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 | d1lj8a4 | Mannitol 2-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 <-- 1.062 --> HitDALI alignment (Z-score: 5.2 Raw score:540.90) d1l7da1 1 agyravidgayefarafpmmmtaagtvpPARVLVFGVGVAGLQ-AIATAKRL-------G 52 ::::::::::::::: :::::::: : d1lj8a4 1 ---mklnkqnltqlapevklpaytladtRQGIAHIGVGGFHRAhQAYYTDALmntgeglD 57 d1l7da1 53 AVVMATDV---RAATKE----qvESLG------------------GKFITvKKQAEAVLK 87 :::::::: :::::: :::: ::::: ::::::::: d1lj8a4 58 WSICGVGLrseDRKARDdlagqdYLFTlyelgdtddtevrvigsiSDMLLaEDSAQALID 117 d1l7da1 88 ELVK--TDIAITTALipgKPAP---------------------------VLIT--EEMVT 116 :::: ::::::::: :::: :::: ::::: d1lj8a4 118 KLASpeIRIVSLTIT---EGGYciddsngefmahlpqiqhdlahpsspkTVFGfiCAALT 174 d1l7da1 117 KM----KPGSVIIDLAVEAggncPLSE-----------pgkivVKHGVKIVgHTNVP--- 158 :: ::::::::::::: :::: :::::::: ::::: d1lj8a4 175 QRraagIPAFTVMSCDNLPhngaVTRKallafaalhnaelhdwIKAHVSFP-NAMVDrit 233 d1l7da1 159 ---------------------------------------------------sr 160 d1lj8a4 234 pmtstahrlqlhdehgiddawpvvcepfvqwvledkfvngrpawekvgvqftd 286 FAST alignment (Normalized score: 3.86 Raw score:824.80) d1l7da1 1 AGYRAVIDGAYEFARAFPMMMTAAGTVPPA---------------------------RVL 33 ::: d1lj8a4 1 ------------------------------MKLNKQNLTQLAPEVKLPAYTLADTRQGIA 30 d1l7da1 34 VFGVGVAGL-QAIATAKRL--------GAVVMATDVRAATKEQVESLG------------ 72 ::::::::: :::::::: ::::::::::::::::::: d1lj8a4 31 HIGVGGFHRAHQAYYTDA-LMNTGEGLDWSICGVGLRSEDRKARDD--LAGQDYLFTLYE 87 d1l7da1 73 ---------------GKFITVKK----QAEAVLKEL--VKTDIAITTALIPGKPAPVLI- 110 :::: ::::::::: :::::::::: d1lj8a4 88 LGDTDDTEVRVIGSISDML----LAEDSAQALIDKLASPEIRIVSLTI-----------T 132 d1l7da1 111 ------------------------------------TEEMVTKM------KPGSVIIDLA 128 :::::: ::::::::: d1lj8a4 133 EGGYCIDDSNGEFMAHLPQIQHDLAHPSSPKTVFGFICAALT--QRRAAGIPAFTVMSC- 189 d1l7da1 129 VEAGGNCPLSEPGKIVV-----------------------------KHGVKIVGHTNVPS 159 ::::::::: d1lj8a4 190 -----------------DNLPHNGAVTRKALLAFAALHNAELHDWIKAHVSFPNA----- 227 d1l7da1 160 R----------------------------------------------------------- 160 d1lj8a4 228 -MVDRITPMTSTAHRLQLHDEHGIDDAWPVVCEPFVQWVLEDKFVNGRPAWEKVGVQFTD 286 TMalign alignment (TM-score: 0.43 Raw score:69.20) d1l7da1 1 ---------------------------------AGYRAVIDGAYEFARAFPMMM-TAAGT 26 :::::::: :: : ::::::: : :: d1lj8a4 1 MKLNKQNLTQLAPEVKLPAYTLADTRQGIAHIGVGGFHRAH-QA-Y-YTDALMNTG--EG 55 d1l7da1 27 VP-PARVLVFGVGVAGLQAIA--T-AKR---------------LG-AVVMATDVRAATKE 66 :: :::::::::::::::::: : ::: :: :::::::: d1lj8a4 56 LDWSICGVGLRSEDRKARDDLAGQDYLFTLYELGDTDDTEVRVIGSISDMLLAE------ 109 d1l7da1 67 QVESLGGKFITVKKQAEAVLKELV---K-TDIAITT--AL-------------IPGKPAP 107 :: : :::::::: : ::::::: : ::: d1lj8a4 110 ---------DS---A-QALIDKLASPEIRIVSLTITEG-GYCIDDSNGEFMAH----LPQ 151 d1l7da1 108 V-----------LITEEMV-TK---------MKPGSVIIDLAVEAGGNCPLSEPGK-IVV 145 : ::::::: :: ::: ::::: ::: ::: d1lj8a4 152 IQHDLAHPSSPKTVFGFICAALTQRRAAGIPAFT-VMSCD-------------NLPHNGA 197 d1l7da1 146 --K---------------------HGVKIV-GH---TNVPS------------------- 159 : :::::: : ::: d1lj8a4 198 VTRKALLAFAALHNAELHDWIKAHVSFPNAM-VDRI--TPMTSTAHRLQLHDEHGIDDAW 254 d1l7da1 160 ---R---------------------------- 160 : d1lj8a4 255 PVVCEPFVQWVLEDKFVNGRPAWEKVGVQFTD 286 HHsearch alignment (Probability: 0.01 E-value:0.71) d1l7da1 29 PARVLVFGVGVAGLQAIAT------AK--RLGAVVMATDVRAA---TKEQVESLG 72 ::::::::::::::::::: :: :::::::::::::: ::::::::: d1lj8a4 26 RQGIAHIGVGGFHRAHQAYYTDALMNTGEGLDWSICGVGLRSEDRKARDDLAGQD 80