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 | d1ek6a_ | Uridine diphosphogalactose-4-epimerase (UDP-galactose 4-epimerase) | 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 <-- 1.516 --> HitDALI alignment (Z-score: 6.2 Raw score:595.80) d1l7da1 1 agyravidgayefaraFPmmmtaagtvppARVLVFGV-GVAGLQAIATAKRLGAVVMATD 59 :: :::::::: :::::::::::::::::::::: d1ek6a_ 1 ----------------MA-----------EKVLVTGGaGYIGSHTVLELLEAGYLPVVID 33 d1l7da1 60 VR-------aATKEQVESL------GGKFIT----vkKQAEAVLKElvKTDIAITTALIP 102 :: ::::::::: :::::: ::::::::: :::::::::::: d1ek6a_ 34 NFhnafrgggSLPESLRRVqeltgrSVEFEEmdildqGALQRLFKK-ySFMAVIHFAGLK 92 d1l7da1 103 G-----------KPAP--VLIT-EEMVTKMKpgSVIIDLA-------------------- 128 : :::: :::: :::::::: ::::::: d1ek6a_ 93 AvgesvqkpldyYRVNltGTIQlLEIMKAHG-vKNLVFSSsatvygnpqylpldeahptg 151 d1l7da1 129 --------vEAGGncPLSEpgkivvKHGVKIVGHTN------------------------ 156 :::: :::: ::::::::::: d1ek6a_ 152 gctnpygksKFFI-eEMIR-dlcqaDKTWNAVLLRYfnptgahasgcigedpqgipnnlm 209 d1l7da1 157 ----------------------------------------------------------VP 158 :: d1ek6a_ 210 pyvsqvaigrrealnvfgndydtedgtgvrdyihvvdlakghiaalrklkeqcgcriyNL 269 d1l7da1 159 SR---------------------------------------------------------- 160 :: d1ek6a_ 270 GTgtgysvlqmvqamekasgkkipykvvarregdvaacyanpslaqeelgwtaalgldrm 329 d1l7da1 161 ----------------- 161 d1ek6a_ 330 cedlwrwqkqnpsgfgt 346 FAST alignment (Normalized score: 4.07 Raw score:958.00) d1l7da1 1 AGYRAVIDGAYEFARAFPMMMTAAGTVPPARVLVF-GVGVAGLQAIATAKRLGAVVMATD 59 :::::::: :::::::::::::::::::::::: d1ek6a_ 1 ---------------------------MAEKVLVTGGAGYIGSHTVLELLEAGYLPVVID 33 d1l7da1 60 VRAAT------------KEQVES------LGGKFITVKK------QAEAVLKELV--KTD 93 :::::: ::::: :::::::::: ::: d1ek6a_ 34 -----NFHNAFRGGGSLPESLRRVQELTGRSVEF-----EEMDILDQGALQRLFKKYSFM 83 d1l7da1 94 IAITTALIPGKPAPVLI--------------------TEEMVTKMKPG------SVIIDL 127 :::::::: ::::::: ::::: d1ek6a_ 84 AVIHFAGL---------KAVGESVQKPLDYYRVNLTGTIQLLEI----MKAHGVKNLVF- 129 d1l7da1 128 AVEAGGNCPLSEPGKIVVK----------------------------------------- 146 d1ek6a_ 130 -------------------SSSATVYGNPQYLPLDEAHPTGGCTNPYGKSKFFIEEMIRD 170 d1l7da1 147 -----HGVKIVGHTNVPSR----------------------------------------- 160 :::::::: d1ek6a_ 171 LCQADKTWNAVLL------RYFNPTGAHASGCIGEDPQGIPNNLMPYVSQVAIGRREALN 224 d1l7da1 161 ------------------------------------------------------------ 161 d1ek6a_ 225 VFGNDYDTEDGTGVRDYIHVVDLAKGHIAALRKLKEQCGCRIYNLGTGTGYSVLQMVQAM 284 d1l7da1 161 ------------------------------------------------------------ 161 d1ek6a_ 285 EKASGKKIPYKVVARREGDVAACYANPSLAQEELGWTAALGLDRMCEDLWRWQKQNPSGF 344 d1l7da1 161 -- 161 d1ek6a_ 345 GT 346 TMalign alignment (TM-score: 0.62 Raw score:98.46) d1l7da1 1 AGYRAVIDGAYEFARAFPMMMTAAGTVPPARVLVFG-VGVAGLQAIATAKRLGAVVMATD 59 : : ::::::: ::::::::::::::::::::::: d1ek6a_ 1 ------------------M--------A-EKVLVTGGAGYIGSHTVLELLEAGYLPVVID 33 d1l7da1 60 VR---AAT---KE-QVES-L-----GGKFITVK-KQAEAVLKELV--KTDIAITT-ALIP 102 :: ::: :: :::: : :::::::: ::::::::::: :::::::: :::: d1ek6a_ 34 NFHNAFRGGGSLPESLRRVQELTGRSVEFEEMDILDQGALQRLFKKYSFMAVIHFAGLKA 93 d1l7da1 103 G--K------P--APV-LIT--EEMVTKMKPGSVIIDLAV--E----------------- 130 : : : ::: ::: ::::::::: :::::::: : d1ek6a_ 94 VGESVQKPLDYYRVNLTGTIQLLEIMKAHGV-KNLVFSSSATVYGNPQYLPLDEAHPTGG 152 d1l7da1 131 -----A-GGNCP--LSEPGKIVV-KHGVKIVGHTN------------------------- 156 : ::::: ::: :::: ::::::::::: d1ek6a_ 153 CTNPYGKSKFFIEEMIR--DLCQADKTWNAVLLRYFNPTGAHASGCIGEDPQGIPNNLMP 210 d1l7da1 157 ---------------------------------------------------------VPS 159 ::: d1ek6a_ 211 YVSQVAIGRREALNVFGNDYDTEDGTGVRDYIHVVDLAKGHIAALRKLKEQCGCRIYNLG 270 d1l7da1 160 --------------------------------------------------R--------- 160 : d1ek6a_ 271 TGTGYSVLQMVQAMEKASGKKIPYKVVARREGDVAACYANPSLAQEELGWTAALGLDRMC 330 d1l7da1 161 ---------------- 161 d1ek6a_ 331 EDLWRWQKQNPSGFGT 346 HHsearch alignment (Probability: 0.96 E-value:0.00) d1l7da1 30 ARVLVFG-VGVAGLQAIATAKRLGAVVMATDVR----------AATKEQVESLGG---KF 75 ::::::: ::::::::::::::::::::::::: :::::::::::: :: d1ek6a_ 3 EKVLVTGGAGYIGSHTVLELLEAGYLPVVIDNFHNAFRGGGSLPESLRRVQELTGRSVEF 62 d1l7da1 76 ITV-KKQAEAVLKELVKT--DIAITTALIPGK----PAP-------VLITEEMVTKMKPG 121 ::: :::::::::::::: :::::::::::: ::: :::::::::::::: d1ek6a_ 63 EEMDILDQGALQRLFKKYSFMAVIHFAGLKAVGESVQKPLDYYRVNLTGTIQLLEIMKAH 122 d1l7da1 122 SV--IIDLAVE-------AGGNCPLSEPGK 142 :: ::::::: :::::::::::: d1ek6a_ 123 GVKNLVFSSSATVYGNPQYLPLDEAHPTGG 152