| Motif (click icon to enlarge) | SCOPid | Range | SCOP Class | SCOP Fold | SCOP Superfamily | SCOP Family | Protein |
|---|---|---|---|---|---|---|---|
1uw1_Aa |
d1uw1a_ | A7-A73 | Designed proteins | In vitro evolution products | In vitro evolution products | Function-directed selections | Artificial nucleotide binding protein (ANBP) |
1q9u_Ac |
d1q9ua_ | A1-A127 | Alpha and beta proteins (a+b) | TBP-like | TT1751-like | TT1751-like | Unnamed hypothetical protein |
Justification for analogy
1uw1 is an artificial protein, so it is analogous to the natural protein 1q9u.
| Alignment-based scores | |||||
|---|---|---|---|---|---|
| Aligner | Aligned Length | Sequence Identity | RMSD | GDT-TS | COMPASS |
| manual | 39 | 0.02564 | 2.28663 | 69.23077 | -1.00831 |
| dali | 62 | 0.01613 | 4.52612 | 42.74194 | -0.79157 |
| tm | 53 | 0.01887 | 3.47744 | 58.01887 | -0.93929 |
| fast | 38 | 0.10526 | 4.55888 | 36.84211 | -0.29792 |
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 1uw1_Aa --------ddKKTNWLKRIYRVRPcvkcKVAPRNWKVKN------------KHLRIYNmcktcfnnsidig---ddtyHGHDDWLmyads--------------------------------------- 1q9u_Ac mfhytvdvstGMNETIERLEESLKq--eGFGVLWQFSVTeklqekgldfstPMVILEVcnpqeaarvlnenllvgyflPCKLVVYqengttkigmpkptmlvgmmndpalkeiaadiekrlaacldrcr
DALI alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1uw1_Aa --------DDKKTNWLKRIYRVRPcvkcKVAPRN-WKVKN------------KHLRIYNMCKTCFNNSIDIG--DDTYH-GHDDWLmYADS---------------------------------------- 1q9u_Ac mfhytvdvSTGMNETIERLEESLK---qEGFGVLwQFSVTeklqekgldfstPMVILEVCNPQEAARVLNENllVGYFLpCKLVVY-QENGttkigmpkptmlvgmmndpalkeiaadiekrlaacldrcr
TM alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1uw1_Aa ---------DDKK-TNWLKRIYRVRP-CVKCKVAPR-NWKVKN------------KHLRIYNMCKTC---FNNS------IDIG-DDTYH-GHDDWLMYADS--------------------------------------- 1q9u_Ac MFHYTVDVS--TGMNETIERLEESLKQ-E--GF-GVLWQFSVTEKLQEKGLDFSTPMVILEVCN--PQEA---ARVLNEN---LLVGYFLPCKLVVYQENGTTKIGMPKPTMLVGMMNDPALKEIAADIEKRLAACLDRCR
FAST alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1uw1_Aa D----------------DKKTNWLKRIYRVRPCVKCKVAPRNWKVKNK--------------------------HLRIYNMCKTCFNNSIDIGDDTYHG---HDDWLMYADS-------------------------------------------- 1q9u_Ac -MFHYTVDVSTGMNETIERLEESLKQE---------------------GFGVLWQFSVTEKLQEKGLDFSTPMVILEVC--NPQEAARVLNE-NLLVG-YFLPCKLVVY---QENGTTKIGMPKPTMLVGMMNDPALKEIAADIEKRLAACLDRCR