d1kzqa1

DomainSCOPidRangeSCOP ClassSCOP FoldSCOP SuperfamilySCOP familyProtein
1kzq_A1d1kzqa1A3-A130All beta proteinsCupredoxin-likeMajor surface antigen p30, SAG1Major surface antigen p30, SAG1Major surface antigen p30, SAG1
1kzq_A2d1kzqa2A137-A255All beta proteinsCupredoxin-likeMajor surface antigen p30, SAG1Major surface antigen p30, SAG1Major surface antigen p30, SAG1

Alignment-based scores

AlignerAligned LengthSequence IdentityRMSDGDT-TSCOMPASS
manual1040.269231.6416481.009627.59882
dali1120.267861.8399080.803577.34003
tm1130.256641.7790580.309737.33800
fast1000.280001.5185782.750007.96844

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

1kzq_A1   plvaNQVVTCPD-KKSTA-AVILTPT-ENHFTLKCPKTALTEPPTLayspnRQICPagttssctsKAVTLSSLIPEAEDSWWTGDSASldTAGIKLTVPIEKFPVTTQTFVVGCIKgd-daQSCMVTVTVQA
1kzq_A2   ----NNVARCSYgADSTLgPVKLSAEgPTTMTLVCGKDGVKVPQDN-----NQYCSgtt--ltgcNEKSFKDILPKLTENPWQGNASS--DKGATLTIKKEAFPAESKSVIIGCTGgspekHHCTVKLEFAG

DALI alignment      superposition in PDB format     colored superposition in PyMol

1kzq_A1   plvaNQVVTCPD-KKSTAA-VILTP-TENHFTLKCPKTALTEPPTLayspnRQICPAGTTSSCtsKAVTLSSLIPEAEDSWWTGDsasLDTAGIKLTVPIEKFPVTTQTFVVGCIKG-ddAQSCMVTVTVQA
1kzq_A2   ----NNVARCSYgADSTLGpVKLSAeGPTTMTLVCGKDGVKVPQDN-----NQYCSGTTLTGC--NEKSFKDILPKLTENPWQGN--aSSDKGATLTIKKEAFPAESKSVIIGCTGGspeKHHCTVKLEFAG

TM alignment      superposition in PDB format     colored superposition in PyMol

1kzq_A1   PLVANQVVTCPD-KKSTAA-VILT-PTENHFTLKCPKTALTEPPTLAYSPNRQICPAGTTSSCTSKAVTLSSLIPEAEDSWWTGDSASLDTAGIKLTVPIEKFPVTTQTFVVGCIK---GDDAQSCMVTVTVQA
1kzq_A2   ----NNVARCSYGADSTLGPVKLSAEGPTTMTLVCGKDGVKVPQDN-----NQYCSGTTLTGC--NEKSFKDILPKLTENPWQGNA--SSDKGATLTIKKEAFPAESKSVIIGCTGGSPEK--HHCTVKLEFAG

FAST alignment      superposition in PDB format     colored superposition in PyMol

1kzq_A1   PLVANQVVTCP-DKKSTA-AVILTPT-ENHFTLKCPKTALTEPPTLAYSPNR--QICPAGTTSSCTSK-----AVTLSSLIPEAEDS--WWTGDSASL--DTAGIKLTVPIEKFPVTTQTFVVGCIKGDDA-----QSCMVTVTVQA
1kzq_A2   ----NNVARCSYGADSTLGPVKLSAEGPTTMTLVCGKDGVKVPQD-------NNQYCSGTT-------LTGCNEKSFKDILPKLT--ENPWQGN----ASSDKGATLTIKKEAFPAESKSVIIGCTG----GSPEKHHCTVKLEFAG