d1pprm1

DomainSCOPidRangeSCOP ClassSCOP FoldSCOP SuperfamilySCOP familyProtein
1ppr_M1d1pprm1M1-M156All alpha proteinsPeridinin-chlorophyll proteinPeridinin-chlorophyll proteinPeridinin-chlorophyll proteinPeridinin-chlorophyll protein
1ppr_M2d1pprm2M157-M312All alpha proteinsPeridinin-chlorophyll proteinPeridinin-chlorophyll proteinPeridinin-chlorophyll proteinPeridinin-chlorophyll protein

Alignment-based scores

AlignerAligned LengthSequence IdentityRMSDGDT-TSCOMPASS
manual1490.563760.9484495.805376.52726
dali1490.563760.9484495.805376.52726
tm1490.563760.9484495.805376.52726
fast1490.563761.0572394.798666.50749

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

1ppr_M1   -------DEIGDAAKKLGDASYAFAKEVDWNNGIFLQAPGKLQPLEALKAIDKMIVMGAAADPKLLKAAAEAHHKAIGSISGPnGVTSRADWDNVNAALGRVIASVPENMVMDVYDSVSKITDPKVPAYMKSLVNGADAEKAYEGFLAFKDVVKKSQvtsaag
1ppr_M2   patvpsgDKIGVAAQQLSEASYPFLKEIDWLSDVYMKPLPGVSAQQSLKAIDKMIVMGAQADGNALKAAAEAHHKAIGSIDAT-GVTSAADYAAVNAALGRVIASVPKSTVMDVYNAMAGVTDTSIPLNMFSKVNPLDANAAAKAFYTFKDVVQAAQ------

DALI alignment      superposition in PDB format     colored superposition in PyMol

1ppr_M1   -------DEIGDAAKKLGDASYAFAKEVDWNNGIFLQAPGKLQPLEALKAIDKMIVMGAAADPKLLKAAAEAHHKAIGSISGPnGVTSRADWDNVNAALGRVIASVPENMVMDVYDSVSKITDPKVPAYMKSLVNGADAEKAYEGFLAFKDVVKKSQvtsaag
1ppr_M2   patvpsgDKIGVAAQQLSEASYPFLKEIDWLSDVYMKPLPGVSAQQSLKAIDKMIVMGAQADGNALKAAAEAHHKAIGSIDAT-GVTSAADYAAVNAALGRVIASVPKSTVMDVYNAMAGVTDTSIPLNMFSKVNPLDANAAAKAFYTFKDVVQAAQ------

TM alignment      superposition in PDB format     colored superposition in PyMol

1ppr_M1   -------DEIGDAAKKLGDASYAFAKEVDWNNGIFLQAPGKLQPLEALKAIDKMIVMGAAADPKLLKAAAEAHHKAIGSISGPNGVTSRADWDNVNAALGRVIASVPENMVMDVYDSVSKITDPKVPAYMKSLVNGADAEKAYEGFLAFKDVVKKSQVTSAAG
1ppr_M2   PATVPSGDKIGVAAQQLSEASYPFLKEIDWLSDVYMKPLPGVSAQQSLKAIDKMIVMGAQADGNALKAAAEAHHKAIGSIDAT-GVTSAADYAAVNAALGRVIASVPKSTVMDVYNAMAGVTDTSIPLNMFSKVNPLDANAAAKAFYTFKDVVQAAQ------

FAST alignment      superposition in PDB format     colored superposition in PyMol

1ppr_M1   -------DEIGDAAKKLGDASYAFAKEVDWNNGIFLQAPGKLQPLEALKAIDKMIVMGAAADPKLLKAAAEAHHKAIGSISGPNGVTSRADWDNVNAALGRVIASVPENMVMDVYDSVSKITDPKVPAYMKSLVNGADAEKAYEGFLAFKDVVKKSQVTSAAG
1ppr_M2   PATVPSGDKIGVAAQQLSEASYPFLKEIDWLSDVYMKPLPGVSAQQSLKAIDKMIVMGAQADGNALKAAAEAHHKAIGSI-DATGVTSAADYAAVNAALGRVIASVPKSTVMDVYNAMAGVTDTSIPLNMFSKVNPLDANAAAKAFYTFKDVVQAAQ------