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 | d1tdja1 | Allosteric threonine deaminase N-terminal domain | 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 <-- 0.818 --> HitDALI alignment (Z-score: 4.4 Raw score:292.10) d1onfa2 1 --------------------------------------------------fppvkgient 10 d1tdja1 1 qplsgapegaeylravlrapvyeaaqvtplqkmeklssrldnvilvkredrqpvhsfklr 60 d1onfa2 11 issdEFFNI--KESK--KIGIvGSGYIAVELINVIKRLGIDSYIFARGNRilrkfdesvI 66 ::::: :::: :::: :::::::::::::::::::::::::::: : d1tdja1 61 gayaMMAGLteEQKAhgVITA-SAGNHAQGVAFSSARLGVKALIVMPTAT---------A 110 d1onfa2 67 NVLENDMKKNNINIVTF------ADVVeikkvsdknlsihlsdgrIYEHFdHVIYCV--- 117 ::::::::::::::::: :::: ::::: :::::: d1tdja1 111 DIKVDAVRGFGGEVLLHganfdeAKAK-------------aielsQQQGF-TWVPPFdhp 156 d1onfa2 118 ------------------------------------------------------------ 118 d1tdja1 157 mviagqgtlalellqqdahldrvfvpvgggglaagvavlikqlmpqikviaveaedsacl 216 d1onfa2 118 ------------------------------------------------------------ 118 d1tdja1 217 kaaldaghpvdlprvglfaegvavkrigdetfrlcqeylddiitvdsdaicaamkdlfed 276 d1onfa2 118 ------------------------------------------------------- 118 d1tdja1 277 vravaepsgalalagmkkyialhnirgerlahilsganvnfhglryvsercelge 331 FAST alignment (Normalized score: 2.22 Raw score:437.40) d1onfa2 1 FPPVKGIENTIS------------------------------------------------ 12 d1tdja1 1 ------------QPLSGAPEGAEYLRAVLRAPVYEAAQVTPLQKMEKLSSRLDNVILVKR 48 d1onfa2 13 --------------SDEFFNIKE-------SKKIGIVGSGYIAVELINVIKRLGIDSYIF 51 :::::: :::::::: ::::::::::::::::::::: d1tdja1 49 EDRQPVHSFKLRGAYAMMAG---LTEEQKAHGVITASA-GNHAQGVAFSSARLGVKALIV 104 d1onfa2 52 ARGNRILRKFDESV--INVLENDMKKNNINIVTFADVVEIKKVSDKNLSIHLSDGRIYEH 109 ::: :::::::::::::::: d1tdja1 105 MPT-----------ATADIKVDAVRGFGGEVL---------------------------- 125 d1onfa2 110 F---------------------DHVIYCV------------------------------- 117 ::::: d1tdja1 126 -LHGANFDEAKAKAIELSQQQGFTWVP--PFDHPMVIAGQGTLALELLQQDAHLDRVFVP 182 d1onfa2 118 ------------------------------------------------------------ 118 d1tdja1 183 VGGGGLAAGVAVLIKQLMPQIKVIAVEAEDSACLKAALDAGHPVDLPRVGLFAEGVAVKR 242 d1onfa2 118 ------------------------------------------------------------ 118 d1tdja1 243 IGDETFRLCQEYLDDIITVDSDAICAAMKDLFEDVRAVAEPSGALALAGMKKYIALHNIR 302 d1onfa2 118 ----------------------------- 118 d1tdja1 303 GERLAHILSGANVNFHGLRYVSERCELGE 331 TMalign alignment (TM-score: 0.48 Raw score:56.60) d1onfa2 1 ---------------------------------------------------------FPP 3 d1tdja1 1 QPLSGAPEGAEYLRAVLRAPVYEAAQVTPLQKMEKLSSRLDNVILVKREDRQPVHSF--- 57 d1onfa2 4 VKGIENTISS--DEFFNI-K-E----SK-KIGIVGSGYIAVELINVIKRLGIDSYIFARG 54 : :::::: : : :: ::::: ::::::::::::::::::::::::: d1tdja1 58 ---------KLRGAYAMMAGLTEEQKAHGVITAS-AGNHAQGVAFSSARLGVKALIVMPT 107 d1onfa2 55 NRILRKFDESVINVLENDMKKNNINIVTFA----D--VVEIKKVSDKNLSIHLSDGRIYE 108 :: : :: :::::::: : ::::::: : :::::: ::: : d1tdja1 108 AT--A---DI-KVDAVRGF--G-GEVLLHGANFDEAKAKAIEL-----SQQ--------Q 145 d1onfa2 109 HFDHVIYC---------------------------------------------------- 116 :: ::::: d1tdja1 146 GF-TWVPPFDHPMVIAGQGTLALELLQQDAHLDRVFVPVGGGGLAAGVAVLIKQLMPQIK 204 d1onfa2 117 -----------------------------------V------------------------ 117 : d1tdja1 205 VIAVEAEDSACLKAALDAGHPVDLPRVGLFAEGVAVKRIGDETFRLCQEYLDDIITVDSD 264 d1onfa2 118 ------------------------------------------------------------ 118 d1tdja1 265 AICAAMKDLFEDVRAVAEPSGALALAGMKKYIALHNIRGERLAHILSGANVNFHGLRYVS 324 d1onfa2 118 ------- 118 d1tdja1 325 ERCELGE 331 HHsearch alignment (Probability: 0.55 E-value:0.00) d1onfa2 20 KESKKIGIVGSGYIAVELINVIKRLGIDSYIFARG 54 ::::::::::::::::::::::::::::::::::: d1tdja1 73 QKAHGVITASAGNHAQGVAFSSARLGVKALIVMPT 107