d1miwa2d1gyfa_

Motif
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SCOPidRangeSCOP ClassSCOP FoldSCOP SuperfamilySCOP FamilyProtein
1miw_Ah
d1miwa2A20-A27,A36-A47,A102-A131Alpha and beta proteins (a+b)NucleotidyltransferaseNucleotidyltransferasePoly A polymerase head domain-liketRNA CCA-adding enzyme, head domain
1gyf_Ac
d1gyfa_A25-A33,A34-A47,A48-A86Alpha and beta proteins (a+b)GYF domainGYF domainGYF domainGYF domain from cd2bp2 protein

Justification for analogy
The motif in 1miw: compare 1miw to d1fa0a4 (different family, same superfamily), a C-terminal beta-hairpin is insertion. The motif in 1gyf: core motif.


Alignment-based scores
AlignerAligned LengthSequence IdentityRMSDGDT-TSCOMPASS
manual460.108703.2287653.80435-9.10967
dali410.000002.6755460.36585-13.28426
tm460.021742.7280958.15217-11.37415
fast370.027032.6623555.40541-8.90982

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

1miw_Ah   YDAYFVGG--RPIGDVDI-ATSArSLEEDLKRRDFtmnAIAMDE---YGTIIDPFG-------
1gyf_Ac   DVMWEYKWenTGDAELYGpFTSA-QMQTWVSEGYFpdgVYCRKLdppGGQFYNSKRidfdlyt

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

1miw_Ah   -YDAYFVGGrpIGDVDIATS-aRSLEEDLK--RRDFtmnAIAMD-----eYGTIIDP------fg
1gyf_Ac   dVMWEYKWEntGDAELYGPFtsAQMQTWVSegYFPD---GVYCRkldppgGQFYNSKridfdlyt

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

1miw_Ah   YDAYFVGG--RPIGDVDIATS-ARSLEEDLKR-RDFTMNAI-AMD---EYG-TIIDPF-------G
1gyf_Ac   DVMWEYKWENTGDAELYGPFTS-AQMQTWVSEGYFPD--GVYCRKLDPPGGQFYNSKRIDFDLYT-

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

1miw_Ah   YDAYFVGGRPI------GDVDIATSA-----RSLEEDLKR--RDFTMNA-IAMDE---YGTIIDPFG--------
1gyf_Ac   DVMWEYK----WENTGDAELY-----GPFTSAQMQTWVSEGYFPDG---VYCRKLDPPGGQFYNSK-RIDFDLYT