GapRepairer

Notice: All gaps were below 2 aa in length - they won't be described below.

Models

Number of gaps:0

Gap lengths:

Model	Entanglement	Average
		DOPE-HR
Model 1	Err	-28231
Model 2	Err	-28153
Model 3	Err	-28094
Model 4	Unknot	-28148
Model 5	Err	-28238
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.

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

Job Log

Wed Jan 29 23:44:19 2020	JOB CREATED : d021d8f0-c460-487b-ad7a-b0b729296b4d
Wed Jan 29 23:45:02 2020	STATUS CHANGED : N -> R
Wed Jan 29 23:45:02 2020	INFO : JOB STARTED AT: 2020-01-29 23:45:02.018814
Wed Jan 29 23:45:02 2020	INFO : METHOD: 1
Wed Jan 29 23:45:02 2020	INFO : Building Profile...
Wed Jan 29 23:45:02 2020	INFO : --E-value set to -1.0--
Wed Jan 29 23:47:16 2020	INFO : Homologue pool found...
Wed Jan 29 23:47:16 2020	ERROR : No homologues found using selected method. Maybe try specifying your own?
Wed Jan 29 23:47:16 2020	INFO : Proceeding using de novo modelling
Wed Jan 29 23:47:16 2020	INFO : Verifying structure sequences of homologues...
Wed Jan 29 23:47:16 2020	INFO : Getting structures from PDB...
Wed Jan 29 23:47:17 2020	INFO : Creating modelling alignment...
Wed Jan 29 23:47:17 2020	INFO : Modelling...
Wed Jan 29 23:50:03 2020	INFO : Model 1 built
Wed Jan 29 23:50:03 2020	INFO : Validating Calpha distances...
Wed Jan 29 23:50:03 2020	INFO : Model 1 distances correct: True
Wed Jan 29 23:50:03 2020	INFO : Modelling...
Wed Jan 29 23:52:45 2020	INFO : Model 2 built
Wed Jan 29 23:52:45 2020	INFO : Validating Calpha distances...
Wed Jan 29 23:52:45 2020	INFO : Model 2 distances correct: True
Wed Jan 29 23:52:45 2020	INFO : Modelling...
Wed Jan 29 23:55:29 2020	INFO : Model 3 built
Wed Jan 29 23:55:29 2020	INFO : Validating Calpha distances...
Wed Jan 29 23:55:29 2020	INFO : Model 3 distances correct: True
Wed Jan 29 23:55:29 2020	INFO : Modelling...
Wed Jan 29 23:58:15 2020	INFO : Model 4 built
Wed Jan 29 23:58:15 2020	INFO : Validating Calpha distances...
Wed Jan 29 23:58:15 2020	INFO : Model 4 distances correct: True
Wed Jan 29 23:58:15 2020	INFO : Modelling...
Thu Jan 30 00:02:30 2020	INFO : Model 5 built
Thu Jan 30 00:02:30 2020	INFO : Validating Calpha distances...
Thu Jan 30 00:02:30 2020	INFO : Model 5 distances correct: True
Thu Jan 30 00:02:42 2020	INFO : Finished modelling
Thu Jan 30 00:02:42 2020	STATUS CHANGED : R -> P
Thu Jan 30 00:03:13 2020	INFO : Finished edm surfaces: success
Thu Jan 30 00:03:13 2020	INFO : Checking topology...
Thu Jan 30 00:03:14 2020	INFO : Knot matrices done...
Thu Jan 30 00:03:14 2020	INFO : No knots found...
Thu Jan 30 00:03:14 2020	INFO : No lassos found...
Thu Jan 30 00:03:14 2020	INFO : Finishing...
Thu Jan 30 00:03:14 2020	INFO : Job done
Thu Jan 30 00:03:14 2020	STATUS CHANGED : P -> F
Thu Jan 30 00:03:14 2020	STATUS CHANGED : F -> F

5UC1 chain A