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 | d1ldna1 | Lactate 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 <-- 2.231 --> HitDALI alignment (Z-score: 8.7 Raw score:625.30) d1l7da1 1 agyravidgayefarafpmmmtaagtvPPARVLVFGVGVAGLQAIATAK-RLGA-VVMAT 58 :::::::::::::::::::::: :::: ::::: d1ldna1 1 -----------------------mknnGGARVVVIGAGFVGASYVFALMnQGIAdEIVLI 37 d1l7da1 59 DVRAAT-KEQVESLG-----------GKFItvkkqaeaVLKELVKTDIAITTALI----- 101 :::::: :::::::: :::: ::::::::::::::::: d1ldna1 38 DANESKaIGDAMDFNhgkvfapkpvdIWHG--------DYDDCRDADLVVICAGAnqkpg 89 d1l7da1 102 -----PGKPAP----VLITeeMVTKMKpgSVIIDLA--VEAGGncPLSEpgkIVVKhgvK 150 :::::: :::: :::::: ::::::: ::::: :::: :::: : d1ldna1 90 etrldLVDKNIaifrSIVE-sVMASGF-qGLFLVATnpVDILT-yATWKfsgLPHE---R 143 d1l7da1 151 IVGHTnvpsr 160 ::::: d1ldna1 144 VIGSG----- 148 FAST alignment (Normalized score: 5.29 Raw score:813.40) d1l7da1 1 AGYRAVIDGAYEFARAFPMMMTAAGTV----PPARVLVFGVGVAGLQAIATAKRLG--AV 54 ::::::::::::::::::::::::: :: d1ldna1 1 ---------------------------MKNNGGARVVVIGAGFVGASYVFALMNQGIADE 33 d1l7da1 55 VMATDV----RAATKEQVESLGGKFITVKKQAEA--------------VLKELVKTDIAI 96 :::::: :::::::::: :::::::::::: d1ldna1 34 IVLIDANESKAIGDAMDFNH--------------GKVFAPKPVDIWHGDYDDCRDADLVV 79 d1l7da1 97 TTALIPGKPAPVLITEEMVTKMK------------------------------PGSVIID 126 ::::: ::::::: d1ldna1 80 ICAGA------------------NQKPGETRLDLVDKNIAIFRSIVESVMASGFQGLFLV 121 d1l7da1 127 LAVEAGGNCPLSEPGKIVVKHGV--------------------KIVGHTNVPSR- 160 : ::::: d1ldna1 122 A----------------------TNPVDILTYATWKFSGLPHERVIGS------G 148 TMalign alignment (TM-score: 0.58 Raw score:92.63) d1l7da1 1 AGYRAVIDGAYEFARAFPM---MMTAAGTVPPARVLVFGVGVAGLQAIATAK--RLGAVV 55 : :::::::::::::::::::::: :::::: d1ldna1 1 ------------------MKNN--------GGARVVVIGAGFVGASYVFALMNQGIADEI 34 d1l7da1 56 MATDVRAAT-KEQVESLG-----------GKFITVKKQAEAVLKELVKTDIAITTALIP- 102 ::::::::: :::::::: :::: :: :::::::::::::::: d1ldna1 35 VLIDANESKAIGDAMDFNHGKVFAPKPVDIWHG-------DY-DDCRDADLVVICAGANQ 86 d1l7da1 103 -------GK--PA--PV--LITEEMVTKMKPGSVIIDLAVEA-GGNCPLSE-PGKIVVKH 147 :: :: :: ::::::::::: :::::::::: :::::::: :::: d1ldna1 87 KPGETRLDLVDKNIAIFRSIVESVMASGFQ--GLFLVATNPVDILTYATWKF----SGLP 140 d1l7da1 148 GVKIVGHTNVPSR 160 :::::::: d1ldna1 141 HERVIGSG----- 148 HHsearch alignment (Probability: 0.98 E-value:0.00) d1l7da1 27 VPPARVLVFGVGVAGLQAIATAKRLGA--VVMATDVRAATKEQ-VESLGG---KFITVKK 80 ::::::::::::::::::::::::::: :::::::::::::: :::::: ::::::: d1ldna1 4 NGGARVVVIGAGFVGASYVFALMNQGIADEIVLIDANESKAIGDAMDFNHGKVFAPKPVD 63 d1l7da1 81 QAEAVLKELVKTDIAITTALIPGKPAP---VL------ITEEMVT---KMKPGSVIIDLA 128 ::::::::::::::::::::::::::: :: ::::::: :::::::::::: d1ldna1 64 IWHGDYDDCRDADLVVICAGANQKPGETRLDLVDKNIAIFRSIVESVMASGFQGLFLVAT 123