Job name:

3CMI chain A

1713247d-190d-4dda-9c99-f970c3fb89ce
Finished
Models Number of gaps:1 Gap lengths: 19
Model Entanglement Average DOPE-HR (by gap length)
DOPE-HR 1st gap
Model 1 Unknot -18738
Model 2 Unknot -18616
Model 3 Unknot -18381
Model 4 Unknot -17690
Model 5 Unknot -17247
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.

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


2OBI

A

Unknot

39.39%

94.74%

52.63%

0.89

..Target: SEF------YKLAPVDKKGQPFPFDQLKGKVVLIVNVASKCGFTP-QYKELEALYKRYKDEGFTIIGFPCNQFGHQEPGSDEEIAQFCQLNYGVTFPIMKKIDVNGGNEDPVYKFLKSQKSG--MLGLRGIKWNFEKFLVDKKGKVYERYSSLTKPSSLSETIEELLKEV
Template: DDWRCARSMHEFSAKDIDGHMVNLDKYRGFVCIVTNVASQCGKTEVNYTQLVDLHARYAECGLRILAFPCNQFGKQEPGSNEEIKEFA-AGYNVKFDMFSKICVNGDDAHPLWKWMKIQPKGKGILG-NAIKWNFTKFLIDKNGCVVKRYGPMEEPLVIEKDLPHYF---


2WGR

A

Unknot

43.56%

100.00%

42.11%

0.93

..Target: S--EFYKLAPVDKKGQPFPFDQLKGKVVLIVNVASKCGFTPQ-YKELEALYKRYKDEGFTIIGFPCNQFGHQEPGSDEEIAQFCQLNYGVTFPIMKKIDVNGGNEDPVYKFLKSQKSGMLGLRGIKWNFEKFLVDKKGKVYERYSSLTKPSSLSETIEELLKEV
Template: SWNSIYEFTVKDINGVDVSLEKYRGHVCLIVNVACKSGATDKNYRQLQEMHTRLVGKGLRILAFPCNQFGGQEPWAEAEIKKFVTEKYGVQFDMFSKIKVNGSDADDLYKFLKSRQHGTL-TNNIKWNFSKFLVDRQGQPVKRYSPTTAPYDIEGDIMELLEKK

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

QFGHQEPGSDEEIAQFCQLNYGVTF

2OBI A Unknot 52.63% 94.74%

QFGKQEPGSNEEIKEFA-AGYNVKF

2WGR A Unknot 42.11% 100.00%

QFGGQEPWAEAEIKKFVTEKYGVQF


Sun Jul 23 14:55:29 2017	JOB CREATED : 1713247d-190d-4dda-9c99-f970c3fb89ce
Sun Jul 23 16:06:01 2017	STATUS CHANGED : N -> R
Sun Jul 23 16:06:01 2017	INFO : JOB STARTED AT: 2017-07-23 16:06:01.928476
Sun Jul 23 16:06:01 2017	INFO : METHOD: 1
Sun Jul 23 16:06:01 2017	INFO : Precalculated profile found...
Sun Jul 23 16:06:02 2017	INFO : Homologue pool found...
Sun Jul 23 16:06:02 2017	INFO : Verifying structure sequences of homologues...
Sun Jul 23 16:17:00 2017	INFO : Starting homologue filtering...
Sun Jul 23 16:17:39 2017	INFO : Getting structures from PDB...
Sun Jul 23 16:17:43 2017	INFO : Creating modelling alignment...
Sun Jul 23 16:17:43 2017	INFO : Modelling...
Sun Jul 23 16:19:00 2017	INFO : Model 1 built
Sun Jul 23 16:19:00 2017	INFO : Validating Calpha distances...
Sun Jul 23 16:19:00 2017	INFO : Model 1 distances correct: True
Sun Jul 23 16:19:00 2017	INFO : Modelling...
Sun Jul 23 16:20:55 2017	INFO : Model 2 built
Sun Jul 23 16:20:55 2017	INFO : Validating Calpha distances...
Sun Jul 23 16:20:55 2017	INFO : Model 2 distances correct: True
Sun Jul 23 16:20:55 2017	INFO : Modelling...
Sun Jul 23 16:22:10 2017	INFO : Model 3 built
Sun Jul 23 16:22:10 2017	INFO : Validating Calpha distances...
Sun Jul 23 16:22:10 2017	INFO : Model 3 distances correct: True
Sun Jul 23 16:22:10 2017	INFO : Modelling...
Sun Jul 23 16:23:31 2017	INFO : Model 4 built
Sun Jul 23 16:23:31 2017	INFO : Validating Calpha distances...
Sun Jul 23 16:23:31 2017	INFO : Model 4 distances correct: True
Sun Jul 23 16:23:31 2017	INFO : Modelling...
Sun Jul 23 16:24:52 2017	INFO : Model 5 built
Sun Jul 23 16:24:52 2017	INFO : Validating Calpha distances...
Sun Jul 23 16:24:52 2017	INFO : Model 5 distances correct: True
Sun Jul 23 16:25:05 2017	INFO : Finished modelling
Sun Jul 23 16:25:05 2017	STATUS CHANGED : R -> P
Sun Jul 23 16:25:05 2017	INFO : Checking topology...
Sun Jul 23 16:26:10 2017	INFO : Knot matrices done...
Sun Jul 23 16:26:10 2017	INFO : No knots found...
Sun Jul 23 16:26:10 2017	INFO : No lassos found...
Sun Jul 23 16:26:10 2017	INFO : Finishing...
Sun Jul 23 16:26:10 2017	INFO : Job done
Sun Jul 23 16:26:10 2017	STATUS CHANGED : P -> F
Sun Jul 23 16:26:10 2017	STATUS CHANGED : F -> F

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