d1gx3a_d1pbya5

Motif (click icon to enlarge)	SCOPid	Range	SCOP Class	SCOP Fold	SCOP Superfamily	SCOP Family	Protein
1gx3_Ah	d1gx3a_	A85-A185	Alpha and beta proteins (a+b)	Cysteine proteinases	Cysteine proteinases	Arylamine N-acetyltransferase	Arylamine N-acetyltransferase
1pby_Ac	d1pbya5	A166-A273	All beta proteins	Streptavidin-like	Quinohemoprotein amine dehydrogenase A chain, domain 3	Quinohemoprotein amine dehydrogenase A chain, domain 3	Quinohemoprotein amine dehydrogenase A chain, domain 3

Justification for analogy
The motif in 1gx3: compare d1gx3a_ with classic cysteine proteinase papain d1ppn__ (same superfamily), half of the barrel in 1gx3 is absent in 1ppn. So this is a hybrid motif and is analog to true barrels in all-beta class. Note that the cysteine proteinase superfamily is very diverged in structures.

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

1gx3_Ah   -----GFEVERLSGRVVWMRaddaplpaqTHNVLSVAVpgADGRYLVDvGFGGqt----ltSPIRLEA--GPVQQTR----HEPYRLTRHGDDHTLAAQVR---GEWQPlYTFTTEPrp
1pby_Ac   pdayaDDASGAYVLAGRQPGrg-----dyTGRLVLKKA--GEDYEVTM-TLDFadgsrsfsGTGRILGagEWRATLSdgtvTIRQIFALQDGRFSGRWHDAdsdVIGGR-LAAVKAD--

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

1gx3_Ah   -------gFEVERLSGRVVWmraddaplpaqTHNVLSVAVPG--aDGRYLVDvGFGGqtltSPIR--------leAGPVQQTRHEPYRLTRHG----DDHTLAAQVrgEWQPLYTFTTEPRP
1pby_Ac   pdayaddaSGAYVLAGRQPG---------rgDYTGRLVLKKAgedYEVTMTL-DFAD--gsRSFSgtgrilgageWRATLSDGTVTIRQIFALqdgrFSGRWHDAD--SDVIGGRLAAVKAD

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

1gx3_Ah   --------GFEVERLSGRVVWMR-ADDAPLPAQTHNVLSVAVPGAD--GRYLVDVGF--GGQTLTSPIRLE------AGPVQQT-RHEPYRLTRHG----DDHTLAAQVRGEW-QPLYTFTTEPRP
1pby_Ac   PDAYADDA--SGAYVLAGR-QPGR------GD-YTGRLVLKK--AGEDYEVTMTLDFADGS-RS-FSGTGRILGAGEWRA-TLSDGTVTIRQIFALQDGRFSGRWHDA--DSDVIGGRLAA-VKAD

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

1gx3_Ah   GFEV---------ERLSGRVVWMRADD--APLPAQTHNVLSVAVPGADGRYLVDVGFGGQTLT---------SPIRLEA------GPVQQTRHEPYRLT--RHGDDH--TLAAQVRGEWQP-------LYTFTTEPRP--
1pby_Ac   ----PDAYADDASGAYVLAGRQ-----PGRGDYT--GRLVLKKAG--EDYEVTMT--------LDFADGSRSFSGTGRILGAGEWRATLSDGTVTIRQIFALQDGRFSGRWHDA-------DSDVIGGRLAAVK----AD