Job name:

2YYG chain A

3b9c8140-feff-4a02-9de7-28f0f75248ac
Finished
Electron density map:

Differential EDM:
Models Number of gaps:1 Gap lengths: 7
Model Entanglement Average DOPE-HR (by gap length)
DOPE-HR 1st gap
Model 1 Unknot -62989
Model 2 Unknot -63070
Model 3 Unknot -63047
Model 4 Unknot -63013
Model 5 Unknot -62777
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.
Help
PDB
code		 Chain Entanglement
type		 Seq
identity		 Total gap
coverage		 Total gap
identity		 RMSD [Å] Pairwise alignment to the target: gap


2YYI
A
Unknot
100.00%
100.00%
100.00%
0.50

..Target: ARTGAEYIEALKTRPPNLWYKGEKVEDPTTHPVFRGIVRTMAALYDLQHDPRYREVLTYEEEGKRHGMSFLIPKTKEDLKRRGQAYKLWADQNLGMMGRSPDYLNAVVMAYAASADYFGEFAENVRNYYRYLRDQDLATTHALTNPQVNRARPPSGQPDPYIPVGVVKQTEKGIVVRGARMTATFPLADEVLIFPSTLLQAGSEKYALAFALPTSTPGLHFVCREALVGGDSPFDHPLSSRVEEMDCLVIFDDVLVPWERVFILGNVELCNNAYAATGALNHMAHQVVALKTAKTEAFLGVAALMAEGIGADVYGHVQEKIAEIIVYLEAMRAFWTRAEEEAKENAYGLLVPDRGALDGARNLYPRLYPRIREILEQIGASGLITLPSEKDFKGPLGPFLEKFLQGAALEAKERVALFRLAWDMTLSGFGARQELYERFFFGDPVRMYQTLYNVYNKEPYKERIRAFLKESLKVFE
Template: ARTGAEYIEALKTRPPNLWYKGEKVEDPTTHPVFRGIVRTMAALYDLQHDPRYREVLTYEEEGKRHGMSFLIPKTKEDLKRRGQAYKLWADQNLGMMGRSPDYLNAVVMAYAASADYFGEFAENVRNYYRYLRDQDLATTHALTNPQVNRARPPSGQPDPYIPVGVVKQTEKGIVVRGARMTATFPLADEVLIFP--LLQAGSEKYALAFALPTSTPGLHFVCREALVGGDSPFDHPLSSRVEEMDCLVIFDDVLVPWERVFILGNVELCNNAYAATGALNHMAHQVVALKTAKTEAFLGVAALMAEGIGADVYGHVQEKIAEIIVYLEAMRAFWTRAEEEAKENAYGLLVPDRGALDGARNLYPRLYPRIREILEQIGASGLITLPSEKDFKGPLGPFLEKFLQGAALEAKERVALFRLAWDMTLSGFGARQELYERFFFGDPVRMYQTLYNVYNKEPYKERIRAFLKESLKVFE
Help
PDB
code		 Chain Knot
type		 Gap
coverage		 Gap
identity		 >Target_Sequence: gap

NRARPPSGQPDPY
2YYI A Unknot 100.00% 100.00%

NRARPPSGQPDPY

Models
Similarity profile
Modelling alignment

Fri Jan 11 10:32:57 2019	JOB CREATED : 3b9c8140-feff-4a02-9de7-28f0f75248ac
Fri Jan 11 10:33:02 2019	STATUS CHANGED : N -> R
Fri Jan 11 10:33:02 2019	INFO : JOB STARTED AT: 2019-01-11 10:33:02.052157
Fri Jan 11 10:33:02 2019	INFO : METHOD: 1
Fri Jan 11 10:33:02 2019	INFO : Building Profile...
Fri Jan 11 10:33:02 2019	INFO : --E-value set to 0.001--
Fri Jan 11 10:43:24 2019	INFO : Homologue pool found...
Fri Jan 11 10:43:24 2019	INFO : Verifying structure sequences of homologues...
Fri Jan 11 10:44:00 2019	INFO : Starting homologue filtering...
Fri Jan 11 10:45:07 2019	INFO : Getting structures from PDB...
Fri Jan 11 10:45:14 2019	INFO : Creating modelling alignment...
Fri Jan 11 10:45:14 2019	INFO : Modelling...
Fri Jan 11 10:49:08 2019	INFO : Model 1 built
Fri Jan 11 10:49:08 2019	INFO : Validating Calpha distances...
Fri Jan 11 10:49:08 2019	INFO : Model 1 distances correct: True
Fri Jan 11 10:49:08 2019	INFO : Modelling...
Fri Jan 11 10:51:24 2019	INFO : Model 2 built
Fri Jan 11 10:51:24 2019	INFO : Validating Calpha distances...
Fri Jan 11 10:51:24 2019	INFO : Model 2 distances correct: True
Fri Jan 11 10:51:24 2019	INFO : Modelling...
Fri Jan 11 10:53:41 2019	INFO : Model 3 built
Fri Jan 11 10:53:41 2019	INFO : Validating Calpha distances...
Fri Jan 11 10:53:41 2019	INFO : Model 3 distances correct: True
Fri Jan 11 10:53:41 2019	INFO : Modelling...
Fri Jan 11 10:55:59 2019	INFO : Model 4 built
Fri Jan 11 10:55:59 2019	INFO : Validating Calpha distances...
Fri Jan 11 10:55:59 2019	INFO : Model 4 distances correct: True
Fri Jan 11 10:55:59 2019	INFO : Modelling...
Fri Jan 11 10:58:17 2019	INFO : Model 5 built
Fri Jan 11 10:58:17 2019	INFO : Validating Calpha distances...
Fri Jan 11 10:58:17 2019	INFO : Model 5 distances correct: True
Fri Jan 11 10:58:51 2019	INFO : Finished modelling
Fri Jan 11 10:58:51 2019	STATUS CHANGED : R -> P
Fri Jan 11 10:59:23 2019	INFO : Finished edm surfaces: success
Fri Jan 11 10:59:23 2019	INFO : Checking topology...
Fri Jan 11 11:00:50 2019	INFO : Knot matrices done...
Fri Jan 11 11:00:50 2019	INFO : No knots found...
Fri Jan 11 11:00:50 2019	INFO : No lassos found...
Fri Jan 11 11:00:50 2019	INFO : Finishing...
Fri Jan 11 11:00:51 2019	INFO : Job done
Fri Jan 11 11:00:51 2019	STATUS CHANGED : P -> F
Fri Jan 11 11:00:51 2019	STATUS CHANGED : F -> F
GapRepairer | Interdisciplinary Laboratory of Biological Systems Modelling