| Motif (click icon to enlarge) | SCOPid | Range | SCOP Class | SCOP Fold | SCOP Superfamily | SCOP Family | Protein |
|---|---|---|---|---|---|---|---|
1qh4_Ah |
d1qh4a2 | A137-A179,A207-A269 | Alpha and beta proteins (a+b) | Glutamine synthetase/guanido kinase | Glutamine synthetase/guanido kinase | Guanido kinase catalytic domain | Creatine kinase, C-terminal domain |
1ekg_Ac |
d1ekga_ | A90-A129,A130-A208 | Alpha and beta proteins (a+b) | N domain of copper amine oxidase-like | Frataxin-like | Frataxin-like | C-terminal domain of frataxin |
Justification for analogy
The motif in 1qh4: compare to d2lgsa2 (same superfamily), two strands are insertion; hybrid motif.
| Alignment-based scores | |||||
|---|---|---|---|---|---|
| Aligner | Aligned Length | Sequence Identity | RMSD | GDT-TS | COMPASS |
| manual | 48 | 0.10417 | 2.29883 | 65.10417 | -7.27287 |
| dali | 69 | 0.13043 | 3.13052 | 55.07246 | -7.42084 |
| tm | 74 | 0.10811 | 3.69101 | 59.79730 | -8.28177 |
| fast | 49 | 0.10204 | 2.24501 | 64.28571 | -6.43024 |
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 1qh4_Ah irgfclpphcSRGERRAIEKLSVEALGSLGgd----lkGKYYALRnmmardwpdARGIWHNDNKTFLVWINee-----dhLRVIsmqkggnmkevftrfctgltqietlfkskny------------------ 1ekg_Ac -----ldettYERLAEETLDSLAEFFEDLAdkpytfedYDVSFGS---------GVLTVKLGGDLGTYVINkqtpnkqiwLSSPssgpkrydwtgknwvyshdgvslhellaaeltkalktkldlsslaysgk
DALI alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1qh4_Ah irgfclpPHCSRGERRAIEKLSVEALGSL--GGDL--kGKYYALrnmmardwpDARGIWHNDNKTFLVWINEE-----DHLRVIS------------mqkggnmkevftrfcTGLT---qieTLFKSK---ny 1ekg_Ac -----ldETTYERLAEETLDSLAEFFEDLadKPYTfedYDVSFG---------SGVLTVKLGGDLGTYVINKQtpnkqIWLSSPSsgpkrydwtgknwvyshdgvslhellaAELTkalktkLDLSSLaysgk
TM alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1qh4_Ah IRGFCLPPHCSRGERRAIEKLSVEALGSL--G-----GD--LKGKYYALRNMMARDWPDARGIWHND-N---KTFLVWINE-EDHLRVISMQKGGNMKEVFT-RF-----------------CTGLTQI----------ETLFKS-KN-Y- 1ekg_Ac ----L----DETTYERLAEETLDSLAEFFEDLADKPYTFEDYDVSFGS-------------GVLTVKLGGDLGTYVINKQTPNKQIWLSSP--------SSGP-KRYDWTGKNWVYSHDGVSLHELLAAELTKALKTKL-DL-SSLAYSGK
FAST alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1qh4_Ah IRGFCLPPHCS------RGERRAIEKLSVEALGSLGGDLK---------GKYYALRNMMARDWPDARGIWHNDNKTFLVWINEEDH----------LRVISMQKGGNMKEVFTRFCTGLTQIETL----------------------------------------FKSKNY----- 1ekg_Ac -----------LDETTYERLAEETLDSLAEFFEDL-----ADKPYTFEDYDVSFG---------SGVLTVKLGGDLGTYVI-----NKQTPNKQIWLSSP-------------------------SSGPKRYDWTGKNWVYSHDGVSLHELLAAELTKALKTKLDLSSL--AYSGK