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 | d1gy8a_ | 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 <-- 0.868 --> HitDALI alignment (Z-score: 5.8 Raw score:633.40) d1l7da1 1 agyravidgayefaraFPmmmtaagtvppARVLVFG-VGVAGLQAIATAKR-LGAVVMAT 58 :: ::::::: :::::::::::::: :::::::: d1gy8a_ 1 ----------------SH-----------MRVLVCGgAGYIGSHFVRALLRdTNHSVVIV 33 d1l7da1 59 DVR----AATKEQVES-------------------lGGKFIT----vkKQAEAVLKELVK 91 ::: ::::::::: :::::: :::::::::::: d1gy8a_ 34 DSLvgthGKSDHVETRenvarklqqsdgpkppwadrYAALEVgdvrneDFLNGVFTRHGP 93 d1l7da1 92 TDIAITTALIPG-----------KPAP--VLIT-EEMVTKMKpgSVIIDLA--------- 128 :::::::::::: :::: :::: :::::::: ::::::: d1gy8a_ 94 IDAVVHMCAFLAvgesvrdplkyYDNNvvGILRlLQAMLLHK-cDKIIFSSsaaifgnpt 152 d1l7da1 129 --------------------vEAGGncPLSEpgkiVVKHGVKIVGHT------------- 155 :::: :::: :::::::::::: d1gy8a_ 153 mnaepidinakkspespygesKLIA-eRMIR--dcAEAYGIKGICLRyfnacgahedgdi 209 d1l7da1 156 ------------------------------------------------------------ 156 d1gy8a_ 210 gehyqgsthlipiilgrvmsdiapddkrmpifgtdyptpdgtcvrdyvhvcdlasahila 269 d1l7da1 156 ------------------NVPS-------------------------------------- 159 :::: d1gy8a_ 270 ldyveklgpndkskyfsvFNLGtsrgysvrevievarkttghpipvrecgrregdpaylv 329 d1l7da1 160 -------------------------------------r 160 d1gy8a_ 330 aasdkarevlgwkpkydtleaimetswkfqrthpngya 367 FAST alignment (Normalized score: 1.89 Raw score:458.90) d1l7da1 1 AGYR-------------------------------------------------------- 4 d1gy8a_ 1 ----SHMRVLVCGGAGYIGSHFVRALLRDTNHSVVIVDSLVGTHGKSDHVETRENVARKL 56 d1l7da1 5 -----------------------AVIDGAYEFARAFPMMMTAAGTVPP-------ARVLV 34 :::::::: ::::: d1gy8a_ 57 QQSDGPKPPWADRYAALEVGDVRNEDFLNGV-----------------FTRHGPIDAVVH 99 d1l7da1 35 FGV--------------------GVAGLQAIATAKRLG-AVVMATDV------------- 60 : ::::::::::::::: :::::: d1gy8a_ 100 M--CAFLAVGESVRDPLKYYDNNVVGILRLLQAMLLHKCDKIIFS--SSAAIFGNPTMNA 155 d1l7da1 61 ------------------RAATKEQVES------LGGKFITV------------------ 78 :::::::::: ::::::: d1gy8a_ 156 EPIDINAKKSPESPYGESKLIAERMIRDCAEAYGIKGICLR-YFNACGAHEDGDIGEHYQ 214 d1l7da1 79 ---------------------------------------------KKQAEAVLKELVKTD 93 ::::::::::::: d1gy8a_ 215 GSTHLIPIILGRVMSDIAPDDKRMPIFGTDYPTPDGTCVRDYVHVCDLASAHILALDY-- 272 d1l7da1 94 IAITTALIPGKPAPVLITEEMVTKMKPGSVIIDLAVEAGGNCPLSEPGKIVVKHGVKIVG 153 d1gy8a_ 273 ------------------------------------------------------------ 273 d1l7da1 154 HTNVPSR----------------------------------------------------- 160 d1gy8a_ 273 -------VEKLGPNDKSKYFSVFNLGTSRGYSVREVIEVARKTTGHPIPVRECGRREGDP 325 d1l7da1 161 ------------------------------------------ 161 d1gy8a_ 326 AYLVAASDKAREVLGWKPKYDTLEAIMETSWKFQRTHPNGYA 367 TMalign alignment (TM-score: 0.63 Raw score:100.48) d1l7da1 1 AGYRAVIDGAYEFARAFPMMMTAAGTVPPARVLVFG-VGVAGLQAIATAK-RLGAVVMAT 58 : :::::::: ::::::::::::: ::::::::: d1gy8a_ 1 ---------------S------------HMRVLVCGGAGYIGSHFVRALLRDTNHSVVIV 33 d1l7da1 59 DVR----AATKEQVE---S----------------LGGKFITV---K-KQAEAVLKELVK 91 ::: :::::::: : :::::::: : :::::::::::: d1gy8a_ 34 DSLVGTHGKSDHVETRENVARKLQQSDGPKPPWADRYAALEVGDVRNEDFLNGVFTRHGP 93 d1l7da1 92 TDIAITTALI-PG--K------P--AP-VLIT--EEMVTKMKPGSVIIDLAV--E----- 130 :::::::::: :: : : :: :::: ::::::::: :::::::: : d1gy8a_ 94 IDAVVHMCAFLAVGESVRDPLKYYDNNVVGILRLLQAMLLHKC-DKIIFSSSAAIFGNPT 152 d1l7da1 131 ------------------A-GGNCPLSEP-GKIVV-KHGVKIVGHTN------------- 156 : ::::: ::: :::: ::::::::::: d1gy8a_ 153 MNAEPIDINAKKSPESPYGESKLIA-ERMI-RDCAEAYGIKGICLRYFNACGAHEDGDIG 210 d1l7da1 157 ------------------------------------------------------------ 157 d1gy8a_ 211 EHYQGSTHLIPIILGRVMSDIAPDDKRMPIFGTDYPTPDGTCVRDYVHVCDLASAHILAL 270 d1l7da1 157 ------------------VPS--------------------------------------- 159 ::: d1gy8a_ 271 DYVEKLGPNDKSKYFSVFNLGTSRGYSVREVIEVARKTTGHPIPVRECGRREGDPAYLVA 330 d1l7da1 160 -R----------------------------------- 160 : d1gy8a_ 331 ASDKAREVLGWKPKYDTLEAIMETSWKFQRTHPNGYA 367 HHsearch alignment (Probability: 0.83 E-value:0.00) d1l7da1 29 PARVLVFG-VGVAGLQAIATAK-RLGAVVMATDVRAA-------------TKEQVESLG- 72 :::::::: ::::::::::::: :::::::::::::: ::::::::: d1gy8a_ 2 HMRVLVCGGAGYIGSHFVRALLRDTNHSVVIVDSLVGTHGKSDHVETRENVARKLQQSDG 61 d1l7da1 73 ---------GKFIT-VKKQAEAVLKELV---KTDIAITTALI 101 ::::: ::::::::::::: ::::::::::: d1gy8a_ 62 PKPPWADRYAALEVGDVRNEDFLNGVFTRHGPIDAVVHMCAF 103