Model | Type | Knot core | Slipknot | Lasso | Piercing | Show | |||
---|---|---|---|---|---|---|---|---|---|
range | loop range | loop | position | in JSmol | |||||
Model 1 | Slipknot | S 31 | 35-823 | 823-879 | -- | -- | |||
Model 2 | Slipknot | S -31 | 35-823 | 823-879 | -- | -- | |||
Model 3 | Slipknot | S -31 | 35-823 | 823-879 | -- | -- | |||
Model 4 | Slipknot | S -31 | 35-823 | 823-879 | -- | -- | |||
Model 5 | Slipknot | S -31 | 35-823 | 823-879 | -- | -- | |||
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 | ||||
---|---|---|---|---|---|---|---|---|---|---|---|
4FYD |
A |
Unknot |
98.00% |
124.24% |
124.24% |
0.81 |
..Target: TDTFQMFWLDYCEVNNTLILFGKVKLKDDNCVSAMVQINGLCRELFFLPREGKTPTDIHEEIIPLLMDKYGLDNIRAKPQKMKYSFELPDIPSESDYLKVLLPYQTPKSSRDTIPSDLSSDTFYHVFGGNSNIFESFVIQNRIMGPCWLDIKGADFNSIRNASHCAVEVSVDKPQNITPTTTKTMPNLRCLSLSIQTLMNPKENKQEIVSITLSAYRNISLDSPIPENIKPDDLCTLVRPPQSTSFPLGLAALAKQKLPGRVRLFNNEKAMLSCFCAMLKVEDPDVIIGHRLQNVYLDVLAHRMHDLNIPTFSSIGRRLRRTWPEKFGRGNSNMNHFFISDICSGRLICDIANEMGQSLTPKCQSWDLSEMYQVTCEKEHKPLDIDYQNPQYQNDVNSMTMALQENITNCMISAEVSYRIQLLTLTKQLTNLAGNAWAQTLGGTRAGRNEYILLHEFSRNGFIVPDKEGNRSRAQKQRQNEENADAPVNSKKAKYQGGLVFEPEKGLHKNYVLVMDFNSLYPSIIQEFNICFTTVDRNKEDIDELPSVPPSEVDQGVLPRLLANLVDRRREVKKVMKTETDPHKRVQCDIRQQALKLTANSMYGCLGYVNSRFYAKPLAMLVTNKGREILMNTRQLAESMNLLVVYGDTDSVMIDTGCDNYADAIKIGLGFKRLVNERYRLLEIDIDNVFKKLLLHAKKKYAALTVNLDKNGNGTTVLEVKGLDMKRREFCPLSRDVSIHVLNTILSDKDPEEALQEVYDYLEDIRIKVETNNIRIDKYKINMKLSKDPKAYPGGKNMPAVQVALRMRKAGRVVKAGSVITFVITKQDEIDNAADTPALSVAERAHALNEVMIKSNNLIPDPQYYLEKQIFAPVERLL--------------ER |
||||
4Q5V |
A |
Unknot |
38.50% |
200.00% |
58.33% |
1.09 |
..Target: TDTFQMFWL----DYCEVNNTLILFGKVKLKD-DNCVSAMVQINGLCRELFFLPRE-------GK---TP---TDIHEEIIPLLMDKYGLDNIRAKPQKMKYSFELPDIPSESDYLKVLLPYQTPKSSRDTIPSDLSSDTFYHVFGGNSNIFESFVIQNRIMGPCWLDIKGADFNSIRNASHCAVEVSVDKPQNITPTTTKTMPNLRCLSLSIQTLMNPKENKQEIVSITLSAYRNISLDSPIPENIKPDDLCTLVRPPQSTSFPLGLAALAKQKLPGRVRLFNNEKAMLSCFCAMLKVEDPDVIIGHRLQNVYLDVLAHRMHDLNIPTFSSIGRRLRRTWPE-KFGRGNSNMNHFFISDICSGRLICDIANEMGQSLTPKCQSWDLSEMYQVTCEKEHKPLDIDYQNPQYQNDVNSMTMALQENITNCMISAEVSYRIQLLTLTKQLTNLAGNAWAQTLGGTRAGRNEYILLHEFSRNGFIVPDKEGNRSRAQKQRQNEENADAPVNS-KKAKYQGGLVFEPEKGLHKNYVLVMDFNSLYPSIIQEFNICFTTVDRNKEDIDELPSVPPSEVDQGVLPRLLANLVDRRREVKKVMK-TETDPHKRVQCDIRQQALKLTANSMYGCLGYVNSRFYAKPLAMLVTNKGREILMNTRQLAESMNLLVVYGDTDSVMIDTGCDNYADAIKIGLGFKRLVNERYRLLEIDIDNVFKKLLLHAKKKYAALTVNLDKNGNGTTVLEVKGLDMKRREFCPLSRDVSIHVLNTILSDKDPEEALQEVYDYLEDIRIKVETNNIRIDKYKINMKLSKDPKAYPGGKNMPAVQVALRMR-KAGRVVKAGSVITFVITKQDEIDNAADTPALSVAERAHALNEVMIKSNNLIPDPQYYLEKQ------------------IFAPVERLLER |
||||
1D5A |
A |
Unknot |
28.10% |
169.32% |
58.33% |
1.77 |
..Target: TDTFQMFWLDY-CEVNNTLI-LF----GKVKL--------------KDDNCVSAMVQI----NGLCRELFFLPR-----EGKTPTDI------HEEIIPLLMDKYGLDNIRAKPQKMKYSFELPDIPSESDYL--KVLLPYQTPKSSRDTIPSDLSSDTFYHVFGGNSNIFESFVIQNRIMGPCWLDIKGADFNSIRNASHCAVEVSVDKPQNITPTTTKTMPNLRCLSLSIQTLMN--PKENKQEIVSITLS--------AYRNISLDSPIPENIKPDDLCTLVRPPQSTSFPLGLAALAKQKLPGRVRLFNNEKAMLSCFCAMLKVEDPDVIIGHRLQNVYLDVLAHRMHDLNIPTFSSIGRRLRRTWPEKFGRGNSNMNHFFISDICSGRLICDIANEMGQSLTPKCQSWDLSEMYQVTCEKEHKPLDIDYQNPQYQNDV---NSMTMALQENITNCMISAEVSYRI--QLLTLTKQLTNLAGNAWAQTLGGTRAGRNEYILLHEFSRNGFIVPDKEGNRSRAQKQRQNEENADAPVNSKKAKYQGGLVFEPEKGLHKNYVLVMDFNSLYPSIIQEFNICFTTVDRNK-EDIDELPSVPPS--EVDQGVLPRLLANLVDRRREVKKVMKTETDPHKRVQCDIRQQALKLTANSMYGCLGYVNSRFYAKPLAMLVTNKGREILMNT-RQLAESMNLLVVYGDTDSVMID-TGCDNYADAIKIGLGFKRLVNERY-RLLEIDIDNVFKKLLLHAKKKYAALTVNLDKNGNGTTVLEVKGLDMKRREFCPLSRDVSIHVLNTILSDKDPEEALQEVYDYLEDIRIKVETNNIRIDKYKINMKLSKDPKAYPGGKNMPAVQVALRMRKAGRVVKAGSVITFVITKQDEIDNAADTPALSVAERAHALNEVMIKSNNLIPDPQYYLEKQIFAPVERLL---------ER |
||||
4FLT |
A |
Unknot |
26.82% |
162.88% |
58.33% |
1.47 |
..Target: TDTFQMFWLDYCEVNNTLILFGKVKLKDDNCVSAMVQINGLCRELFFLPREGKTPTDIHEEIIPLLMDKYGLDNIRAKPQKMKYSFELPDIPSESDYLKVLLPYQTPKSSRDTIPSDLSSDTFYHVFGGNSNIFESFVIQNRIMG------PCWLDIKGADFNSIR---NASHCAVEV-SVDKP--------QNITPTTTKTMPNLRCLSLSIQTLMNPKENKQEIVSITLSAYRNISLDSPIPENIKPDDLCTLVRPPQSTSFPLGLAALAKQKLPGRVRLFNNEKAMLSCFCAMLKVEDPDVIIGHRLQNVYLDVLAHRMHDLNIPTFSSIGRRLRRTWPEKFGRGNS-----NMNHFFISDICSGRLICDIANEMGQSLTPKCQSWDLSEMYQVTCEKEHKPLDIDYQNPQYQNDV---NSMTMALQENITNCMISAEVSYRI--QLLTLTKQLTNLAGN-AWAQTLGGTRAGRNEYILLHEFSRNGFIVPDKEGNRSRAQKQRQNEENADAPVNSKKAKYQGGLVFEPEKGLHKNYVLVMDFNSLYPSIIQEFNICFTTVDR-NKEDIDELPSVPPS--EVDQGVLPRLLANLVDRRREVKKVMKTETDPHKRVQCDIRQQALKLTANSMYGCLGYVNSRFYAKPLAMLVTNKGREILMNTRQLAESMNLLVVYGDTDSVMIDTGCDNYADAIKIGLGFKRLVNERY-RLLEIDIDNVFKKLLLHAKKKYAALTVNLDKNGNGTTVLEVKGLDMKRREFCPLSRDVSIHVLNTILSDKDPEEALQEVYDYLEDIRIKVETNNIRIDKYKINMKLSKDPKAYPGGKNM-PAVQVALRMRKAGRVVKAGSVITFVITKQDEIDNAADTPALSVAERAHALNEVMIKSNNLIPDPQYYLEKQIFAPVERLL----------ER |
||||
1QHT |
A |
Unknot |
28.03% |
142.05% |
52.65% |
1.37 |
..Target: ------------------------------TDTFQMFWLDYCEVNNTLILFGKVKLKDDNCVSAMVQINGLCRELFFLPREGKTPTDIHEEIIPLLMDKYGLDNIRAKPQKMKYSFELPDIPSESDYL--KVLLPYQTPKSSRDTIPSDLSSDTFYHVFGGNSNIFESFVIQNRIMGPCWLDIKGADFNSIRNASHCAVEVSVDKPQNITPTTTKTMPNLRCLSLSIQTLMNPKENKQEIVSITLSAYRNISLDSPIPENIKPDDLCTLVRPPQSTSFPLGLAALAKQKLPGRVRLFNNEKAMLSCFCAMLKVEDPDVIIGHRLQNVYLDVLAHRMHDLNIPTFSSIGRRLRRTWPEKFGRGNSNMNHFFISDICSGRLICDIANEMGQSLTPKCQSWDLSEMYQVTCEKEHKPLDIDYQNPQYQNDV---NSMTMALQENITNCMISAEVSYRI--QLLTLTKQLTNLAGNAWAQTLGGTRAGRNEYILLHEFSRNGFIVPDKEGNRSRAQKQRQNEENADAPVNSKKAKYQGGLVFEPEKGLHKNYVLVMDFNSLYPSIIQEFNICFTTVDRNK-EDIDELPSVPPS--EVDQGVLPRLLANLVDRRREVKKVMKTETDPHKRVQCDIRQQALKLTANSMYGCLGYVNSRFYAKPLAMLVTNKGRE-ILMNTRQLAESMNLLVVYGDTDSVMIDTGCDNYADAIKIGLGFKRLVNERYRLLEIDIDNVFKKLLLHAKKKYAALTVNLDKNGNGTTVLEVKGLDMKRREFCPLSRDVSIHVLNTILSDKDPEEALQEVYDYLEDIRIKVETNNIRIDKYKINMKLSKD-PKAYPGGKNMPAVQVALRMRKAGRVVKAGSVITFVITKQDEIDNAADTPALSVAERAHALNEVMIKSNNLIPDPQYYLEKQIFAPVERLLER--- |
PDB code |
Chain | Knot type |
Gap coverage |
Gap identity |
>Target_Sequence: gap | PDKEGNRSRAQKQRQNEENADAPVNSKKAKYQGGLVFEP |
|||
---|---|---|---|---|---|---|---|---|---|
4FYD | A | Unknot | 24.24% | 24.24% | PDK-------------------------AKYQGGLVFEP |
||||
4Q5V | A | Unknot | 24.24% | 36.36% | PDKQ---I------------------RKKAAYAGGLVLDP |
||||
1D5A | A | Unknot | 24.24% | 54.55% | PNKPDERELA---RRTESYA------------GGYVKEP |
||||
4FLT | A | Unknot | 15.15% | 51.52% | PNKPDER---EYERRLRESY-----------EG--VKEP |
||||
1QHT | A | Unknot | 15.15% | 54.55% | PNKPDER---------------ELARRRGGYAGGYVKEP |
PDB code |
Chain | Knot type |
Gap coverage |
Gap identity |
>Target_Sequence: gap | TKQDEIDNAADTPALSV |
|||
---|---|---|---|---|---|---|---|---|---|
4FYD | A | Unknot | 0.00% | 0.00% | TK-------------SV |
||||
4Q5V | A | Unknot | 9.09% | 63.64% | -------ICQDGSNLTA |
||||
1D5A | A | Unknot | 9.09% | 27.27% | LK---------GPG-RV |
||||
4FLT | A | Unknot | 18.18% | 36.36% | LR-------GDGP---I |
||||
1QHT | A | Unknot | 0.00% | 0.00% | LK--------------- |
PDB code |
Chain | Knot type |
Gap coverage |
Gap identity |
>Target_Sequence: gap | TVNLDKNGNGTTVL |
|||
---|---|---|---|---|---|---|---|---|---|
4FYD | A | Unknot | 100.00% | 100.00% | TVNLDKNGNGTTVL |
||||
4Q5V | A | Unknot | 25.00% | 100.00% | VVEPTSDGNYVTKQ |
||||
1D5A | A | Unknot | 25.00% | 87.50% | ----DEEDKITT-- |
||||
4FLT | A | Unknot | 25.00% | 75.00% | -ALIDEEGK----I |
||||
1QHT | A | Unknot | 37.50% | 87.50% | ----DEEGKITT-- |
Models Similarity profile Modelling alignment Raw knot fingerprint matrices: Model_1 Model_2 Model_3 Model_4 Model_5 |
Sun Jul 23 14:58:49 2017 JOB CREATED : df80c682-c22f-4cf6-ac99-1cbcda560cef Sun Jul 23 21:13:02 2017 STATUS CHANGED : N -> R Sun Jul 23 21:13:02 2017 INFO : JOB STARTED AT: 2017-07-23 21:13:02.430830 Sun Jul 23 21:13:02 2017 INFO : METHOD: 1 Sun Jul 23 21:13:02 2017 INFO : Precalculated profile found... Sun Jul 23 21:13:02 2017 INFO : Homologue pool found... Sun Jul 23 21:13:02 2017 INFO : Verifying structure sequences of homologues... Sun Jul 23 21:19:54 2017 INFO : Starting homologue filtering... Sun Jul 23 21:21:39 2017 INFO : Getting structures from PDB... Sun Jul 23 21:22:51 2017 INFO : Creating modelling alignment... Sun Jul 23 21:22:51 2017 INFO : Modelling... Sun Jul 23 21:40:57 2017 INFO : Model 1 built Sun Jul 23 21:40:57 2017 INFO : Validating Calpha distances... Sun Jul 23 21:40:57 2017 INFO : Model 1 distances correct: True Sun Jul 23 21:40:57 2017 INFO : Modelling... Sun Jul 23 22:00:35 2017 INFO : Model 2 built Sun Jul 23 22:00:35 2017 INFO : Validating Calpha distances... Sun Jul 23 22:00:35 2017 INFO : Model 2 distances correct: True Sun Jul 23 22:00:35 2017 INFO : Modelling... Sun Jul 23 23:00:44 2017 INFO : Model 3 built Sun Jul 23 23:00:44 2017 INFO : Validating Calpha distances... Sun Jul 23 23:00:44 2017 INFO : Model 3 distances correct: True Sun Jul 23 23:00:44 2017 INFO : Modelling... Sun Jul 23 23:33:46 2017 INFO : Model 4 built Sun Jul 23 23:33:46 2017 INFO : Validating Calpha distances... Sun Jul 23 23:33:46 2017 INFO : Model 4 distances correct: True Sun Jul 23 23:33:46 2017 INFO : Modelling... Sun Jul 23 23:51:28 2017 INFO : Model 5 built Sun Jul 23 23:51:28 2017 INFO : Validating Calpha distances... Sun Jul 23 23:51:28 2017 INFO : Model 5 distances correct: True Sun Jul 23 23:52:43 2017 INFO : Finished modelling Sun Jul 23 23:52:43 2017 STATUS CHANGED : R -> P Sun Jul 23 23:52:43 2017 INFO : Checking topology... Mon Jul 24 01:15:27 2017 INFO : Knot matrices done... Mon Jul 24 01:20:38 2017 INFO : Some knots found! Mon Jul 24 01:20:42 2017 INFO : No lassos found... Mon Jul 24 01:20:42 2017 INFO : Finishing... Mon Jul 24 01:20:43 2017 INFO : Job done Mon Jul 24 01:20:43 2017 STATUS CHANGED : P -> F Mon Jul 24 01:20:43 2017 STATUS CHANGED : F -> F |