Job name:

2XTJ chain A

5be49c58-6103-4f82-83b6-aadd0b30a5ee
Finished
Models Number of gaps:2 Gap lengths: 21, 7
Model Entanglement Average DOPE-HR (by gap length)
DOPE-HR 1st gap2nd gap
Model 1 Non-trivial -28285
Model 2 Non-trivial -28100
Model 3 Non-trivial -28053
Model 4 Non-trivial -27893
Model 5 Non-trivial -26564
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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 +1N -- -- 69-101 +33
Model 2 Lasso L +1N -- -- 69-101 +33
Model 3 Lasso L +1N -- -- 69-101 +33
Model 4 Lasso L +1N -- -- 69-101 +33
Model 5 Lasso L +1N -- -- 69-101 +33
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.
Help
PDB
code		 Chain Entanglement
type		 Seq
identity		 Total gap
coverage		 Total gap
identity		 RMSD [Å] Pairwise alignment to the target: gap


4NE9
A
Unknot
52.34%
157.14%
157.14%
0.67

..Target: --PWNLERITPPRYRADEYQPPDGGSLVEVYLLDTSIQSDHREIEGRVMVTDFENVPEEDGTRFHRQASKCDSHGTHLAGVVSGRDAGVAKGASMRSLRVLNCQGKGTVSGTLIGLEFIRKSQLVQPVGPLVVLLPLAGGYSRVLNAACQRLARAGVVLVTAAGNFRDDACLYSPASAPEVITVGATNAQDQPVTLGTLGTNFGRCVDLFAPGEDIIGASSDCSTCFVSQSGTSQAAAHVAGIAAMMLSAEPELTLAELRQRLILFSAK--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------D
Template: SIPWNLERITPPRYRA---------SLVEVYLLDTSIQSDHREIEGRVMVTDFENVPEEDGTRFHRQASKCDSHGTHLAGVVSGRDAGVAKGASMRSLRVLNCQGKGTVSGTLIGLEFIRKSQLVQPVGPLVVLLPLAGGYSRVLNAACQRLARAGVVLVTAAGNFRDDACLYSPASAPEVITVGATNAQDQPVTLGTLGTNFGRCVDLFAPGEDIIGASSDCSTCFVSQSGTSQAAAHVAGIAAMMLSAEPELTLAELRQRLIHFSAKDVINEAWFPEDQRVLTPNLVAALPPQLFCRTVWSAHSGPTRMATAIARCAPDEELLSCSSFSRSGKRRGERMEAQGGKLVCRAHNAFGGEGVYAIARCCLLPQANCSVHTAPPAEASMGTRVHCHQQGHVLTGCSSHWEVEDLGPNQCVGHREASIHASCCHAPGLECKVKEHGIPAPQEQVTVACEEGWTLTGCSALPGTSHVLGAYAVDNTCVVRSRAVTAVAICCRSR

3H42
B
Unknot
51.63%
147.62%
142.86%
0.69

..Target: --PWNLERITPPRYRADEYQPPDGGSLVEVYLLDTSIQSDHREIEGRVMVTDFENVPEEDGTRFHRQASKCDSHGTHLAGVVSGRDAGVAKGASMRSLRVLNCQGKGTVSGTLIGLEFIRKSQLVQPVGPLVVLLPLAGGYSRVLNAACQRLARAGVVLVTAAGNFRDDACLYSPASAPEVITVGATNAQDQPVTLGTLGTNFGRCVDLFAPGEDIIGASSDCSTCFVSQSGTSQAAAHVAGIAAMMLSAEPELTLAELRQRLILFSAK-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------D
Template: SIPWNLERITPPRY------Y-----LVEVYLLDTSIQSDHREIEGRVMVTDFENVPEEDGTRFHRQASKCDSHGTHLAGVVSGRDAGVAKGASMRSLRVLNCQGKGTVSGTLIGLEFIRKSQLVQPVGPLVVLLPLAGGYSRVLNAACQRLARAGVVLVTAAGNFRDDACLYSPASAPEVITVGATNAQDQPVTLGTLGTNFGRCVDLFAPGEDIIGASSDCSTCFVSQSGTSQAAAHVAGIAAMMLSAEPELTLAELRQRLIHFSAKDVINEAWFPEDQRVLTPNLVAALPPSTHWQLFCRTVWSAHSGPTRMATAIARCAPDEELLSCSSFSRSGKRRGERMEAQGGKLVCRAHNAFGGEGVYAIARCCLLPQAACSVHTAPPAEASMGTRVHCHQQGHVLTGCSSHWEVEDLPNQCVGHREASIHASCCHAPGLECKVKEHGIPAPQGQVTVACEEGWTLTGCSALPGTSHVLGAYAVDNTCVVRSRAVTAVAICCRSR

4NE9
B
Unknot
51.63%
80.95%
80.95%
0.69

..Target: --PWNLERITPPRYRADEYQPPDGGSLVEVYLLDTSIQSDHREIEGRVMVTDFENVPEEDGTRFHRQASKCDSHGTHLAGVVSGRDAGVAKGASMRSLRVLNCQGKGTVSGTLIGLEFIRKSQLVQPVGPLVVLLPLAGGYSRVLNAACQRLARAGVVLVTAAGNFRDDACLYSPASAPEVITVGATNAQDQPVTLGTLGTNFGRCVDLFAPGEDIIGASSDCSTCFVSQSGTSQAAAHVAGIAAMMLSAEPELTLAELRQRLILFSAK-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------D
Template: SIPWNLERITPPRYRA-------GGSLVEVYLLDTSIQSDHREIEGRVMVTDFENVPEED------QASKCDSHGTHLAGVVSGRDAGVAKGASMRSLRVLNCQGKGTVSGTLIGLEFIRKSQLVQPVGPLVVLLPLAGGYSRVLNAACQRLARAGVVLVTAAGNFRDDACLYSPASAPEVITVGATNAQDQPVTLGTLGTNFGRCVDLFAPGEDIIGASSDCSTCFVSQSGTSQAAAHVAGIAAMMLSAEPELTLAELRQRLIHFSAKDVINEAWFPEDQRVLTPNLVAALPPSTHQLFCRTVWSAHSGPTRMATAIARCAPDEELLSCSSFSRSGKRRGERMEAQGGKLVCRAHNAFGGEGVYAIARCCLLPQANCSVHTAPPAEASMGTRVHCHQQGHVLTGCSSHWEVEDLGPNQCVGHREASIHASCCHAPGLECKVKEHGIPAPQEQVTVACEEGWTLTGCSALPGTSHVLGAYAVDNTCVVRSRAVTAVAICCRSR

3P5C
A
Unknot
51.01%
114.29%
114.29%
0.78

..Target: --PWNLERITPPRYRADEYQPPDGGSLVEVYLLDTSIQSDHREIEGRVMVTDFENVPEEDGTRFHRQASKCDSHGTHLAGVVSGRDAGVAKGASMRSLRVLNCQGKGTVSGTLIGLEFIRKSQLVQPVGPLVVLLPLAGGYSRVLNAACQRLARAGVVLVTAAGNFRDDACLYSPASAPEVITVGATNAQDQPVTLGTLGTNFGRCVDLFAPGEDIIGASSDCSTCFVSQSGTSQAAAHVAGIAAMMLSAEPELTLAELRQRLILFSAK-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------D
Template: SIPWNLERITPPRYRADEYQ------LVEVYLLDTSIQSDHREIEGRVMVTDFENVPEEDGTR-------CDSHGTHLAGVVSGRDAGVAKGASMRSLRVLNCQGKGTVSGTLIGLEFIRKSQLVQPVGPLVVLLPLAGGYSRVLNAACQRLARAGVVLVTAAGNFRDDACLYSPASAPEVITVGATNAQDQPVTLGTLGTNFGRCVDLFAPGEDIIGASSDCSTCFVSQSGTSQAAAHVAGIAAMMLSAEPELTLAELRQRLIHFSAKDVINEAWFPEDQRVLTPNLVAALPPSTHWQLFCRTVWSAHSGPTRMATAIARCAPDEELLSCSSFSRSGKRRGERMEAQGGKLVCRAHNAFGGEGVYAIARCCLLPQANCSVHTAPPAEASMGTRVHCHQQGHVLTGCSSHWEVEDLPVLRPRGQPNQCVGHREASIHASCCHAPGLECKVKEHGIPAPQEQVTVACEEGWTLTGCSALPGHVLGAYAVDNTCVVRSRAVTAVAICCRSR

3AJ8
A
Unknot
35.13%
109.52%
47.62%
1.01

..Target: ------PWNLERI--TPPRYRADEYQPPDGGSLVEVYLLDTSIQSDHREIEGRVMVTDFENVPEEDGTRFHRQASKCDSHGTHLAGVVSGRDAGVAKGASMRSLRVLNCQGKGTVSGTLIGLEFI--RKSQLVQPVGPLVVLLPLAGGYSRVLNAACQRLARAGVVLVTAAGNFRDDACLYSPASAPEVITVGATNAQDQPVTLGTLGTNFGRCVDLFAPGEDIIGASSDCSTCFVSQSGTSQAAAHVAGIAAMMLSAEPELTLAELR-------------------QRLILFSAKD
Template: AAQTNAPWGLARISSTSPG-TSTYYYDESAGQGSCVYVIDTGIEASHPEFEGRAQMVKTYYYSSRDG----------NGHGTHCAGTVGSRTYGVAKKTQLFGVKVLDDNGSGQYSTIIAGMDFVASDKNNRNCPKG-VVASLSLGGGYSSSVNSAAARLQSSGVMVAVAAGNNNADARNYSPASEPSVCTVGASDRYDR----RSSFSNYGSVLDIFGPGTDILSTWIGGST--RSISGTSMATPHVAGLAAYLMTLGKTTAASACRYIADTANKGDLSNIPFGTVNLLAYNNYQA
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PDB
code		 Chain Knot
type		 Gap
coverage		 Gap
identity		 >Target_Sequence: gap

PWNLERITPPRYRADEYQPPDGGSLVE
4NE9 A Unknot 57.14% 57.14%

PWNLERITPPRYRA---------SLVE
3H42 B Unknot 42.86% 47.62%

PWNLERITPPRY------Y-----LVE
4NE9 B Unknot 66.67% 66.67%

PWNLERITPPRYRA-------GGSLVE
3P5C A Unknot 71.43% 71.43%

PWNLERITPPRYRADEYQ------LVE
3AJ8 A Unknot 33.33% 95.24%

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

EEDGTRFHRQASK
4NE9 A Unknot 100.00% 100.00%

EEDGTRFHRQASK
3H42 B Unknot 100.00% 100.00%

EEDGTRFHRQASK
4NE9 B Unknot 14.29% 14.29%

EED------QASK
3P5C A Unknot 42.86% 42.86%

EEDGTR-------
3AJ8 A Unknot 14.29% 14.29%

SRDG---------

Models
Similarity profile
Modelling alignment

Fri Dec  1 09:47:07 2017	JOB CREATED : 5be49c58-6103-4f82-83b6-aadd0b30a5ee
Fri Dec  1 23:38:02 2017	STATUS CHANGED : N -> R
Fri Dec  1 23:38:02 2017	INFO : JOB STARTED AT: 2017-12-01 23:38:02.164831
Fri Dec  1 23:38:02 2017	INFO : METHOD: 1
Fri Dec  1 23:38:02 2017	INFO : Precalculated profile found...
Fri Dec  1 23:38:02 2017	INFO : Homologue pool found...
Fri Dec  1 23:38:02 2017	INFO : Verifying structure sequences of homologues...
Fri Dec  1 23:49:50 2017	INFO : Starting homologue filtering...
Fri Dec  1 23:50:49 2017	INFO : Getting structures from PDB...
Fri Dec  1 23:51:14 2017	INFO : Creating modelling alignment...
Fri Dec  1 23:51:14 2017	INFO : Modelling...
Sat Dec  2 00:01:19 2017	INFO : Model 1 built
Sat Dec  2 00:01:19 2017	INFO : Validating Calpha distances...
Sat Dec  2 00:01:19 2017	INFO : Model 1 distances correct: True
Sat Dec  2 00:01:19 2017	INFO : Modelling...
Sat Dec  2 00:25:29 2017	INFO : Model 2 built
Sat Dec  2 00:25:29 2017	INFO : Validating Calpha distances...
Sat Dec  2 00:25:29 2017	INFO : Model 2 distances correct: True
Sat Dec  2 00:25:29 2017	INFO : Modelling...
Sat Dec  2 00:50:04 2017	INFO : Model 3 built
Sat Dec  2 00:50:04 2017	INFO : Validating Calpha distances...
Sat Dec  2 00:50:04 2017	INFO : Model 3 distances correct: True
Sat Dec  2 00:50:04 2017	INFO : Modelling...
Sat Dec  2 00:56:48 2017	INFO : Model 4 built
Sat Dec  2 00:56:48 2017	INFO : Validating Calpha distances...
Sat Dec  2 00:56:48 2017	INFO : Model 4 distances correct: True
Sat Dec  2 00:56:48 2017	INFO : Modelling...
Sat Dec  2 01:15:29 2017	INFO : Model 5 built
Sat Dec  2 01:15:29 2017	INFO : Validating Calpha distances...
Sat Dec  2 01:15:29 2017	INFO : Model 5 distances correct: True
Sat Dec  2 01:16:05 2017	INFO : Finished modelling
Sat Dec  2 01:16:05 2017	STATUS CHANGED : R -> P
Sat Dec  2 01:16:05 2017	INFO : Checking topology...
Sat Dec  2 01:17:07 2017	INFO : Knot matrices done...
Sat Dec  2 01:17:27 2017	INFO : No knots found...
Sat Dec  2 01:17:28 2017	INFO : Some lassos found!
Sat Dec  2 01:17:28 2017	INFO : Finishing...
Sat Dec  2 01:17:28 2017	STATUS CHANGED : P -> E
Sat Dec  2 01:17:28 2017	ERROR : Error while finishing
Sat Dec  2 01:17:28 2017	STATUS CHANGED : E -> F
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