d1qmea1

Domain	SCOPid	Range	SCOP Class	SCOP Fold	SCOP Superfamily	SCOP family	Protein
1qme_A1	d1qmea1	A632-A692	Alpha and beta proteins (a+b)	Penicillin-binding protein 2x (pbp-2x), c-terminal domain	Penicillin-binding protein 2x (pbp-2x), c-terminal domain	Penicillin-binding protein 2x (pbp-2x), c-terminal domain	Penicillin-binding protein 2x (pbp-2x), c-terminal domain
1qme_A2	d1qmea2	A693-A750	Alpha and beta proteins (a+b)	Penicillin-binding protein 2x (pbp-2x), c-terminal domain	Penicillin-binding protein 2x (pbp-2x), c-terminal domain	Penicillin-binding protein 2x (pbp-2x), c-terminal domain	Penicillin-binding protein 2x (pbp-2x), c-terminal domain

Alignment-based scores

Aligner	Aligned Length	Sequence Identity	RMSD	GDT-TS	COMPASS
manual	56	0.05357	1.89820	75.00000	-4.56850
dali	58	0.05172	2.22006	72.84483	-4.84516
tm	57	0.05263	2.08049	76.75439	-5.59566
fast	54	0.05556	1.88944	76.85185	-4.82263

In the alignments below, two upper-case letters are aligned, and two lower-case letters are NOT aligned. The superposition files 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. The coordinates of the first domain are transformed, while the coordinates of the second domain are the same as in the original PDB file.

MANUAL alignment      superposition in PDB format     colored superposition in PyMol

1qme_A1   qqspYPMPSVKDISPGDLAEELRRNLVQPIVVGTGTKIKNSSAEEGKNLAPNQQVLILSDk
1qme_A2   ---aEEVPDMYGWTKETAETLAKWLNIELEFQGSGSTVQKQDVRANTAIKDIKKITLTLGd

DALI alignment      superposition in PDB format     colored superposition in PyMol

1qme_A1   qqsPYPMPSVKDISPGDLAEELRRNLVQPIVVGTGTKIKNSSAEEGKNLAPNQQVLILSDK
1qme_A2   ---AEEVPDMYGWTKETAETLAKWLNIELEFQGSGSTVQKQDVRANTAIKDIKKITLTLGD

TM alignment      superposition in PDB format     colored superposition in PyMol

1qme_A1   QQSPYPMPSVKDISPGDLAEELRRNLVQPIVVGTGTKIKNSSAEEGKNL-APNQQVLILSDK
1qme_A2   ---AEEVPDMYGWTKETAETLAKWLNIELEFQGSGSTVQKQDVRANTAIKDI-KKITLTLGD

FAST alignment      superposition in PDB format     colored superposition in PyMol

1qme_A1   QQSPY--PMPSVKDISPGDLAEELRRNLVQPIVVGTGTKIKNSSAEEGKNLAPNQ--QVLILSDK
1qme_A2   -----AEEVPDMYGWTKETAETLAKWLNIELEFQGSGSTVQKQDVRANTAIKD--IKKITLTLGD