d1a05a_d1j71a_

Motif
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SCOPidRangeSCOP ClassSCOP FoldSCOP SuperfamilySCOP FamilyProtein
1a05_Ai
d1a05a_A100-A110,A126-A137,A241-A281Alpha and beta proteins (a/b)Isocitrate/Isopropylmalate dehydrogenase-likeIsocitrate/Isopropylmalate dehydrogenase-likeDimeric isocitrate & isopropylmalate dehydrogenases3-isopropylmalate dehydrogenase, IPMDH
1j71_Ac
d1j71a_A192-A205,A206-A221,A222-A334All beta proteinsAcid proteasesAcid proteasesPepsin-likeAcid protease

Justification for analogy
The motif in 1a05: motif occurs at the interface of the two duplicates. The motif in 1j71: a core motif. Alternatively, this can be regarded as an interface motif because it uses corresponding elements from the two duplicates.


Alignment-based scores
AlignerAligned LengthSequence IdentityRMSDGDT-TSCOMPASS
manual450.044442.2013868.33333-18.78969
dali510.019613.1771255.88235-24.69500
tm550.090912.8779861.36364-23.07197
fast420.047622.2958262.50000-21.30391

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   -------LYANLRPaqifdvdiLVVRELTg---------------GNMFGDILSDEasqltg--------siGMLPSASLGEG-RAMYEPIHGsa--------------------------------------------------------
1j71_Ac   svelrvhLGSINFD--------GTSVSTNadvvldsgttityfsqSTADKFARIVGatwdsrneiyrlpscdLSGDAVFNFDQgVKITVPLSElilkdsdssicyfgisrndanilgdnflrrayivydlddktislaqvkytsssdisal

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

1a05_Ai   ------lYANLRPaqifdvdILVVRELTG----------GNMFGDILSDEASQL------------tgsIGMLPSASLGEgRAMYEP---iHGSA------------------------------------------------------
1j71_Ac   svelrvhLGSINF-----dgTSVSTNADVvldsgttityFSQSTADKFARIVGAtwdsrneiyrlpscdLSGDAVFNFDQ-GVKITVplseLILKdsdssicyfgisrndanilgdnflrrayivydlddktislaqvkytsssdisal

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

1a05_Ai   -------LYANLRPAQIFDVDILVVRELTG-----------GNM-FGDILSDEASQL-----------TGS-IGMLPSASLG-EGRAMYEPI--HGSA------------------------------------------------------
1j71_Ac   SVELRVHLGSINFDG-------TSVSTNADVVLDSGTTITY-FSQSTADKFARIVGATWDSRNEIYRL-PSCDLSGDAVFNFDQGVKITVPLSELILKDSDSSICYFGISRNDANILGDNFLRRAYIVYDLDDKTISLAQVKYTSSSDISAL

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

1a05_Ai   L--------YANLRPAQIFDVD--ILVVRELTGGN--------------MFGDILSDEASQLTGSIG-----------------MLPSASLGEG-RAMYEPIHGSA-----------------------------------------------------------
1j71_Ac   -SVELRVHLGSINF--------DGTSVSTNA----DVVLDSGTTITYFSQSTADKFARIVG------ATWDSRNEIYRLPSCDLSGDAVFNFDQGVKITVPLS---ELILKDSDSSICYFGISRNDANILGDNFLRRAYIVYDLDDKTISLAQVKYTSSSDISAL