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 | d1j0aa_ | 1-aminocyclopropane-1-carboxylate deaminase | Tryptophan synthase beta subunit-like PLP-dependent enzymes | Tryptophan synthase beta subunit-like PLP-dependent enzymes | 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 <-- 0.931 --> HitDALI alignment (Z-score: 4.8 Raw score:326.50) d1onfa2 1 ---------------------------------------------fppvkgientisSDE 15 ::: d1j0aa_ 1 mhpkifallakfprvelipwetpiqylpnisreigadvyikrddltglgiggnkirkLEY 60 d1onfa2 16 F-FNIK--ESKKIGIVG--sGYIAVELINVIKRLGIDSYIFARGNRilrkfdESVI-nVL 69 : :::: ::::::::: :::::::::::::::::::::::::: :::: :: d1j0aa_ 61 LlGDALskGADVVITVGavhSNHAFVTGLAAKKLGLDAILVLRGKE------ELKGnyLL 114 d1onfa2 70 ENDMKknnINIVTF-----aDVVEikkvsdknlsihlsdgrIYEH-------fDHVIYCV 117 ::::: :::::: :::: :::: ::::::: d1j0aa_ 115 DKIMG---IETRVYdakdsfELMK--------------yaeEIAEelkregrkPYVIPPG 157 d1onfa2 118 ------------------------------------------------------------ 118 d1j0aa_ 158 gaspigtlgyvravgeiatqsevkfdsivvaagsggtlaglslglsilnedirpvgiavg 217 d1onfa2 118 ------------------------------------------------------------ 118 d1j0aa_ 218 rfgevmtskldnlikeaaellgvkvevrpelydysfgeygkitgevaqiirkvgtregii 277 d1onfa2 118 ------------------------------------------------ 118 d1j0aa_ 278 ldpvytgkafyglvdlarkgelgekilfihtggisgtfhygdkllsll 325 FAST alignment (Normalized score: 3.00 Raw score:585.40) d1onfa2 1 FPPVKGIENTI------------------------------------------------- 11 d1j0aa_ 1 -----------MHPKIFALLAKFPRVELIPWETPIQYLPNISREIGADVYIKRDDLTGLG 49 d1onfa2 12 ----SSDEFFNI-------KESKKIGIVGS----GYIAVELINVIKRLGIDSYIFARGNR 56 ::::::: ::::::::: :::::::::::::::::::::::: d1j0aa_ 50 IGGNKIRKLEY-LLGDALSKGADVVITV--GAVHSNHAFVTGLAAKKLGLDAILVLRG-- 104 d1onfa2 57 ILRKFDESVI----NVLENDMKKNNINIVTFADVVEI--------------------KKV 92 ::::::::::::::: ::: d1j0aa_ 105 ----------KEELKGNYLLDKIMGIETR--------VYDAKDSFELMKYAEEIAEELKR 146 d1onfa2 93 SDKNLSIHLSDGRIYEHF---DHVIYCV-------------------------------- 117 : :::: d1j0aa_ 147 E-----------------GRKPYVI---PPGGASPIGTLGYVRAVGEIATQSEVKFDSIV 186 d1onfa2 118 ------------------------------------------------------------ 118 d1j0aa_ 187 VAAGSGGTLAGLSLGLSILNEDIRPVGIAVGRFGEVMTSKLDNLIKEAAELLGVKVEVRP 246 d1onfa2 118 ------------------------------------------------------------ 118 d1j0aa_ 247 ELYDYSFGEYGKITGEVAQIIRKVGTREGIILDPVYTGKAFYGLVDLARKGELGEKILFI 306 d1onfa2 118 ------------------- 118 d1j0aa_ 307 HTGGISGTFHYGDKLLSLL 325 TMalign alignment (TM-score: 0.53 Raw score:62.01) d1onfa2 1 --------------------------------------------------------FPPV 4 d1j0aa_ 1 MHPKIFALLAKFPRVELIPWETPIQYLPNISREIGADVYIKRDDLTGLGIGGNKIR---- 56 d1onfa2 5 KGIENTISSD-EF-FNIK--ESKKIGIVGS--GYIAVELINVIKRLGIDSYIFARGNRIL 58 :: :: :::: :::::::::: :::::::::::::::::::::::::: d1j0aa_ 57 --------KLEYLLGDALSKGADVVITVGAVHSNHAFVTGLAAKKLGLDAILVLRGKE-- 106 d1onfa2 59 RKFDESVINVLENDMKKNNINIVTFAD-----VVE--IKKVSDKNLSIHLSDGRIYEH-- 109 : :: :::::::::: :::::::: ::: :: ::: ::: d1j0aa_ 107 E--LK-GNYLLDKIMG---IETRVYDAKDSFELMKYAEE-----IAE--------ELKRE 147 d1onfa2 110 --FDHVIYCV-------------------------------------------------- 117 :::::::: d1j0aa_ 148 GRKPYVIPPGGASPIGTLGYVRAVGEIATQSEVKFDSIVVAAGSGGTLAGLSLGLSILNE 207 d1onfa2 118 ------------------------------------------------------------ 118 d1j0aa_ 208 DIRPVGIAVGRFGEVMTSKLDNLIKEAAELLGVKVEVRPELYDYSFGEYGKITGEVAQII 267 d1onfa2 118 ---------------------------------------------------------- 118 d1j0aa_ 268 RKVGTREGIILDPVYTGKAFYGLVDLARKGELGEKILFIHTGGISGTFHYGDKLLSLL 325 HHsearch alignment (Probability: 0.42 E-value:0.00) d1onfa2 21 ESKKIGIVGS--GYIAVELINVIKRLGIDSYIFARGN 55 :::::::::: ::::::::::::::::::::::::: d1j0aa_ 69 GADVVITVGAVHSNHAFVTGLAAKKLGLDAILVLRGK 105