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 | d1mjfa_ | Putative spermidine synthetase PF0127 (SpeE) | S-adenosyl-L-methionine-dependent methyltransferases | S-adenosyl-L-methionine-dependent methyltransferases | 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 <-- 1.360 --> HitDALI alignment (Z-score: 3.3 Raw score:345.50) d1onfa2 1 ---------------------------------------------------fppvkgien 9 d1mjfa_ 1 afiewyprgygvafkikkkiyeklskyqkievyetegfgrllaldgtvqlvtlgersyhe 60 d1onfa2 10 tissdEFFNIKESKKIGIVGSGYiaVELINVIKRLGI-DSYIFARGNriLRKF-DESV-i 66 :::::::::::::::::: :::::::::::: ::::::::: :::: :::: d1mjfa_ 61 plvhpAMLAHPKPKRVLVIGGGD--GGTVREVLQHDVdEVIMVEIDEdvIMVSkDLIKid 118 d1onfa2 67 nVLENDM--KKNN-INIVTFADVVeikkvsdknlsihlsdgRIYEHFDHVIYCV------ 117 :::::: :::: :::::::::: ::::::::::::: d1mjfa_ 119 nGLLEAMlnGKHEkAKLTIGDGFE---------------fiKNNRGFDVIIADStdpvlf 163 d1onfa2 118 ------------------------------------------------------------ 118 d1mjfa_ 164 seefyryvydalnnpgiyvtqagsvylftdelisaykemkkvfdrvyyysfpvigyaspw 223 d1onfa2 118 ------------------------------------------------ 118 d1mjfa_ 224 aflvgvkgdidftkidrerakklqleyydplmhetlfqmpkyiretlq 271 FAST alignment (Normalized score: 3.04 Raw score:541.90) d1onfa2 1 FPPVKGIENTIS------------------------------------------------ 12 d1mjfa_ 1 ------------AFIEWYPRGYGVAFKIKKKIYEKLSKYQKIEVYETEGFGRLLALDGTV 48 d1onfa2 13 ---------------SDEFFNIKESKKIGIVGSGYIA----VELINVIKRLG-IDSYIFA 52 :::::::::::::::: ::::::::::: ::::::: d1mjfa_ 49 QLVTLGERSYHEPLVHPAMLAHPKPKRVLVI------GGGDGGTVREVLQHDVDEVIMVE 102 d1onfa2 53 RGNRILRK---------FDESVI-NVLENDMK---KNNINIVTFADVVEIKKVSDKNLSI 99 : ::::: :::::::: :::::::: d1mjfa_ 103 I-------DEDVIMVSKDLIKI-DNGLLEAMLNGKHEKAKLTI----------------- 137 d1onfa2 100 HLSDG-------RIYEHFDHVIYCV----------------------------------- 117 ::::::::::: d1mjfa_ 138 -----GDGFEFIKNNRGFDVIIA--DSTDPVLFSEEFYRYVYDALNNPGIYVTQAGSVYL 190 d1onfa2 118 ------------------------------------------------------------ 118 d1mjfa_ 191 FTDELISAYKEMKKVFDRVYYYSFPVIGYASPWAFLVGVKGDIDFTKIDRERAKKLQLEY 250 d1onfa2 118 --------------------- 118 d1mjfa_ 251 YDPLMHETLFQMPKYIRETLQ 271 TMalign alignment (TM-score: 0.55 Raw score:64.47) d1onfa2 1 ---------------------------------------------------------FPP 3 d1mjfa_ 1 AFIEWYPRGYGVAFKIKKKIYEKLSKYQKIEVYETEGFGRLLALDGTVQLVTLGERS--- 57 d1onfa2 4 VKGIENTISS-DEFFN-IK---ESKKIGIVGSGYIAVELINVIKRLGI-DSYIFARGNRI 57 :: ::::: :: :::::::::::: :::::::::::: ::::::::::: d1mjfa_ 58 --------YHEPLVHPAMLAHPKPKRVLVIGGGD--GGTVREVLQHDVDEVIMVEIDEDV 107 d1onfa2 58 LRKF-DE-SV-I-NVLENDM--KKNN-INIVTFADVVEIKKVSDKNLSIHLSDGRIYEHF 110 :::: :: : : :::::: :::: ::::: ::::: ::: ::::: d1mjfa_ 108 IMVSKDLI-KIDN-GLLEAMLNGKHEKAKLTI-GDGFE---------FIK-----NNRGF 150 d1onfa2 111 DHVIYCV----------------------------------------------------- 117 ::::::: d1mjfa_ 151 DVIIADSTDPVLFSEEFYRYVYDALNNPGIYVTQAGSVYLFTDELISAYKEMKKVFDRVY 210 d1onfa2 118 ------------------------------------------------------------ 118 d1mjfa_ 211 YYSFPVIGYASPWAFLVGVKGDIDFTKIDRERAKKLQLEYYDPLMHETLFQMPKYIRETL 270 d1onfa2 118 - 118 d1mjfa_ 271 Q 271 HHsearch alignment (Probability: 0.95 E-value:0.00) d1onfa2 14 DEFFNIKESKKIGIVGSGYIAVELINVIKRLGIDSYIFARGNRILRKFDESVINVLENDM 73 ::::::::::::::::::::: :::::::::::::::::: :::::::::::: d1mjfa_ 65 PAMLAHPKPKRVLVIGGGDGG-TVREVLQHDVDEVIMVEI--------DEDVIMVSKDLI 115 d1onfa2 74 KKN 76 ::: d1mjfa_ 116 KID 118