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 | d1onfa2 | Glutathione reductase | FAD/NAD(P)-binding domain | FAD/NAD(P)-binding domain | α/β |
| Hit | d1neka2 | Succinate dehydogenase | FAD/NAD(P)-binding domain | FAD/NAD(P)-binding domain | α/β |
Query <-- 1.673 --> IntermediateDALI alignment (Z-score: 4.3 Raw score:336.20) query 1 ------------------GMENKKMNLLLfsgdydkALASLIIANAAREMEIEVTIFCAf 42 ::::::::::: ::::::::::::::::::::::: d1onfa2 1 fppvkgientissdeffnIKESKKIGIVG------sGYIAVELINVIKRLGIDSYIFAR- 53 query 43 wgLLLLrdpekasqedkslyeqafssltprEAEELplskmnlggigkkmllemmkeekap 102 :::: ::::: d1onfa2 54 --GNRI-----------------------lRKFDE------------------------s 64 query 103 KLSDLLSGARKKEVKFY--AXQLsveimgfkkeelfpevqiMDVKEYLknaLESDLQLF- 159 ::::::::::::::::: :::: ::::::: :::::::: d1onfa2 65 VINVLENDMKKNNINIVtfADVV-----eikkvsdknlsihLSDGRIY---EHFDHVIYc 116 query 160 i 160 d1onfa2 117 v 117 FAST alignment (Normalized score: 4.62 Raw score:632.20) query 1 -----------------GMEN-KKMNLLLFSGDYDK---ALASLIIANAAREMEIEVTIF 39 :::: ::::: ::::::::::::::::::::: d1onfa2 1 FPPVKGIENTISSDEFFNIKESKKIGI---------VGSGYIAVELINVIKRLGIDSYIF 51 query 40 CAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNLGGIGKKMLLEMMKEE 99 :: d1onfa2 52 AR---------------------------------------------------------- 53 query 100 KAP-----------KLSDLLSGARKKEVKFYAXQLSVEIMGFKKEELFPEVQIMDVKEYL 148 ::::::::::::::::: ::::: d1onfa2 54 ---GNRILRKFDESVINVLENDMKKNNINIV--------------------TFADV---- 86 query 149 KN--------------------ALESDLQLFI--- 160 :::::::: d1onfa2 87 --VEIKKVSDKNLSIHLSDGRIYEHFDHVI--YCV 117 TMalign alignment (TM-score: 0.39 Raw score:61.66) query 1 -------------------GMENKKMNLLLFSGDYDKALASLIIANAAREMEIEVTIFCA 41 :: :::::::: : ::::::::::::::::::::::: d1onfa2 1 FPPVKGIENTISSDEFFNIKE-SKKIGIVG-S-----GYIAVELINVIKRLGIDSYIFAR 53 query 42 FWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEEL-PLSKMNLGGIGKKMLLEMMKEEK 100 ::::: : :::: d1onfa2 54 ---GNRIL---------------------R--KFDES----------------------- 64 query 101 APKLS-DLLSGARKKEVKFYAXQLS------------VEIMGFKKEELFPEVQIMDV--K 145 :: ::::::::::::::::::: ::: : d1onfa2 65 ---VINVLENDMKKNNINIVTFADVVEIKKVSDKNLS-----------------IHLSDG 104 query 146 EYLKNALESDLQLFI- 160 :: :: :::::::: d1onfa2 105 RI-YE--HFDHVIYCV 117 HHsearch alignment (Probability: 0.09 E-value:0.01) query 20 LASLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPL 79 :::::::::::::::::::::::::::: d1onfa2 32 YIAVELINVIKRLGIDSYIFARGNRILR-------------------------------- 59 query 80 SKMNLGGIGKKMLLEMMKEEKA 101 ::::::::::::::::::: d1onfa2 60 ---KFDESVINVLENDMKKNNI 78
Intermediate <-- 2.056 --> HitDALI alignment (Z-score: 5.7 Raw score:551.20) d1onfa2 1 fppvkgientissdeffnikeskKIGIVGSGYIAVELINVIKRLGIDSYIFARGNRI-LR 59 :::::::::::::::::::::::::::::::::: :: d1neka2 1 ---------------mklpvrefDAVVIGAGGAGMRAALQISQSGQTCALLSKVFPTrSH 45 d1onfa2 60 KF---------------------------------------------------------- 61 :: d1neka2 46 TVsaqggitvalgnthednwewhmydtvkgsdyigdqdaieymcktgpeailelehmglp 105 d1onfa2 62 ------------------------------------DESVINVLENDMKKNNINIVTFAD 85 :::::::::::::::::::::::: d1neka2 106 fsrlddgriyqrpfggqsknfggeqaartaaaadrtGHALLHTLYQQNLKNHTTIFSEWY 165 d1onfa2 86 VVEIKKVS-DKNLSIHLS-----DGRIYEhFDHVIYCV---------------------- 117 :::::::: ::::::::: :::::: :::::::: d1neka2 166 ALDLVKNQdGAVVGCTALcietgEVVYFK-ARATVLATggagriyqsttnahintgdgvg 224 d1onfa2 118 ------------------------------------------------------------ 118 d1neka2 225 mairagvpvqdmmggiptkvtgqaltvnekgedvvvpglfavgeiacvsvhganrlggns 284 d1onfa2 118 ---------------------------------------------- 118 d1neka2 285 lldlvvfgraaglhlqesiaeqgalrdasesdveasldrlnrwnnn 330 FAST alignment (Normalized score: 5.36 Raw score:1052.00) d1onfa2 1 FPPVKGIENTISSDEFFNIKESK--------KIGIVGSGYIAVELINVIKRLGIDSYIFA 52 ::::::::::::::::::::::::::::: d1neka2 1 -----------------------MKLPVREFDAVVIGAGGAGMRAALQISQSGQTCALLS 37 d1onfa2 53 RGNRILRKF--------------------------------------------------- 61 :: d1neka2 38 KV-------FPTRSHTVSAQGGITVALGNTHEDNWEWHMYDTVKGSDYIGDQDAIEYMCK 90 d1onfa2 62 ---------------------------------------------------DESVINVLE 70 ::::::::: d1neka2 91 TGPEAILELEHMGLPFSRLDDGRIYQRPFGGQSKNFGGEQAARTAAAADRTGHALLHTLY 150 d1onfa2 71 NDMKKNNINIVTFADVVEIKKV----SDKNLSIHLS------DGRIYEHFDHVIYCV--- 117 :::::::::::::::::::: :::: :::: ::::: ::::::: d1neka2 151 QQNLKNHTTIFSEWYALDLV--KNQDGAVV-GCTA-LCIETGEVVYF-KARATVL--ATG 203 d1onfa2 118 ------------------------------------------------------------ 118 d1neka2 204 GAGRIYQSTTNAHINTGDGVGMAIRAGVPVQDMMGGIPTKVTGQALTVNEKGEDVVVPGL 263 d1onfa2 118 ------------------------------------------------------------ 118 d1neka2 264 FAVGEIACVSVHGANRLGGNSLLDLVVFGRAAGLHLQESIAEQGALRDASESDVEASLDR 323 d1onfa2 118 ------- 118 d1neka2 324 LNRWNNN 330 TMalign alignment (TM-score: 0.33 Raw score:38.92) d1onfa2 1 ------------------------------------------------------FP---- 2 :: d1neka2 1 MKLPVREFDAVVIGAGGAGMRAALQISQSGQTCALLSKVFPTRSHTVSAQGGITVALGNT 60 d1onfa2 3 -------P--------------------VKGIENT-ISSDEFFN---------------- 18 : ::::::: :::::::: d1neka2 61 HEDNWEWHMYDTVKGSDYIGDQDAIEYMCKTGPEAILELEHMGLPFSRLDDGRIYQRPFG 120 d1onfa2 19 --------------------IKESKKIGIVGSGYIAVELINVIKRLGIDS---------- 48 ::::::::::::::::::: d1neka2 121 GQSKNFGGEQAARTAAAADR-----------TGHALLHTLYQQNLKNHTTIFSEWYALDL 169 d1onfa2 49 -------------------------------YIFARGNR------ILRKFDESVIN---- 67 ::::: :::::: :: d1neka2 170 VKNQDGAVVGCTALCIETGEVVYFKARATVL---ATGGAGRIYQS--TTNAHI-NTGDGV 223 d1onfa2 68 -----------------------------------------VLENDMKKNNINIVT-FA- 84 ::: :: d1neka2 224 GMAIRAGVPVQDMMGGIPTKVTGQALTVNEKGEDVVVPGLF------------AVGEIAC 271 d1onfa2 85 --D------------V--VEIK-KVSDKNLSIHLSDGRIYEH------------------ 109 : : :: :: :::: d1neka2 272 VSVHGANRLGGNSLLDLV--VFG-------RA------AGLHLQESIAEQGALRDASESD 316 d1onfa2 110 --------------FDHVIYCV 117 d1neka2 317 VEASLDRLNRWNNN-------- 330 HHsearch alignment (Probability: 0.96 E-value:0.00) d1onfa2 24 KIGIVGSGYIAVELINVIKRLGIDSYIFARGNRI 57 :::::::::::::::::::::::::::::::::: d1neka2 9 DAVVIGAGGAGMRAALQISQSGQTCALLSKVFPT 42