| Motif (click icon to enlarge) | SCOPid | Range | SCOP Class | SCOP Fold | SCOP Superfamily | SCOP Family | Protein |
|---|---|---|---|---|---|---|---|
1ogs_Ah |
d1ogsa2 | A1-A20,A97-A116,A400-A415 | Alpha and beta proteins (a/b) | TIM beta/alpha-barrel | (Trans)glycosidases | beta-glycanases | Glucosylceramidase, catalytic domain |
1dq3_Ac |
d1dq3a4 | A227-A264,A265-A280,A281-A335 | Alpha and beta proteins (a+b) | Homing endonuclease-like | Homing endonucleases | Intein endonuclease | PI-Pfui intein |
Justification for analogy
The motif in 1ogs: first two strands come from N-terminal extension, helix belongs to TIM-barrel, last two strands are insertion to TIM-barrel.
Hybrid.
| Alignment-based scores | |||||
|---|---|---|---|---|---|
| Aligner | Aligned Length | Sequence Identity | RMSD | GDT-TS | COMPASS |
| manual | 41 | 0.00000 | 2.04094 | 76.21951 | -16.98392 |
| dali | 47 | 0.08511 | 2.86639 | 57.97872 | -18.90423 |
| tm | 47 | 0.02128 | 2.85482 | 65.95745 | -19.45462 |
| fast | 40 | 0.00000 | 2.89154 | 60.62500 | -15.94962 |
In the alignments below, two upper-case letters are aligned, while two lower-case letters are NOT aligned. The two sequences in an alignment are NOT continuous in most cases (see their ranges). The superpositions are re-constructed from the corresponding alignments by minimizing the overall RMSD. In a PDB-format superposition file, the first domain is represented by chain S and the second domain is represented by chain A.
MANUAL alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1ogs_Ah ---------------------arpcIPKSFgyssVVCVCNA--SPPAQNLLLKSYFSeegigysPIIVDIT------KDTFYKQP--------------------------------- 1dq3_Ac ippqilkegknavlsfiaglfdaegHVSNK----PGIELGMvnKRLIEDVTHYLNALg-----iKARIREKlrkdgiDYVLHVEEyssllrfyeligknlqneekreklekvlsnhkg
DALI alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1ogs_Ah -----------------ARPC---IPKSFgysSVVCVCNAspPAQNLLLKSYFseeGIGY--sPIIVDIT----KDTFYKQP---------------------------------- 1dq3_Ac ippqilkegknavlsfiAGLFdaeGHVSN--kPGIELGMV--NKRLIEDVTHY---LNALgikARIREKLrkdgIDYVLHVEeyssllrfyeligknlqneekreklekvlsnhkg
TM alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1ogs_Ah --------------A--R--P---CIPKSFGYSSVVCVCNA--SPPAQNLLLKSYFSEEGIGYSPIIVDIT------KDTFYKQP--------------------------------- 1dq3_Ac IPPQILKEGKNAVLSFIAGLFDAEGHVSNK----PGIELGMVNKRLIEDVTHYLNA---LGI-KARIR-EKLRKDGIDYVLHVEEYSSLLRFYELIGKNLQNEEKREKLEKVLSNHKG
FAST alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1ogs_Ah ARPC-----------------------IPKSFGYSSV-VCVCNAS--PPAQNLLLKSYFSEEGIGYS---PIIVDIT-------KDTFYKQP--------------------------------- 1dq3_Ac ----IPPQILKEGKNAVLSFIAGLFDAEGHVSNK---PGIELGMVNKRLIEDVTHYLNA--------LGIKARIRE-KLRKDGIDYVLHVEEYSSLLRFYELIGKNLQNEEKREKLEKVLSNHKG