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 | d1ng4a1 | Glycine oxidase ThiO | 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 <-- 2.151 --> HitDALI alignment (Z-score: 7.0 Raw score:558.80) d1onfa2 1 fppvkgientissdeffnikeskKIGIVGSGYIAVELINVIKRLGIDSYIFARGNrILRK 60 :::::::::::::::::::::::::::::::: :::: d1ng4a1 1 ------------------mkrhyEAVVIGGGIIGSAIAYYLAKENKNTALFESGT-MGGR 41 d1onfa2 61 F----------------------------------------------------------- 61 : d1ng4a1 42 Ttsaaagmlgahaeceerdaffdfamhsqrlykglgeelyalsgvdirqhnggmfklafs 101 d1onfa2 62 ------------------------------------------------DESVINVLENDM 73 :::::::::::: d1ng4a1 102 eedvlqlrqmddldsvswyskeevlekepyasgdifgasfiqddvhvePYFVCKAYVKAA 161 d1onfa2 74 KKNNINIVTFADVVEIKKVSDkNLSIHLSDgRIYEhFDHVIYCV---------------- 117 ::::::::::::::::::::: :::::::: :::: :::::::: d1ng4a1 162 KMLGAEIFEHTPVLHVERDGE-ALFIKTPS-GDVW-ANHVVVASgvwsgmffkqlglnna 218 d1onfa2 118 ---------------------------------------------------------- 118 d1ng4a1 219 dgkpyigrhpedsrilfaaghfrngillapatgalisdlimnkevnqdwlhafridrk 276 FAST alignment (Normalized score: 6.32 Raw score:1136.00) d1onfa2 1 FPPVKGIENTISSDEFFNIKESK-----KIGIVGSGYIAVELINVIKRLGIDSYIFARGN 55 :::::::::::::::::::::::::::::::: d1ng4a1 1 -----------------------MKRHYEAVVIGGGIIGSAIAYYLAKENKNTALFESGT 37 d1onfa2 56 RILRKF------------------------------------------------------ 61 d1ng4a1 38 ------MGGRTTSAAAGMLGAHAECEERDAFFDFAMHSQRLYKGLGEELYALSGVDIRQH 91 d1onfa2 62 ----------------------------------------------------------DE 63 :: d1ng4a1 92 NGGMFKLAFSEEDVLQLRQMDDLDSVSWYSKEEVLEKEPYASGDIFGASFIQDDVHVEPY 151 d1onfa2 64 SVINVLENDMKKNNINIVTFADVVEIKKVSDKNLSIHLSDGRIYEHFDHVIYCV------ 117 ::::::::::::::::::::::::::::::: ::::::::: ::::::::: d1ng4a1 152 FVCKAYVKAAKMLGAEIFEHTPVLHVERDGE-ALFIKTPSG--DVWANHVVV--ASGVWS 206 d1onfa2 118 ------------------------------------------------------------ 118 d1ng4a1 207 GMFFKQLGLNNADGKPYIGRHPEDSRILFAAGHFRNGILLAPATGALISDLIMNKEVNQD 266 d1onfa2 118 ---------- 118 d1ng4a1 267 WLHAFRIDRK 276 TMalign alignment (TM-score: 0.63 Raw score:73.81) d1onfa2 1 ----FPPVKGIENTISSDEFFNIKESKKIGIVGSGYIAVELINVIKRLGIDSYIFARGNR 56 ::::::::::::::::::::::::::::::::: d1ng4a1 1 MKRH----------------------YEAVVIGGGIIGSAIAYYLAKENKNTALFESGT- 37 d1onfa2 57 ILR---K----------------------------------------------------- 60 ::: : d1ng4a1 38 MGGRTTSAAAGMLGAHAECEERDAFFDFAMHSQRLYKGLGEELYALSGVDIRQHNGGMFK 97 d1onfa2 61 -----------------------------------------------------FD-ESVI 66 :: :: d1ng4a1 98 LAFSEEDVLQLRQMDDLDSVSWYSKEEVLEKEPYASGDIFGASFIQDDVHVEPYFV--CK 155 d1onfa2 67 NVLENDMKKNNINIVTFADVVEIKKVSDKNLSIHLSDGRIYEHFDHVIYCV--------- 117 ::::::::::::::::::::::::::: :::::: :::::: :::::::: d1ng4a1 156 -AYVKAAKMLGAEIFEHTPVLHVERDGE-ALFIKT-PSGDVW-ANHVVVASGVWSGMFFK 211 d1onfa2 118 ------------------------------------------------------------ 118 d1ng4a1 212 QLGLNNADGKPYIGRHPEDSRILFAAGHFRNGILLAPATGALISDLIMNKEVNQDWLHAF 271 d1onfa2 118 ----- 118 d1ng4a1 272 RIDRK 276 HHsearch alignment (Probability: 0.97 E-value:0.00) d1onfa2 20 KESKKIGIVGSGYIAVELINVIKRLGIDSYIFARGNRI----------L-R--------- 59 :::::::::::::::::::::::::::::::::::::: : : d1ng4a1 2 KRHYEAVVIGGGIIGSAIAYYLAKENKNTALFESGTMGGRTTSAAAGMLGAHAECEERDA 61 d1onfa2 60 -----------------K----------F----------D-------------------- 62 : : : d1ng4a1 62 FFDFAMHSQRLYKGLGEELYALSGVDIRQHNGGMFKLAFSEEDVLQLRQMDDLDSVSWYS 121 d1onfa2 63 -----------------------------ESVINVLENDMKKNNINIVTFADVVEIKKVS 93 ::::::::::::::::::::::::::::::: d1ng4a1 122 KEEVLEKEPYASGDIFGASFIQDDVHVEPYFVCKAYVKAAKMLGAEIFEHTPVLHVERDG 181 d1onfa2 94 DKNLSIHLSDGRIYEHFDHVIYC 116 :::::::::::: :::::::: d1ng4a1 182 -EALFIKTPSGDV--WANHVVVA 201