GapRepairer

Models

Number of gaps:1

Gap lengths: 7

Model	Entanglement	Average	DOPE-HR (by gap length)
		DOPE-HR	1st gap
Model 1	Unknot	-29195	-657
Model 2	Unknot	-29309	-657
Model 3	Unknot	-29172	-592
Model 4	Unknot	-29181	-584
Model 5	Unknot	-29029	-469
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.

Pro Tip: Since you provided a structure that contains some crystallographic information you can verify our models using the wwPDB service.
Validity report for the RCSB PDB structure you were repairing can be accessed here

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.

Templates (similarity across the whole protein) Help

PDB code	Chain	Entanglement type	Seq identity	Total gap coverage	Total gap identity	RMSD [Å]	Pairwise alignment to the target: gap
2A45	B	Unknot	99.61%	100.00%	100.00%	0.88	..Target: IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISMLEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETWTANVGKGQPSVLQVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFYTHVFRLKKWIQKVIDQF- Template: IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISMLEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETWTANVGKGQPSVLQVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFYTHVFRLKKWIQKVIDQFG

Templates (similarity to the largest gap - 7 aa) Help

PDB code	Chain	Knot type	Gap coverage	Gap identity	>Target_Sequence: gap	KETWTANVGKGQP
2A45	B	Unknot	100.00%	100.00%	KETWTANVGKGQP

Download Files Models Similarity profile Modelling alignment

Job Log

Thu Mar  1 14:12:08 2018	JOB CREATED : 3d29a969-d6a8-4764-b7de-e72605fb91ab
Thu Mar  1 14:13:01 2018	STATUS CHANGED : N -> R
Thu Mar  1 14:13:01 2018	INFO : JOB STARTED AT: 2018-03-01 14:13:01.839121
Thu Mar  1 14:13:01 2018	INFO : METHOD: 3
Thu Mar  1 14:13:03 2018	INFO : Homologue pool found...
Thu Mar  1 14:13:03 2018	INFO : Verifying structure sequences of homologues...
Thu Mar  1 14:13:05 2018	INFO : Starting homologue filtering...
Thu Mar  1 14:13:06 2018	INFO : Getting structures from PDB...
Thu Mar  1 14:13:14 2018	INFO : Creating modelling alignment...
Thu Mar  1 14:13:14 2018	INFO : Modelling...
Thu Mar  1 14:14:42 2018	INFO : Model 1 built
Thu Mar  1 14:14:42 2018	INFO : Validating Calpha distances...
Thu Mar  1 14:14:42 2018	INFO : Model 1 distances correct: True
Thu Mar  1 14:14:42 2018	INFO : Modelling...
Thu Mar  1 14:16:09 2018	INFO : Model 2 built
Thu Mar  1 14:16:09 2018	INFO : Validating Calpha distances...
Thu Mar  1 14:16:09 2018	INFO : Model 2 distances correct: True
Thu Mar  1 14:16:09 2018	INFO : Modelling...
Thu Mar  1 14:17:33 2018	INFO : Model 3 built
Thu Mar  1 14:17:33 2018	INFO : Validating Calpha distances...
Thu Mar  1 14:17:33 2018	INFO : Model 3 distances correct: True
Thu Mar  1 14:17:33 2018	INFO : Modelling...
Thu Mar  1 14:19:05 2018	INFO : Model 4 built
Thu Mar  1 14:19:05 2018	INFO : Validating Calpha distances...
Thu Mar  1 14:19:05 2018	INFO : Model 4 distances correct: True
Thu Mar  1 14:19:05 2018	INFO : Modelling...
Thu Mar  1 14:20:42 2018	INFO : Model 5 built
Thu Mar  1 14:20:42 2018	INFO : Validating Calpha distances...
Thu Mar  1 14:20:42 2018	INFO : Model 5 distances correct: True
Thu Mar  1 14:21:04 2018	INFO : Finished modelling
Thu Mar  1 14:21:04 2018	STATUS CHANGED : R -> P
Thu Mar  1 14:21:05 2018	INFO : Finished edm surfaces: no map
Thu Mar  1 14:21:05 2018	INFO : Checking topology...
Thu Mar  1 14:21:49 2018	INFO : Knot matrices done...
Thu Mar  1 14:22:11 2018	INFO : No knots found...
Thu Mar  1 14:22:11 2018	INFO : No lassos found...
Thu Mar  1 14:22:11 2018	INFO : Finishing...
Thu Mar  1 14:22:12 2018	INFO : Job done
Thu Mar  1 14:22:12 2018	STATUS CHANGED : P -> F
Thu Mar  1 14:22:12 2018	STATUS CHANGED : F -> F

1AIX chain H