Job name:

3RV2 chain A

c376c0a4-7ac9-4a1b-a72d-3123c4429d15
Finished
Models Number of gaps:1 Gap lengths: 27
Model Entanglement Average DOPE-HR (by gap length)
DOPE-HR 1st gap
Model 1 Non-trivial -46364
Model 2 Non-trivial -46287
Model 3 Non-trivial -46253
Model 4 Non-trivial -46167
Model 5 Non-trivial -46205
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 Knot K 31 8-284 -- -- --
Model 2 Knot K 31 8-284 -- -- --
Model 3 Knot K 31 17-284 -- -- --
Model 4 Knot K 31 8-290 -- -- --
Model 5 Knot K 31 8-284 -- -- --
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.
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PDB
code		 Chain Entanglement
type		 Seq
identity		 Total gap
coverage		 Total gap
identity		 RMSD [Å] Pairwise alignment to the target: gap


1FUG
A
K +31
61.36%
62.96%
51.85%
1.02

..Target: GR-LFTSESVTEGHPDKICDAVSDSVLDALLAADPRSRVAVETLVTTGQVHVVGEVTTTAKEAFADITNIVRERILDIGYDSSDKGFDGASCGVNIGIGAQSPDIAQGVDTAHEARVEGAADPLDAQGAGDQGLMFGYAINDTPELMPLPIALAHRLSRRLTEVRKNGVLPYLRPDGKTQVTIAYEDRVPVRLDTVVISTQHADDIDLVKTLDPDIREQVLKTVLDDLAHDTLDASAVRVLVNPTGKFVLGGPMGDAGLTGRKIIVDTYGGWARHGGGAFSGKDPSKVDRSAAYAMRWVAKNVVAAGLAERVEVQVAYAIGKAAPVGLFVETFGSEAVDPVKIEKAIGEVFDLRPGAIIRDLNLLRPIYAPTAAYGHFGRTDVDLPWERLDKVD---DLKRAI
Template: AKHLFTSESVSEGHPDKIADQISDAVLDAILEQDPKARVACETYVKTGMVLVGGEITTSA---WVDIEEITRNTVREIGYVHSDMGFDANSCAVLSAIGKQSPDINQGVD---------RADPLE-QGAGDQGLMFGYATNETDVLMPAPITYAHRLVQRQAEVRKNGTLPWLRPDAKSQVTFQYDDGKIVGIDAVVLSTQHSEEID-QKSLQEAVMEEIIKPI---LPAEWL-TSATKFFINPTGRFVIGGPMGDCGLTGRKIIVDTYGGMARHGGGAFSGKDPSKVDRSAAYAARYVAKNIVAAGLADRCEIQVSYAIGVAEPTSIMVETFGTEKVPSEQLTLLVREFFDLRPYGLIQMLDLLHPIYKETAAYGHFGR--EHFPWEKTDKAQLLRDAAGLK

4KTT
B
K +31
55.24%
66.67%
44.44%
0.90

..Target: --GR-LFTSESVTEGHPDKICDAVSDSVLDALLAADPRSRVAVETLVTTGQVHVVGEVTTTAKEAFADITNIVRERILDIGYDSSDKGFDGASCGVNIGIGAQSPDIAQGVDTAHEARVEGAADPLDAQGAGDQGLMFGYAINDTPELMPLPIALAHRLSRRLTEVRKNGVLPYLRPDGKTQVTIAY-EDR---VPVRLDTVVISTQHADDIDLVKTLDPDIREQVLKTVLDDLAHDTLDASAVRVLVNPTGKFVLGGPMGDAGLTGRKIIVDTYGGWARHGGGAFSGKDPSKVDRSAAYAMRWVAKNVVAAGLAERVEVQVAYAIGKAAPVGLFVETFGSEAVDPVKIEKAIGEVFDLRPGAIIRDLNLLRPIYAPTAAYGHFGRTDVDLPWERLDKVDDLKRAI
Template: EEGTFLFTSESVGEGHPDKICDQISDAVLDAHLQQDPDAKVACETVAKTGMILLAGEITSRA---AVDYQKVVREAVKHIGYDDSSKGFDYKTCNVLVALEQQSPDIAQGV---HLDRNE------EDIGAGDQGLMFGYATDETEECMPLTIVLAHKLNAKLAELRRNGTLPWLRPDSKTQVTVQYMQDRGAVLPIRVHTIVISVQHDEEVCLDEMRDA-LKEKVIKAV---VPAKYLDEDTIYHL-QPSGRFVIGGPQGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDYTKVDRSAAYAARWVAKSLVKGGLCRRVLVQVSYAIGVSHPLSISIFHYGTSQKSERELLEIVKKNFDLRPGVIVRDLDLKKPIYQRTAAYGHFGR--DSFPWE-----VPKKLKY

3IML
D
K +31
62.38%
33.33%
7.41%
0.69

..Target: GRLFTSESVTEGHPDKICDAVSDSVLDALLAADPRSRVAVETLVTTGQVHVVGEVTTTAKEAFADITNIVRERILDIGYDSSDKGFDGASCGVNIGIGAQSPDIAQGVDTAHEARVEGAADPLDAQGAGDQGLMFGYAINDTPELMPLPIALAHRLSRRLTEVRKNGVLPYLRPDGKTQVTIAYEDRVPVRLDTVVISTQHADDIDLVKTLDPDIREQVLKTVLDDLAHDTLDASAVRVLVNPTGKFVLGGPMGDAGLTGRKIIVDTYGGWARHGGGAFSGKDPSKVDRSAAYAMRWVAKNVVAAGLAERVEVQVAYAIGKAAPVGLFVETFGSEAVDPVKIEKAIGEVFDLRPGAIIRDLNLLRPIYAPTAAYGHFGRTDVDLPWERLDKVDDLKRAI
Template: -YLFTSESVSEGHPDKVADQISDAILDAILAQDKYSRVAAETLCNTGLVVLAGEITTT---ANIDYIQIARDTIKRIGY----------GC---------------AVLVAYDKQ---------------QGLMFGYACDETPELMPLPIHLSHRLVERQANLRRDGRLPWLRPDAKSQVTVRYVDGKPHSIDTVVLSTQHAPEID-----LPALREAVIEEVIKPTLPADLIKGDIKFLVNPTGRFVIGGPQGDCGLTGRKIIVDTYGGAAPHGGGAFSGKDPSKVDRSAAYAGRYVAKNIVAAGLASRALIQVSYA-------------------------------FDLRPKGIIQMLDLLRPIYEKTAAYGHFGREEPEFSWEAADK--------
Help
PDB
code		 Chain Knot
type		 Gap
coverage		 Gap
identity		 >Target_Sequence: gap

QSPDIAQGVDTAHEARVEGAADPLDAQGAGDQG
1FUG A K +31 51.85% 62.96%

QSPDINQGVD---------RADPLE-QGAGDQG
4KTT B K +31 44.44% 66.67%

QSPDIAQGV---HLDRNE------EDIGAGDQG
3IML D K +31 7.41% 33.33%

-------AVLVAYDKQ---------------QG

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

Fri Dec  1 09:50:30 2017	JOB CREATED : c376c0a4-7ac9-4a1b-a72d-3123c4429d15
Sat Dec  2 04:10:02 2017	STATUS CHANGED : N -> R
Sat Dec  2 04:10:02 2017	INFO : JOB STARTED AT: 2017-12-02 04:10:02.451230
Sat Dec  2 04:10:02 2017	INFO : METHOD: 1
Sat Dec  2 04:10:02 2017	INFO : Precalculated profile found...
Sat Dec  2 04:10:02 2017	INFO : Homologue pool found...
Sat Dec  2 04:10:02 2017	INFO : Verifying structure sequences of homologues...
Sat Dec  2 04:12:46 2017	INFO : Starting homologue filtering...
Sat Dec  2 04:13:49 2017	INFO : Getting structures from PDB...
Sat Dec  2 04:14:08 2017	INFO : Creating modelling alignment...
Sat Dec  2 04:14:08 2017	INFO : Modelling...
Sat Dec  2 04:20:32 2017	INFO : Model 1 built
Sat Dec  2 04:20:32 2017	INFO : Validating Calpha distances...
Sat Dec  2 04:20:32 2017	INFO : Model 1 distances correct: True
Sat Dec  2 04:20:32 2017	INFO : Modelling...
Sat Dec  2 04:27:22 2017	INFO : Model 2 built
Sat Dec  2 04:27:22 2017	INFO : Validating Calpha distances...
Sat Dec  2 04:27:22 2017	INFO : Model 2 distances correct: True
Sat Dec  2 04:27:22 2017	INFO : Modelling...
Sat Dec  2 04:34:03 2017	INFO : Model 3 built
Sat Dec  2 04:34:03 2017	INFO : Validating Calpha distances...
Sat Dec  2 04:34:03 2017	INFO : Model 3 distances correct: True
Sat Dec  2 04:34:03 2017	INFO : Modelling...
Sat Dec  2 04:40:46 2017	INFO : Model 4 built
Sat Dec  2 04:40:46 2017	INFO : Validating Calpha distances...
Sat Dec  2 04:40:46 2017	INFO : Model 4 distances correct: True
Sat Dec  2 04:40:46 2017	INFO : Modelling...
Sat Dec  2 04:47:13 2017	INFO : Model 5 built
Sat Dec  2 04:47:13 2017	INFO : Validating Calpha distances...
Sat Dec  2 04:47:13 2017	INFO : Model 5 distances correct: True
Sat Dec  2 04:48:01 2017	INFO : Finished modelling
Sat Dec  2 04:48:01 2017	STATUS CHANGED : R -> P
Sat Dec  2 04:48:01 2017	INFO : Checking topology...
Sat Dec  2 04:50:15 2017	INFO : Knot matrices done...
Sat Dec  2 04:51:52 2017	INFO : Some knots found!
Sat Dec  2 04:51:52 2017	INFO : No lassos found...
Sat Dec  2 04:51:52 2017	INFO : Finishing...
Sat Dec  2 04:51:52 2017	STATUS CHANGED : P -> E
Sat Dec  2 04:51:52 2017	ERROR : Error while finishing
Sat Dec  2 04:51:52 2017	STATUS CHANGED : E -> F
GapRepairer | Interdisciplinary Laboratory of Biological Systems Modelling