| Motif (click icon to enlarge) | SCOPid | Range | SCOP Class | SCOP Fold | SCOP Superfamily | SCOP Family | Protein |
|---|---|---|---|---|---|---|---|
2one_Ah |
d2onea1 | A142-A219 | Alpha and beta proteins (a/b) | TIM beta/alpha-barrel | Enolase C-terminal domain-like | Enolase | Enolase |
1hz6_Bc |
d1hz6b_ | B2-B64 | Alpha and beta proteins (a+b) | beta-Grasp (ubiquitin-like) | Immunoglobulin-binding domains | Immunoglobulin-binding domains | Immunoglobulin light chain-binding domain of protein L |
Justification for analogy
The ubiquitin motif in 2one is a hybrid consisting of the first TIM strand, an inserted antiparallel strand, and a reversed helix.
It is analogous to real ubiquibin-like core motifs like the one in 1hz6.
| Alignment-based scores | |||||
|---|---|---|---|---|---|
| Aligner | Aligned Length | Sequence Identity | RMSD | GDT-TS | COMPASS |
| manual | 48 | 0.16667 | 2.83861 | 62.50000 | -0.61065 |
| dali | 54 | 0.09259 | 3.05176 | 55.55556 | -0.63089 |
| tm | 54 | 0.11111 | 2.73602 | 59.72222 | -0.56658 |
| fast | 48 | 0.16667 | 3.68685 | 52.60417 | -0.63399 |
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 2one_Ah spyVLPVPFLNVlnggshaggalalqEFMIAPTgaKTFAEALRIGSEVYHNLKSLTkkrygasaGNVGD---------EGGVAPniq 1hz6_Bc ---EEVTIKANLifa--------ngsTQTAEFK--GTFEKATSEAYAYADTLKKDN--------GEWTVdvadkgytlNIKFAG---
DALI alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 2one_Ah spyvlPVPFLNVLNggshagGALAlQEFMIAPtgaktfaeALRIGSEVYHNLKSLTKKRYGAsaGNVGDE-----GGVAPNiq 1hz6_Bc -----EEVTIKANL----ifANGStQTAEFKG--------TFEKATSEAYAYADTLKKDNGE--WTVDVAdkgytLNIKFA-g
TM alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 2one_Ah SPYVLPVPFLNVLNGGSHAG--GALALQEFMIAPTGAKTFAEALRIGSEVYHNLKSLTKKRYGASAGNVGDE-----GGVAP--NIQ 1hz6_Bc ----E-EVTIKA-NL---IFANGST-Q-TAEFKG--------TFEKATSEAYAYADTLKKDNGE--WTVDVADKGYTLNIKFAG---
FAST alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 2one_Ah SPYVLPVPFLNVLNGGSHAGGALAL-----QEFMIAPTGAKTFAEALRIGSEVYHNLKSLTKKRYGASA--GNVGDEG--------GVAPNIQ 1hz6_Bc ---EEVTIKANL-------------IFANGSTQTAEFKG--TFEKATSEAYAYADTLKKDN--------GEWTVD---VADKGYTLNIKFAG-