d1ogqa_d1fjgc1

Motif (click icon to enlarge)	SCOPid	Range	SCOP Class	SCOP Fold	SCOP Superfamily	SCOP Family	Protein
1ogq_Ah	d1ogqa_	A1-A87	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	L domain-like	Polygalacturonase inhibiting protein PGIP	Polygalacturonase inhibiting protein PGIP
1fjg_Cc	d1fjgc1	C2-C106	Alpha and beta proteins (a+b)	Alpha-lytic protease prodomain-like	Prokaryotic type KH domain (KH-domain type II)	Prokaryotic type KH domain (KH-domain type II)	Ribosomal protein S3 N-terminal domain

Justification for analogy
The motif in 1ogq: compare d1ogqa_ to d1g9ua_ (same superfamily), one strand is insertion. hybrid motif. The bottom line is that Leucine-rich repeat and KH domain are drastically different structures. So similar motifs come from them 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

1ogq_Ah   ----------------------------elcNPQDKQALLQIKKDLGnpttlsswlpttdccnrtwlGVLCDtdtqtYRVnNLDLSGlnlpkpy---------piPSSLANLPYLNFLYIGGin
1fjg_Cc   gnkihpigfrlgitrdwesrwyagkkqyrhlLLEDQRIRGLLEKELYsagl-------------arvDIERAa----DNV-AVTVHVakpgvvigrggerirvlrEELAKLTGKNVALNVQEv-

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

1ogq_Ah   ------------------------ELCNPQDKQALLQIKKDLG------nPTTLsswlpttdccnrtwlGVLCdtdtqtyrvNNLDLSgLNLP---------------kpyPIPSSLAnlpylnFLYIGGIN-
1fjg_Cc   gnkihpigfrlgitrdwesrwyagKKQYRHLLLEDQRIRGLLEkelysagLARV-------------diERAA---------DNVAVT-VHVAkpgvvigrggerirvlreELAKLTG-----kNVALNVQEv

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

1ogq_Ah   ---------------------------EL--CNPQDKQALLQIKKDLGNPTTLSSWLPTTDCCNRTWLGVLCDTDTQTYRVNNLDLSGLNL-PKP-Y----P--IP--SSLA-NLPY-LNFLYIGG-IN
1fjg_Cc   GNKIHPIGFRLGITRDWESRWYAGKKQ-YRHLLLEDQRIRGLLEKEL-YSAGLAR------------V-DIER--A-A-DNVAVTVHVAKPG-VVIGRGGERIRVLREE-LAKLTGKNV-ALNVQEV--

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

1ogq_Ah   ELCN----------------------------PQDKQALLQIKKDLGNPTTLSSWLPTTDCCNRTWL------------GVLCDTDTQTYRVN-----NLDLSGLNLPKPYPIPSSL-----------------------ANLPYLN--FLYIGGIN-
1fjg_Cc   ----GNKIHPIGFRLGITRDWESRWYAGKKQYRHLLLEDQRIRGLL---------------------EKELYSAGLARVDIER----------AADNVAVTVH--------------VAKPGVVIGRGGERIRVLREELAKLTGK--NVALNVQE--V