Job name:

noname(2ACX chain A)

74748b62-eb0e-470a-8353-673eb31af857
Finished
Models Number of gaps:2 Gap lengths: 18, 8
Model Entanglement Average DOPE-HR (by gap length)
DOPE-HR 1st gap2nd gap
Model 1 Unknot -61502
Model 2 Unknot -61496
Model 3 Unknot -61587
Model 4 Unknot -61289
Model 5 Unknot -61308
Reload
Warning: All models are renumbered - the first residue in the structure has index 1.
Mix & match
None of the models is perfect? By clicking the button below you can download a .pdb file with the currently shown mix of models - for each gap at most one model can be selected. If none of them is checked, the gap will be left as is. Fourth and further gaps (sorted by size) can only come from one of the models.
Warning: JSmol may at times display gaps where there are none - due to some overlaps in models. This does not indicate presence of gaps in downloaded structure!
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


3NYN

A

Unknot

92.95%

200.00%

200.00%

1.34

..Target: ------------KAREGGGGNRKGKSKKWRQMLQFPHISQCEELRLSLERDYHSLCERNPIGRLLFREFCATRPELSRCVAFLDGVAEYEVTPDDKRKACGRNLTQNFLSHTGPDLIPEVPRQLVTNCTQRLEQGPCKDLFQELTRLTHEYLSVAPFADYLDSIYFNRFLQWKWLERQPVTKNTFRQYRVLGKGGFGEVCACQVRATGKMYACKKLEKKRIKKRKGEAMALNEKQILEKVNSRFVVSLAYAYETKDALCLVLTLMNGGDLKFHIYHMGQAGFPEARAVFYAAEICCGLEDLHRERIVYRDLKPENILLDDHGHIRISDLGLAVHVPEGQTIKGRVGTVGYMAPEVVKNERYTFSPDWWALGCLLYEMIAGQSPFQQRKKKIKREEVERLVKEVPEEYSERFSPQARSLCSQLLCKDPAERLGCRGGSAREVKEHPLFKKLNFKRLGAGMLEPPFKPDPQAIYCKDVLDIEQFSTVKGVELEPTDQDFYQKFATGSVPIPWQNEMVETECFQELNVFGLDG-------------------------S
Template: ELENIVANTVLLKAREGGGGNRKGKSKKWRQMLQFPHISQCEELRLSLERDYHSLCERQPIGRLLFREFCATRPELSRCVAFLDGVAEYEVTPDDKRKACGRQLTQNFLSHTGPDLIPEVPRQLVTNCTQRLEQGPCKDLFQELTRLTHEYLSVAPFADYLDSIYFNRFLQWKWLERQPVTKNTFRQYRVLGKGGFGEVCACQVRATGKMYACKKLEKKRIKKRKGEAMALNEKQILEKVNSRFVVSLAYAYETKDALCLVLTLMNGGDLKFHIYHMGQAGFPEARAVFYAAEICCGLEDLHRERIVYRDLKPENILLDDHGHIRISDLGLAVHVPEGQTIKGRVGTVGYMAPEVVKNERYTFSPDWWALGCLLYEMIAGQSPFQ---KKIKREEVERLVKEVPEEYSERFSPQARSLCSQLLCKDPAERLGCRGGSAREVKEHPLFKKLNFKRLGAGMLEPPFKPDPQAIYCKDVLDIEQFSTVKGVELEPTDQDFYQKFATGSVPIPWQNEMVETECFQELNVFGLDGSVPPDLDWKGQPPAPPKKGLLQRLFS

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

IYCKDVLDIEQFSTVKGVELEPTD

3NYN A Unknot 100.00% 100.00%

IYCKDVLDIEQFSTVKGVELEPTD

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

KAREGGGGNRKGKS

3NYN A Unknot 100.00% 100.00%

KAREGGGGNRKGKS


Sun Jul 23 14:59:16 2017	JOB CREATED : 74748b62-eb0e-470a-8353-673eb31af857
Sun Jul 23 22:35:01 2017	STATUS CHANGED : N -> R
Sun Jul 23 22:35:01 2017	INFO : JOB STARTED AT: 2017-07-23 22:35:01.794029
Sun Jul 23 22:35:01 2017	INFO : METHOD: 1
Sun Jul 23 22:35:01 2017	INFO : Precalculated profile found...
Sun Jul 23 22:35:01 2017	INFO : Homologue pool found...
Sun Jul 23 22:35:01 2017	INFO : Verifying structure sequences of homologues...
Mon Jul 24 01:22:10 2017	INFO : Starting homologue filtering...
Mon Jul 24 01:23:16 2017	INFO : Getting structures from PDB...
Mon Jul 24 01:23:28 2017	INFO : Creating modelling alignment...
Mon Jul 24 01:23:28 2017	INFO : Modelling...
Mon Jul 24 01:29:46 2017	INFO : Model 1 built
Mon Jul 24 01:29:46 2017	INFO : Validating Calpha distances...
Mon Jul 24 01:29:46 2017	INFO : Model 1 distances correct: True
Mon Jul 24 01:29:46 2017	INFO : Modelling...
Mon Jul 24 01:36:03 2017	INFO : Model 2 built
Mon Jul 24 01:36:03 2017	INFO : Validating Calpha distances...
Mon Jul 24 01:36:03 2017	INFO : Model 2 distances correct: True
Mon Jul 24 01:36:03 2017	INFO : Modelling...
Mon Jul 24 01:44:32 2017	INFO : Model 3 built
Mon Jul 24 01:44:32 2017	INFO : Validating Calpha distances...
Mon Jul 24 01:44:32 2017	INFO : Model 3 distances correct: True
Mon Jul 24 01:44:32 2017	INFO : Modelling...
Mon Jul 24 01:50:41 2017	INFO : Model 4 built
Mon Jul 24 01:50:41 2017	INFO : Validating Calpha distances...
Mon Jul 24 01:50:41 2017	INFO : Model 4 distances correct: True
Mon Jul 24 01:50:41 2017	INFO : Modelling...
Mon Jul 24 02:01:15 2017	INFO : Model 5 built
Mon Jul 24 02:01:15 2017	INFO : Validating Calpha distances...
Mon Jul 24 02:01:15 2017	INFO : Model 5 distances correct: True
Mon Jul 24 02:02:04 2017	INFO : Finished modelling
Mon Jul 24 02:02:04 2017	STATUS CHANGED : R -> P
Mon Jul 24 02:02:04 2017	INFO : Checking topology...
Mon Jul 24 02:19:51 2017	INFO : Knot matrices done...
Mon Jul 24 02:19:51 2017	INFO : No knots found...
Mon Jul 24 02:19:52 2017	INFO : No lassos found...
Mon Jul 24 02:19:52 2017	INFO : Finishing...
Mon Jul 24 02:19:52 2017	INFO : Job done
Mon Jul 24 02:19:52 2017	STATUS CHANGED : P -> F
Mon Jul 24 02:19:52 2017	STATUS CHANGED : F -> F

GapRepairer | Interdisciplinary Laboratory of Biological Systems Modelling