d1h5wa_d2cbla2

Motif (click icon to enlarge)	SCOPid	Range	SCOP Class	SCOP Fold	SCOP Superfamily	SCOP Family	Protein
1h5w_Ai	d1h5wa_	A126-A158,A201-A229,B126-B158,B201-B229	Multi-domain proteins (alpha and beta)	Upper collar protein gp10 (connector protein)	Upper collar protein gp10 (connector protein)	Upper collar protein gp10 (connector protein)	Upper collar protein gp10 (connector protein)
2cbl_Ac	d2cbla2	A47-A77,A78-A104,A105-A143,A144-A177	All alpha proteins	N-cbl like	N-terminal domain of cbl (N-cbl)	N-terminal domain of cbl (N-cbl)	N-terminal domain of cbl (N-cbl)

Justification for analogy
The motif in 1h5w: 4-helix bundle uses corresponding parts from two monomers, 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

1h5w_Ai   mafpttpTLELFAAELAELKEIISVNQNaqktp-tdapyVVDKLNAQKNAVWNEMMTFLgiknmafpttptlelfAAELAELKEIISVNQNAQKTP----------------------tdapYVVDKLNAQKNAvwnemmtflgikn
2cbl_Ac   --ppgtvDKKMVEKCWKLMDKVVRLCQNpklalknsppyILDLLPDTYQHLRTILSRYEg--------kmetlgeNEYFRVFMENLMKKTKQTISLfkegkermyeensqprrnltklslifSHMLAELKGIFPsglfqgd------

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

1h5w_Ai   mafpttpTLELFAAELAELKEIISVNQnAQKTP--tdapyVVDKLNAQKNAVWNEMMTFLGIknmafpttptlelfAAELAELKEIISVNQNAQKTP-----------------TDAPY--VVDKLNAQKNAVW----NEMMtflgikn
2cbl_Ac   --ppgtvDKKMVEKCWKLMDKVVRLCQ-NPKLAlknsppyILDLLPDTYQHLRTILSRYEGK--------metlgeNEYFRVFMENLMKKTKQTISLfkegkermyeensqprrNLTKLslIFSHMLAELKGIFpsglFQGD-------

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

1h5w_Ai   ----MAFPTTPTLELFAAELAELKEIISVNQNAQKTPTDAP----YVVDKLNAQKNAVWNEMMTFLG---IKNMAFPTTPTL--ELFAAELAELKEIISVNQNAQK-T-------P------T--DA-P-Y-VVDKLNAQKNAV-----WNEMMTFLGIKN
2cbl_Ac   PPGT------VDKKMVEKCWKLMDKVVRLCQ--NPKL-ALKNSPPYILDLLPDTYQHLRTILSRYEGKME-----------TLG--ENEYFRVFMENLMKKTKQTISLFKEGKERMYEENSQPRRNLTKLSLIFSHMLAELKGIFPSGLFQGD--------

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

1h5w_Ai   MAFPTTPT------LELFAAELAELKEIISVNQNAQKTPTDAP-----------YVVDKLNAQKNAVWNEMMTFLGIKNMAFPTTPTL----ELFA--AELAELKEIISVNQNAQKTPTDAPY-------------------------VVDKLNAQKNAVWNEMMTFLGIKN--------
2cbl_Ac   --------PPGTVDKKMVEKCWKLMDKVVRLCQ----------NPKLALKNSPPYILDLLPDTYQHLRTILSRY--------------EGKMETLGENEYFRVFMENLMKKTKQTIS------LFKEGKERMYEENSQPRRNLTKLSLIFSHMLAELKGIF-----------PSGLFQGD