d1a05a_d1rblm_

Motif (click icon to enlarge)	SCOPid	Range	SCOP Class	SCOP Fold	SCOP Superfamily	SCOP Family	Protein
1a05_Ai	d1a05a_	A82-A110,A126-A137,A241-A281	Alpha and beta proteins (a/b)	Isocitrate/Isopropylmalate dehydrogenase-like	Isocitrate/Isopropylmalate dehydrogenase-like	Dimeric isocitrate & isopropylmalate dehydrogenases	3-isopropylmalate dehydrogenase, IPMDH
1rbl_Mc	d1rblm_	M2-M51,M64-M77,M78-M122	Alpha and beta proteins (a+b)	RuBisCO, small subunit	RuBisCO, small subunit	RuBisCO, small subunit	Ribulose 1,5-bisphosphate carboxylase-oxygenase

Justification for analogy
The motif in 1a05: motif occurs at the interface of the two duplicates. circularly permuted reverse-ferredoxin.

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

1a05_Ai   ------------------ppakRPEQGLLRLRKGLDLyANLRPAQIF-----dvDILV--VRELtg-GNMFGDILSDEASQLTGSIgMLPSASLGE--GRA-MYEPIHgsa-
1rbl_Mc   smktlpkerrfetfsylpplsdRQIAAQIEYMIEQGF-HPLIEFNEHsnpeefyWTMWklPLFAc-aAPQQVLDEVRECRSEYGDC-YIRVAGFDNikECQtSSFIVHrpgr

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

1a05_Ai   ------------------ppakRPEQGLLRLRKGLDLyANLRP-------aqifdvdiLVVRELTGgnmfgDILSDEASQLTGSIGmlpSASLGEG---rAMYEPIH-gsa
1rbl_Mc   smktlpkerrfetfsylpplsdRQIAAQIEYMIEQGF-HPLIEfnehsnpeefywtmwKLPLFACAapqqvLDEVRECRSEYGDCY-irVAGFDNIkecqTSSFIVHrpgr

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

1a05_Ai   ----------------------PPAKRPE-QGL-LRLR-KGLDLYANLRPAQIF--------DVDILV-VR-ELTGGNMFGDILSDEASQLTGSIGMLPSASLG-EG-R-AMYEPIH----GSA
1rbl_Mc   SMKTLPKERRFETFSYLPPLSD-----RQIAAQIE-YMIE-QGF-HPLIEFNEHSNPEEFYW--TMWKLPLFAC-AAPQQVLDEVRECRSEYGDC-YIRVAGFDNIKECQTSSFIVHRPGR---

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

1a05_Ai   PPAKR-----------------------PEQGLLRLRKGLDLYANLRPAQIFDVDILVVRELTGG--------------------NMFGDILSDEASQLTGSIG--MLPSASLGEGRA------MYEPIHGSA-----
1rbl_Mc   -----SMKTLPKERRFETFSYLPPLSDRQIAAQIEYMIEQGF-HPLIEFNEH-------------SNPEEFYWTMWKLPLFACAAPQQVLDEVRECRSEYG---DCYIRVAGFDN---IKECQTSSFIV----HRPGR