Reference:
H. Cheng, BH. Kim, and N. Grishin (2008). Discrimination between distant homologs and structural analogs: lessons from manually constructed, reliable datasets.
J. Mol. Biol. 377(4): 1265-1278
BH. Kim, H. Cheng, and N. Grishin (2009). HorA web server to infer homology between proteins using sequence and structural similarity.
Nucleic Acids Res. 37(Web Server issue):W532-8
Comments and suggestions to: grishin@chop.swmed.edu
Query: T517_A.pdb A
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1l7da1 | Nicotinamide nucleotide transhydrogenase dI component | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | α/β |
| Hit | d2pgda2 | 6-phosphogluconate dehydrogenase | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | α/β |
Query <-- 1.100 --> IntermediateDALI alignment (Z-score: 5.1 Raw score:345.40) query 1 ---------------GMEN----------KKMNLLLfsgdydkALASLIIANAAREMEIE 35 :::: ::::::: ::::::::::::::::: d1l7da1 1 agyravidgayefarAFPMmmtaagtvppARVLVFG------vGVAGLQAIATAKRLGAV 54 query 36 VTIFCafwgLLLLrdpekasqedkslyeqafssltpreaeelplskmnlggigkkmllem 95 ::::: :::: d1l7da1 55 VMATD----VRAA----------------------------------------------- 63 query 96 mkeekapklsdllSGARKKEVKFYAXQLsveimgfkkeelfpevqimDVKEYLKNALESD 155 ::::::::::::::: ::::::::::::: d1l7da1 64 -----------tkEQVESLGGKFITVKK-------------------QAEAVLKELVKTD 93 query 156 LQLFI------------------------------------------------------- 160 ::::: d1l7da1 94 IAITTalipgkpapvliteemvtkmkpgsviidlaveaggncplsepgkivvkhgvkivg 153 query 161 ------- 161 d1l7da1 154 htnvpsr 160 FAST alignment (Normalized score: 3.90 Raw score:624.80) query 1 GME----------------------------NKKMNLLLFSGDYDK---ALASLIIANAA 29 :::::: ::::::::::: d1l7da1 1 ---AGYRAVIDGAYEFARAFPMMMTAAGTVPPARVLV---------FGVGVAGLQAIATA 48 query 30 REMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNLGGIGK 89 :::::::::: d1l7da1 49 KRLGAVVMAT-------------------------------------------------- 58 query 90 KMLLEMMKEEKAPKLSD-----LLSGARKKEVKFYAXQLSVEIMGFKKEELFPEVQIM-- 142 :::::::::::::: d1l7da1 59 -----------------DVRAATKEQVESLGGKFIT----------------------VK 79 query 143 -DVKEYLKNALESDLQLFI----------------------------------------- 160 :::::::::::::::: d1l7da1 80 KQAEAVLKELVKTDIAI--TTALIPGKPAPVLITEEMVTKMKPGSVIIDLAVEAGGNCPL 137 query 161 ----------------------- 161 d1l7da1 138 SEPGKIVVKHGVKIVGHTNVPSR 160 TMalign alignment (TM-score: 0.23 Raw score:37.44) query 1 ------------------------------GMENKKMNLLLFSGDYDKALASLIIANAAR 30 d1l7da1 1 AGYRAVIDGAYEFARAFPMMMTAAGTVPPA------------------------------ 30 query 31 EMEIEVTIFCAFWGLLLLRDPEK--AS--QEDKSLYEQAFSSLTPREAE----------- 75 :: ::: ::::: :: :::::: : :: :: ::: d1l7da1 31 -----------RV-LVF-GVGVAGLQAIATAKRLG-A--VV--MA-TDVRAATKEQVESL 71 query 76 ---ELPL-SK-----------------MNLGGIGKKMLLEMMKEEKAPKLSDLLSGARKK 114 :::: :: ::::::: d1l7da1 72 GGKFITVKKQAEAVLKELVKTDIAITT--------------------------ALIPGKP 105 query 115 EVKFYA---X----QLSVEIMGFKKEELFPE---V----Q----IMDVKEY--------- 147 :::::: : :::: : : :::: : : ::::::: d1l7da1 106 APVLITEEMVTKMKPGSV----I-I--DLAVEAGGNCPLSEPGKIVVKHGVKIVGHTNVP 158 query 148 --LKNALESDLQLFI 160 d1l7da1 159 SR------------- 160 HHsearch alignment (Probability: 0.09 E-value:0.01) query 21 ASLIIANAAREMEIEVTIF 39 ::::::::::::::::::: d1l7da1 40 AGLQAIATAKRLGAVVMAT 58
Intermediate <-- 1.966 --> HitDALI alignment (Z-score: 8.0 Raw score:604.80) d1l7da1 1 agyravidgayefarafpmmmtaagtvppaRVLVFGVGVAGLQAIATAKRLGAVVMATDV 60 :::::::::::::::::::::::::::::: d2pgda2 1 ---------------------------aqaDIALIGLAVMGQNLILNMNDHGFVVCAFNR 33 d1l7da1 61 RAATKEQVES-----LGGKFITvkkqaeAVLKELVKT---DIAITTALipgkPAPV--LI 110 :::::::::: ::::::: ::::::::: :::::::: :::: :: d2pgda2 34 TVSKVDDFLAneakgTKVLGAH------SLEEMVSKLkkpRRIILLVK---aGQAVdnFI 84 d1l7da1 111 TEeMVTKMKPGSVIIDLAVEAggncplsEPGKI--VVKHGVKIVGHtNVPS--------- 159 :: :::::::::::::::::: ::::: ::::::::::: :::: d2pgda2 85 EK-LVPLLDIGDIIIDGGNSE----yrdTMRRCrdLKDKGILFVGS-GVSGgedgarygp 138 d1l7da1 160 -------------------------------------r 160 d2pgda2 139 slmpggnkeawphikaifqgiaakvgtgepccdwvgdd 176 FAST alignment (Normalized score: 5.92 Raw score:992.90) d1l7da1 1 AGYRAVIDGAYEFARAFPMMMTAAGTVPPA---RVLVFGVGVAGLQAIATAKRLGAVVMA 57 ::::::::::::::::::::::::::: d2pgda2 1 ------------------------------AQADIALIGLAVMGQNLILNMNDHGFVVCA 30 d1l7da1 58 TDVRAATKEQVE-----SLGGKFITVKK--QAEAVLKELVKT----DIAITTALIPGKPA 106 :::::::::::: :::::: :::::::: :::::: d2pgda2 31 FNRTVSKVDDFLANEAKGTKVLG-----AHSLEEMVSK----LKKPRRIILL-------- 73 d1l7da1 107 PVLI----------TEEMVTKMKPGSVIIDLAVEAGGNCPLSEPGKI------------- 143 ::::::::::::::::: d2pgda2 74 ----VKAGQAVDNFIEKLVPLLDIGDIIIDG----------------GNSEYRDTMRRCR 113 d1l7da1 144 -VVKHGVKIVGHTNVPSR------------------------------------------ 160 ::::::::::: d2pgda2 114 DLKDKGILFVGS------GVSGGEDGARYGPSLMPGGNKEAWPHIKAIFQGIAAKVGTGE 167 d1l7da1 161 --------- 161 d2pgda2 168 PCCDWVGDD 176 TMalign alignment (TM-score: 0.55 Raw score:88.32) d1l7da1 1 AGYRAVIDGAYEFARAFPMMMTAAGTVPPARVLVFGVGVAGLQAIATAKRLGAVVMATD- 59 :::::::::::::::::::::::::::::::: d2pgda2 1 ---------------------------AQADIALIGLAVMGQNLILNMNDHGFVVCAFNR 33 d1l7da1 60 VRAATKEQV---ES-LGGKFITVKKQAEAVLKELVKT---DIAITTALIPGKPAP--VLI 110 ::::::::: :: ::::::: ::::::::: ::::::::: ::: ::: d2pgda2 34 TVSKVDDFLANEAKGTKVLGAH------SLEEMVSKLKKPRRIILLVKA---GQAVDNFI 84 d1l7da1 111 TEEMVTKMKPGSVIIDLAVEAG-GNCPLSEPGKIV--VKHGVKIVGHTNVP--------- 158 : :::::::::::::::::::: ::::::: :::::::::: ::: d2pgda2 85 E-KLVPLLDIGDIIIDGGNSEYR-----DTMRRCRDLKDKGILFVGS-GVSGGEDGARYG 137 d1l7da1 159 -S-R----------------------------------- 160 : : d2pgda2 138 PSLMPGGNKEAWPHIKAIFQGIAAKVGTGEPCCDWVGDD 176 HHsearch alignment (Probability: 0.99 E-value:0.00) d1l7da1 29 PARVLVFGVGVAGLQAIATAKRLGAVVMATDVRAATKEQVESLGGKFI--TVKKQAEAVL 86 :::::::::::::::::::::::::::::::::::::::::::::::: :::::::::: d2pgda2 2 QADIALIGLAVMGQNLILNMNDHGFVVCAFNRTVSKVDDFLANEAKGTKVLGAHSLEEMV 61 d1l7da1 87 KELVKTDIAITTALIPGKPAPVLITEEMVTKMKPGSVIIDLAV 129 :::::::::::: ::::::::::::::::::::::::::::: d2pgda2 62 SKLKKPRRIILL--VKAGQAVDNFIEKLVPLLDIGDIIIDGGN 102