
Normal topic flexible backbone design (fixbb+relax)
by sdh_h » Mon, 2013-02-04 03:19
9
11,702 by gsmurphy
Mon, 2014-04-21 06:47
Normal topic Running a ReportFSC mover between two .mrc maps
by ahmadkhalifa » Mon, 2018-03-12 07:52
9
6,009 by brandon.frenz
Tue, 2018-03-20 10:28
Normal topic Can Fold-and-dock protocol applied to membrane proteins
by justin » Thu, 2011-07-21 00:14
9
9,203 by wangyr
Mon, 2014-04-21 06:47
Normal topic AbinitioRelax with very small peptides
by jamsmad » Tue, 2012-09-04 13:45
9
9,337 by jamsmad
Mon, 2014-04-21 06:47
Normal topic energy minimization of loop only
by jtmacd » Wed, 2011-01-12 07:09
9
10,602 by lanselibai
Wed, 2014-10-15 01:41
Normal topic Clustering using an disrupted run silent file
by PaulaBanks » Mon, 2013-07-15 02:19
9
8,447 by rmoretti
Wed, 2014-09-24 09:57
Normal topic input_score_filter not taken by program cluster ?
by Anonymous » Mon, 2012-06-11 09:14
9
8,933 by attesor
Fri, 2014-10-31 04:49
Normal topic Loop Modeling with fixed backbone
by bharat_46010 » Mon, 2011-12-19 05:20
9
8,573 by bharat_46010
Mon, 2014-04-21 06:47
Normal topic is it possible to generate models without hydrogen?
by albumns » Fri, 2012-03-02 12:24
9
8,204 by albumns
Mon, 2014-04-21 06:47
Normal topic How to calculate the binding energy of peptide and a protein?
by tianbu » Thu, 2014-02-13 20:44
9
11,014 by tianbu
Mon, 2014-02-17 03:36
Normal topic Problems with "pdb_renumber.py" in tutorial Advanced Protein-Protein Docking
by Sunyp_IM » Sun, 2017-06-25 02:40
9
8,719 by ac.research
Mon, 2018-05-14 10:20
Normal topic How to get multiple chains in PDB from Fold and Dock
by arthuc01 » Tue, 2012-05-29 02:05
9
9,103 by arthuc01
Mon, 2014-04-21 06:47
Normal topic Re: Protein-RNA interface design
by bharat_46010 » Tue, 2015-04-07 04:44
9
8,925 by rmoretti
Mon, 2015-06-01 15:27
Normal topic kinematic loop modeling/sequence design keeps crashing with segmentation fault
by banshee » Thu, 2013-03-28 09:52
8
8,273 by smlewis
Mon, 2014-04-21 06:47
Normal topic Submitting job to local cluster
by tusharranjanmoharana » Fri, 2016-04-15 01:38
8
9,756 by rmoretti
Mon, 2016-05-09 09:23
Normal topic how to design binding interface?
by Lindsay » Mon, 2013-12-02 19:06
8
10,458 by rmoretti
Tue, 2019-07-09 12:50
Normal topic Error with non-canonical amino acid in SnugDock.
by sk0319 » Thu, 2016-12-29 16:12
8
7,156 by sk0319
Wed, 2017-01-11 10:52

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