d1izna_d1keka2

Motif (click icon to enlarge)	SCOPid	Range	SCOP Class	SCOP Fold	SCOP Superfamily	SCOP Family	Protein
1izn_Ai	d1izna_	A7-A42,B2-B33	Multi-domain proteins (alpha and beta)	Subunits of heterodimeric actin filament capping protein Capz	Subunits of heterodimeric actin filament capping protein Capz	Capz alpha-1 subunit	Capz alpha-1 subunit
1kek_Ac	d1keka2	A868-A918,A919-A955	Alpha and beta proteins (a/b)	Thiamin diphosphate-binding fold (THDP-binding)	Thiamin diphosphate-binding fold (THDP-binding)	PFOR PP module	Pyruvate-ferredoxin oxidoreductase, PFOR, domains VI

Justification for analogy
In 1izn, the 4-helix bundle uses corresponding parts in the two chains. interface motif. Note that the two chains are not identical, but they are in the same superfamily in SCOP. In 1kek, the 4-helix bundle is an individual subdomain inserted in the Rossmann structure.

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

1izn_Ai   -------------rvSDEEKVRIAAKFITHA---PPGE-FNEVFNDVRLLLnn-SDQQLDCALDLMRRLPp---QQIEKNLSDLIDLVP-
1kek_Ac   lfedaaeygfgmnmsMFARRTHLADLAAKALesdASGDvKEALQGWLAGKN--dPIKSKEYGDKLKKLLAgqkdGLLGQIAAMSDLYTKk

DALI alignment     PDB format superposition    aligned motifs in PyMol   whole structures in PyMol

1izn_Ai   ----------------RVSDEEKVRIAAKFITHappgeFNEVFNDVRLLLN---nSDQQLDCALDLMRRLPPQQ---iEKNLSDLID-lvp
1kek_Ac   lfedaaeygfgmnmsmFARRTHLADLAAKALES---daSGDVKEALQGWLAgkndPIKSKEYGDKLKKLLAGQKdgllGQIAAMSDLytkk

TM alignment     PDB format superposition    aligned motifs in PyMol   whole structures in PyMol

1izn_Ai   -----------R--VSDEEKVRIAAKFITHA---PPGE-FNE-VFNDVRLLLNNSDQQLDCALDLMRRLPPQQ---IEK-NLSDLIDL-VP
1kek_Ac   LFEDAAEYGFGMNMSMFARRTHLADLAAKALESDASGDVK-EALQGWLAG-KNDPIKSKEYGDKLKKLLAGQKDGLLGQIAA-MSDLYTKK

FAST alignment     PDB format superposition    aligned motifs in PyMol   whole structures in PyMol

1izn_Ai   RVS----------------DEEKVRIAAKFITHAPPGEF------NEVFNDVRLLLNN-----SDQQLDCALDLMRRLPPQ------QIEKNLSDLIDLVP-
1kek_Ac   ---LFEDAAEYGFGMNMSMFARRTHLADLAAKA------LESDASGDVKEALQGWL--AGKNDPIKSKEYGDKLKKLL---AGQKDGLLGQIAAMSDLYTKK