Job name:

5I08A_dbase(5I08 chain A)

a3462928-615e-4652-9962-79c18fd577f1
Finished
Models Number of gaps:7 Gap lengths: 96, 29, 22, 15, 9, 7, 4
Model Entanglement Average DOPE-HR (by gap length) Smaller
DOPE-HR 1st gap2nd gap3rd gapgaps
Model 1 Non-trivial -111006

Model 2 Non-trivial -111531

Model 3 Non-trivial -110612

Model 4 Non-trivial -111159

Model 5 Non-trivial -110407

None
Reload
Warning: All models are renumbered - the first residue in the structure has index 1.
Mix & match
None of the models is perfect? By clicking the button below you can download a .pdb file with the currently shown mix of models - for each gap at most one model can be selected. If none of them is checked, the gap will be left as is. Fourth and further gaps (sorted by size) can only come from one of the models.
Warning: JSmol may at times display gaps where there are none - due to some overlaps in models. This does not indicate presence of gaps in downloaded structure!
EntanglementHelpKnotProtLassoProtLinkProt
Model Type Knot core Slipknot Lasso Piercing Show
range loop range loop position in JSmol
Model 1 Slipknot S +31 755-1116 1116-1131 -- --
Lasso L -3N -- -- 149-228 -110,+124,-134
Model 2 Slipknot S +31 755-1116 1116-1131 -- --
Lasso L -3N -- -- 149-228 -110,+124,-134
Model 3 Slipknot S +31 755-1116 1116-1131 -- --
Lasso L -3N -- -- 149-228 -110,+124,-134
Model 4 Slipknot S +31 755-1116 1116-1131 -- --
Lasso L -3N -- -- 149-228 -110,+124,-134
Model 5 Slipknot S +31 755-1116 1116-1131 -- --
Lasso L -3N -- -- 149-228 -110,+124,-134
None
Topologies marked by an OK sign () are in accordance with the template topology.
Warning: Entanglement type is assigned automatically - for more complicated topologies there may be some disagreements with manually curated databases.
Model 1
Model 2
Model 3
Model 4
Model 5
Model 1
Model 2
Model 3
Model 4
Model 5
DOPE (Discrete Optimized Protein Energy) score per residue. The lower the score, the better.
Since DOPE is calculated against the neighbours of a given amino acid, the scores
can vary between unmoved segments of different models. See here for more information.
Warning: No templates were used. Models were generated using de novo prediction. Possible reasons include: no homologues similar enough; homologues do not cover the gaps in the target; all gaps at most 2 amino acids long.

Sun Jul 23 14:59:10 2017	JOB CREATED : a3462928-615e-4652-9962-79c18fd577f1
Sun Jul 23 22:35:01 2017	STATUS CHANGED : N -> R
Sun Jul 23 22:35:01 2017	INFO : JOB STARTED AT: 2017-07-23 22:35:01.812820
Sun Jul 23 22:35:01 2017	INFO : METHOD: 1
Sun Jul 23 22:35:01 2017	INFO : Precalculated profile found...
Sun Jul 23 22:35:01 2017	INFO : Homologue pool found...
Sun Jul 23 22:35:01 2017	INFO : Verifying structure sequences of homologues...
Sun Jul 23 22:36:26 2017	INFO : Starting homologue filtering...
Sun Jul 23 22:37:17 2017	INFO : Getting structures from PDB...
Sun Jul 23 22:37:18 2017	INFO : Creating modelling alignment...
Sun Jul 23 22:37:18 2017	INFO : Modelling...
Mon Jul 24 02:37:57 2017	INFO : Model 1 built
Mon Jul 24 02:37:57 2017	INFO : Validating Calpha distances...
Mon Jul 24 02:37:57 2017	INFO : Model 1 distances correct: True
Mon Jul 24 02:37:57 2017	INFO : Modelling...
Mon Jul 24 05:53:45 2017	INFO : Model 2 built
Mon Jul 24 05:53:45 2017	INFO : Validating Calpha distances...
Mon Jul 24 05:53:45 2017	INFO : Model 2 distances correct: True
Mon Jul 24 05:53:45 2017	INFO : Modelling...
Mon Jul 24 09:11:46 2017	INFO : Model 3 built
Mon Jul 24 09:11:46 2017	INFO : Validating Calpha distances...
Mon Jul 24 09:11:46 2017	INFO : Model 3 distances correct: True
Mon Jul 24 09:11:46 2017	INFO : Modelling...
Mon Jul 24 11:45:13 2017	INFO : Model 4 built
Mon Jul 24 11:45:13 2017	INFO : Validating Calpha distances...
Mon Jul 24 11:45:13 2017	INFO : Model 4 distances correct: True
Mon Jul 24 11:45:13 2017	INFO : Modelling...
Mon Jul 24 13:39:46 2017	INFO : Model 5 built
Mon Jul 24 13:39:46 2017	INFO : Validating Calpha distances...
Mon Jul 24 13:39:46 2017	INFO : Model 5 distances correct: True
Mon Jul 24 13:40:53 2017	INFO : Finished modelling
Mon Jul 24 13:40:53 2017	STATUS CHANGED : R -> P
Mon Jul 24 13:40:53 2017	INFO : Checking topology...
Mon Jul 24 16:48:20 2017	INFO : Knot matrices done...
Mon Jul 24 17:05:28 2017	INFO : Some knots found!
Mon Jul 24 17:05:44 2017	INFO : Some lassos found!
Mon Jul 24 17:05:44 2017	INFO : Finishing...
Mon Jul 24 17:05:45 2017	INFO : Job done
Mon Jul 24 17:05:45 2017	STATUS CHANGED : P -> F
Mon Jul 24 17:05:45 2017	STATUS CHANGED : F -> F

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