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 | d1ff9a1 | Saccharopine reductase | 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 <-- 1.357 --> HitDALI alignment (Z-score: 7.9 Raw score:587.80) d1l7da1 1 agyravidgayefarafpmmmtaagtvPPARVLVFGVGVAGLQAIATAKRLGAVVMATDV 60 ::::::::::::::::::::::::::::::::: d1ff9a1 1 ---------------------------ATKSVLMLGSGFVTRPTLDVLTDSGIKVTVACR 33 d1l7da1 61 RAAT-KEQVESLG-GKFIT-vkKQAEAVLKELVKTDIAITTAlipgkpaPVLIT-EEMVT 116 :::: :::::::: ::::: :::::::::::::::::::: ::::: ::::: d1ff9a1 34 TLESaKKLSAGVQhSTPISldvNDDAALDAEVAKHDLVISLI-------PFHATvIKSAI 86 d1l7da1 117 KMKpgSVIIDLaVEAGgncplsepgkivVKHGVKIVGHT--------------------- 155 ::: :::::: :::: ::::::::::: d1ff9a1 87 RQK--KHVVTT-SYVS--pammeldqaaKDAGITVMNEIgysamaklvgvpcavavkfvl 141 d1l7da1 156 -------------------nVPSR--------------- 160 :::: d1ff9a1 142 dgtisdrgvlapmnskindpLMKElkekygieckekvva 180 FAST alignment (Normalized score: 6.15 Raw score:1043.00) d1l7da1 1 AGYRAVIDGAYEFARAFPMMMTAAGTVPPARVLVFGVGVAGLQAIATAKRLGAVVMATDV 60 ::::::::::::::::::::::::::::::::: d1ff9a1 1 ---------------------------ATKSVLMLGSGFVTRPTLDVLTDSGIKVTVACR 33 d1l7da1 61 RAAT-KEQVESL-GGKFITVKK------QAEAVLKELVKTDIAITTALIPGKPAPVLI-- 110 :::: ::::::: :::: :::::::::::::::::: d1ff9a1 34 TLESAKKLSAGVQHSTP-----ISLDVNDDAALDAEVAKHDLVISL------------IP 76 d1l7da1 111 ----TEEMVTKMKPGSVIIDLAVEAGGNCPLSEPGKIVVK----------------HGVK 150 ::::::: :::::::: :::: d1ff9a1 77 FHATVIKSAIR--QKKHVVTT-------------------SYVSPAMMELDQAAKDAGIT 115 d1l7da1 151 IVGHTNVPSR-------------------------------------------------- 160 :: d1ff9a1 116 VM--------NEIGYSAMAKLVGVPCAVAVKFVLDGTISDRGVLAPMNSKINDPLMKELK 167 d1l7da1 161 ------------- 161 d1ff9a1 168 EKYGIECKEKVVA 180 TMalign alignment (TM-score: 0.57 Raw score:91.42) d1l7da1 1 AGYRAVIDGAYEFARAFPMMMTAAGTVPPARVLVFGVGVAGLQAIATAKRLGAVVMATDV 60 : :::::::::::::::::::::::::::::::: d1ff9a1 1 --------------------------A-TKSVLMLGSGFVTRPTLDVLTDSGIKVTVACR 33 d1l7da1 61 RAATKEQ-VESLG-GKFITVKKQA-EAVLKELVKTDIAITTALIPGKPAPV-LITEEMVT 116 ::::::: ::::: :::::::::: ::::::::::::::::: ::: :::: ::: d1ff9a1 34 TLESAKKLSAGVQHSTPISLDVNDDAALDAEVAKHDLVISLI------PFHATVIK-SAI 86 d1l7da1 117 KMKPGSVIIDLAVEAGGNCPLSE-PGK-IVVK-HGVKIVGHTNV------P---S----- 159 ::: ::::::::: :: :::: : ::: ::::::::: : : : d1ff9a1 87 RQK--KHVVTTSYV-SP--AMMEL--DQ-AAKDAGITVMNEI-GYSAMAKLVGVPCAVAV 137 d1l7da1 160 -------------------------R----------------- 160 : d1ff9a1 138 KFVLDGTISDRGVLAPMNSKINDPLMKELKEKYGIECKEKVVA 180 HHsearch alignment (Probability: 0.99 E-value:0.00) d1l7da1 29 PARVLVFGVGVAGLQAIATAKRLGAVVMATDVRAATKEQVESLGGKF---ITVKKQAEAV 85 ::::::::::::::::::::::::::::::::::::::::::::::: :::::::::: d1ff9a1 2 TKSVLMLGSGFVTRPTLDVLTDSGIKVTVACRTLESAKKLSAGVQHSTPISLDVNDDAAL 61 d1l7da1 86 LKELVKTDIAITTA 99 :::::::::::::: d1ff9a1 62 DAEVAKHDLVISLI 75