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 | d1a4ia1 | Methylenetetrahydrofolate dehydrogenase/cyclohydrolase | 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 <-- 1.897 --> HitDALI alignment (Z-score: 11.6 Raw score:810.00) d1l7da1 1 ---------------------AGYRAVIDGAYEfARAFPmmmtaagtvpPARVLVFGVG- 38 :::::::::::: ::::: :::::::::: d1a4ia1 1 ltsinagrlargdlndcfipcTPKGCLELIKET-GVPIA----------GRHAVVVGRSk 49 d1l7da1 39 VAGLQAIATAKRLGAVVMATDVRaatkeqveslggkfitvkkqaEAVLKELVKTDIAITT 98 ::::::::::::::::::::::: :::::::::::::::: d1a4ia1 50 IVGAPMHDLLLWNNATVTTCHSK--------------------tAHLDEEVNKGDILVVA 89 d1l7da1 99 ALipgkpAPVLITEEMvtkMKPGSVIIDLAVE--AGGNCPLsepgkivvKHGV-KIVG-- 153 :: ::::::::: ::::::::::::: ::::::: :::: :::: d1a4ia1 90 TG-----QPEMVKGEW---IKPGAIVIDCGINykVVGDVAY-----deaKERAsFITPvp 136 d1l7da1 154 --HTNVPSR--------------- 160 ::::::: d1a4ia1 137 ggVGPMTVAmlmqstvesakrfle 160 FAST alignment (Normalized score: 8.18 Raw score:1308.00) d1l7da1 1 AG-------------------YRAVIDGAYE---FARAFPMMMTAAGTVP-PARVLVFGV 37 :::::::::: ::::: ::::::::: d1a4ia1 1 --LTSINAGRLARGDLNDCFIPCTPKGCLELIKETGVPI-----------AGRHAVVVGR 47 d1l7da1 38 G-VAGLQAIATAKRLGAVVMATDVRAATKEQVESLGGKFITVKKQAE----AVLKELVKT 92 : ::::::::::::::::::::: ::::::::: d1a4ia1 48 SKIVGAPMHDLLLWNNATVTTCH------------------------SKTAHLDEEVNKG 83 d1l7da1 93 DIAITTALIPGKP--APVLITEEMVTKMKPGSVIIDLAVE-----AGGNCPLSEPGKIVV 145 :::::: :::::::: ::::::::::: ::::: d1a4ia1 84 DILVVA-------TGQPEMVKGE---WIKPGAIVIDC---GINYKVVGDV---------- 120 d1l7da1 146 KHG---------VKIVG-----HTNVPSR---------------- 160 :::: :::::: d1a4ia1 121 ---AYDEAKERASFIT-PVPGGVGPMTV-AMLMQSTVESAKRFLE 160 TMalign alignment (TM-score: 0.62 Raw score:99.59) d1l7da1 1 ---------------------AGYRAVIDGAYEFARAFPMMMTAAGTVPPARVLVFGVGV 39 :::::::::::: ::::: ::::::::::: d1a4ia1 1 LTSINAGRLARGDLNDCFIPCTPKGCLELIKET-GVPIA----------GRHAVVVGRSK 49 d1l7da1 40 -AGLQAIATAKRLGAVVMATDVRAATKEQVESLGGKFITVKKQAEAVLKELVKTDIAITT 98 :::::::::::::::::::::: : :: :::::::::::::: d1a4ia1 50 IVGAPMHDLLLWNNATVTTCHSK---------------T---AH--LDEEVNKGDILVVA 89 d1l7da1 99 ALIPGKPAPVLITEEMVTKMKPGSVIIDLAVEA---GGNCPLS-EPGKIVVKHGVKIVG- 153 :: :::::::::: ::: ::::::: :: ::::::: :::::::::: d1a4ia1 90 TG-----QPEMVKGEWI--KPG-AIVIDCG-INYKVVGDVAYDE-----AKERASFITPV 135 d1l7da1 154 --H-TNVPSR--------------- 160 : :::::: d1a4ia1 136 PGGVGPMTVAMLMQSTVESAKRFLE 160 HHsearch alignment (Probability: 0.99 E-value:0.00) d1l7da1 27 VPPARVLVFGVGV-AGLQAIATAKRLGAVVMATDVRAATKEQVESLGGKFITVKKQAEAV 85 ::::::::::::: ::::::::::::::::::::::: ::: d1a4ia1 37 IAGRHAVVVGRSKIVGAPMHDLLLWNNATVTTCHSKT--------------------AHL 76 d1l7da1 86 LKELVKTDIAITTALIPGKPAPVLITEEMVTKMKPGSVIIDLAVEAGGN 134 ::::::::::::::::: :::::::: :::::::::::::::: d1a4ia1 77 DEEVNKGDILVVATGQP-----EMVKGEWI---KPGAIVIDCGINYKVV 117