d1st6a8d1gvna_

Motif (click icon to enlarge)	SCOPid	Range	SCOP Class	SCOP Fold	SCOP Superfamily	SCOP Family	Protein
1st6_Ah	d1st6a8	A875-A942,A1007-A1065	All alpha proteins	Four-helical up-and-down bundle	alpha-catenin/vinculin	alpha-catenin/vinculin	Vinculin
1gvn_Ac	d1gvna_	A3-A60,A61-A89	All alpha proteins	immunoglobulin/albumin-binding domain-like	Plasmid maintenance system epsilon/zeta, antidote epsilon subunit	Plasmid maintenance system epsilon/zeta, antidote epsilon subunit	Plasmid maintenance system epsilon/zeta, antidote epsilon subunit

Justification for analogy
The motif in 1st6: comparing the 8 duplicates, we know that the helix before the last duplicate is an insertion. So the three helix bundle is a hybrid motif with one inserted helix and two core helices.

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

1st6_Ah   ppppeekdeefpeqkageainQPMMMAARQLHDEARKWSSKgndiiAAAKRMALLMAEMSRLvrggsggrtnisDEESEQATEMLVHNAQNLMQSVKEtvreaeaasikirtdagftlrwvrktpwy
1gvn_Ac   --------vtyektfeieiinELSASVYNRVLNYVLNHELNkndsqLLEVNLLNQLKLAKRVnlfd-------ySLEELQAVHEYWRSMNRYSKQVLNkekv-------------------------

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

1st6_Ah   ppppeekdeefpeqkageAINQ-PMMMAARQLHDEAR-KWSSkgndiiAAAKRMALLMAEMSRLvRGGSggrtnisDEESEQATEMLVHNAQNLMQSVKEtvREAEaasikirtdagftlrwvrktpwy
1gvn_Ac   ---------vtyektfeiEIINeLSASVYNRVLNYVLnHELN-kndsqLLEVNLLNQLKLAKRV-NLFD------ySLEELQAVHEYWRSMNRYSKQVLN--KEKV-----------------------

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

1st6_Ah   -----PPPPEEKDEEFPEQKAGEA--I--NQ-PMMMAARQLHDEARKWSSK--GND-IIAAAKRMALLMAEMSRLVRGGSGGRTNISDEESEQATEMLVHNAQNLMQSVKETVREAEAASIKIRTDAGFTLRWVRKTPWY
1gvn_Ac   VTYEK------------------TFEIEIINELSASVYNRVLNYVLNHELNKN--DS-QLLEVNLLNQLKLAKRVNLF-D-Y---S-L-EELQAVHEYWRSMNRYSKQVL-NKE--K-----------------V-----

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

1st6_Ah   PPPPEEKDEEFPEQKAGEAINQ--------------PMMMAARQLHDEARKWSSKGNDIIAAAKR-------MALLMAEMSRLVRGGSGGRTNISD------EESEQATEMLVHNAQNLMQSVKETVREAEAASIKIRTDAGFTLRWVRKTPWY---
1gvn_Ac   ----------------------VTYEKTFEIEIINELSASVYNRVLNYVLNHEL-----------NKNDSQLLEVNLLNQLKLAKRV---------NLFDYSLEELQAVHEYWRSMNRYSKQVLNK----------------------------EKV