| Motif (click icon to enlarge) | SCOPid | Range | SCOP Class | SCOP Fold | SCOP Superfamily | SCOP Family | Protein |
|---|---|---|---|---|---|---|---|
1b3q_Ai |
d1b3qa2 | A540-A572,A607-A640 | All beta proteins | OB-fold | CheW-like | CheW-like | Histidine kinase CheA, C-terminal domain |
1bia__c |
d1bia_2 | 271-294,295-317 | All beta proteins | SH3-like barrel | C-terminal domain of transcriptional repressors | Biotin repressor (BirA) | Biotin repressor/biotin holoenzyme synthetase, C-terminal domain |
Justification for analogy
The motif in 1b3q: interface motif involving the two duplicates; crossed connection;
The motif in 1bia: a stand-along barrel by itself.
| Alignment-based scores | |||||
|---|---|---|---|---|---|
| Aligner | Aligned Length | Sequence Identity | RMSD | GDT-TS | COMPASS |
| manual | 40 | 0.00000 | 3.09925 | 61.25000 | -13.04559 |
| dali | 40 | 0.00000 | 2.76597 | 59.37500 | -16.34546 |
| tm | 33 | 0.06061 | 3.31641 | 59.84848 | -31.26260 |
| fast | 37 | 0.10811 | 3.54285 | 45.94595 | -25.36560 |
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 1b3q_Ai tlaiiCALLVKVNNLVYAIpianidtILSISkelEEMEAVIVRvgnrKYGIVV--DDLLGQddiviksl 1bia__c --finRPVKLIIGDKEIFGi-----sRGIDK---QGALLLEQD----GIIKPWmgGEISLR--------
DALI alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1b3q_Ai tlaiicALLVKVNNLVYAIpianidtILSISKeleEMEAVIVRvgnrKYGIVV-DDLLGQDdiviksl 1bia__c --finrPVKLIIGDKEIFG-----isRGIDKQ---GALLLEQD----GIIKPWmGGEISLR-------
TM alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1b3q_Ai TLAIICA--LLVKVNNLVYAIPIA------------NIDTILSISKELEEMEAVIVRVGNRKYGIVVDDLLGQDDIVIKSL 1bia__c ------FIN-------------RPVKLIIGDKEIFGISRGIDKQ-------GALLLEQDGIIKPWMGG-E--ISLR-----
FAST alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1b3q_Ai TLAII-----CALLVKVNNLV-YAIPIAN--IDTILSISKELEEM-EAVIVRVGNRKYGIVVDDL-LGQDDIVIKSL 1bia__c -----FINRPVKLIIG-----DKEIF---GISRGIDK--------QGALLLEQDGIIKPWM----GGEISLR-----