d1a7j__d2if1__

Motif (click icon to enlarge)	SCOPid	Range	SCOP Class	SCOP Fold	SCOP Superfamily	SCOP Family	Protein
1a7j__h	d1a7j__	203-279	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Phosphoribulokinase/pantothenate kinase	Phosphoribulokinase
2if1__c	d2if1__	1-126	Alpha and beta proteins (a+b)	eIF1-like	eIF1-like	eIF1-like	Eukaryotic translation initiation factor eIF-1 (SUI1)

Justification for analogy
The motif in 1a7j: comparing d1a7j__ and 1uj2 (same SCOP family), three strands and one helix in the motif in 1a7j are absent in 1uj2. So this is a hybrid 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

1a7j__h   ------------------------------------------DINFQRVPVVdtsnpfiarwiptaDESVVVIRFrnpRGIDFPYLTSMIH-----GSWMSRa----NSIVVPGNKLDLAMQLILTPL------------
2if1__c   mrgshhhhhhtdpmsaiqnlhsfdpfadaskgddllpagtedYIHIRIQQRNg-------------RKTLTTVQG-iaDDYDKKKLVKAFKkkfacNGTVIEhpeygEVIQLQGDQRKNICQFLVEIGlakddqlkvhgf

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

1a7j__h   ------------------------------------------DINFQRVPVVDtsnpfiarwiptaDESVVVIRFrnPRGIDFPYLTSMIH-----GSWMSR----ANSIVVPGNKLDLAMQLILTPL------------
2if1__c   mrgshhhhhhtdpmsaiqnlhsfdpfadaskgddllpagtedYIHIRIQQRNG-------------RKTLTTVQG-iADDYDKKKLVKAFKkkfacNGTVIEhpeyGEVIQLQGDQRKNICQFLVEIGlakddqlkvhgf

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

1a7j__h   ------------------------------------------DINFQRVPVVDTSNPFIARWIPTADESVVVIRFRNPRGIDFPYLTSMIH-----GSWMSR----ANSIVVPGNKLDLAMQLILT-P--L---------
2if1__c   MRGSHHHHHHTDPMSAIQNLHSFDPFADASKGDDLLPAGTEDYIHIRIQQRN-----------G--RKTLTTVQG-IADDYDKKKLVKAFKKKFACNGTVIEHPEYGEVIQLQGDQRKNICQFLVEIGLAKDDQLKVHGF

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

1a7j__h   ------------------------------------------DINFQRVPVVDTSNPFIARWIPTAD--ESVVVIRFRNPR-GIDFPYLTSMIH------GSWMSR-----ANSIVVPG-NKLDLAMQLILTPL-------------
2if1__c   MRGSHHHHHHTDPMSAIQNLHSFDPFADASKGDDLLPAGTEDYIHIRIQQRN---------------GRKTLTTVQ--GIADDYDKKKLVKAF-KKKFACNGTVI-EHPEYGEVIQLQ-GDQRKNICQFLVEI-GLAKDDQLKVHGF