d2gaw.1d1nppa1

Motif (click icon to enlarge)	SCOPid	Range	SCOP Class	SCOP Fold	SCOP Superfamily	SCOP Family	Protein
2gaw_Bh	d2gaw.1	A3-A12,B152-B205,B248-B290	Alpha and beta proteins (a+b)	Ntn hydrolase-like	N-terminal nucleophile aminohydrolases (Ntn hydrolases)	(Glycosyl)asparaginase	Glycosylasparaginase (aspartylglucosaminidase, AGA)
1npp_Ac	d1nppa1	A51-A59,A60-A80,A81-A131	All beta proteins	N-utilization substance G protein NusG, insert domain	N-utilization substance G protein NusG, insert domain	N-utilization substance G protein NusG, insert domain	N-utilization substance G protein NusG, insert domain

Justification for analogy
The motif in 2gaw: one strand is insertion, compared to d1pmab_ (d2gaw.1 is circularly permuted). This motif can be analog to motifs in SCOP all beta class, like NusG.

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

2gaw_Bh   nkPIVLSTWn--TI-GMIALdaqgnlsgacttsgmaykmhgrvgdspiigaglfvdneIGAATATGH-knlkdIQVGFIALNkKGEYGA-YCIQ---------------------DGFNFAVHDQkgnrletp
1npp_Ac   --EEKVVIRaqgKEkYRLSLk------------------------------------gNARDISVLGk-----KGVTTFRIE-NGEVKVvESVEgdtcvnappiskpgqkitckeNKTEAKIVLD--------

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

2gaw_Bh   nkPIVLSTW-NTIGM-IALDaqgnlsgacttsgmaykmhgrvgdspiigaglfvdneIGAATATGhknlkdIQVGFIALNKkGEYGA-YCIQ--------------------DGFNFAVHDQKgnrletp
1npp_Ac   -eEKVVIRAqGKEKYrLSLK------------------------------------gNARDISVL----gkKGVTTFRIEN-GEVKVvESVEgdtcvnappiskpgqkitckENKTEAKIVLD-------

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

2gaw_Bh   -------------------NKPIVLSTWNTIGMIALDAQGNLSGACTTSGMAYKMHGRVGDSPIIGAGLFVDNEIGAATATGHKNLKDIQVGF-IALNKKGEYG-A-Y-CIQ--------------------DGFNFAVHDQKGNRLETP
1npp_Ac   EEKVVIRAQGKEKYRLSLK------------------------------GN--------ARD-----ISVLG-KKGVTTFRIE----NGEVKVVESV---EGDTCVNAPPISKPGQKITCKENKTEAKIVLD------------------

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

2gaw_Bh   NKP-IVLSTWNTIGMIALDAQGNLSGACTTSGMAYKMHGRVGDSPIIGAGLFVDNEI---------------GAATATGHKNLKDI----QVGFIALNKKGEYGA-YCIQD----------------------GFNFAVHDQKGNRLETP--
1npp_Ac   ---EEKVVI------------------------------------------------RAQGKEKYRLSLKGNARDISV--------LGKKGVTTFRIE-NGEVKVVESVE-GDTCVNAPPISKPGQKITCKENKTEAKIV----------LD