Job name:

2WXZ chain C

85b17bdd-3492-4f19-9f7e-ab09cc83c52b
Finished
Electron density map:

Differential EDM:
Models Number of gaps:3 Gap lengths: 17, 9, 8
Model Entanglement Average DOPE-HR (by gap length)
DOPE-HR 1st gap2nd gap3rd gap
Model 1 Non-trivial -55233
Model 2 Non-trivial -55054
Model 3 Non-trivial -55075
Model 4 Non-trivial -55066
Model 5 Non-trivial -54941
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Warning: All models are renumbered - the first residue in the structure has index 1.
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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 Lasso L +3C -- -- 13-132
Model 2 Lasso L +3C -- -- 13-132
Model 3 Lasso L +3C -- -- 13-132
Model 4 Lasso L +3C -- -- 13-132
Model 5 Lasso L +3C -- -- 13-132
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


2WXW
A
Unknot
63.70%
229.41%
80.47%
1.12

..Target: ------HPFHLLYYSKSTCAQLENPSVETLPEPTFEPVPIQAKTSPVDEKTLRDKLVLATEKLEAEDRQRAAQVAMIANFMGFRMYKMLSEARGVASGA-VLSPPALFGTLVSFYLGSLDPTASQLQVLLGVPVKEGDCTSRLDGHKVLTALQAVQGLLVTQGGSSSQTPLLQSTVVGLFTAPGLRLKQPFVESLGPFTPAIFPRSLDLSTDPVLAAQKINRFVQAVTGWKMNLPLEGVSTDSTLFFNTYVHFQGKMRGFSQLTGLHEFWVDNSTSVSVPMLSGTGNFQHWSDAQNNFSVTRVPLGESVTLLLIQPQCASDLDRVEVLVFQHDFLTWIKNPPPRAIRLTLPQLEIRGSYNLQDLLAQAKLSTLLGAEANLGKMGDTNPRVGEVLNSILLELQAGEEEQPTESAQQPGSPEVLDVTLSSPFLFAIYERDSGALHFLGRVDNPQ
Template: SDRVYIHPFHLVIHNESTCEQLAKANAGKPKDPTFIPAPIQAKTSPVDEKALQDQLVLVAAKLDTEDKLRAAMVGMLANFLGFRIYGMHSELWGVVHGATVLSPTAVFGTLASLYLGALDHTADRLQAILGVPWKDKNCTSRLDAHKVLSALQAVQGLLVAQGRADSQAQLLLSTVVGVFTAPGLHLKQPFVQGLALYTPVVLPRSLDF-TELDVAAEKIDRFMQAVTGWKTGCSLMGASVDSTLAFNTYVHFQGKMKGFSLLAEPQEFWVDNSTSVSVPMLSGMGTFQHWSDIQDNFSVTQVPFTESACLLLIQPHYASDLDKVEGLTFQQNSLNWMKKLSPRTIHLTMPQLVLQGSYDLQDLLAQAELPAILHTELNLQKLSNDRIRVGEVLNSIFFELEA------DE-------PEVLEVTLNRPFLFAVYDQSATALHFLGRVANPL

2WXZ
A
Unknot
99.76%
82.43%
82.43%
0.15

..Target: HPFHLLYYSKSTCAQLENPSVETLPEPTFEPVPIQAKTSPVDEKTLRDKLVLATEKLEAEDRQRAAQVAMIANFMGFRMYKMLSEARGVASGAVLSPPALFGTLVSFYLGSLDPTASQLQVLLGVPVKEGDCTSRLDGHKVLTALQAVQGLLVTQGGSSSQTPLLQSTVVGLFTAPGLRLKQPFVESLGPFTPAIFPRSLDLSTDPVLAAQKINRFVQAVTGWKMNLPLEGVSTDSTLFFNTYVHFQGKMRGFSQLTGLHEFWVDNSTSVSVPMLSGTGNFQHWSDAQNNFSVTRVPLGESVTLLLIQPQCASDLDRVEVLVFQHDFLTWIKNPPPRAIRLTLPQLEIRGSYNLQDLLAQAKLSTLLGAEANLGKMGDTNPRVGEVLNSILLELQAGEEEQPTESAQQPGSPEVLDVTLSSPFLFAIYERDSGALHFLGRVDNPQ
Template: HPFHLLYYSKSTCAQ-------TLPEPTFEPVPIQAKTSPVDEKTLRDKLVLATEKLEAEDRQRAAQVAMIANFVGFRMYKMLSEAR-VASGAVLSPPALFGTLVSFYLGSLDPTASQLQVLLGVPVKEGDCTSRLDGHKVLTALQAVQGLLVT--------PLLQSTVVGLFTAPGLRLKQPFVESLGPFTPAIFPRSLDLSTDPVLAAQKINRFVQAVTGWKMNLPLEGVSTDSTLFFNTYVHFQGKMRGFSQLTGLHEFWVDNSTSVSVPMLSGTGNFQHWSDAQNNFSVTRVPLGESVTLLLIQPQCASDLDRVEVLVFQHDFLTWIKNPPPRAIRLTLPQLEIRGSYNLQDLLAQAKLSTLLGAEANLGKMGDTNPRVGEVLNSILLELQAGE-------AQQPGSPEVLDVTLSSPFLFAIYERDSGALHFLGRVDNPQ

2WY0
C
Unknot
84.91%
88.40%
71.41%
0.83

..Target: -----HPFHLLYYSKSTCAQLENPSVETLPEPTFEPVPIQAKTSPVDEKTLRDKLVLATEKLEAEDRQRAAQVAMIANFMGFRMYKMLSEARGVASGAVLSPPALFGTLVSFYLGSLDPTASQLQVLLGVPVKEGDCTSRLDGHKVLTALQAVQGLLVTQGGSSSQTPLLQSTVVGLFTAPGLRLKQPFVESLGPFTPAIFPRSLDLSTDPVLAAQKINRFVQAVTGWKMNLPLEGVSTDSTLFFNTYVHFQGKMRGFSQLTGLHEFWVDNSTSVSVPMLSGTGNFQHWSDAQNNFSVTRVPLGESVTLLLIQPQCASDLDRVEVLVFQHDFLTWIKNPPPRAIRLTLPQLEIRGSYNLQDLLAQAKLSTLLGAEANLGKMGDTNPRVGEVLNSILLELQAGEEEQPTESAQQPGSPEVLDVTLSSPFLFAIYERDSGALHFLGRVDNPQ
Template: DRVYIHPFHLLYHNKSTC--------ETLPESTFEPVPIQAKTSPVNEKTLHDQLVLAAEKLEDEDRKRAAQVAMITNFVGFRMYKMLNEAGSGASGAILSPPALFGTLVSFYLGSLDPTASQLQTLLDVPVKEGDCTSRLDGHKVLAALRAVQGLLVTT-------PLLQSIVVGLFTAPGFRLKHSFVQSLALFTPALFPRSLDLSTDPVLATEKINRFIKAVTGWKMNLPLEGVSTDSTLLFNTYVHFQGTMRGFSQLPGVHEFWVDNSISVSVPMISGTGNFQHWSDAQNNFSVTCVPLGERATLLLIQPHCISDLDRVEALIFQ-DLLTWIENPPPRAIRLTLPQLEIRGSYNLQDLLAEDKLPTLLGAEANLNNIGDTNPRVGEVLNSILLELKAGEEEQP----------EALDVTLSSPFLFAIYEQDSGTLHFLGRVNNPQ

1KCT
A
Unknot
26.93%
171.90%
75.16%
1.67

..Target: HPFHLLYYSKSTCAQLENPSVETLPEPTFEPVPIQAKTSPVDEKTLRDKLVLATEKLEAEDRQRAAQVAMIANFMGFRMYKMLSEARGVASGAVLSPPALFGTLVSFYLGSLDPTASQLQVLLGVPVKEGDCTSRLDGHKVLTALQAVQGLLVTQGGSSSQTPLLQSTVVGLFTAPGLRLKQPFVESLGPFTPAIFPRSLDLS-TDPVLAAQKINRFVQAVTGWKMNLPLEGVSTDSTLFFNTYVHFQGKM-RGFS-QLTGLHEFWVDNSTSVSVPMLSGTG--NFQHWSDAQNNFSVTRVPLGESVTLLLIQPQCASDLDRVEVLVFQ--HDFLT-WIKNPPPRAIRLTLPQLEIRGSYNLQDLLAQAKLSTLLGAEANLGKMGDTNP-RVGEVLNSILLELQAGEEEQPTESA------QQPGS--PEVLDVTLSSPFLFAIYERDSGALHFLGRVDNP--Q
Template: HP------------------------------------------------------------TFNKITPNLAEF-AFSLYRQLAH-QSNSTNIFFSPVSIAAAFAMLSLGAKGDTHDE--------ILEG-LNFNLTEIPEAQIHEGFQELLRTLNQPDSQ--LQLTTGNGLFLSEGLKLVDKFLEDV---KKLYHSEAFTVNFGDTEEAKKQINDYVEKGTQGKIVDLVKELDRDTVFALVNYIFFKGKWERPFEVKDTEEEDFHVDQVTTVKVPMMKRLGMFNIQHCKKL-SSWVLLMKYLG-NATAIFFLP----DEGKLQHLENELTHDIITKFLENEDRRSASLHLPKLSITGTYDLKSVLGQLGITKVFSNGADLSGVTEEAPLKLSKAVHKAVLTI----DEKGTEAAGAMFLEAIPMSIPPEV---KFNKPFVFLMIEQNTKSPLFMGKVVNPTQK
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PDB
code		 Chain Knot
type		 Gap
coverage		 Gap
identity		 >Target_Sequence: gap

QAGEEEQPTESAQQPGSPEVLDV
2WXW A Unknot 23.53% 29.41%

EA------DE-------PEVLEV
2WXZ A Unknot 58.82% 58.82%

QAGE-------AQQPGSPEVLDV
2WY0 C Unknot 35.29% 41.18%

KAGEEEQP----------EALDV
1KCT A Unknot 52.94% 94.12%

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

LVTQGGSSSQTPLLQ
2WXW A Unknot 44.44% 100.00%

LVAQGRADSQAQLLL
2WXZ A Unknot 11.11% 11.11%

LVT--------PLLQ
2WY0 C Unknot 11.11% 22.22%

LVTT-------PLLQ
1KCT A Unknot 22.22% 77.78%

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

CAQLENPSVETLPE
2WXW A Unknot 12.50% 100.00%

CEQLAKANAGKPKD
2WXZ A Unknot 12.50% 12.50%

CAQ-------TLPE
2WY0 C Unknot 25.00% 25.00%

C--------ETLPE
1KCT A Unknot 0.00% 0.00%

--------------

Models
Similarity profile
Modelling alignment

Fri Dec  1 09:46:56 2017	JOB CREATED : 85b17bdd-3492-4f19-9f7e-ab09cc83c52b
Fri Dec  1 23:31:02 2017	STATUS CHANGED : N -> R
Fri Dec  1 23:31:02 2017	INFO : JOB STARTED AT: 2017-12-01 23:31:02.534406
Fri Dec  1 23:31:02 2017	INFO : METHOD: 1
Fri Dec  1 23:31:02 2017	INFO : Precalculated profile found...
Fri Dec  1 23:31:02 2017	INFO : Homologue pool found...
Fri Dec  1 23:31:02 2017	INFO : Verifying structure sequences of homologues...
Fri Dec  1 23:41:00 2017	INFO : Starting homologue filtering...
Fri Dec  1 23:42:00 2017	INFO : Getting structures from PDB...
Fri Dec  1 23:42:21 2017	INFO : Creating modelling alignment...
Fri Dec  1 23:42:21 2017	INFO : Modelling...
Fri Dec  1 23:52:37 2017	INFO : Model 1 built
Fri Dec  1 23:52:37 2017	INFO : Validating Calpha distances...
Fri Dec  1 23:52:37 2017	INFO : Model 1 distances correct: True
Fri Dec  1 23:52:37 2017	INFO : Modelling...
Sat Dec  2 00:03:00 2017	INFO : Model 2 built
Sat Dec  2 00:03:00 2017	INFO : Validating Calpha distances...
Sat Dec  2 00:03:00 2017	INFO : Model 2 distances correct: True
Sat Dec  2 00:03:00 2017	INFO : Modelling...
Sat Dec  2 00:14:50 2017	INFO : Model 3 built
Sat Dec  2 00:14:50 2017	INFO : Validating Calpha distances...
Sat Dec  2 00:14:50 2017	INFO : Model 3 distances correct: True
Sat Dec  2 00:14:50 2017	INFO : Modelling...
Sat Dec  2 00:26:45 2017	INFO : Model 4 built
Sat Dec  2 00:26:45 2017	INFO : Validating Calpha distances...
Sat Dec  2 00:26:45 2017	INFO : Model 4 distances correct: True
Sat Dec  2 00:26:45 2017	INFO : Modelling...
Sat Dec  2 00:39:13 2017	INFO : Model 5 built
Sat Dec  2 00:39:13 2017	INFO : Validating Calpha distances...
Sat Dec  2 00:39:13 2017	INFO : Model 5 distances correct: True
Sat Dec  2 00:40:11 2017	INFO : Finished modelling
Sat Dec  2 00:40:11 2017	STATUS CHANGED : R -> P
Sat Dec  2 00:40:11 2017	INFO : Checking topology...
Sat Dec  2 00:42:37 2017	INFO : Knot matrices done...
Sat Dec  2 00:42:51 2017	INFO : No knots found...
Sat Dec  2 00:43:02 2017	INFO : Some lassos found!
Sat Dec  2 00:43:02 2017	INFO : Finishing...
Sat Dec  2 00:43:02 2017	STATUS CHANGED : P -> E
Sat Dec  2 00:43:02 2017	ERROR : Error while finishing
Sat Dec  2 00:43:02 2017	STATUS CHANGED : E -> F
GapRepairer | Interdisciplinary Laboratory of Biological Systems Modelling