d1k9ka_d1abv__

Motif (click icon to enlarge)	SCOPid	Range	SCOP Class	SCOP Fold	SCOP Superfamily	SCOP Family	Protein
1k9k_Ai	d1k9ka_	A2-A28,A69-A90,B2-B28,B69-B90	All alpha proteins	EF Hand-like	EF-hand	S100 proteins	Calcyclin (S100)
1abv__c	d1abv__	1-22,23-50,51-84,85-105	All alpha proteins	N-terminal domain of the delta subunit of the F1F0-ATP synthase	N-terminal domain of the delta subunit of the F1F0-ATP synthase	N-terminal domain of the delta subunit of the F1F0-ATP synthase	N-terminal domain of the delta subunit of the F1F0-ATP synthase

Justification for analogy
The motif in 1k9k: 4-helix bundle comes from a dimer interface, so it is an interface motif.

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

1k9k_Ai   ---aCPLDQAIGLLVAIFHKYSgregdkhtNFQEYVTFLGALALIYNEalkg------------------------aCPLDQAIGLLVAIFhkysgregdkhtnfqeYVTFLGALALIYNEALKG-
1abv__c   sefiTVARPYAKAAFDFAVEHQ--------SVERWQDMLAFAAEVTKNeqmaellsgalapetlaesfiavcgeqldENGQNLIRVMAENGr-------------lnALPDVLEQFIHLRAVSEAt

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

1k9k_Ai   ---aCPLDQAIGLLVAIFHKYSgregdkhtnFQEYVTFLGALALI----------------------YNEAlkgacplDQAIGLLVAIFHKYSgregdkhtnfqEYVTFLGALALIYNEALKG-
1abv__c   sefiTVARPYAKAAFDFAVEHQ--------sVERWQDMLAFAAEVtkneqmaellsgalapetlaesFIAV--cgeqlDENGQNLIRVMAENG---------rlNALPDVLEQFIHLRAVSEAt

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

1k9k_Ai   -------ACPL-DQAIGLLVA---IFHKY-SGREGDKHTNFQEY-VTFLGALAL-----------------IYN-EALK-----GACPLDQAIGLLVAIFHKYSGREGDKHTNFQEYVTFLGALALIYNEALKG-
1abv__c   SEFITVA-RPYAKAAFDFA-VEHQSVE-RW----------Q--DMLAF-AAEVTKNEQMAELLSGALAPET-LAESFIAVCGEQ----LDENGQNLIRVMAENG-------RLN--ALPDVLEQFIHLRAVSEAT

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

1k9k_Ai   AC-----PLDQAIGLLVAIFHKYSGREGDKHT-NFQEYVTFLGALALIYNEALKGACPLDQAI-----------------------------GLLVAIFHKYSGREGDKHTNFQE--------YVTFLGALALIYNEALKG--
1abv__c   --SEFITVARPYAKAAFDFAVEH---------QSVERWQDMLAFAAEVTKN------------EQMAELLSGALAPETLAESFIAVCGEQLDENGQNLIRV--------------MAENGRLNALPDVLEQFIHLRAVSE-AT