| Motif (click icon to enlarge) | SCOPid | Range | SCOP Class | SCOP Fold | SCOP Superfamily | SCOP Family | Protein |
|---|---|---|---|---|---|---|---|
1dmz_Ah |
d1dmza_ | A596-A605,A615-A654,A666-A674,A706-A730 | All beta proteins | SMAD/FHA domain | SMAD/FHA domain | FHA domain | Phosphotyrosine binding domain of Rad53 |
1hdh_Ac |
d1hdha_ | A447-A462,A463-A479,A480-A493,A494-A527 | Alpha and beta proteins (a/b) | Alkaline phosphatase-like | Alkaline phosphatase-like | Arylsulfatase | Arylsulfatase B (4-sulfatase) |
Justification for analogy
The motif in 1dmz: compare to d1gxca_ (same family), the helix is the insertion. Can be analog to similar motifs in SCOP a+b class.
| Alignment-based scores | |||||
|---|---|---|---|---|---|
| Aligner | Aligned Length | Sequence Identity | RMSD | GDT-TS | COMPASS |
| manual | 51 | 0.11765 | 3.45400 | 64.70588 | -26.56878 |
| dali | 52 | 0.13462 | 2.60140 | 67.30769 | -27.39993 |
| tm | 54 | 0.11111 | 2.54243 | 68.05556 | -26.02850 |
| fast | 40 | 0.12500 | 2.19958 | 70.00000 | -23.55437 |
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 1dmz_Ah ------qgvNPFFIGRdNRLsrvHCFIFKkrhavgksmyespaqglddIWYCHTGT------QGTKFLLQdglgmlQEQRVVLK-----qTAEEKDLVKKL------- 1hdh_Ac eteaahdenTVTGWEL-FGM---RAIRQG-------------------DWKAVYLPapvgpaTWQLYDLA----rdPGEIHDLAdsqpgkLAELIEHWKRYvsetgvv
DALI alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1dmz_Ah ------QGVNPFFIGRdnRLSRvhCFIFKkrhavgksmyespaqglddIWYCHTGT------QGTKFLLQDglgmlqeqRVVLK-----qTAEEKDLVKKL------- 1hdh_Ac eteaahDENTVTGWEL--FGMR--AIRQG-------------------DWKAVYLPapvgpaTWQLYDLAR----dpgeIHDLAdsqpgkLAELIEHWKRYvsetgvv
TM alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1dmz_Ah -----QG-VNPFFIGRDNRLSRVHCFIFKKRHAVGKSMYESPAQGLDDIWYCHTGT------QGTKFLLQDGLGM---LQEQRVVLK---Q--TAEEKDLVKKL------- 1hdh_Ac ETEAAHDENTVTGWEL--FGM--RAIRQG-------------------DWKAVYLPAPVGPATWQLYDLA---RDPGE----IHDLADSQPGKLAELIEHWKRYVSETGVV
FAST alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1dmz_Ah Q-------GVNPFFIGRDNRLSRVHCFIFKKRHAVGKSMYESPAQGLDDI--WYCHTGT-------QGTKFLLQDGLGMLQEQRVVLKQT-----------------AEEKDLVKKL-------- 1hdh_Ac -ETEAAHDENTVTGWEL-FGMR---AIRQ---------------------GDWKAVYL-PAPVGPATWQLYDLA----------------RDPGEIHDLADSQPGKLAELIEHWKR-YVSETGVV