d1pgja1

DomainSCOPidRangeSCOP ClassSCOP FoldSCOP SuperfamilySCOP familyProtein
1pgj_A1d1pgja1A179-A324All alpha proteins6-phosphogluconate dehydrogenase C-terminal domain-like6-phosphogluconate dehydrogenase C-terminal domain-likeHydroxyisobutyrate and 6-phosphogluconate dehydrogenase domain6-phosphogluconate dehydrogenase (6PGD)
1pgj_A2d1pgja1A325-A478All alpha proteins6-phosphogluconate dehydrogenase C-terminal domain-like6-phosphogluconate dehydrogenase C-terminal domain-likeHydroxyisobutyrate and 6-phosphogluconate dehydrogenase domain6-phosphogluconate dehydrogenase (6PGD)

Alignment-based scores

AlignerAligned LengthSequence IdentityRMSDGDT-TSCOMPASS
manual1010.099013.3667549.50495-10.13937
dali1000.180002.0848072.25000-7.33750
tm1170.153853.4177162.39316-11.09091
fast970.164953.5615258.50515-9.32777

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

1pgj_A1   GAGSCVKMYHNSGEYAILQIWGEVFDILRAMGLnndEVAAVLEDWKSKNFLKSYMLDISIAAARAKdkdgsyltehvmdrigsKGTGLWSAQEALE-IGVPAPSLNMAVVSRQFTMYKTERQanasnapgitqspgytlknkspsgp--------
1pgj_A2   EIKQLYDSVCIAIISCYAQMFQCLREMDKVHNFg-lNLPATIATFRAGCILQGYLLKPMTEAFEKNpnisnlmcafqteiragLQNYRDMVALITSkLEVSIPVLSASLNYVTAMFTPTLKYgqlvslqrdvfgrhgyervdkdgresfqwpelq

DALI alignment      superposition in PDB format     colored superposition in PyMol

1pgj_A1   gagsCVKMYHNSGEYAILQIWGEVFDILRAMG---lnndEVAAVLEDWKSKNFLKSYMLDISIAAARAKdkdgsYLTE----hvmdrIGSK-GTGLWSAQEALEIG-VPAPSLNMAVVSRQFTMYKT--------erqanasnapgitqspgytlknkspsgp
1pgj_A2   ----EIKQLYDSVCIAIISCYAQMFQCLREMDkvhnfglNLPATIATFRAGCILQGYLLKPMTEAFEKN-----PNISnlmcafqteIRAGlQNYRDMVALITSKLeVSIPVLSASLNYVTAMFTPTlkygqlvslqrdvfgrhgyervdkdgresfqwpelq

TM alignment      superposition in PDB format     colored superposition in PyMol

1pgj_A1   GAGSCVKMYHNSGEYAILQIWGEVFDILRAMGL---NNDEVAAVLEDWKSKNFLKSYMLDISIAAARAKDKDGSYLTEHVMD--RI--GS--KGTGLWSAQEALE-IGVPAPSLNMAVVSRQFTMYKTER-QAN--A----------SNA----P----------GITQSPGYTLKNKSPSGP
1pgj_A2   ----EIKQLYDSVCIAIISCYAQMFQCLREMDKVHNFGLNLPATIATFRAGCILQGYLLKPMTEAFEKN-----PNISNLMCAF-QTEIRAGLQNYRDMVALITSKLEVSIPVLSASLNYVTAMFTPTLKY-GQLVSLQRDVFGRHGYERVDKDGRESFQWPELQ------------------

FAST alignment      superposition in PDB format     colored superposition in PyMol

1pgj_A1   GAGSCVKMYHNSGEYAILQIWGEVFDILRAMGLNNDE---------VAAVLEDWKSKNFLKSYMLDISIAAARAKDKDGSYLTEHVMDRIGSK--------------------GTGLWSAQEALEI-GVPAPSLNMAVVSRQFTMY-----KTERQANASNAPGITQSPGYTLKNKSPSGP----------------------
1pgj_A2   ----EIKQLYDSVCIAIISCYAQMFQCLREM------DKVHNFGLNLPATIATFRAGCILQGYLLKPMTEAFE--------------------KNPNISNLMCAFQTEIRAGLQNYRDMVALITSKLEVSIPVLSASLNYVTAMFTPTLKYGQLVSLQRDVF-------------------GRHGYERVDKDGRESFQWPELQ