| Motif (click icon to enlarge) | SCOPid | Range | SCOP Class | SCOP Fold | SCOP Superfamily | SCOP Family | Protein |
|---|---|---|---|---|---|---|---|
1n00_Ai |
d1n00a_ | A88-A118,A246-A280 | All alpha proteins | Annexin | Annexin | Annexin | Annexin GH1 |
1aa7_Ac |
d1aa7a_ | A1-A35,A36-A74 | All alpha proteins | Influenza virus matrix protein M1 | Influenza virus matrix protein M1 | Influenza virus matrix protein M1 | Influenza virus matrix protein M1 |
Justification for analogy
In 1n00, the 4-helix bundle uses the first two helices in the 2nd duplicate and the first two helices in the 4th duplicate.
It occurs in the interface between two duplicates. Therefore, it is an interface motif.
| Alignment-based scores | |||||
|---|---|---|---|---|---|
| Aligner | Aligned Length | Sequence Identity | RMSD | GDT-TS | COMPASS |
| manual | 54 | 0.07407 | 3.76349 | 50.00000 | -2.24930 |
| dali | 58 | 0.06897 | 3.07947 | 54.31034 | -2.09726 |
| tm | 58 | 0.05172 | 3.09216 | 56.89655 | -1.97134 |
| fast | 28 | 0.10714 | 2.76271 | 58.03571 | -1.45995 |
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 1n00_Ai --DPAERDALLANEATkrwtssNQVLMEIACTR---ypekYFEKVLRLAINRRGt-DEGALTRVVCTRAEVd----- 1aa7_Ac msLLTEVETYVLSIIPs-gplkAEIAQRLEDVFagk--ntDLEVLMEWLKTRPIlsPLTKGILGFVFTLTVpsergl
DALI alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1n00_Ai --DPAERDALLANEAtkrWTSSN-QVLMEIACTR-----YPEKYFEKVLRLainrrGTDE--GALTRVVCTRAEVD----- 1aa7_Ac msLLTEVETYVLSII--pSGPLKaEIAQRLEDVFagkntDLEVLMEWLKTR-----PILSplTKGILGFVFTLTVPsergl
TM alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1n00_Ai --DPA-ERDALLANEATKRWTS-SNQVLMEIACTR---YPEKYFEKVLRL-AINRRGTDE---GALTRVVCTRAEV-D---- 1aa7_Ac MS-LLTEVETYVL-SI-IPSGPLKAEIAQRLEDVFAGKNTD--LEVLMEWLK---TRPILSPLTKGILGFVFTLTVPSERGL
FAST alignment PDB format superposition aligned motifs in PyMol whole structures in PyMol 1n00_Ai -----------------DPAERDALLANEATKR-WTSSNQVLMEIACTRYPEKYFEKVLRLAINRRGTDEGALTRVVCTRAEVD---------------------------- 1aa7_Ac MSLLTEVETYVLSIIPSGPLKAEIAQRLEDVFAGKNTD---LEVLMEWL-----------------------------------KTRPILSPLTKGILGFVFTLTVPSERGL