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Rosetta 3 - General

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Normal topic Rosetta forcefield terms and interpretation
by zigeuner » Sat, 2013-05-25 16:59
2
4,142 by rmoretti
Mon, 2014-04-21 06:47
Normal topic how to make a combined PDB file?
by fenghc » Mon, 2013-04-01 06:27
3
13,738 by smlewis
Mon, 2014-04-21 06:47
Normal topic side-chain refinement
by qlj » Wed, 2013-02-20 04:40
6
7,321 by qlj
Mon, 2014-04-21 06:47
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
45,146 by bharat_46010
Mon, 2014-04-21 06:47
Normal topic run:test_cycles
by ramin » Sun, 2013-03-10 11:05
1
1,691 by smlewis
Mon, 2014-04-21 06:47
Normal topic cluster pdb structures questions
by ritacc18 » Thu, 2013-03-28 19:20
5
6,018 by ritacc18
Mon, 2014-04-21 06:47
Normal topic What's a good application to thread a sequence over a peptide (of a peptide-protein complex) and minimize?
by brspurri » Tue, 2013-02-12 08:19
6
6,043 by smlewis
Mon, 2014-04-21 06:47
Normal topic is there a preferred way to enforce an hydrogen bond ?
by logandonaldson » Wed, 2013-03-20 13:14
2
2,232 by rmoretti
Mon, 2014-04-21 06:47
Normal topic ddG average energy
by dave » Wed, 2013-04-03 03:36
1
2,035 by rmoretti
Mon, 2014-04-21 06:47
Normal topic ab initio folding part of a protein
by attesor » Wed, 2013-03-06 04:39
1
1,822 by smlewis
Mon, 2014-04-21 06:47
Normal topic kinematic loop modeling/sequence design keeps crashing with segmentation fault
by banshee » Thu, 2013-03-28 09:52
8
6,870 by smlewis
Mon, 2014-04-21 06:47
Normal topic -loops:refine_repack_cycles option not accepted by loopmodel.linuxgccrelease
by tsjain » Tue, 2013-02-05 18:47
3
3,129 by tsjain
Mon, 2014-04-21 06:47
Normal topic create a centroid file from structure or NOE list
by logandonaldson » Wed, 2013-03-20 12:23
3
4,341 by smlewis
Mon, 2014-04-21 06:47
Normal topic Give diferent chain information for a single sequence (comparative modeling)
by Martin Floor » Tue, 2013-04-02 08:59
4
3,790 by Martin Floor
Mon, 2014-04-21 06:47
Normal topic jd2 time out error
by ytao » Mon, 2013-03-04 20:47
2
2,171 by ytao
Mon, 2014-04-21 06:47
Normal topic Is it CS-HM Rosetta restraint derivation i.e cm_scripts in Rosetta 3.3 bundles?
by nh_prt » Tue, 2013-03-26 12:22
3
2,866 by smlewis
Mon, 2014-04-21 06:47
Normal topic flexible backbone design (fixbb+relax)
by sdh_h » Mon, 2013-02-04 03:19
9
9,667 by gsmurphy
Mon, 2014-04-21 06:47
Normal topic multiple cst files
by logandonaldson » Wed, 2013-03-20 12:16
4
3,551 by logandonaldson
Mon, 2014-04-21 06:47
Normal topic Specifying sidechain NOE restraints in Relax!
by kalabharath » Mon, 2012-12-10 16:44
2
2,493 by kalabharath
Mon, 2014-04-21 06:47
Normal topic Residue variant types and fragments
by jadolfbr » Mon, 2013-01-21 09:01
2
2,683 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic "Local sequence-structure compatability" in "design of ideal protein structures"
by petrikigor » Sun, 2012-12-02 09:25
2
2,523 by petrikigor
Mon, 2014-04-21 06:47
Normal topic Membrane AbInitio
by coxford » Sat, 2012-12-22 05:06
0
2,183 by coxford
Mon, 2014-04-21 06:47
Normal topic Reading FE from 2PAH
by jadolfbr » Tue, 2013-01-29 16:10
5
5,353 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Constraints in Loop Modeling
by Julix » Wed, 2012-12-05 07:08
11
8,675 by rmoretti
Mon, 2014-04-21 06:47
Normal topic How to use RotamerDump to access one and two-body energy tables?
by msun » Wed, 2013-01-16 12:26
3
2,554 by msun
Mon, 2014-04-21 06:47
Normal topic pNNMAKE compilation
by adva » Sun, 2012-12-02 03:59
10
7,034 by smlewis
Mon, 2014-04-21 06:47
Normal topic Can I use the relax mode application for removing clashes in a membrane protein homology model?
by doranhen » Thu, 2012-12-20 05:45
2
2,404 by doranhen
Mon, 2014-04-21 06:47
Normal topic memory issue rosetta3.4 scripts
by ast » Mon, 2013-01-28 06:25
8
8,154 by smlewis
Mon, 2014-04-21 06:47
Normal topic Solving van der waals clashes in a transmembrane protein model with rosetta
by doranhen » Wed, 2012-12-05 00:12
3
3,063 by smlewis
Mon, 2014-04-21 06:47
Normal topic fixbb and HETATM
by doranhen » Mon, 2013-01-14 07:50
2
2,907 by doranhen
Mon, 2014-04-21 06:47
Normal topic How to put rdc data in refinement protocol?
by zhisheng » Tue, 2012-11-20 03:55
13
9,458 by rmoretti
Mon, 2014-04-21 06:47
Normal topic fragment_picker problem
by adva » Tue, 2012-12-18 01:15
13
10,405 by sabine
Mon, 2014-04-21 06:47
Normal topic nr.fasta
by silvia » Wed, 2013-01-23 10:08
5
9,251 by dgront
Mon, 2014-04-21 06:47
Normal topic Rosetta repacking output
by doranhen » Mon, 2012-12-03 03:44
5
4,847 by doranhen
Mon, 2014-04-21 06:47
Normal topic membrane ab initio error after montecarlo
by adva » Mon, 2012-12-24 01:43
6
4,960 by tevang
Mon, 2014-04-21 06:47
Normal topic Random seed confusion
by pardave » Mon, 2012-11-12 09:45
4
3,821 by pardave
Mon, 2014-04-21 06:47
Normal topic Unknow atom_name: LYS 1HZ in enzdes after match
by petrikigor » Fri, 2012-10-19 09:35
1
2,883 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Homology Model gives output - but completely wrong!
by Julix » Wed, 2012-10-31 10:10
1
2,920 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Identical decoys
by aroop » Tue, 2012-09-25 12:50
4
3,809 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta@cloud -- Macromolecular modeling in the cloud, Beta 1 is released!
by xujc » Wed, 2012-10-24 11:15
0
3,821 by xujc
Mon, 2014-04-21 06:47
Normal topic Question regarding buried or exposed residues
by qlj » Fri, 2012-11-09 23:43
5
5,433 by qlj
Mon, 2014-04-21 06:47
Normal topic Symmetric Processing for evaluating side-chain of chi angle
by qlj » Wed, 2012-10-10 04:08
2
2,394 by smlewis
Mon, 2014-04-21 06:47
Normal topic an old question
by albumns » Sun, 2012-10-28 12:14
4
3,865 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Docking failure
by khanhbinh » Sun, 2012-09-23 22:19
2
2,466 by khanhbinh
Mon, 2014-04-21 06:47
Normal topic match_dspos1 and other matcher options
by petrikigor » Sat, 2012-10-20 09:22
5
4,433 by rmoretti
Mon, 2014-04-21 06:47
Normal topic model protein at low pH
by ytao » Mon, 2012-11-05 07:52
1
2,406 by smlewis
Mon, 2014-04-21 06:47
Normal topic computer specifications
by rlwoltz » Tue, 2012-10-09 16:11
4
4,843 by rlwoltz
Mon, 2014-04-21 06:47
Normal topic mitochondria protein modeling
by rlwoltz » Fri, 2012-10-26 14:32
6
5,653 by smlewis
Mon, 2014-04-21 06:47
Normal topic ERROR - PDB's with occupancy field equal '1.0'
by khanhbinh » Sun, 2012-09-23 09:38
1
1,899 by rmoretti
Mon, 2014-04-21 06:47
Normal topic AtomTree::torsion_angle() can't find dof! in match and enzdes
by petrikigor » Fri, 2012-10-19 09:49
1
2,074 by rmoretti
Mon, 2014-04-21 06:47
Normal topic loop design
by varma » Sun, 2012-11-04 21:25
2
3,152 by varma
Mon, 2014-04-21 06:47
Normal topic ddG backbone movement
by dave » Wed, 2012-10-03 03:23
2
2,494 by dave
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
19,500 by rmoretti
Mon, 2014-04-21 06:47
Normal topic AbinitioRelax with very small peptides
by jamsmad » Tue, 2012-09-04 13:45
9
7,789 by jamsmad
Mon, 2014-04-21 06:47
Normal topic header pathways not accessable: No such file or directory
by rlwoltz » Tue, 2012-09-18 17:44
1
1,920 by smlewis
Mon, 2014-04-21 06:47
Normal topic fixbb minimize sidechains with symmetric pose - recompile?
by Anonymous » Wed, 2012-08-22 06:14
13
8,990 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic ERROR: Error reading in FragmentPicker::read_spine_x(): does not match size of query!
by Anonymous » Sat, 2012-09-08 09:33
1
2,576 by Anonymous
Mon, 2014-04-21 06:47
Normal topic Potentially incorrect heavyAtoms_end() iterator in core/conformation/Residue.hh
by tsjain » Wed, 2012-08-15 12:20
3
2,570 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to remove clashes in peptide bonds and proline residue?
by Anatol » Fri, 2012-08-31 09:26
2
2,537 by Anatol
Mon, 2014-04-21 06:47
Hot topic Steps to use D-amino acids
by tevang » Mon, 2012-09-10 15:42
15
13,358 by tevang
Mon, 2014-04-21 06:47
Normal topic enzdes error
by bo » Tue, 2012-08-21 09:12
4
3,528 by bo
Mon, 2014-04-21 06:47
Normal topic Rosetta Dock with MPI / PBS
by edpryor » Wed, 2012-09-05 11:04
3
5,543 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rotate MOVER
by gw » Wed, 2012-08-15 12:09
5
4,386 by glemmon
Mon, 2014-04-21 06:47
Normal topic Negative design: Can a filter call a mover in rosetta scripts?
by jgans » Sat, 2012-09-08 21:28
2
2,975 by rmoretti
Mon, 2014-04-21 06:47
Hot topic packstat in InterfaceAnalyzer
by Anonymous » Mon, 2012-08-20 03:19
22
15,327 by Anonymous
Mon, 2014-04-21 06:47
Normal topic Loop Modeling Deletes Residues
by Julix » Wed, 2012-09-05 10:14
7
5,659 by smlewis
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
8,663 by smlewis
Mon, 2014-04-21 06:47
Normal topic Does Rosetta have an app for detecting brakes and clashes in proteins
by Anatol » Sat, 2012-09-08 15:48
3
3,660 by smlewis
Mon, 2014-04-21 06:47
Normal topic rs filter for terms in .sc files
by gw » Sat, 2012-08-18 16:20
4
3,884 by gw
Mon, 2014-04-21 06:47
Normal topic prepack vs. relax with bb_cst
by Anonymous » Mon, 2012-06-25 06:50
1
2,160 by smlewis
Mon, 2014-04-21 06:47
Normal topic Using mode=profile
by Biokhar » Fri, 2012-07-06 00:29
2
2,724 by scombs
Mon, 2014-04-21 06:47
Normal topic Scoring Electrostatics
by aroop » Tue, 2012-08-07 11:41
5
4,513 by aroop
Mon, 2014-04-21 06:47
Normal topic how to transfer the rosetta score to physical unit?
by Lindsay » Thu, 2012-06-28 09:33
7
6,651 by Lindsay
Mon, 2014-04-21 06:47
Normal topic Error when renumbering PDB
by dzhao » Wed, 2012-07-18 01:03
7
7,886 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Error Atom_::dihedral_between_bonded_children
by abiadak » Mon, 2012-07-30 06:34
2
3,289 by abiadak
Mon, 2014-04-21 06:47
Normal topic spline constraint
by jadolfbr » Mon, 2012-06-25 04:43
3
3,300 by smlewis
Mon, 2014-04-21 06:47
Normal topic Error running design in 3.4
by inder » Thu, 2012-07-05 19:27
2
3,003 by inder
Mon, 2014-04-21 06:47
Normal topic How to import SymmDock models into Rosetta for local docking and energy minimization
by devroop » Fri, 2012-07-20 13:20
1
2,750 by smlewis
Mon, 2014-04-21 06:47
Hot topic RNA Denovo RMSD data
by eremma » Thu, 2012-08-02 01:40
31
22,107 by eremma
Mon, 2014-04-21 06:47
Normal topic The design of a helical peptide
by Jacob-kong » Tue, 2012-06-26 06:26
6
6,985 by Jacob-kong
Mon, 2014-04-21 06:47
Normal topic unknown constraint function type: AtomPair ?
by jiongzhang » Sun, 2012-07-15 02:13
4
3,666 by jiongzhang
Mon, 2014-04-21 06:47
Normal topic How to insert a TER line between docking partners
by devroop » Sun, 2012-07-29 13:48
1
2,760 by smlewis
Mon, 2014-04-21 06:47
Normal topic postive score models from AbinitioRelax
by xpzhang » Fri, 2012-06-22 12:34
4
3,415 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to site the scoring application in rosetta3.1?
by doranhen » Thu, 2012-07-05 10:07
1
2,034 by smlewis
Mon, 2014-04-21 06:47
Normal topic protein protein docking pipeline
by dzhao » Thu, 2012-07-19 06:25
4
4,939 by smlewis
Mon, 2014-04-21 06:47
Normal topic Scoring when the protein is a different length
by gw » Wed, 2012-08-01 08:53
1
2,450 by smlewis
Mon, 2014-04-21 06:47
Normal topic Discarding atoms for fixbb
by Jacob-kong » Tue, 2012-06-26 06:23
4
4,354 by Jacob-kong
Mon, 2014-04-21 06:47
Normal topic optH flag makes hydrogen bond energy scores worse...
by tsjain » Fri, 2012-07-13 14:04
6
5,553 by smlewis
Mon, 2014-04-21 06:47
Normal topic Flexible backbone design using PSSM
by kalicuta » Thu, 2012-07-26 13:38
4
4,091 by rmoretti
Mon, 2014-04-21 06:47
Normal topic How to generate a symmetry definition file for octahedral symmetry?
by Anonymous » Wed, 2012-08-15 05:20
0
2,105 by Anonymous
Mon, 2014-04-21 06:47
Normal topic Does the energy score output by fixbb design have unit?
by Lindsay » Mon, 2012-06-18 15:03
2
2,548 by Lindsay
Mon, 2014-04-21 06:47
Normal topic Need help with compilation (How to test if compilation is sucessful)
by greenfur » Fri, 2012-06-29 12:29
1
2,611 by smlewis
Mon, 2014-04-21 06:47
Normal topic Loop Modelling: ERROR: switch_to_residue_type_set fails
by smiruthi » Wed, 2012-07-18 14:48
2
3,025 by smlewis
Mon, 2014-04-21 06:47
Normal topic how to output a structure when scoring it?
by tianbu » Tue, 2012-07-31 09:38
3
3,533 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Fixed bb design with hydrogen bond constraint
by bharat_46010 » Mon, 2012-04-30 22:56
6
4,931 by smlewis
Mon, 2014-04-21 06:47
Normal topic hydrophobicity patch
by Lindsay » Fri, 2012-05-04 08:24
7
7,465 by Lindsay
Mon, 2014-04-21 06:47
Normal topic How to get multiple chains in PDB from Fold and Dock
by arthuc01 » Tue, 2012-05-29 02:05
9
7,702 by arthuc01
Mon, 2014-04-21 06:47
Normal topic force point mutation with fixbb
by Anonymous » Wed, 2012-06-13 09:15
3
3,279 by smlewis
Mon, 2014-04-21 06:47
Normal topic how to set the output name for fixbb design
by Lindsay » Mon, 2012-04-30 09:32
1
1,763 by smlewis
Mon, 2014-04-21 06:47
Normal topic fixbb program
by Lindsay » Tue, 2012-05-08 13:56
3
2,842 by AndrewLeaver-Fay
Mon, 2014-04-21 06:47
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