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Rosetta 3 - General

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Normal topic create a centroid file from structure or NOE list
by logandonaldson » Wed, 2013-03-20 12:23
3
3,484 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
10,056 by aaj
Fri, 2016-04-22 15:20
Normal topic Creating new residue type for pyridoxal phosphate bound to lysine (LLP) [Solved]
by franfdez » Sat, 2012-01-28 11:39
1
2,276 by franfdez
Mon, 2014-04-21 06:47
Normal topic Creation of core.* file in current running directory
by alejandro » Tue, 2011-12-06 06:19
2
1,850 by alejandro
Mon, 2014-04-21 06:47
Normal topic Criteria on the calculation of Irmsd of the protein-protein interface
by yzq » Tue, 2012-02-21 07:06
3
2,723 by smlewis
Mon, 2014-04-21 06:47
Normal topic Cryo-EM: problem with RosettaCM using multiple template models as input
by Karol » Mon, 2016-08-29 05:26
0
943 by Karol
Mon, 2016-08-29 05:27
Normal topic CryoEM model refinement with covalent conjugated prosthetic Phosphopantetheine carrying acyl group
by ZhijunW » Thu, 2020-09-03 18:36
11
289 by matteoferla
Sat, 2020-09-12 03:02
Normal topic CS-Rosetta fragments
by isengupta13 » Sun, 2010-05-16 08:08
1
1,881 by AndrewBworth
Mon, 2014-04-21 06:47
Normal topic Custom fold tree
by lah435 » Tue, 2015-03-03 12:02
1
1,070 by rmoretti
Mon, 2015-03-30 16:38
Normal topic cutpoint error!
by monos_morpheus » Thu, 2011-04-07 08:04
7
4,678 by monos_morpheus
Mon, 2014-04-21 06:47
Normal topic Cyclizing .pdb of a linear chain.
by jcminerlanl » Wed, 2017-07-05 23:56
3
1,450 by jcminerlanl
Thu, 2017-07-06 09:22
Normal topic Data Check for a newb
by ac.research » Sun, 2017-03-12 23:42
2
1,088 by ac.research
Fri, 2017-03-31 07:36
Normal topic ddG = dGmutant ‐ dGwildtype
by ela » Thu, 2018-07-26 09:17
3
1,367 by ela
Thu, 2018-08-09 08:04
Normal topic ddG average energy
by dave » Wed, 2013-04-03 03:36
1
1,572 by rmoretti
Mon, 2014-04-21 06:47
Normal topic ddG backbone movement
by dave » Wed, 2012-10-03 03:23
2
1,834 by dave
Mon, 2014-04-21 06:47
Normal topic ddg calculation
by Lindsay » Thu, 2013-09-12 10:19
3
3,447 by Lindsay
Mon, 2014-04-21 06:48
Normal topic Ddg calculation for a metalloprotein using APBS
by dfcoelho » Tue, 2019-11-19 10:06
2
354 by dfcoelho
Wed, 2019-11-20 05:39
Normal topic ddg energy components
by japgar » Tue, 2010-07-13 13:20
1
32,008 by smlewis
Mon, 2014-04-21 06:47
Normal topic ddG from backrub
by jte » Tue, 2010-10-05 14:09
3
1,844 by smlewis
Mon, 2014-04-21 06:47
Normal topic De novo density assembly weights don't add up to a 100
by ahmadkhalifa » Fri, 2018-08-03 12:07
3
733 by rmoretti
Tue, 2019-10-22 07:05
Normal topic De novo Protein Design
by ac.research » Sat, 2017-07-15 10:39
5
4,219 by rmoretti
Mon, 2017-08-14 09:06
Normal topic Debugging Rosetta under XCode
by sacch » Sun, 2011-10-16 18:23
8
4,724 by sacch
Mon, 2014-04-21 06:47
Normal topic decoy vs pose
by Anonymous » Fri, 2012-06-15 02:46
1
1,481 by smlewis
Mon, 2014-04-21 06:47
Normal topic defining interface in interface analyzer
by aa20 » Fri, 2013-09-27 11:08
5
3,976 by smlewis
Mon, 2014-04-21 06:48
Normal topic demo documentation
by lshi » Fri, 2009-08-28 08:51
1
1,165 by smlewis
Mon, 2014-04-21 06:47
Normal topic demos/public/ideal_proteins Segmentation fault
by coomteng@gmail.com » Wed, 2018-03-07 00:15
5
1,622 by rmoretti
Thu, 2018-03-08 07:46
Normal topic Denovo density corrupted silent file
by ahmadkhalifa » Mon, 2018-04-23 07:30
4
1,187 by ahmadkhalifa
Thu, 2018-04-26 09:11
Normal topic Denovo density didn't output a structure
by ahmadkhalifa » Mon, 2018-02-12 08:10
3
1,153 by ylwang
Wed, 2018-11-14 03:03
Normal topic Denovo density excess map input and segmentation
by ahmadkhalifa » Mon, 2018-04-30 07:28
0
389 by ahmadkhalifa
Fri, 2018-05-04 07:50
Normal topic Denovo prediction from multiple fragment lengths
by ahmadkhalifa » Sun, 2019-03-24 03:55
1
432 by rmoretti
Sat, 2019-03-30 12:10
Normal topic Derivative of the Energy function?
by MkM » Fri, 2010-01-15 08:00
1
1,524 by smlewis
Mon, 2014-04-21 06:47
Normal topic Design constraints on pairs of residues
by SenyorDrew » Mon, 2017-10-02 07:25
3
1,392 by SenyorDrew
Mon, 2017-11-13 11:44
Normal topic Design on NMR template
by enoee » Wed, 2010-07-21 05:29
1
1,123 by smlewis
Mon, 2014-04-21 06:47
Normal topic Design with non-canonical amino acids (NCAA)
by yinasun » Mon, 2019-08-05 00:34
2
557 by matteoferla
Thu, 2019-08-22 05:39
Normal topic DesignByCavityProximity: element not expected
by karenjgonzalez » Tue, 2020-01-28 05:16
4
516 by karenjgonzalez
Tue, 2020-02-11 08:44
Normal topic Determine the weights of score functions
by SunH » Thu, 2010-09-02 07:20
3
2,905 by smlewis
Mon, 2014-04-21 06:47
Normal topic Determining Rosetta version from directory
by linucks » Fri, 2014-02-28 04:04
1
1,414 by smlewis
Fri, 2014-02-28 05:45
Normal topic dG/dsasa , What is the exact meaning?
by Apiwat » Sun, 2014-04-13 00:38
2
2,219 by Apiwat
Thu, 2014-04-17 09:56
Normal topic dG_separated threshold for identifying non-binding peptides with InterfaceAnalyzer.
by jyotisutar9 » Thu, 2016-12-01 00:39
6
2,490 by jyotisutar9
Wed, 2016-12-14 09:39
Normal topic Difference between checkpoint file and PSSM for making fragments
by qlj » Fri, 2014-03-21 22:00
1
3,205 by rmoretti
Sat, 2014-03-22 11:40
Normal topic Difference between interface_delta_X and dG_separated?
by Nicole Deng » Sat, 2020-06-06 06:31
0
160 by Nicole Deng
Sat, 2020-06-06 06:40
Normal topic Difference between score and silent_score when silent files are combined
by justin » Tue, 2012-01-03 06:44
4
2,579 by justin
Mon, 2014-04-21 06:47
Normal topic Different weights in the constraints for each stage of AbinitioRelax
by allan.ferrari » Sun, 2017-01-15 04:35
2
1,333 by smlewis
Sun, 2017-01-15 18:10
Normal topic Difficulties with Protein Docking using Harmonic Restraints
by Parker.deWaal » Fri, 2016-08-19 11:23
1
882 by smlewis
Mon, 2016-08-22 10:39
Normal topic Discarding atoms for fixbb
by Jacob-kong » Tue, 2012-06-26 06:23
4
3,073 by Jacob-kong
Mon, 2014-04-21 06:47
Normal topic distance contraints file
by tricia » Wed, 2009-06-10 13:28
0
868 by tricia
Mon, 2014-04-21 06:47
Normal topic distances definition in course-grained (centroid mode) steps
by allan.ferrari » Tue, 2017-01-03 05:15
6
2,631 by allan.ferrari
Tue, 2017-01-03 11:15
Normal topic disulfide bonds using abinitio folding module
by crfenollar » Wed, 2010-02-24 03:26
10
8,454 by lanselibai
Tue, 2015-02-10 14:03
Normal topic disulfide bridges in loop modeling
by pledor » Fri, 2010-08-06 06:49
2
1,929 by pledor
Mon, 2014-04-21 06:47
Normal topic Disulfidize mover
by karenjgonzalez » Wed, 2019-07-31 12:35
0
343 by karenjgonzalez
Wed, 2019-07-31 12:35
Normal topic Divide larger low-res. global run into several smaller runs?
by jasnyderjr » Mon, 2015-12-21 17:41
1
1,041 by smlewis
Tue, 2015-12-22 08:31
Normal topic dna_denovo
by frits » Fri, 2013-07-12 06:12
3
2,092 by frits
Mon, 2014-04-21 06:48
Normal topic Do Rosetta support hydroxide(OH-) and oxide(O2-) params?
by dasdevashishdas » Thu, 2018-08-16 21:15
2
813 by dasdevashishdas
Thu, 2018-08-23 18:02
Normal topic dock & design
by sdh_h » Fri, 2016-09-02 03:07
1
1,110 by rmoretti
Mon, 2016-09-05 09:39
Normal topic Docking + Active Site Design
by bharat_46010 » Sat, 2014-12-13 23:04
7
5,089 by rmoretti
Wed, 2015-01-21 08:43
Normal topic Docking 2 proteins including ligands
by einew » Tue, 2011-03-08 13:33
3
2,240 by einew
Mon, 2014-04-21 06:47
Normal topic Docking a ligand to two movable domains of a protein
by brspurri » Wed, 2018-05-16 08:27
1
592 by rmoretti
Thu, 2018-06-28 14:22
Hot topic Docking a protein into a symmetrical complex
by saxen » Fri, 2011-04-08 22:24
15
8,159 by saxen
Mon, 2014-04-21 06:47
Normal topic Docking an iron atom to a peptide
by buzb » Wed, 2011-01-26 09:49
12
8,605 by smlewis
Mon, 2014-04-21 06:47
Normal topic Docking double-stranded DNA to a protein
by xpzhang » Tue, 2012-01-31 12:35
5
6,340 by xpzhang
Mon, 2014-04-21 06:47
Normal topic Docking failure
by khanhbinh » Sun, 2012-09-23 22:19
2
1,758 by khanhbinh
Mon, 2014-04-21 06:47
Normal topic Docking individual residue ussing RosettaDock
by a-eatemadi@razi... » Wed, 2017-09-06 05:50
1
664 by rmoretti
Wed, 2017-09-06 08:47
Normal topic Docking Local Refine Not Moving Input
by SenyorDrew » Sat, 2017-10-21 08:26
1
696 by SenyorDrew
Mon, 2017-11-20 13:27
Normal topic Docking Metalloprotein-Protein
by fgomes » Fri, 2019-11-22 19:12
0
247 by fgomes
Fri, 2019-11-22 19:12
Normal topic docking mover(s) in rosetta
by aaj » Mon, 2016-01-25 02:38
2
1,453 by aaj
Mon, 2016-02-22 07:50
Normal topic Docking tree issues
by salvatta » Tue, 2018-07-17 05:57
5
1,577 by salvatta
Mon, 2018-09-10 10:04
Normal topic docking using rosetta3.1 and rosetta2.3 leads to very different results
by lqzhang » Thu, 2010-01-14 11:54
1
1,253 by sid
Mon, 2014-04-21 06:47
Normal topic Docking with glutathione
by phanvy » Wed, 2015-04-29 22:25
1
1,098 by rmoretti
Thu, 2015-04-30 07:13
Normal topic DockingProtocol mover ensemble error
by dfcoelho » Tue, 2018-10-16 08:32
2
684 by brspurri
Thu, 2020-08-20 13:22
Normal topic dock_mcm not found
by libai2098 » Mon, 2011-03-14 00:02
1
1,370 by smlewis
Mon, 2014-04-21 06:47
Normal topic Documentation missing in MultiGraft
by aroop » Thu, 2012-03-15 07:39
2
1,808 by aroop
Mon, 2014-04-21 06:47
Normal topic Does a negative Rosetta dG imply a favorable process?
by cossio » Tue, 2014-12-09 05:13
4
2,549 by lanselibai
Tue, 2014-12-16 10:48
Normal topic Does comparative modeling works for membrane proteins
by justin » Wed, 2012-03-21 04:58
1
1,429 by smlewis
Mon, 2014-04-21 06:47
Normal topic Does it make sense to perform Docking on a complex?
by chrisHKL » Mon, 2020-02-17 09:12
0
193 by chrisHKL
Mon, 2020-02-17 09:12
Normal topic Does RNA parses checkpoint matrix as well as protein
by qlj » Wed, 2014-03-05 06:03
2
1,488 by qlj
Thu, 2014-03-06 22:20
Normal topic Does Rosetta 3.1 have the 9999 limitation?
by wtscrystal » Sat, 2009-11-07 01:18
1
1,280 by smlewis
Mon, 2014-04-21 06:47
Normal topic does rosetta good at peptide-protein docking?
by albumns » Mon, 2010-12-27 18:51
3
3,702 by smlewis
Mon, 2014-04-21 06:47
Normal topic Does Rosetta have a class diagram for each class in the source code?
by ylwang » Thu, 2019-11-21 04:24
3
483 by ylwang
Sat, 2019-11-23 06:26
Normal topic Does Rosetta have an app for detecting brakes and clashes in proteins
by Anatol » Sat, 2012-09-08 15:48
3
2,574 by smlewis
Mon, 2014-04-21 06:47
Normal topic Does Rosetta have homology modeling protocol?
by SunH » Thu, 2010-11-04 07:36
3
2,702 by smlewis
Mon, 2014-04-21 06:47
Normal topic Does Rosetta recognise OXT atom type in PDB.?
by monos_morpheus » Mon, 2011-04-11 23:57
4
3,466 by monos_morpheus
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
1,910 by Lindsay
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
5,646 by rmoretti
Thu, 2017-02-02 08:32
Normal topic Domain Insertion equivalent in Rosetta 3.2
by SenyorDrew » Wed, 2011-02-09 09:47
1
1,298 by smlewis
Mon, 2014-04-21 06:47
Normal topic DomainAssembly Mover with constraints (using RosettaScripts)
by resiros » Wed, 2016-09-21 11:19
3
2,016 by rmoretti
Mon, 2016-11-14 14:21
Normal topic Don't want to output the design structure
by Lindsay » Wed, 2012-05-02 08:02
6
3,052 by Anonymous
Mon, 2014-04-21 06:47
Normal topic double mutations scan
by Lindsay » Fri, 2012-04-27 12:51
2
1,775 by Lindsay
Mon, 2014-04-21 06:47
Normal topic Dumb question: Rosetta 3 vs Rosetta++, what's the difference?
by mintseris » Tue, 2013-12-31 13:03
1
1,523 by rmoretti
Mon, 2014-04-21 06:48
Normal topic dun10
by jadolfbr » Thu, 2012-01-19 12:16
5
3,142 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Efficient implementation of MPI with protein design programs
by zachdebruine » Thu, 2018-06-28 10:41
5
1,638 by smlewis
Tue, 2018-07-03 11:22
Normal topic Encouraging better packing in enzyme_design
by linucks » Thu, 2018-03-01 07:05
5
2,263 by linucks
Wed, 2018-04-25 08:50
Normal topic Energy and RG in the new rosetta3.4 ( like RG_Energy.cc and RG_Energy_Fast.cc )
by sdg_lab » Thu, 2012-04-12 08:49
1
1,257 by smlewis
Mon, 2014-04-21 06:47
Normal topic Energy calculation for protein design
by Filipe » Sat, 2011-11-26 15:01
4
4,974 by Filipe
Mon, 2014-04-21 06:47
Normal topic Energy Calculation in Rosetta3.4
by sdg_lab » Thu, 2012-04-12 04:49
6
7,197 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Energy minimization of a crystal structure with residues mutated in pymol
by bharat_46010 » Wed, 2014-05-21 19:52
1
2,824 by rmoretti
Fri, 2014-05-23 08:09
Normal topic energy minimization of loop only
by jtmacd » Wed, 2011-01-12 07:09
9
6,415 by lanselibai
Wed, 2014-10-15 01:41
Normal topic energy units
by jtmacd » Mon, 2009-07-06 10:39
1
2,673 by smlewis
Mon, 2014-04-21 06:47
Normal topic Energy updates in Rosetta 3.3
by gipsonb » Tue, 2011-10-11 09:58
2
1,572 by gipsonb
Mon, 2014-04-21 06:47
Normal topic Entropy calculation
by abdullah_ahmed » Wed, 2010-12-01 07:52
1
1,560 by smlewis
Mon, 2014-04-21 06:47
Normal topic Enumeration of Amino Acid identities
by achambe » Wed, 2016-06-15 15:28
1
925 by rmoretti
Wed, 2016-06-15 16:06
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