d1qnia1d1k4za_

Motif (click icon to enlarge)	SCOPid	Range	SCOP Class	SCOP Fold	SCOP Superfamily	SCOP Family	Protein
1qni_Ah	d1qnia1	A472-A524,A565-A581	All beta proteins	Cupredoxin-like	Cupredoxins	Nitrosocyanin	Nitrous oxide reductase, C-terminal domain
1k4z_Ac	d1k4za_	A1368-A1406,A1407-A1524	All beta proteins	Single-stranded right-handed beta-helix	C-terminal domain of adenylylcyclase associated protein	C-terminal domain of adenylylcyclase associated protein	C-terminal domain of adenylylcyclase associated protein

Justification for analogy
The motif in 1qni: compared to 2cbp (same superfamily), the first strand in 1qni is an insertion. So this right-handed beta-helix in 1qni is a hybrid. Basically, 1qni is a greek-key structure and is fundamentally different from the real beta-helix structures like 1k4z. So the motifs in 1qni and 1k4z are analogs.

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

1qni_Ah   vtleSDNKVIRDGNKVRVYMtsvapqygmTDFKVK--EGDEVTVYItnldmvedvchalhmemVGRMLVEAA------------------------------------------------------------------------------------------------------------
1k4z_Ac   ----MPPRKELVGNKWFIENye----netESLVIDanKDESIFIGKc---------------sQVLVQIKGKvnaislsetescsvvldssisgmdviksnkfgiqvnhslpqisidksdggniylskeslnteiytscstainvnlpigedddyvefpipeqmkhsfadgkfksavfeh

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

1qni_Ah   vtleSDNKVIRDGNKVRVYMTSVapqygmTDFKVKEGDEVTVYITNLdmvedvchalhmemVGRMLVE----------------------------------------------------------------------------------------------------------aa
1k4z_Ac   ----MPPRKELVGNKWFIENYEN--etesLVIDANKDESIFIGKCSQ-------------vLVQIKGKvnaislsetescsvvldssisgmdviksnkfgiqvnhslpqisidksdggniylskeslnteiytscstainvnlpigedddyvefpipeqmkhsfadgkfksavfeh

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

1qni_Ah   --------------------------------------------V-T----------------LESDNK---V-IRDGNKVRVYMTSVAPQYGMTDFKVKEGDEVTVYITNL-DMVEDVCHALHMEMVGRMLVEA----------------------------------------A
1k4z_Ac   MPPRKELVGNKWFIENYENETESLVIDANKDESIFIGKCSQVLVQIKGKVNAISLSETESCSVV-LDSSISGMDVIKSNKFGIQVNH-----SLPQISIDKSDGGNIYLSKES----------L--NTEIYTSCSTAINVNLPIGEDDDYVEFPIPEQMKHSFADGKFKSAVFEH-

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

1qni_Ah   VTLESDNKVIRDGNKVRVYMTSVAPQYGMT---------DFKVKEGDEVTVYITNLDMVEDVCHALHMEM-----VGRMLVEAA-------------------------------------------------------------------------------------------------------------
1k4z_Ac   ----MPPRKELVGNKWFIE-----------NYENETESLVIDANKDESIFIG------------------KCSQVLVQIKG---KVNAISLSETESCSVVLDSSISGMDVIKSNKFGIQVNHSLPQISIDKSDGGNIYLSKESLNTEIYTSCSTAINVNLPIGEDDDYVEFPIPEQMKHSFADGKFKSAVFEH