d1piea1d1q0qa1

Motif (click icon to enlarge)	SCOPid	Range	SCOP Class	SCOP Fold	SCOP Superfamily	SCOP Family	Protein
1pie_Ah	d1piea1	A96-A119,A131-A180	Alpha and beta proteins (a+b)	Ribosomal protein S5 domain 2-like	Ribosomal protein S5 domain 2-like	GHMP Kinase, N-terminal domain	Galactokinase
1q0q_Ac	d1q0qa1	A371-A398,A301-A370	All alpha proteins	Left-handed superhelix	1-deoxy-D-xylulose-5-phosphate reductoisomerase, C-terminal domain	1-deoxy-D-xylulose-5-phosphate reductoisomerase, C-terminal domain	1-deoxy-D-xylulose-5-phosphate reductoisomerase, C-terminal domain

Justification for analogy
The motif in 1pie: two helices come from the "Ribosomal protein S5 domain 2-like" core and the third helix comes from C-terminal extension. 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

1pie_Ah   -------dgeLWSNYVKGMIVMLKGAGyeid-------------------------ptasglSSSASLELLVGVVLDDLFnlnVPRLELVQLGQKTENDYIgvnsg
1q0q_Ac   epqcvddvlsVDANAREVARKEVMRLAs---klsaltfaapdydrypclklameafeqgqaaTTALNAANEITVAAFLAQq--IRFTDIAALNLSVLEKMDmr---

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

1pie_Ah   ------dGELW-SNYVKGMIVMLKGAG--------------------yeidpTASGL--SSSASLELLVGVVLDDlfNLNVPRLELVQLGQKTENdYIGVnsg
1q0q_Ac   epqcvddVLSVdANAREVARKEVMRLAsklsaltfaapdydrypclklameaFEQGQaaTTALNAANEITVAAFL--AQQIRFTDIAALNLSVLE-KMDM--r

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

1pie_Ah   ------DGE--L-WSNYVKGMIVMLKGAGYE-----------------------IDPTASGL-----SSSASLELLVGVVLDDLFNLNVPRLELVQLGQKTENDYIGV-NSG
1q0q_Ac   EPQCVD--DVLSVDANAREVARKEVMR-LASKLSALTFAAPDYDRYPCLKLAME-----AFEQGQAATTALNAANEITVAAFL--AQQIRFTDIAALNLSVLEK-MDMR---

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

1pie_Ah   DGEL-----------WSNYVKGMIVMLKGAGYEIDPTASGLS------------------------------SSASLELLVGVVLDDLFNLNVP-----------RLELVQLGQKTENDYIGVNSG---
1q0q_Ac   ----EPQCVDDVLSVDANAREVARKEVMRL------------ASKLSALTFAAPDYDRYPCLKLAMEAFEQGQAATTALNAANEITVAA-----FLAQQIRFTDIAALNLSVLEKM----------DMR