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Rosetta 3 - General

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Sticky topic Sticky: FAQ
by admin » Mon, 2010-08-30 04:16
0
7,143 by admin
Fri, 2015-09-04 16:17
Closed topic protein docking question (Page: 1, 2)
by bo » Tue, 2012-07-24 13:19
51
48,533 by rmoretti
Fri, 2015-07-03 13:29
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
43,816 by bharat_46010
Mon, 2014-04-21 06:47
Normal topic ddg energy components
by japgar » Tue, 2010-07-13 13:20
1
32,469 by smlewis
Mon, 2014-04-21 06:47
Hot topic protein design question
by bo » Fri, 2012-08-24 10:41
33
26,818 by jyy
Wed, 2019-02-20 00:30
Hot topic Re: Multigraft
by bharat_46010 » Wed, 2011-12-07 17:24
35
25,829 by rmoretti
Mon, 2014-04-21 06:47
Hot topic problems with terminal caps
by omirus » Tue, 2013-06-25 08:55
26
23,062 by omirus
Mon, 2014-04-21 06:48
Hot topic how to make benchmark?
by albumns » Wed, 2012-04-04 05:23
23
23,029 by rmoretti
Mon, 2014-04-21 06:47
Hot topic Speeding up docking to a large complex
by skovacs » Thu, 2012-05-10 20:50
30
22,393 by smlewis
Mon, 2014-04-21 06:47
Hot topic RNA Denovo RMSD data
by eremma » Thu, 2012-08-02 01:40
31
21,407 by eremma
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
19,891 by Gaurav_kumar
Mon, 2014-04-21 06:47
Hot topic about constraints
by jiongzhang » Wed, 2011-02-23 15:59
21
19,808 by rmoretti
Wed, 2015-02-18 09:23
Hot topic SCons compilation error (Windows XP, 32bit)
by CRickert » Mon, 2009-08-03 00:57
28
19,059 by Marsia
Mon, 2014-04-21 06:47
Hot topic Can't make NCAA's and D-aminoacids work
by jarek » Fri, 2012-10-26 09:10
26
18,922 by rmoretti
Mon, 2014-04-21 06:47
Hot topic Fix back bone design fixbb
by Lindsay » Tue, 2012-03-06 12:30
26
18,075 by Anonymous
Mon, 2014-04-21 06:47
Hot topic Is it possible to do alanine scanning in Rosetta 3.2.1.?
by monos_morpheus » Tue, 2011-04-12 02:36
21
17,545 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
16,884 by rmoretti
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
16,418 by rmoretti
Mon, 2014-04-21 06:47
Hot topic loop model error
by albumns » Sun, 2011-04-03 00:26
21
15,877 by rmoretti
Fri, 2015-12-18 14:26
Hot topic New parametrization problems
by DmitriiN » Wed, 2016-06-08 05:09
25
15,464 by smlewis
Tue, 2016-06-28 09:05
Hot topic Collecting 3.2 documentation holes
by smlewis » Wed, 2011-01-26 10:39
23
15,336 by FrankVerdin86
Mon, 2014-04-21 06:47
Hot topic Submit job in parallel : MPI and jd2 ?
by anusmita_sahoo » Wed, 2010-03-31 00:18
18
15,151 by jadolfbr
Wed, 2014-05-14 08:51
Normal topic Rosetta3 Tutorials
by smlewis » Fri, 2011-11-18 07:33
8
15,132 by rmoretti
Tue, 2019-07-09 10:24
Normal topic Conversion from Dihedral angle representation to Cartesian representation
by rodrigo.faccioli » Sat, 2012-02-25 11:57
3
15,106 by charlie.strauss
Fri, 2016-09-02 10:08
Normal topic Moving Rosetta to C++11 standard
by smlewis » Wed, 2012-02-29 12:30
1
14,994 by rmoretti
Sat, 2015-09-05 12:10
Hot topic packstat in InterfaceAnalyzer
by Anonymous » Mon, 2012-08-20 03:19
22
14,916 by Anonymous
Mon, 2014-04-21 06:47
Normal topic How to obtain alignment file for comparative modeling under Rosetta 3.1?
by lennylv » Tue, 2010-05-25 01:29
11
14,691 by sabine
Mon, 2014-04-21 06:47
Normal topic Histidine protonation
by DmitriiN » Mon, 2016-09-26 13:15
11
13,866 by rmoretti
Mon, 2018-01-15 15:37
Hot topic Creating centroid patches for Proline (pro_hydroxylated_case1 and pro_hydroxylated_case2)
by skovacs » Thu, 2012-05-10 20:10
18
13,813 by aaj
Fri, 2016-04-22 15:20
Normal topic how to make a combined PDB file?
by fenghc » Mon, 2013-04-01 06:27
3
13,620 by smlewis
Mon, 2014-04-21 06:47
Hot topic membrane abinitio on heteromultimeric complexes
by omirus » Fri, 2013-04-26 14:48
19
13,453 by pledor
Mon, 2014-04-21 06:47
Normal topic talaris2013 energy terms modifications
by peony » Sat, 2013-11-23 02:48
8
13,391 by rmoretti
Mon, 2014-04-21 06:48
Hot topic RE: Loop Modeling and Beta-strand design
by bharat_46010 » Sun, 2012-02-12 16:34
19
13,364 by smlewis
Mon, 2014-04-21 06:47
Normal topic minirosetta segmentation fault
by sabine » Wed, 2013-12-11 13:08
13
13,200 by rmoretti
Tue, 2014-11-11 13:56
Normal topic Ab Initio Modelling of Protein with Small-Molecule Cofactor
by jurkm » Thu, 2011-03-10 06:56
14
12,972 by jseco
Mon, 2021-03-08 03:46
Hot topic Steps to use D-amino acids
by tevang » Mon, 2012-09-10 15:42
15
12,954 by tevang
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
12,656 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to extract specific pdb from silent files
by eunwook » Tue, 2013-05-14 05:29
5
12,633 by nawsad
Mon, 2014-04-21 06:47
Hot topic modified Serine: FoldTree::reorder( 1 ) failed, new/old edge_list_ size mismatch error
by Karol » Wed, 2016-05-04 08:47
17
12,095 by smlewis
Tue, 2016-05-17 08:06
Hot topic protein interface design for multi-chain complex
by jarod » Sun, 2013-05-05 23:18
16
11,979 by rmoretti
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
11,844 by phanvy
Wed, 2014-06-18 07:50
Normal topic Docking an iron atom to a peptide
by buzb » Wed, 2011-01-26 09:49
12
11,527 by smlewis
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
11,503 by smlewis
Mon, 2014-04-21 06:47
Normal topic How do I add hydrogen atoms to my PDB file?
by monos_morpheus » Wed, 2011-03-30 03:30
6
11,368 by rmoretti
Mon, 2014-04-21 06:47
Normal topic make_fragment.pl Error!
by Apiwat » Sat, 2014-02-15 13:35
12
11,277 by Apiwat
Tue, 2014-03-11 09:42
Hot topic high resolution protein docking doesn't work
by albumns » Thu, 2010-12-02 02:36
17
11,256 by albumns
Mon, 2014-04-21 06:47
Hot topic Ligand Docking Positive Control: wt ligand
by Basantab » Thu, 2011-10-27 13:36
16
11,081 by Basantab
Mon, 2014-04-21 06:47
Normal topic disulfide bonds using abinitio folding module
by crfenollar » Wed, 2010-02-24 03:26
10
10,931 by lanselibai
Tue, 2015-02-10 14:03
Normal topic Error when running FRAGMENT generation
by phanvy » Sat, 2014-09-20 17:53
12
10,855 by rmoretti
Mon, 2014-10-06 16:50
Hot topic Docking a protein into a symmetrical complex
by saxen » Fri, 2011-04-08 22:24
15
10,804 by saxen
Mon, 2014-04-21 06:47
Normal topic AB INITIO WITH METALLOPROTEIN
by kaue » Sun, 2012-06-17 14:04
11
10,262 by masterofpuppets
Tue, 2015-02-10 01:33
Normal topic how to design a protein complex
by Lindsay » Tue, 2013-11-05 20:24
11
10,237 by Lindsay
Mon, 2014-04-21 06:48
Normal topic fragment_picker problem
by adva » Tue, 2012-12-18 01:15
13
10,139 by sabine
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
10,128 by smlewis
Mon, 2014-04-21 06:47
Normal topic error about 'std::bad_alloc' during running
by zhisheng » Mon, 2011-01-10 09:45
4
9,970 by smlewis
Mon, 2014-04-21 06:47
Normal topic Anyone here knows what is the protocol capture archive???????!!
by MajorID » Thu, 2011-06-02 01:50
12
9,828 by rmoretti
Fri, 2015-04-24 12:15
Normal topic AbinitioRelax using multiple cores on a single machine without mpi?
by JoG » Tue, 2011-10-25 00:40
7
9,826 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to do ab initio with fixed part of protein
by eunwook » Tue, 2013-04-16 03:00
11
9,770 by rmoretti
Mon, 2014-04-21 06:47
Normal topic flexible backbone design (fixbb+relax)
by sdh_h » Mon, 2013-02-04 03:19
9
9,433 by gsmurphy
Mon, 2014-04-21 06:47
Normal topic Energy Calculation in Rosetta3.4
by sdg_lab » Thu, 2012-04-12 04:49
6
9,343 by rmoretti
Mon, 2014-04-21 06:47
Normal topic lysine-aspartate isopeptide bond
by matteoferla » Tue, 2016-11-01 10:54
13
9,230 by ablakely7
Wed, 2019-09-11 15:33
Normal topic How to put rdc data in refinement protocol?
by zhisheng » Tue, 2012-11-20 03:55
13
9,180 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Modeling circular permutation and domain insertion
by bharat_46010 » Sun, 2011-04-10 19:54
13
9,164 by bharat_46010
Mon, 2014-04-21 06:47
Normal topic Warning when running cluster program
by Anonymous » Fri, 2012-06-15 02:39
14
9,163 by Anonymous
Mon, 2014-04-21 06:47
Normal topic Using Degenerate Protons in Rosetta3.x
by jurkm » Wed, 2011-06-08 03:25
10
9,149 by jurkm
Mon, 2014-04-21 06:47
Normal topic Change in binding energy after mutation in interface?
by cossio » Mon, 2014-12-01 06:27
9
9,113 by rmoretti
Thu, 2015-04-30 16:25
Normal topic nr.fasta
by silvia » Wed, 2013-01-23 10:08
5
9,109 by dgront
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
9,028 by tianbu
Mon, 2014-02-17 03:36
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
8,934 by monos_morpheus
Mon, 2014-04-21 06:47
Normal topic what is minirosetta
by Lindsay » Tue, 2012-04-10 07:48
2
8,931 by Lindsay
Mon, 2014-04-21 06:47
Normal topic Modeling of a Multi-Domain Dimer
by jurkm » Mon, 2011-08-29 01:39
10
8,868 by jurkm
Mon, 2014-04-21 06:47
Normal topic how to design binding interface?
by Lindsay » Mon, 2013-12-02 19:06
8
8,761 by rmoretti
Tue, 2019-07-09 12:50
Normal topic Error when running prepack of PLEXPEPDOCKING
by phanvy » Wed, 2014-06-18 07:11
11
8,752 by G Mustafa
Fri, 2021-09-10 08:20
Normal topic fixbb minimize sidechains with symmetric pose - recompile?
by Anonymous » Wed, 2012-08-22 06:14
13
8,744 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic How to deal with Cu-as a ligand or as part of the receptor?
by hanypao » Fri, 2011-09-30 18:50
7
8,692 by rmoretti
Mon, 2014-04-21 06:47
Normal topic about Residue Number in Rosetta
by jiongzhang » Mon, 2012-06-11 14:58
7
8,665 by smlewis
Mon, 2014-04-21 06:47
Normal topic energy minimization of loop only
by jtmacd » Wed, 2011-01-12 07:09
9
8,598 by lanselibai
Wed, 2014-10-15 01:41
Normal topic -dock_pert problem
by mahajanr » Mon, 2010-07-19 15:45
11
8,571 by weitzner
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
8,528 by jadolfbr
Wed, 2014-11-26 11:40
Normal topic MPI stall
by jadolfbr » Thu, 2013-10-10 18:59
9
8,467 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic Constraints in Loop Modeling
by Julix » Wed, 2012-12-05 07:08
11
8,455 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Change the number of residues on pdb file!
by phanvy » Tue, 2014-04-15 23:26
3
8,432 by rmoretti
Mon, 2015-02-09 09:09
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
8,411 by smlewis
Mon, 2014-04-21 06:47
Normal topic relax structure before design?
by Lindsay » Tue, 2013-11-05 20:50
7
8,169 by rmoretti
Mon, 2014-04-21 06:48
Normal topic RosettaMatch
by jtmacd » Wed, 2012-01-11 06:50
5
8,079 by jtmacd
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
7,967 by rmoretti
Mon, 2014-04-21 06:47
Normal topic memory issue rosetta3.4 scripts
by ast » Mon, 2013-01-28 06:25
8
7,931 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to run Rosetta3 in parallel
by lennylv » Mon, 2009-03-30 04:21
6
7,926 by rmoretti
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
7,908 by brspurri
Mon, 2014-04-21 06:47
Normal topic Submitting job to local cluster
by tusharranjanmoharana » Fri, 2016-04-15 01:38
8
7,724 by rmoretti
Mon, 2016-05-09 09:23
Normal topic Error when renumbering PDB
by dzhao » Wed, 2012-07-18 01:03
7
7,663 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Does the fold count reset if abinitio is restarted?
by burkheadlab » Mon, 2011-06-13 11:39
10
7,653 by rmoretti
Thu, 2017-02-02 08:32
Normal topic Is it possible to do Abinitio folding from a linear structure.?
by monos_morpheus » Sat, 2011-04-16 09:13
11
7,651 by monos_morpheus
Mon, 2014-04-21 06:47
Normal topic Docking double-stranded DNA to a protein
by xpzhang » Tue, 2012-01-31 12:35
5
7,649 by xpzhang
Mon, 2014-04-21 06:47
Normal topic Help with get_pdb.py for PDB file cleaning
by lzx32 » Mon, 2011-03-28 02:11
7
7,625 by smlewis
Mon, 2014-04-21 06:47
Normal topic Remote access to Rosetta on Blue Gene or another HPC system?
by rfieldhouse » Mon, 2011-05-16 08:40
10
7,609 by rfieldhouse
Mon, 2014-04-21 06:47
Normal topic Rosetta reference energy
by Lindsay » Mon, 2012-05-07 07:56
9
7,607 by Lindsay
Mon, 2014-04-21 06:47
Normal topic AbinitioRelax with very small peptides
by jamsmad » Tue, 2012-09-04 13:45
9
7,573 by jamsmad
Mon, 2014-04-21 06:47
Normal topic acceptable RMSD value in the clustered structures?
by ritacc18 » Wed, 2013-06-19 14:53
3
7,570 by rmoretti
Mon, 2014-04-21 06:48
Normal topic How to input constraints?
by violetsha7 » Wed, 2009-05-13 00:13
7
7,545 by smlewis
Mon, 2014-04-21 06:47

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