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 | d1mv8a3 | GDP-mannose 6-dehydrogenase, GDP-binding domain | UDP-glucose/GDP-mannose dehydrogenase C-terminal domain | Adenine nucleotide alpha hydrolase-like | 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 <-- 1.842 --> HitDALI alignment (Z-score: 9.9 Raw score:648.40) d1l7da1 1 aGYRAVIDGAyEFARafpmmmtaagtvppARVLVFGVG----------VAGLQAIATAKR 50 ::::::::: :::: ::::::::: :::::::::::: d1mv8a3 1 -VQKAFDLIT-SHDT--------------RKVGLLGLSfkagtddlreSPLVELAEMLIG 44 d1l7da1 51 LGAVVMATD-VRAA-------------tkEQVESlggKFITvkkqaeAVLKELVKTDIAI 96 ::::::::: :::: ::::: :::: ::::::::::::: d1mv8a3 45 KGYELRIFDrNVEYarvhgankeyieskiPHVSS---LLVS------DLDEVVASSDVLV 95 d1l7da1 97 TTALipgkpAPVL--ITEEmVTKMkpgSVIIDLAVeaggncpLSEPgKIVVkhgvKIVGH 154 :::: :::: :::: :::: :::::::: :::: :::: ::::: d1mv8a3 96 LGNG-----DELFvdLVNK-TPSG---KKLVDLVG-------FMPH-TTTA----QAEGI 134 d1l7da1 155 Tnvpsr 160 : d1mv8a3 135 C----w 136 FAST alignment (Normalized score: 6.61 Raw score:974.30) d1l7da1 1 AG-YRAVIDGAYEFARAFPMMMTAAGTVPP----ARVLVFGVG-----------VAGLQA 44 :::::::: :::::::: :::::: d1mv8a3 1 --VQKAFDLIT-------------------SHDTRKVGLLGL-SFKAGTDDLRESPLVEL 38 d1l7da1 45 IATAKRLGAVVMATDVRA-------------ATKEQVESLGGKFITVKKQAE-------- 83 :::::::::::::::: ::::: d1mv8a3 39 AEMLIGKGYELRIFDR--NVEYARVHGANKEYIESK----------------IPHVSSLL 80 d1l7da1 84 --AVLKELVKTDIAITTALIPGKP-APVLITEEMVTKMKPGSVIIDLAVEAG-GNCPLSE 139 ::::::::::::::: ::::: :::::::::::::::: :::: d1mv8a3 81 VSDLDEVVASSDVLVLG-------NGDELF-VDLVNKTPSGKKLVDL-----VGFMP--- 124 d1l7da1 140 PGKIVVKHGV-----KIVGHTNVPSR--- 160 :::: d1mv8a3 125 ----------HTTTAQAEG-------ICW 136 TMalign alignment (TM-score: 0.59 Raw score:93.73) d1l7da1 1 AGYRAVIDGAYEFARAFPMMMTAAGTVPPARVLVFGV-G---------VAGLQAIATAKR 50 : ::::::::: : :: :::::::: : :::::::::::: d1mv8a3 1 V-QKAFDLITS-H-DT-------------RKVGLLGLSFKAGTDDLRESPLVELAEMLIG 44 d1l7da1 51 LGAVVMATDVR-A-AT-----K--E--QVESLGGKFITVKKQAEAVLKELVKTDIAITTA 99 ::::::::::: : :: : : ::::::::::: :::::::::::::::: d1mv8a3 45 KGYELRIFDRNVEYARVHGANKEYIESKIPHVSSLLVS------DLDEVVASSDVLVLGN 98 d1l7da1 100 LIPGKPAPVL--ITEEMVTKMKPGSVIIDLAVEAGGNCPLSEPGKIVVKHGVKIVGHTNV 157 : :::: :::: :: :: :::::::: : ::: :::: ::::::: d1mv8a3 99 G-----DELFVDLVNK-TP-SG--KKLVDLVG---F---MPH--TTTA----QAEGICW- 136 d1l7da1 158 PSR 160 d1mv8a3 137 --- 137 HHsearch alignment (Probability: 0.92 E-value:0.00) d1l7da1 27 VPPARVLVFGV----------GVAGLQAIATAKRLGAVVMATDVRAATKEQVES---LGG 73 ::::::::::: ::::::::::::::::::::::::::::::::: ::: d1mv8a3 11 HDTRKVGLLGLSFKAGTDDLRESPLVELAEMLIGKGYELRIFDRNVEYARVHGANKEYIE 70 d1l7da1 74 KFIT--VKKQAEAVLKELVKTDIAITTALIPGKPAPVLITEEMVTKMKPGSVIIDL 127 :::: ::::::::::::::::::::::: :::::::::::::::::::: d1mv8a3 71 SKIPHVSSLLVSDLDEVVASSDVLVLGNG-------DELFVDLVNKTPSGKKLVDL 119