Model | Type | Knot core | Slipknot | Lasso | Piercing | Show | |||
---|---|---|---|---|---|---|---|---|---|
range | loop range | loop | position | in JSmol | |||||
Model 1 | Knot | K +31 | 139-768 | -- | -- | -- | |||
Lasso | L +1C | -- | -- | 116-666 | |||||
Model 2 | Knot | K +31 | 139-768 | -- | -- | -- | |||
Model 3 | Knot | K +31 | 139-768 | -- | -- | -- | |||
Model 4 | Knot | K +31 | 139-768 | -- | -- | -- | |||
Lasso | L +1C | -- | -- | 116-168 | |||||
Model 5 | Knot | K 8231 | 139-768 | -- | -- | -- | |||
Lasso | L +1C | -- | -- | 116-168 | |||||
None |
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 | ||||
---|---|---|---|---|---|---|---|---|---|---|---|
1QVI |
A |
Unknot |
99.75% |
349.13% |
349.13% |
0.99 |
..Target: FSDPDFQYLAVDRKKLMKEQTAAFDGKKNCWVPDEKEGFASAEIQSSKGDEITVKIVADSSTRTVKKDDIQSMNPPKFEKLEDMANMTYLNEASVLYNLRSRYTSGLIYTYSGLFCIAVNPYRRLPIYTDSVIAKYRGKRKTEIPPHLFSVADNAYQNMVTDRENQSCLITGESGAGKTENTKKVIMYLAKVACAVKKKDEEASDKKEGSLEDQIIQANPVLEAYGNAKTTRNNNSSRFGKFIRIHFGPTGKIAGADIETYLLEKSRVTYQQSAERNYHIFYQICSNAIPELNDVMLVTPDSGLYSFINQGCLTVDNIDDVEEFKLCDEAFDILGFTKEEKQSMFKCTASILHMGEMKFKQRPREEQAESDGTAEAEKVAFLCGINAGDLLKALLKPKVKVGTEMVTKGQNMNQVVNSVGALAKSLYDRMFNWLVRRVNKTLDTKAKRNYYIGVLDIAGFEIFDFNSFEQLCINYTNERLQQFFNHHMFILEQEEYKKEGIAWEFIDFGMDLQMCIDLIEKPMGILSILEEECMFPKADDKSFQDKLYQNHMGKNRMFTKPGKPTRPNQGPAHFELHHYAGNVPYSITGWLEKNKDPINENVVALLGASKEPLVAELFKAPEEPAGGGKKKKGKSSAFQTISAVHRESLNKLMKNLYSTHPHFVRCIIPNELKQPGLVDAELVLHQLQCNGVLEGIRICRKGFPSRLIYSEFKQRYSILAPNAIPQGFVDGKTVSEKILAGLQMDPAEYRLGTTKVFFKAGVLGNLEEMRDERLSKIISMFQAHIRGYLIRKAYKKLQDQRIGLSVIQRNIRKWLVLRNWQWWKLYSKVKP-- |
||||
1S5G |
A |
Unknot |
99.50% |
350.43% |
346.09% |
1.38 |
..Target: --FSDPDFQYLAVDRKKLMKEQTAAFDGKKNCWVPDEKEGFASAEIQSSKGDEITVKIVADSSTRTVKKDDIQSMNPPKFEKLEDMANMTYLNEASVLYNLRSRYTSGLIYTYSGLFCIAVNPYRRLPIYTDSVIAKYRGKRKTEIPPHLFSVADNAYQNMVTDRENQSCLITGESGAGKTENTKKVIMYLAKVACAVKKKDEEASDKKEGSLEDQIIQANPVLEAYGNAKTTRNNNSSRFGKFIRIHFGPTGKIAGADIETYLLEKSRVTYQQSAERNYHIFYQICSNAIPELNDVMLVTPDSGLYSFINQGCLTVDNIDDVEEFKLCDEAFDILGFTKEEKQSMFKCTASILHMGEMKFKQRPREEQAESDGTAEAEKVAFLCGINAGDLLKALLKPKVKVGTEMVTKGQNMNQVVNSVGALAKSLYDRMFNWLVRRVNKTLDTKAKRNYYIGVLDIAGFEIFDFNSFEQLCINYTNERLQQFFNHHMFILEQEEYKKEGIAWEFIDFGMDLQMCIDLIEKPMGILSILEEECMFPKADDKSFQDKLYQNHMGKNRMFTKPGKPTRPNQGPAHFELHHYAGNVPYSITGWLEKNKDPINENVVALLGASKEPLVAELFKAPEEPAGGGKKKKGKSSAFQTISAVHRESLNKLMKNLYSTHPHFVRCIIPNELKQPGLVDAELVLHQLQCNGVLEGIRICRKGFPSRLIYSEFKQRYSILAPNAIPQGFVDGKTVSEKILAGLQMDPAEYRLGTTKVFFKAGVLGNLEEMRDERLSKIISMFQAHIRGYLIRKAYKKLQDQRIGLSVIQRNIRKWLVLRNWQWWKLYSKVKP- |
||||
2EC6 |
A |
Unknot |
94.14% |
342.93% |
281.74% |
1.67 |
..Target: ----FSDPDFQYLAVDRKKLMKEQTAAFDGKKNCWVPDEKEGFASAEIQSSKGDEITVKIVADSSTRTVKKDDIQSMNPPKFEKLEDMANMTYLNEASVLYNLRSRYTSGLIYTYSGLFCIAVNPYRRLPIYTDSVIAKYRGKRKTEIPPHLFSVADNAYQNMVTDRENQSCLITGESGAGKTENTKKVIMYLAKVACAVKKKDEEASDKKEGSLEDQIIQANPVLEAYGNAKTTRNNNSSRFGKFIRIHFGPTGKIAGADIETYLLEKSRVTYQQSAERNYHIFYQICSNAIPELNDVMLVTPDSGLYSFINQGCLTVDNIDDVEEFKLCDEAFDILGFTKEEKQSMFKCTASILHMGEMKFKQRPREEQAESDGTAEAEKVAFLCGINAGDLLKALLKPKVKVGTEMVTKGQNMNQVVNSVGALAKSLYDRMFNWLVRRVNKTLDTKAKRNYYIGVLDIAGFEIFDFNSFEQLCINYTNERLQQFFNHHMFILEQEEYKKEGIAWEFIDFGMDLQMCIDLIEKPMGILSILEEECMFPKADDKSFQDKLYQNHMGKNRMFTKPGKPTRPNQGPAHFELHHYAGNVPYSITGWLEKNKDPINENVVALLGASKEPLVAELFKAPEEPAGGGKKKKGKSSAFQTISAVHRESLNKLMKNLYSTHPHFVRCIIPNELKQPGLVDAELVLHQLQCNGVLEGIRICRKGFPSRLIYSEFKQRYSILAPNAIPQGFVDGKTVSEKILAGLQMDPAEYRLGTTKVFFKAGVLGNLEEMRDERLSKIISMFQAHIRGYLIRKAYKKLQDQRIGLSVIQRNIRKWLVLRNWQWWKLYSKVKP |
||||
1KK7 |
A |
Unknot |
99.75% |
289.78% |
289.78% |
1.37 |
..Target: FSDPDFQYLAVDRKKLMKEQTAAFDGKKNCWVPDEKEGFASAEIQSSKGDEITVKIVADSSTRTVKKDDIQSMNPPKFEKLEDMANMTYLNEASVLYNLRSRYTSGLIYTYSGLFCIAVNPYRRLPIYTDSVIAKYRGKRKTEIPPHLFSVADNAYQNMVTDRENQSCLITGESGAGKTENTKKVIMYLAKVACAVKKKDEEASDKKEGSLEDQIIQANPVLEAYGNAKTTRNNNSSRFGKFIRIHFGPTGKIAGADIETYLLEKSRVTYQQSAERNYHIFYQICSNAIPELNDVMLVTPDSGLYSFINQGCLTVDNIDDVEEFKLCDEAFDILGFTKEEKQSMFKCTASILHMGEMKFKQRPREEQAESDGTAEAEKVAFLCGINAGDLLKALLKPKVKVGTEMVTKGQNMNQVVNSVGALAKSLYDRMFNWLVRRVNKTLDTKAKRNYYIGVLDIAGFEIFDFNSFEQLCINYTNERLQQFFNHHMFILEQEEYKKEGIAWEFIDFGMDLQMCIDLIEKPMGILSILEEECMFPKADDKSFQDKLYQNHMGKNRMFTKPGKPTRPNQGPAHFELHHYAGNVPYSITGWLEKNKDPINENVVALLGASKEPLVAELFKAPEEPAGGGKKKKGKSSAFQTISAVHRESLNKLMKNLYSTHPHFVRCIIPNELKQPGLVDAELVLHQLQCNGVLEGIRICRKGFPSRLIYSEFKQRYSILAPNAIPQGFVDGKTVSEKILAGLQMDPAEYRLGTTKVFFKAGVLGNLEEMRDERLSKIISMFQAHIRGYLIRKAYKKLQDQRIGLSVIQRNIRKWLVLRNWQWWKLYSKVKP-- |
||||
1KQM |
A |
Unknot |
100.00% |
220.33% |
220.33% |
1.16 |
..Target: FSDPDFQYLAVDRKKLMKEQTAAFDGKKNCWVPDEKEGFASAEIQSSKGDEITVKIVADSSTRTVKKDDIQSMNPPKFEKLEDMANMTYLNEASVLYNLRSRYTSGLIYTYSGLFCIAVNPYRRLPIYTDSVIAKYRGKRKTEIPPHLFSVADNAYQNMVTDRENQSCLITGESGAGKTENTKKVIMYLAKVACAVKKKDEEASDKKEGSLEDQIIQANPVLEAYGNAKTTRNNNSSRFGKFIRIHFGPTGKIAGADIETYLLEKSRVTYQQSAERNYHIFYQICSNAIPELNDVMLVTPDSGLYSFINQGCLTVDNIDDVEEFKLCDEAFDILGFTKEEKQSMFKCTASILHMGEMKFKQRPREEQAESDGTAEAEKVAFLCGINAGDLLKALLKPKVKVGTEMVTKGQNMNQVVNSVGALAKSLYDRMFNWLVRRVNKTLDTKAKRNYYIGVLDIAGFEIFDFNSFEQLCINYTNERLQQFFNHHMFILEQEEYKKEGIAWEFIDFGMDLQMCIDLIEKPMGILSILEEECMFPKADDKSFQDKLYQNHMGKNRMFTKPGKPTRPNQGPAHFELHHYAGNVPYSITGWLEKNKDPINENVVALLGASKEPLVAELFKAPEEPAGGGKKKKGKSSAFQTISAVHRESLNKLMKNLYSTHPHFVRCIIPNELKQPGLVDAELVLHQLQCNGVLEGIRICRKGFPSRLIYSEFKQRYSILAPNAIPQGFVDGKTVSEKILAGLQMDPAEYRLGTTKVFFKAGVLGNLEEMRDERLSKIISMFQAHIRGYLIRKAYKKLQDQRIGLSVIQRNIRKWLVLRNWQWWKLYSKVKP |
PDB code |
Chain | Knot type |
Gap coverage |
Gap identity |
>Target_Sequence: gap | VAELFKAPEEPAGGGKKKKGKSSAFQTIS |
|||
---|---|---|---|---|---|---|---|---|---|
1QVI | A | Unknot | 39.13% | 39.13% | VAELFKAPEE--------------FQTIS |
||||
1S5G | A | Unknot | 26.09% | 30.43% | VAELFKAPEQ----------------TIS |
||||
2EC6 | A | Unknot | 21.74% | 30.43% | VAELFR------A----------AFQTIS |
||||
1KK7 | A | Unknot | 34.78% | 34.78% | VAELFKAPEE---------------QTIS |
||||
1KQM | A | Unknot | 47.83% | 47.83% | VAELFKAPEEPA------------FQTIS |
PDB code |
Chain | Knot type |
Gap coverage |
Gap identity |
>Target_Sequence: gap | AKVACAVKKKDEEASDKKEGSLEDQI |
|||
---|---|---|---|---|---|---|---|---|---|
1QVI | A | Unknot | 50.00% | 50.00% | AKVACAV----------KEGSLEDQI |
||||
1S5G | A | Unknot | 45.00% | 45.00% | AKVACAV-----------EGSLEDQI |
||||
2EC6 | A | Unknot | 65.00% | 85.00% | AKVACAV--EEEEA-DQKKGSLEDQI |
||||
1KK7 | A | Unknot | 85.00% | 85.00% | AKVACAVKKK-EEASDK--GSLEDQI |
||||
1KQM | A | Unknot | 40.00% | 40.00% | AKVACAV------------GSLEDQI |
PDB code |
Chain | Knot type |
Gap coverage |
Gap identity |
>Target_Sequence: gap | AVDRKKLMKEQTAA |
|||
---|---|---|---|---|---|---|---|---|---|
1QVI | A | Unknot | 100.00% | 100.00% | AVDRKKLMKEQTAA |
||||
1S5G | A | Unknot | 75.00% | 75.00% | AVDRKKLMK----- |
||||
2EC6 | A | Unknot | 87.50% | 100.00% | AVDRKKMMKEQTAP |
||||
1KK7 | A | Unknot | 75.00% | 75.00% | AVDRKKLMK---AA |
||||
1KQM | A | Unknot | 50.00% | 50.00% | A------MKEQTAA |
PDB code |
Chain | Knot type |
Gap coverage |
Gap identity |
>Target_Sequence: gap | KPKVKVGTEMVTKG |
|||
---|---|---|---|---|---|---|---|---|---|
1QVI | A | Unknot | 100.00% | 100.00% | KPKVKVGTEMVTKG |
||||
1S5G | A | Unknot | 100.00% | 100.00% | KPKVKVGTEMVTKG |
||||
2EC6 | A | Unknot | 87.50% | 87.50% | KPKVK-GTEMVTK- |
||||
1KK7 | A | Unknot | 75.00% | 75.00% | KPKVKV--EMVTKG |
||||
1KQM | A | Unknot | 62.50% | 62.50% | KPKVKV---MVTKG |
Models Similarity profile Modelling alignment Raw knot fingerprint matrices: Model_1 Model_2 Model_3 Model_4 Model_5 |
Sun Jul 23 14:57:35 2017 JOB CREATED : 7a804d09-48ec-48bf-bbfe-df2a528b6d1c Sun Jul 23 19:47:01 2017 STATUS CHANGED : N -> R Sun Jul 23 19:47:01 2017 INFO : JOB STARTED AT: 2017-07-23 19:47:01.894418 Sun Jul 23 19:47:01 2017 INFO : METHOD: 1 Sun Jul 23 19:47:01 2017 INFO : Precalculated profile found... Sun Jul 23 19:47:02 2017 INFO : Homologue pool found... Sun Jul 23 19:47:02 2017 INFO : Verifying structure sequences of homologues... Sun Jul 23 19:50:44 2017 INFO : Starting homologue filtering... Sun Jul 23 19:52:06 2017 INFO : Getting structures from PDB... Sun Jul 23 19:55:17 2017 INFO : Creating modelling alignment... Sun Jul 23 19:55:17 2017 INFO : Modelling... Sun Jul 23 20:57:19 2017 INFO : Model 1 built Sun Jul 23 20:57:19 2017 INFO : 1 gaps will be remodelled Sun Jul 23 21:15:13 2017 INFO : Validating Calpha distances... Sun Jul 23 21:15:13 2017 INFO : Model 1 distances correct: True Sun Jul 23 21:15:13 2017 INFO : Modelling... Sun Jul 23 22:02:02 2017 INFO : Model 2 built Sun Jul 23 22:02:02 2017 INFO : 1 gaps will be remodelled Sun Jul 23 22:21:03 2017 INFO : Validating Calpha distances... Sun Jul 23 22:21:03 2017 INFO : Model 2 distances correct: True Sun Jul 23 22:21:03 2017 INFO : Modelling... Sun Jul 23 23:10:35 2017 INFO : Model 3 built Sun Jul 23 23:10:35 2017 INFO : 1 gaps will be remodelled Sun Jul 23 23:34:02 2017 INFO : Validating Calpha distances... Sun Jul 23 23:34:02 2017 INFO : Model 3 distances correct: True Sun Jul 23 23:34:02 2017 INFO : Modelling... Mon Jul 24 00:53:43 2017 INFO : Model 4 built Mon Jul 24 00:53:43 2017 INFO : 1 gaps will be remodelled Mon Jul 24 01:11:33 2017 INFO : Validating Calpha distances... Mon Jul 24 01:11:33 2017 INFO : Model 4 distances correct: True Mon Jul 24 01:11:33 2017 INFO : Modelling... Mon Jul 24 02:25:26 2017 INFO : Model 5 built Mon Jul 24 02:25:26 2017 INFO : 1 gaps will be remodelled Mon Jul 24 02:42:44 2017 INFO : Validating Calpha distances... Mon Jul 24 02:42:44 2017 INFO : Model 5 distances correct: True Mon Jul 24 02:44:03 2017 INFO : Finished modelling Mon Jul 24 02:44:03 2017 STATUS CHANGED : R -> P Mon Jul 24 02:44:03 2017 INFO : Checking topology... Mon Jul 24 05:23:52 2017 INFO : Knot matrices done... Mon Jul 24 05:41:43 2017 INFO : Some knots found! Mon Jul 24 05:42:17 2017 INFO : Some lassos found! Mon Jul 24 05:42:17 2017 INFO : Finishing... Mon Jul 24 05:42:17 2017 INFO : Job done Mon Jul 24 05:42:17 2017 STATUS CHANGED : P -> F Mon Jul 24 05:42:17 2017 STATUS CHANGED : F -> F |