d1a2za_d1u9da_

Motif (click icon to enlarge)	SCOPid	Range	SCOP Class	SCOP Fold	SCOP Superfamily	SCOP Family	Protein
1a2z_Ah	d1a2za_	A75-A81,A114-A138,A159-A220,A61-A74	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)	Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)	Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)
1u9d_Ac	d1u9da_	A1-A9,A10-A48,A49-A84,A85-A107	Alpha and beta proteins (a+b)	Tautomerase/MIF	Tautomerase/MIF	VC0714-like	Hypothetical protein VC0714

Justification for analogy
d1a2za_ hits d1nc3a_ (other superfamily) with Dali Z 13.3, and d2pth__ (othersuperfamily) hits d1nc3a_ with Z 9.5, thus d1a2za_ and d2pth__ are homologs (the Z score between these two is 7.6, less than 9). In addition, the superposition of 1a2z and 2pth has some details suggesting homology between them. Compare d1a2za_ and d2pth__, one strand and one helix in the motif are insertions. 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

1a2z_Ah   sNITVER-------atlPVRAITKTLRDNGi----PATISYSa-------ypLKAGFIHVPytpdqvvnkffllgkntpSMCLEAEIKAIELAVKVSLDYLEkdrddikiplkpeIVINLGLAPTy---------
1u9d_Ac   -MPHLRFraveahivesLVPTLLNELSSLLstarnAFTFELIntqyfaeggvYPMVEVLWF------------------GREQQTQDQIAQVITDQIRQLLGa---------dshLAVVFIPLQRtayyldgqhf

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

1a2z_Ah   sNITVERAT-------lPVRAITKTLRDNG----iPATISYS-------aYPLKAGFIHVPYtpdqvvnkffllgkntpsMCLEAEIKAIELAVKVSLDYLEKdrddikiplkpEIVINLGLAPT---------y
1u9d_Ac   -MPHLRFRAveahivesLVPTLLNELSSLLstarnAFTFELIntqyfaegGVYPMVEVLWFG------------------REQQTQDQIAQVITDQIRQLLGA---------dsHLAVVFIPLQRtayyldgqhf

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

1a2z_Ah   SNITVERATL--PVRAITKTLRDN-G--I------PATISYSA-----YPLKAGFIHVPYTPDQVVNKFFLLGKNTPSMCL--EAEIKAIELAVKVSLDYLEKDRDDIKIPLKPEIVINLGLAPT---Y-------
1u9d_Ac   MPHLRFRAVEAHIVESLVPTLLNELSSLLSTARNAFTFELINTQYFAEGGVYPMVEVLWFG------------------REQQT-QDQIAQVITDQIRQLLGA----------DSHLAVVFIPLQRTAYYLDGQHF

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

1a2z_Ah   SNITVERATLP--------VRAITKTLRDNGIP-------ATISYSAYPL------------KAGFIHVPYTPDQVVNKFFLLGKNTP-SMCLEAEIKAIELAVKVSLDYLEKDRDDIKIPLKPE--IVINLGLAPTY-----------
1u9d_Ac   -MPHLRFRAV-EAHIVESLVPTLLNELSSL---LSTARNAFTFEL-----INTQYFAEGGVYPMVEVLW-------------------FGREQQTQDQIAQVITDQIRQLLGAD-----------SHLAVVFIPLQ--RTAYYLDGQHF