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 | d1r6da_ | dTDP-glucose 4,6-dehydratase (RmlB) | 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 <-- 1.518 --> HitDALI alignment (Z-score: 5.7 Raw score:600.00) d1l7da1 1 agyravidgayefarafpmmmtaagtvppARVLVFGV-GVAGLQAIATAKRL------gA 53 :::::::: :::::::::::::: : d1r6da_ 1 -----------------------------MRLLVTGGaGFIGSHFVRQLLAGaypdvpaD 31 d1l7da1 54 VVMATDVR--aaTKEQVESLG----GKFIT-vkkQAEAVLKELVKTDIAITT-ALIPG-- 103 :::::::: ::::::::: ::::: :::::::::::::::::: ::::: d1r6da_ 32 EVIVLDSLtyagNRANLAPVDadprLRFVHgdirDAGLLARELRGVDAIVHFaAESHVdr 91 d1l7da1 104 --------KPAP--VLIT-EEMVTKMKpgSVIIDLA------------------------ 128 :::: :::: :::::::: ::::::: d1r6da_ 92 siagasvfTETNvqGTQTlLQCAVDAG-vGRVVHVStnqvygsidsgswtessplepnsp 150 d1l7da1 129 ---vEAGGncPLSEpgkiVVKHGVKIVGHTN----------------------------- 156 :::: :::: ::::::::::::: d1r6da_ 151 yaasKAGS-dLVAR--ayHRTYGLDVRITRCcnnygpyqhpekliplfvtnlldggtlpl 207 d1l7da1 157 ---------------------------------VPSR----------------------- 160 :::: d1r6da_ 208 ygdganvrewvhtddhcrgialvlaggrageiyHIGGgleltnreltgilldslgadwss 267 d1l7da1 161 ------------------------------------------------------- 161 d1r6da_ 268 vrkvadrkghdlrysldggkierelgyrpqvsfadglartvrwyrenrgwweplk 322 FAST alignment (Normalized score: 2.22 Raw score:504.70) d1l7da1 1 AGYR-------------------------------------------------------- 4 d1r6da_ 1 ----MRLLVTGGAGFIGSHFVRQLLAGAYPDVPADEVIVLDSLTYAGNRANLAPVDADPR 56 d1l7da1 5 ---------AVIDGAYEFARAFPMMMTAAGTVPP----ARVLVFG--------------- 36 :::::::: ::::::: d1r6da_ 57 LRFVHGDIRDAGLLARE-----------------LRGVDAIVHFAAESHVDRSIAGASVF 99 d1l7da1 37 ---VGVAGLQAIATAKRLG-AVVMATDV-----------------------------RAA 63 :::::::::::::::: :::::: ::: d1r6da_ 100 TETNVQGTQTLLQCAVDAGVGRVVHV--STNQVYGSIDSGSWTESSPLEPNSPYAASKAG 157 d1l7da1 64 TKEQVES------LGGKFITV--------------------------------------- 78 ::::::: ::::::: d1r6da_ 158 SDLVARAYHRTYGLDVRITR-CCNNYGPYQHPEKLIPLFVTNLLDGGTLPLYGDGANVRE 216 d1l7da1 79 ----KKQAEAVLKELVKTDIAITTALIPGKPAPVLITEEMVTKMKPGSVIIDLAVEAGGN 134 ::::::::::::: d1r6da_ 217 WVHTDDHCRGIALVLAG------------------------------------------- 233 d1l7da1 135 CPLSEPGKIVVKHGVKIVGHTNVPSR---------------------------------- 160 d1r6da_ 234 --------------------------GRAGEIYHIGGGLELTNRELTGILLDSLGADWSS 267 d1l7da1 161 ------------------------------------------------------- 161 d1r6da_ 268 VRKVADRKGHDLRYSLDGGKIERELGYRPQVSFADGLARTVRWYRENRGWWEPLK 322 TMalign alignment (TM-score: 0.50 Raw score:80.72) d1l7da1 1 --------AGYRAVIDG--A---YEFARAFPMMMTAAGTVPPARVLVFGVGVAGLQAIAT 47 ::::::::: : ::::::: ::::::: :::::::::::: d1r6da_ 1 MRLLVTGGAGFIGSHFVRQLLAGAYPDVPA----------DEVIVLD-SLTYAGNRANLA 49 d1l7da1 48 AKRLG--AVVMATDVRAATKEQVESLGGKFITVKKQAEAVLKELV-K-TDIAITTAL--- 100 ::::: ::::::: : ::::::::::: : ::::::::: d1r6da_ 50 PVDADPRLRFVHGD----------------I---RDAGLLARELRGVDAIVHFAAESHVD 90 d1l7da1 101 IPG--KP-A-P---VLIT--EEMVT-KMKPGSVIIDL----------------------A 128 ::: :: : : :::: ::::: ::::::::::: : d1r6da_ 91 RSIAGASVFTETNVQGTQTLLQCAVDAGVGRVVHVSTNQVYGSIDSGSWTESSPLEPNSP 150 d1l7da1 129 VEAGGNCPLSEPGKIV-VK----HGVKIVGHTNVP------------------------- 158 ::::::::::: :: :: :::::::::::: d1r6da_ 151 YAASKAGSDLV---ARAYHRTYGLDVRITRCCNNYGPYQHPEKLIPLFVTNLLDGGTLPL 207 d1l7da1 159 ---------SR------------------------------------------------- 160 :: d1r6da_ 208 YGDGANVREWVHTDDHCRGIALVLAGGRAGEIYHIGGGLELTNRELTGILLDSLGADWSS 267 d1l7da1 161 ------------------------------------------------------- 161 d1r6da_ 268 VRKVADRKGHDLRYSLDGGKIERELGYRPQVSFADGLARTVRWYRENRGWWEPLK 322 HHsearch alignment (Probability: 0.94 E-value:0.00) d1l7da1 31 RVLVFGV-GVAGLQAIATAKRLGAVVMATD------VRA--ATKEQVESL----GGKFI- 76 ::::::: :::::::::::::::::::::: ::: ::::::::: ::::: d1r6da_ 2 RLLVTGGAGFIGSHFVRQLLAGAYPDVPADEVIVLDSLTYAGNRANLAPVDADPRLRFVH 61 d1l7da1 77 TVKKQAEAVLKELVKTDIAITTALIPGK----PAPVL-------ITEEMVTKMKPGS--V 123 :::::::::::::::::::::::::::: ::::: ::::::::::::: : d1r6da_ 62 GDIRDAGLLARELRGVDAIVHFAAESHVDRSIAGASVFTETNVQGTQTLLQCAVDAGVGR 121 d1l7da1 124 IIDLAV-------EAGGNCPLSEPGKI 143 :::::: :::::::::::::: d1r6da_ 122 VVHVSTNQVYGSIDSGSWTESSPLEPN 148