| Motif (click icon to enlarge) | SCOPid | Range | SCOP Class | SCOP Fold | SCOP Superfamily | SCOP Family | Protein |
|---|---|---|---|---|---|---|---|
1pqs_Aa |
d1pqsa_ | A778-A854 | Alpha and beta proteins (a+b) | beta-Grasp (ubiquitin-like) | CAD & PB1 domains | PB1 domain | Cell division control protein 24, CDC24, C-terminal domain |
1i7l_Ac |
d1i7la2 | A246-A312 | Alpha and beta proteins (a+b) | ATP-grasp | Glutathione synthetase ATP-binding domain-like | Synapsin C-terminal domain | Synapsin II |
Justification for analogy
1pqs is a cloning artefact. It should be a ubiquitin fold.
| Alignment-based scores | |||||
|---|---|---|---|---|---|
| Aligner | Aligned Length | Sequence Identity | RMSD | GDT-TS | COMPASS |
| manual | 51 | 0.09804 | 2.49570 | 59.31373 | -6.74726 |
| dali | 53 | 0.07547 | 2.73662 | 60.37736 | -7.36043 |
| tm | 56 | 0.10714 | 2.52292 | 65.17857 | -6.43962 |
| fast | 48 | 0.10417 | 2.45011 | 61.45833 | -6.96941 |
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 1pqs_Aa --SEIFTL-LVEkvwnfddlimainskisnthnnnisPITKIKYQDEDG----DFVVLGSDEDWNVAKEMLAENNEkFLNIRLY---- 1i7l_Ac plIEQTYYpNHRemltl--------------------PTFPVVVKIGHAhsgmGKVKVENHYDFQDIASVVALTQT-YATAEPFidak
DALI alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1pqs_Aa --SEIFTLL-VEKVWNFddlimainskisnthnnnispiTKIKYQDEDG----DFVVLGSDEDWNVAKEMLAeNNEKFLNIRL----y 1i7l_Ac plIEQTYYPnHREMLTL--------------------ptFPVVVKIGHAhsgmGKVKVENHYDFQDIASVVA-LTQTYATAEPfidak
TM alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1pqs_Aa -SEIFTLL--V-EKVWNFDDLIMAINSKISNTHNNNISPITKIKYQDEDG----DFVVLGSDEDWNVAKEMLAENNEKFLNIRLY--- 1i7l_Ac PLIEQTYYPNHRE-ML---TLP----------------T-FPVVVKIGHAHSGMGKVKVENHYDFQDIASVVALTQTYATAEPFIDAK
FAST alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1pqs_Aa --SEIFTLLVEKVWNFDDLIMAINSKISNTHNNNIS--------PITKIKYQDEDG-----DFVVLGSDEDWNVAKEMLAENNEKFLNIRLY---- 1i7l_Ac PLIEQTYYP---------------------------NHREMLTLPTFPVVVKIGH-AHSGMGKVKVENHYDFQDIASVVALTQT-YATAEPFIDAK