d1qysa_d1i7b.1

Motif (click icon to enlarge)	SCOPid	Range	SCOP Class	SCOP Fold	SCOP Superfamily	SCOP Family	Protein
1qys_Aa	d1qysa_	A3-A13,A14-A94	Designed proteins	New fold designs	New fold designs	alpha+beta folds	Top7
1i7b_Ac	d1i7b.1	B4-B23,A74-A166	Alpha and beta proteins (a+b)	S-adenosylmethionine decarboxylase	S-adenosylmethionine decarboxylase	S-adenosylmethionine decarboxylase	S-adenosylmethionine decarboxylase

Justification for analogy
Top7 is a de novo designed protein, and thus is analog to the natural protein 1i7b. Top7 paper mentioned that there is no significant BLAST hit when Top7 sequence is used as query to search nr database.

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

1qys_Aa   -----DIQVQVNIDDN----GKNFDYTYTVtteselqKVLNELMDYIKKQG-------AKRVRISITArtkke----aekFAAILIKVFAELgYNDINVTFDG-----DTVTVEGQL--
1i7b_Ac   ahffeGTEKLLEVWFSrqqpKRRFILKTCG-----ttLLLKALVPLLKLARdysgfdsIQSFFYSRKNfmkpshqgyphrNFQEEIEFLNAI-FPNGAGYCMGrmnsdCWYLYTLDFpe

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

1qys_Aa   -----DIQVQVNIDDN----GKNFDYTYtVTTEselqKVLNELMDYIKKQ-------GAKRVRISITART----kkeaeKFAAILIKVFAELgYNDINVTFDG-----DTVTVEGQ--l
1i7b_Ac   ahffeGTEKLLEVWFSrqqpKRRFILKT-CGTT----LLLKALVPLLKLArdysgfdSIQSFFYSRKNFMkpshqgyphRNFQEEIEFLNAI-FPNGAGYCMGrmnsdCWYLYTLDfpe

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

1qys_Aa   -------DIQVQVNIDDN--GKNFDYTYTVT--TESELQKVLNELMD-YIK--KQGAKRVRISITART-----------KKEAEKFAAILIKVFAELGYNDINVTFDG--------DTVTVEGQ-L
1i7b_Ac   AHFFEGTEKLLEVWFSRQQP--KRRFILKTCGTTL-LLK-ALVPLLKLARDYSGFDS-IQSFFYSRKNFMKPSHQGYPH-RNFQEEIEFLNAIF-----P-NGAGYCMGRMNSDCWYLYTLDFPE-

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

1qys_Aa   D------IQVQVNIDDN-----GKNFDYTYTVTTESELQK----VLNELMDYIKKQG--------AKRVRISIT-ARTKKE--------AEKFAAILIKVFAELGYNDINVTFDGD-------TVTVEGQL--
1i7b_Ac   -AHFFEGTEKLLEVWF-SRQQPKRRFILKTC---------GTTLLLKALVPLLKLA-RDYSGFDSIQSFFYSRKNFMKPS-HQGYPHRNFQEEIEFLNAIF-----PNGAGYCM--GRMNSDCWYLYTLDFPE