d1a05a_d1dgsa3

Motif (click icon to enlarge)	SCOPid	Range	SCOP Class	SCOP Fold	SCOP Superfamily	SCOP Family	Protein
1a05_Ai	d1a05a_	A82-A110,A126-A136,A241-A280	Alpha and beta proteins (a/b)	Isocitrate/Isopropylmalate dehydrogenase-like	Isocitrate/Isopropylmalate dehydrogenase-like	Dimeric isocitrate & isopropylmalate dehydrogenases	3-isopropylmalate dehydrogenase, IPMDH
1dgs_Ac	d1dgsa3	A89-A118,A249-A259,A260-A314	Alpha and beta proteins (a+b)	ATP-grasp	DNA ligase/mRNA capping enzyme, catalytic domain	Adenylation domain of NAD+-dependent DNA ligase	Adenylation domain of NAD+-dependent DNA ligase

Justification for analogy
In 1a05, motif occurs at the interface of the two duplicates. In 1dgs, the motif is a circularly permuted reverse-ferredoxin core.

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   ppakRPEQGLLRLRKGLD--lYANLRPAQIF--DVDILVVREltGNMFGDILSDEASQLTgs----igMLPSASLGe-----------graMYEPIHGS
1dgs_Ac   -ftyEEVLAFEERLEREAeapSLYTVEHKVDfpVEHCYEKAL--GAEGVEEVYRRGLAQRhalpfeadGVVLKLDDltlwgelgytaraprFALAYKFP

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

1a05_Ai   ppakrpEQGLLRLRKGL-------dlYANLRPaqifdvdILVVRELT---gnmFGDILSDEASQLTGSIgmLPSASLG---------------egRAMYEPIHgs
1dgs_Ac   ----ftYEEVLAFEERLereaeapslYTVEHK--vdfpvEHCYEKALgaegveEVYRRGLAQRHALPFE-aDGVVLKLddltlwgelgytaraprFALAYKFP--

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

1a05_Ai   ---PPAKRPE-QGLLRLRKGLD--LYANLRPAQIF---DVDILVVRELTGNMFGDILSDEASQ-LTG-----SIGMLPSASLGEGRA-----------MYEPIHGS
1dgs_Ac   FTY-----EEVLAFEERLEREAEAPSLYTVEHKVDFPV-EHCYEKALG--AEGVEE-VYRRGLAQRHALPFEADG-VVLKLDDLTLWGELGYTARAPRFALAYKFP

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

1a05_Ai   PPAKR----PEQGLLRLRKGLDLY----ANLRPAQIFDVD--------ILVVRELTGNMFGDILSDEASQLTGSIGM----------LPSASLGEGRAM-----------------YEPIHGS---
1dgs_Ac   -----FTYEEVLAFEERLEREA--EAPSLYTVEH------KVDFPVEHCYEKAL---GAEGVEEVYRRGLAQ-----RHALPFEADGVVLKLD------DLTLWGELGYTARAPRFALAY---KFP