GapRepairer

Models

Number of gaps:0

Gap lengths:

Model	Entanglement	Average
		DOPE-HR
Model 1	Non-trivial	-27783
Model 2	Non-trivial	-27692
Model 3	Non-trivial	-27768
Model 4	Non-trivial	-27680
Model 5	Non-trivial	-27758
Colour the base model according to the B-factor (lowest to highest)			Reload

Warning: All models are renumbered - the first residue in the structure has index 1.

Mix & match

Provided protein had only one gap - thus there are no gap-filling combinations to be made.

EntanglementHelpKnotProtLassoProtLinkProt

Model	Type		Knot core	Slipknot	Lasso	Piercing	Show
			range	loop range	loop	position	in JSmol
Model 1	Knot	K +3₁	86-133	--	--	--
Model 2	Knot	K +3₁	86-133	--	--	--
Model 3	Knot	K +3₁	86-133	--	--	--
Model 4	Knot	K +3₁	86-133	--	--	--
Model 5	Knot	K +3₁	86-133	--	--	--
							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.

Knotting fingerprint thumbnails

Knot help

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.

Download Files Models Similarity profile Modelling alignment Raw knot fingerprint matrices: Model_1 Model_2 Model_3 Model_4 Model_5

Job Log

Sun Jul 23 14:54:28 2017	JOB CREATED : da79cc90-c49f-48d9-9cfc-9262b7f2e8fb
Sun Jul 23 14:55:02 2017	STATUS CHANGED : N -> R
Sun Jul 23 14:55:02 2017	INFO : JOB STARTED AT: 2017-07-23 14:55:02.175757
Sun Jul 23 14:55:02 2017	INFO : METHOD: 1
Sun Jul 23 14:55:02 2017	INFO : Precalculated profile found...
Sun Jul 23 14:55:02 2017	INFO : Homologue pool found...
Sun Jul 23 14:55:02 2017	INFO : Verifying structure sequences of homologues...
Sun Jul 23 14:55:38 2017	INFO : Starting homologue filtering...
Sun Jul 23 14:56:50 2017	INFO : Getting structures from PDB...
Sun Jul 23 14:56:50 2017	INFO : Creating modelling alignment...
Sun Jul 23 14:56:50 2017	INFO : Modelling...
Sun Jul 23 14:57:15 2017	INFO : Model 1 built
Sun Jul 23 14:57:15 2017	INFO : Validating Calpha distances...
Sun Jul 23 14:57:15 2017	INFO : Model 1 distances correct: True
Sun Jul 23 14:57:15 2017	INFO : Modelling...
Sun Jul 23 14:57:39 2017	INFO : Model 2 built
Sun Jul 23 14:57:39 2017	INFO : Validating Calpha distances...
Sun Jul 23 14:57:39 2017	INFO : Model 2 distances correct: True
Sun Jul 23 14:57:39 2017	INFO : Modelling...
Sun Jul 23 14:58:04 2017	INFO : Model 3 built
Sun Jul 23 14:58:04 2017	INFO : Validating Calpha distances...
Sun Jul 23 14:58:04 2017	INFO : Model 3 distances correct: True
Sun Jul 23 14:58:04 2017	INFO : Modelling...
Sun Jul 23 14:58:26 2017	INFO : Model 4 built
Sun Jul 23 14:58:26 2017	INFO : Validating Calpha distances...
Sun Jul 23 14:58:26 2017	INFO : Model 4 distances correct: True
Sun Jul 23 14:58:26 2017	INFO : Modelling...
Sun Jul 23 14:58:48 2017	INFO : Model 5 built
Sun Jul 23 14:58:48 2017	INFO : Validating Calpha distances...
Sun Jul 23 14:58:48 2017	INFO : Model 5 distances correct: True
Sun Jul 23 14:59:10 2017	INFO : Finished modelling
Sun Jul 23 14:59:10 2017	STATUS CHANGED : R -> P
Sun Jul 23 14:59:10 2017	INFO : Checking topology...
Sun Jul 23 15:07:13 2017	INFO : Knot matrices done...
Sun Jul 23 15:11:18 2017	INFO : Some knots found!
Sun Jul 23 15:11:18 2017	INFO : No lassos found...
Sun Jul 23 15:11:18 2017	INFO : Finishing...
Sun Jul 23 15:11:18 2017	INFO : Job done
Sun Jul 23 15:11:18 2017	STATUS CHANGED : P -> F
Sun Jul 23 15:11:18 2017	STATUS CHANGED : F -> F

1UAM chain A