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 | d1u8xx1 | Maltose-6'-phosphate glucosidase GlvA | 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 <-- 1.448 --> HitDALI alignment (Z-score: 6.4 Raw score:515.60) d1l7da1 1 agyravidgayefarafpmmmtaagtVPPARVLVFGV-GVAGLQAIATAKRLG-----AV 54 ::::::::::: ::::::::::::::: :: d1u8xx1 1 --------------------------KKSFSIVIAGGgSTFTPGIVLMLLDHLeefpiRK 34 d1l7da1 55 VMATDVR----AATKEQVESLG--------gKFITvkkqaeAVLKELVKTDIAITTALIP 102 ::::::: ::::::::::: :::: ::::::::::::::::::: d1u8xx1 35 LKLYDNDkerqDRIAGACDVFIrekapdiefAATT------DPEEAFTDVDFVMAHIRVG 88 d1l7da1 103 ------------------------------gKPAP----VLITeeMVTKMKPgSVIIDLA 128 :::: :::: ::::::: ::::::: d1u8xx1 89 kyamraldeqiplkygvvgqetcgpggiaygMRSIggvlEILD-yMEKYSPD-AWMLNYS 146 d1l7da1 129 VEAggncplsEPGK---IVVKhgvKIVGhtnvpsr 160 ::: :::: :::: :::: d1u8xx1 147 NPA----aivAEATrrlRPNS---KILN------- 167 FAST alignment (Normalized score: 5.55 Raw score:907.80) d1l7da1 1 AGYRAVIDGAYEFARAFPMMMTAAGTVPPARVLVFG-VGVAGLQAIATAKRLG------- 52 :::::::::: :::::::::::::: d1u8xx1 1 --------------------------KKSFSIVIAGGGSTFTPGIVLMLLD--HLEEFPI 32 d1l7da1 53 AVVMATDV----RAATKEQVESL---------GGKFITVKKQAEAVLKELVKTDIAITTA 99 :::::::: :::::::::: :::::: :::: :::::::::::: d1u8xx1 33 RKLKLYDNDKERQDRIAGACDV-FIREKAPDIEFAATT---DPEE---AFTDVDFVMAHI 85 d1l7da1 100 LIPGKPAPVLI------------------------------------------TEEMVTK 117 : ::::::: d1u8xx1 86 R----------VGKYAMRALDEQIPLKYGVVGQETCGPGGIAYGMRSIGGVLEILDYMEK 135 d1l7da1 118 MKPGSVIIDLAVEAGGNCPLSEPGKIVVK--------------HGVKIVGHTNVPSR-- 160 ::::::::::: ::::: d1u8xx1 136 YSPDAWMLNYS------------------NPAAIVAEATRRLRPNSKI---------LN 167 TMalign alignment (TM-score: 0.40 Raw score:64.59) d1l7da1 1 --------------AGYRAVIDGA-YE-FARAFPMMMTAAGTVPPARVLVFGVGVAG-LQ 43 :::::::::: :: :::: ::::::::::::: :: d1u8xx1 1 KKSFSIVIAGGGSTFTPGIVLMLLDHLEEFPI------------RKLKLYDNDKERQDRI 48 d1l7da1 44 AIATAK-RL----G--AVVMATDVRAATKEQVESLGGKFITVKKQAEAVLKELVKTDIAI 96 ::::: :: : :::::: : :::::::::::: d1u8xx1 49 -AGACDVFIREKAPDIEFAATT-----------------D--------PEEAFTDVDFVM 82 d1l7da1 97 T-TALI---P---G---------------------K--PA--PV-LITEEMVT-KMKPGS 122 : :::: : : : :: :: ::: :::: :::: : d1u8xx1 83 AHIRVGKYAMRALDEQIPLKYGVVGQETCGPGGIAYGMRSIGGVLEIL-DYMEKYSPD-A 140 d1l7da1 123 VIIDLAVEA-GG--NCPLS-----EPGKIVVKHGVKIVGHTNVPSR 160 ::::::::: :: ::: :: :: : d1u8xx1 141 WMLNYSNPAAIVAE--ATRRLRPN-------SK--IL-N------- 167 HHsearch alignment (Probability: 0.98 E-value:0.00) d1l7da1 28 PPARVLVFGVGVAGLQAIA--TAKRL----GAVVMATDVRAATKEQVESLGGKFI----- 76 ::::::::::::::::::: ::::: ::::::::::::::::::::::::: d1u8xx1 2 KSFSIVIAGGGSTFTPGIVLMLLDHLEEFPIRKLKLYDNDKERQDRIAGACDVFIREKAP 61 d1l7da1 77 -TVKKQAEAVLKELVKTDIAITTALIPGK 104 :::::::::::::::::::::::::::: d1u8xx1 62 DIEFAATTDPEEAFTDVDFVMAHIRVGKY 90