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 | d1vl5a_ | Hypothetical protein BH2331 | S-adenosyl-L-methionine-dependent methyltransferases | S-adenosyl-L-methionine-dependent methyltransferases | 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 <-- 1.369 --> HitDALI alignment (Z-score: 6.9 Raw score:519.90) d1l7da1 1 --AGYRAVIDGAyefaRAFPmmmtaagtvppARVLVFGVGVagLQAIATAKRLGAVVMAT 58 :::::::::: :::: :::::::::: ::::::::::::::::: d1vl5a_ 1 gsDLAKLMQIAA----LKGN-----------EEVLDVATGG--GHVANAFAPFVKKVVAF 43 d1l7da1 59 DVRAATKEQVESLG-------GKFITvkkqaEAVLKelVKTDIAITT-ALIPgkpapVLI 110 :::::::::::::: ::::: ::::: ::::::::: :::: ::: d1vl5a_ 44 DLTEDILKVARAFIegnghqqVEYVQ--gdaQMPFT-dERFHIVTCRiAAHHfpnpaSFV 100 d1l7da1 111 TeeMVTK-MKPGSVIIDLAVE---------------------------aggncPLSE--p 140 : :::: ::::::::::::: :::: d1vl5a_ 101 S--EAYRvLKKGGQLLLVDNSapendafdvfynyvekerdyshhrawkksdwlKMLEeag 158 d1l7da1 141 gKIVVkhgvkivgHTNV------------------------------------------- 157 :::: :::: d1vl5a_ 159 fELEE--------LHCFhktfifedwcdrmnvttekkqelsdfikskpteyyqkfkivve 210 d1l7da1 158 -----------------psr 160 d1vl5a_ 211 dgrvysfrgesilmkarkpt 230 FAST alignment (Normalized score: 4.29 Raw score:822.70) d1l7da1 1 AGYR--AVIDGAYEFARAFPMMMTAAGTVP----PARVLVFGVGVAG-LQAIATAKRLG- 52 ::::::::: :::::::::: ::::::::: d1vl5a_ 1 ----GSDLAKLMQIA---------------ALKGNEEVLDVATG---GGHVANAFAP--F 36 d1l7da1 53 -AVVMATDVRAATKEQVES-------LGGKFITVKKQAEAVLKEL-----------VKTD 93 :::::::::::::::::: ::::: :::: d1vl5a_ 37 VKKVVAFDLTEDILKVARAFIEGNGHQQVEY--------------VQGDAQMPFTDERFH 82 d1l7da1 94 IAITTALIPGKPAPVLI------------TEEM-VTKMKPGSVIIDLAVEAGGNC----- 135 :::: :::: :::::::::::: d1vl5a_ 83 IVTC-------------RIAAHHFPNPASFVSEAYRVLKKGGQLLL---------VDNSA 120 d1l7da1 136 ------------------------------------PLSEPGKIVVKHGVK-IVGHTNVP 158 :::: :::: d1vl5a_ 121 PENDAFDVFYNYVEKERDYSHHRAWKKSDWLKMLEEAGFE-----------LEELH---- 165 d1l7da1 159 SR---------------------------------------------------------- 160 d1vl5a_ 166 --CFHKTFIFEDWCDRMNVTTEKKQELSDFIKSKPTEYYQKFKIVVEDGRVYSFRGESIL 223 d1l7da1 161 ------- 161 d1vl5a_ 224 MKARKPT 230 TMalign alignment (TM-score: 0.60 Raw score:95.76) d1l7da1 1 --AGYRAVIDGAYEFARAFPMMMTAAGTVPPARVLVFGVGVAGLQAIATAKRLGAVVMAT 58 ::::::::: : : :: ::::::::::: ::::::::::::::::: d1vl5a_ 1 GSDLAKLMQIA-A-L--KG-----------NEEVLDVATGG--GHVANAFAPFVKKVVAF 43 d1l7da1 59 DVRAATKEQVES-L-----G-GKFITVKKQAEAVLKELVKTDIAITT-ALIPGKPAP--V 108 :::::::::::: : : :::::: ::::: :: :::::::::: ::: :: : d1vl5a_ 44 DLTEDILKVARAFIEGNGHQQVEYVQG-DAQMP-FT-DERFHIVTCRIAAH----HFPNP 96 d1l7da1 109 -LITEEMVTKMKPGSVIIDLAVE------------------------AGG-NCPLSEP-G 141 :::::::::::::::::::::: ::: ::::: d1vl5a_ 97 ASFVSEAYRVLKKGGQLLLVDNSAPENDAFDVFYNYVEKERDYSHHRAWKK--SDWLKM- 153 d1l7da1 142 KIV-VKHGVKIVGHTNVP------------------------------------------ 158 :: ::::::::::::: d1vl5a_ 154 -LEE-AGFELEELHCFHKTFIFEDWCDRMNVTTEKKQELSDFIKSKPTEYYQKFKIVVED 211 d1l7da1 159 ---------S-R------- 160 : : d1vl5a_ 212 GRVYSFRGESILMKARKPT 230 HHsearch alignment (Probability: 0.95 E-value:0.00) d1l7da1 24 AGTVPPARVLVFGVGVAGLQAIATAKRLGAVVMATDVRAATKEQVESLGG----KFITVK 79 :::::::::::::::: ::::: ::::::::::::::::::::::::::: :::::: d1vl5a_ 11 AALKGNEEVLDVATGG-GHVAN-AFAPFVKKVVAFDLTEDILKVARAFIEGNGHQQVEYV 68 d1l7da1 80 KQAEAVLKELVKTDIAITTALIPGKPAPVLITEEMVTKMKPGSVI--IDLA 128 ::::::::::::::::::::::::::::::::::::::::::::: :::: d1vl5a_ 69 QGDAQMPFTDERFHIVTCRIAAHHFPNPASFVSEAYRVLKKGGQLLLVDNS 119