d1ds1a_d1tig__

Motif
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SCOPidRangeSCOP ClassSCOP FoldSCOP SuperfamilySCOP FamilyProtein
1ds1_Ah
d1ds1a_A2-A8,A43-A105,A153-A166,A265-A275All beta proteinsDouble-stranded beta-helixClavaminate synthase-likeClavaminate synthaseClavaminate synthase
1tig__c
d1tig__83-94,95-145,146-158,159-170Alpha and beta proteins (a+b)IF3-likeTranslation initiation factor IF3, C-terminal domainTranslation initiation factor IF3, C-terminal domainTranslation initiation factor IF3, C-terminal domain

Justification for analogy
Comparing d1ds1a_ and d1e5sa_ (same superfamily, different family), one strand and one helix are insertions. Thus the IF3-like motif in d1ds1a_ is a hybrid.


Alignment-based scores
AlignerAligned LengthSequence IdentityRMSDGDT-TSCOMPASS
manual590.118642.4869563.98305-13.73602
dali690.086963.3529655.79710-13.52167
tm730.095893.3922455.47945-14.94831
fast530.113212.5239765.09434-12.89716

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

1ds1_Ah   ---TSVDCTa------PGALATALDTFNAEGsedGHLLLRGlpveadadlpttpsstpapedrslLTMEAMLGLVGRRL-qpNYVM-LA-CSradhepGDLLIVDNF-
1tig__c   invKEVRLSptieehdFNTKLRNARKFLEKG---DKVKATIrfkgr--------------aithkEIGQRVLDRLSEACa-dIAVVeTApKMdg--rnMFLVLAPKNd

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

1ds1_Ah   ---TSVDCT------aPGALATALDTFNAEGSedgHLLLRgLPVEadADLPttpsstpapedrslLTMEAMLGLVGRRLqpNYVM--LACSRAdhePGDLLIVDNF-
1tig__c   invKEVRLSptieehdFNTKLRNARKFLEKGD---KVKAT-IRFK--GRAI-----------thkEIGQRVLDRLSEACadIAVVetAPKMDG--rNMFLVLAPKNd

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

1ds1_Ah   ---TSVDCT--A---P-GALATALDTFNAEGSEDGHLLLRGLPVEADADL-PTTPSSTPAPEDRSLLTMEAMLGLVGRRL---QPNYV-MLACSRADHEPGDLLIVDNF-
1tig__c   INVKEVRLSPTIEEHDFNTKLRNARKFLEKGD---KVKATIRFKGR-AITH--------------KEIGQRVLDRLSEACADI--AVVETAPK-MDG-RNMFLVLAPKND

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

1ds1_Ah   ---TSVDCTA-------PGALATALDTFNAEGSEDG-HLLLRGLPVEADADLPTTPSSTPAPEDRSLL------------TMEAMLGLVGRRLQP--NYVMLACSRADHEP---------GDLLIVDNF-
1tig__c   INVKEVRLS-PTIEEHDFNTKLRNARKFLEKG----DKVKAT--------------------------IRFKGRAITHKEIGQRVLDRLSEAC--ADIAVVE---------TAPKMDGRNMFLVLAPKND