Job name:

3L1L chain A

9064767f-fb51-442d-8670-991c63cebc74
Finished
Electron density map:

Differential EDM:
Models Number of gaps:1 Gap lengths: 12
Model Entanglement Average DOPE-HR (by gap length)
DOPE-HR 1st gap
Model 1 Non-trivial -60079
Model 2 Non-trivial -60098
Model 3 Non-trivial -60055
Model 4 Non-trivial -60054
Model 5 Non-trivial -59852
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
EntanglementHelpKnotProtLassoProtLinkProt
Model Type Knot core Slipknot Lasso Piercing Show
range loop range loop position in JSmol
Model 1 Slipknot S 4131 28-355 355-433 -- --
Model 2 Slipknot S 4131 28-303 303-340 -- --
Model 3 Slipknot S 4131 28-409 409-433 -- --
Model 4 Slipknot S 4131 28-377 377-433 -- --
Model 5 Slipknot S 4131 31-299 299-433 -- --
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
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.
PDB
code
Chain Entanglement
type
Seq
identity
Total gap
coverage
Total gap
identity
RMSD [Å] Pairwise alignment to the target: gap


3LRB

A

S +31,41,+31

99.02%

100.00%

100.00%

1.09

..Target: -AHKVGLIPVTLMVSGAIMGSGVFLLPANLASTGGIAIYGWLVTIIGALGLSMVYAKMSFLDPSPGGSYAYARRCFGPFLGYQTNVLYWLACWIGNIAMVVIGVGYLSYFFPILKDPWVLTITCVVVLWIFVLLNIVGPKMITRVQAVATVLALIPIVGIAVFGWFWFRGETYMAAWNVSGLGTFGAIQSTLNVTLWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAVCYVLSTTAIMGMIPNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTLLAGQTAKAAADDGLFPPIFARVNKAGTPVAGLIIVGILMTIFQLSSISPNATKEFGLVSSVSVIFTLVPYLYTCAALLLLGHGHFGKARPAYLAVTTIAFLYCIWAVVGSGAKEVMWSFVTLMVITAMYALNYNRLHKNPYPLDA
Template: DAHKVGLIPVTLMVSGNIMGSGVFLLPANLASTGGIAIYGWLVTIIGALGLSMVYAKMSFLDPSPGGSYAYARRCFGPFLGYQTNVLYWLACWIGNIAMVVIGVGYLSYFFPILKDPLVLTITCVVVLWIFVLLNIVGPKMITRVQAVATVLALIPIVGIAVFGWFWFRGETYMAAWNVSGLGTFGAIQSTLNVTLWSFIGVESASVAAGVVKNPKRNVPIATIGGVLIAAVCYVLSTTAIMGMIPN--------------------TAGAIVSFCAAAGCLGSLGGWTLLAGQTAKAAADDGLFPPIFARVNKAGTPVAGLIIVGILMTIFQLSSISPNATKEFGLVSSVSVIFTLVPYLYTCAALLLLGHGHFGKARPAYLAVTTIAFLYCIWAVVGSGAKEVMWSFVTLMVITAMYALNYNRLHKN-----P

PDB
code
Chain Knot
type
Gap
coverage
Gap
identity
>Target_Sequence: gap

YMAAWNVSGLGTFGAIQS

3LRB A S +31,41,+31 100.00% 100.00%

YMAAWNVSGLGTFGAIQS


Fri Dec  1 09:49:19 2017	JOB CREATED : 9064767f-fb51-442d-8670-991c63cebc74
Sat Dec  2 02:47:03 2017	STATUS CHANGED : N -> R
Sat Dec  2 02:47:03 2017	INFO : JOB STARTED AT: 2017-12-02 02:47:03.875810
Sat Dec  2 02:47:03 2017	INFO : METHOD: 1
Sat Dec  2 02:47:04 2017	INFO : Precalculated profile found...
Sat Dec  2 02:47:04 2017	INFO : Homologue pool found...
Sat Dec  2 02:47:04 2017	INFO : Verifying structure sequences of homologues...
Sat Dec  2 02:48:00 2017	INFO : Starting homologue filtering...
Sat Dec  2 02:48:57 2017	INFO : Getting structures from PDB...
Sat Dec  2 02:49:13 2017	INFO : Creating modelling alignment...
Sat Dec  2 02:49:13 2017	INFO : Modelling...
Sat Dec  2 03:01:01 2017	INFO : Model 1 built
Sat Dec  2 03:01:01 2017	INFO : Validating Calpha distances...
Sat Dec  2 03:01:01 2017	INFO : Model 1 distances correct: True
Sat Dec  2 03:01:01 2017	INFO : Modelling...
Sat Dec  2 03:10:33 2017	INFO : Model 2 built
Sat Dec  2 03:10:33 2017	INFO : Validating Calpha distances...
Sat Dec  2 03:10:33 2017	INFO : Model 2 distances correct: True
Sat Dec  2 03:10:33 2017	INFO : Modelling...
Sat Dec  2 03:16:55 2017	INFO : Model 3 built
Sat Dec  2 03:16:55 2017	INFO : Validating Calpha distances...
Sat Dec  2 03:16:55 2017	INFO : Model 3 distances correct: True
Sat Dec  2 03:16:55 2017	INFO : Modelling...
Sat Dec  2 03:23:06 2017	INFO : Model 4 built
Sat Dec  2 03:23:06 2017	INFO : Validating Calpha distances...
Sat Dec  2 03:23:06 2017	INFO : Model 4 distances correct: True
Sat Dec  2 03:23:06 2017	INFO : Modelling...
Sat Dec  2 03:29:21 2017	INFO : Model 5 built
Sat Dec  2 03:29:21 2017	INFO : Validating Calpha distances...
Sat Dec  2 03:29:21 2017	INFO : Model 5 distances correct: True
Sat Dec  2 03:30:14 2017	INFO : Finished modelling
Sat Dec  2 03:30:14 2017	STATUS CHANGED : R -> P
Sat Dec  2 03:30:14 2017	INFO : Checking topology...
Sat Dec  2 04:31:41 2017	INFO : Knot matrices done...
Sat Dec  2 04:34:19 2017	INFO : Some knots found!
Sat Dec  2 04:34:19 2017	INFO : No lassos found...
Sat Dec  2 04:34:19 2017	INFO : Finishing...
Sat Dec  2 04:34:19 2017	STATUS CHANGED : P -> E
Sat Dec  2 04:34:19 2017	ERROR : Error while finishing
Sat Dec  2 04:34:19 2017	STATUS CHANGED : E -> F

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