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 | d1qyca_ | Phenylcoumaran benzylic ether reductase | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | α/β |
| Hit | d1dcta_ | DNA methylase HaeIII | S-adenosyl-L-methionine-dependent methyltransferases | S-adenosyl-L-methionine-dependent methyltransferases | α/β |
Query <-- 0.813 --> IntermediateDALI alignment (Z-score: 4.9 Raw score:359.30) query 1 gMENKKMNLLLfsgdydkALASLIIANAAREMEIEVTIFCAfwglllLRDPekasqedks 60 :::::::::: ::::::::::::::::::::::: :::: d1qyca_ 1 -GSRSRILLIG-----atGYIGRHVAKASLDLGHPTFLLVR-----eSTAS--------- 40 query 61 lyeqafssltpREAEelplskmnlggigkkmllemmkeekapkLSDLLSGARKKEVKFY- 119 :::: :::::::::::::::: d1qyca_ 41 -----------SNSE----------------------------KAQLLESFKASGANIVh 61 query 120 AXQLsveimgfkkeelfpevqimDVKEYLKNALESDLQLFI------------------- 160 :::: :::::::::::::::::: d1qyca_ 62 GSID-------------------DHASLVEAVKNVDVVISTvgslqiesqvniikaikev 102 query 161 ------------------------------------------------------------ 161 d1qyca_ 103 gtvkrffpsefgndvdnvhavepaksvfevkakvrraieaegipytyvssncfagyflrs 162 query 161 ------------------------------------------------------------ 161 d1qyca_ 163 laqagltapprdkvvilgdgnarvvfvkeedigtftikavddprtlnktlylrlpantls 222 query 161 ------------------------------------------------------------ 161 d1qyca_ 223 lnelvalwekkidktlekayvpeeevlkliadtpfpanisiaishsifvkgdqtnfeigp 282 query 161 ------------------------- 161 d1qyca_ 283 agveasqlypdvkyttvdeylsnfv 307 FAST alignment (Normalized score: 3.09 Raw score:685.40) query 1 GMENKKMNLLLFSGDYDK----ALASLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQ 56 :::::::: ::::::::::::::::::::::: d1qyca_ 1 -GSRSRILL---------IGATGYIGRHVAKASLDLGHPTFLLVR--------------- 35 query 57 EDKSLYEQAFSSLTPREAEELPLSKMNLGGIGKKMLLEMMKEEKAP--------KLSDLL 108 :::::: d1qyca_ 36 ----------------------------------------------ESTASSNSEKAQLL 49 query 109 SGARKKEVKFYAXQLSVEIMGFKKEELFPEVQI----MDVKEYLKNALESDLQLFI---- 160 ::::::::::: ::::::::::::::::: d1qyca_ 50 ESFKASGANIV----------------------HGSIDDHASLVEAVKNVDVVI--STVG 85 query 161 ------------------------------------------------------------ 161 d1qyca_ 86 SLQIESQVNIIKAIKEVGTVKRFFPSEFGNDVDNVHAVEPAKSVFEVKAKVRRAIEAEGI 145 query 161 ------------------------------------------------------------ 161 d1qyca_ 146 PYTYVSSNCFAGYFLRSLAQAGLTAPPRDKVVILGDGNARVVFVKEEDIGTFTIKAVDDP 205 query 161 ------------------------------------------------------------ 161 d1qyca_ 206 RTLNKTLYLRLPANTLSLNELVALWEKKIDKTLEKAYVPEEEVLKLIADTPFPANISIAI 265 query 161 ------------------------------------------ 161 d1qyca_ 266 SHSIFVKGDQTNFEIGPAGVEASQLYPDVKYTTVDEYLSNFV 307 TMalign alignment (TM-score: 0.36 Raw score:58.19) query 1 GMENKKMNLLLFSGDYDKALASLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKS 60 :: ::::::::::::::::::::::::: : ::::::: :: d1qyca_ 1 GS--RSRILLIGATGYIGRHVAKASLDLG----H-PTFLLVR--ES-------------- 37 query 61 LYEQAFSSLTPR-EAEELPLSKMNLGGIGKKMLLEMMKEEKAPKLSDLLSGARKKEVKFY 119 ::::::: ::: : :: ::::: :::: d1qyca_ 38 -----TASSNSEKAQL-L--------------------------ES-FKASG----ANIV 60 query 120 AXQLSVE-IMGFKKEELFPEVQIMDVKEYLKNALESDLQLFI------------------ 160 ::::: : :::::::::: : ::::: d1qyca_ 61 HGSID-DH---------------ASLVEAVKNV--D-VVISTVGSLQIESQVNIIKAIKE 101 query 161 ------------------------------------------------------------ 161 d1qyca_ 102 VGTVKRFFPSEFGNDVDNVHAVEPAKSVFEVKAKVRRAIEAEGIPYTYVSSNCFAGYFLR 161 query 161 ------------------------------------------------------------ 161 d1qyca_ 162 SLAQAGLTAPPRDKVVILGDGNARVVFVKEEDIGTFTIKAVDDPRTLNKTLYLRLPANTL 221 query 161 ------------------------------------------------------------ 161 d1qyca_ 222 SLNELVALWEKKIDKTLEKAYVPEEEVLKLIADTPFPANISIAISHSIFVKGDQTNFEIG 281 query 161 -------------------------- 161 d1qyca_ 282 PAGVEASQLYPDVKYTTVDEYLSNFV 307 HHsearch alignment (Probability: 0.02 E-value:0.33) query 89 KKMLLEMMKEEKAPKLSDLLSGARKKEVKFYAXQLSVEIMGFKKEELFPEVQIMDVKEYL 148 ::::::::::::: :::::::::::::::::::::::::::::::::::::::::::::: d1qyca_ 245 EEEVLKLIADTPF-PANISIAISHSIFVKGDQTNFEIGPAGVEASQLYPDVKYTTVDEYL 303 query 149 KN 150 :: d1qyca_ 304 SN 305
Intermediate <-- 0.860 --> HitDALI alignment (Z-score: 7.7 Raw score:884.30) d1qyca_ 1 gsrSRILLIGATgyigRHVAKASLDLGHPT-FLLVRESTassnseKAQLLESFKasgANI 59 ::::::::: :::::::::::::: :::::::: ::::::::: ::: d1dcta_ 1 ---MNLISLFSG---aGGLDLGFQKAGFRIiCANEYDKS-----iWKTYESNHS---AKL 46 d1qyca_ 60 VHGSIDDHAsLVEAvKNVDVVISTVGSL--------------QIESQVNIIKAIKEVGtV 105 ::::::::: :::: ::::::::::::: :::::::::::::::: : d1dcta_ 47 IKGDISKIS-SDEF-PKCDGIIGGPPCQswseggslrgiddpRGKLFYEYIRILKQKK-P 103 d1qyca_ 106 KRFFPSEfGNDVDnvhavepAKSVFEVKAKVRRAIEAEGIPYTYVSSNCF---AGYF--- 159 ::::::: ::::: :::::::::::::::::::::::::::::: :::: d1dcta_ 104 IFFLAEN-VKGMM-------AQRHNKAVQEFIQEFDNAGYDVHIILLNANdygVAQDrkr 155 d1qyca_ 160 -----------------------LRSL--------------------------------- 163 :::: d1dcta_ 156 vfyigfrkelninylppiphlikPTFKdviwdlkdnpipaldknktngnkciypnheyfi 215 d1qyca_ 164 --------aqaGLTAP-----------------PRDK----------------------- 175 ::::: :::: d1dcta_ 216 gsystifmsrnRVRQWnepaftvqasgrqcqlhPQAPvmlkvsknlnkfvegkehlyrrl 275 d1qyca_ 176 ------------------vvilgdgnarvvfvkEEDIGTFTIKAVDDPRtlnktlylrlp 217 :::::::::::::::: d1dcta_ 276 tvrecarvqgfpddfifhyeslndgykmignavPVNLAYEIAKTIKSAL----------- 324 d1qyca_ 218 antlslnelvalwekkidktlekayvpeeevlkliadtpfpanisiaishsifvkgdqtn 277 d1dcta_ 325 ------------------------------------------------------------ 325 d1qyca_ 278 feigpagveasqlypdvkyttvdeylsnfv 307 d1dcta_ 325 ------------------------------ 325 FAST alignment (Normalized score: 4.70 Raw score:1481.00) d1qyca_ 1 GSRSRILLIGATGYIG---RHVAKASLDLGHP-TFLLVRESTASSNSE-KAQLLESFKA- 54 ::::::: ::::::::::::: ::::: :::::::::: d1dcta_ 1 ---MNLISLF------SGAGGLDLGFQKAGFRIICANE----------YDKSIWKTYESN 41 d1qyca_ 55 SGANIVHGSI--DDHASLVEAVK--NVDVVISTVGSL----------------QIESQVN 94 :::::::::: ::::: :::::::::: ::::::: d1dcta_ 42 HSAKLIKGDISKISSDE------FPKCDGIIGGPP--CQSWSEGGSLRGIDDPRGKLFYE 93 d1qyca_ 95 IIKAIKEVGTVKRFFPSEFGNDVDNVHAVEP-------AKSVFEVKAKVRRAIEAEGIPY 147 :::::::: ::::::: :::::::::::::::::::::: d1dcta_ 94 YIRILKQK-KPIFFLA---------------ENVKGMMAQRHNKAVQEFIQEFDNAGYDV 137 d1qyca_ 148 TYVSSNCFAGYFLRSLAQAGLTAPPRDKVVILGDGNARVVFVK----------------- 190 ::::: d1dcta_ 138 HIILL--------------------------------------NANDYGVAQDRKRVFYI 159 d1qyca_ 191 ------------------------------------------------------------ 191 d1dcta_ 160 GFRKELNINYLPPIPHLIKPTFKDVIWDLKDNPIPALDKNKTNGNKCIYPNHEYFIGSYS 219 d1qyca_ 191 ------------------------------------------------------------ 191 d1dcta_ 220 TIFMSRNRVRQWNEPAFTVQASGRQCQLHPQAPVMLKVSKNLNKFVEGKEHLYRRLTVRE 279 d1qyca_ 191 -----------------------------EEDIGTFTIKAVDDPRTLNKTLYLRLPANTL 221 ::::::::::::: d1dcta_ 280 CARVQGFPDDFIFHYESLNDGYKMIGNAVPVNLAYEIAKTIK------------------ 321 d1qyca_ 222 SLNELVALWEKKIDKTLEKAYVPEEEVLKLIADTPFPANISIAISHSIFVKGDQTNFEIG 281 d1dcta_ 322 ------------------------------------------------------------ 322 d1qyca_ 282 PAGVEASQLYPDVKYTTVDEYLSNFV--- 307 d1dcta_ 322 --------------------------SAL 324 TMalign alignment (TM-score: 0.45 Raw score:137.75) d1qyca_ 1 GSRSRILLIGATGYIGRHVAKASLDLGHPT-FLLVRESTASSNSEKAQLLESFKASGANI 59 :::::::::: :::::::::::::: ::::: : : : ::::::::: :::: d1dcta_ 1 ---MNLISLFSGA---GGLDLGFQKAGFRIICANEY-D-K--S--IWKTYESNH--SAKL 46 d1qyca_ 60 VHGSIDDHASLVEAVKNVDVVISTVGS--------------LQIESQVNIIKAIKEVGTV 105 ::::::::: :::: :::::::::::: ::::::::::::::::: : d1dcta_ 47 IKGDISKIS-SDEF-PKCDGIIGGPPCQSWSEGGSLRGIDDPRGKLFYEYIRILKQKK-P 103 d1qyca_ 106 KRFFPSEFGNDVDNVHAVEPAKSVFEVKAKVRRAIEAEGIPYTYVSSNCF----AGYF-- 159 :::::::::::: : : :: :::::::::::::::::::::::::: :::: d1dcta_ 104 IFFLAENVKGMM--A-Q----RH-NKAVQEFIQEFDNAGYDVHIILLNANDYGVAQDRKR 155 d1qyca_ 160 ------------------------LR---------------------------------- 161 :: d1dcta_ 156 VFYIGFRKELNINYLPPIPHLIKPTFKDVIWDLKDNPIPALDKNKTNGNKCIYPNHEYFI 215 d1qyca_ 162 ------------SL------AQ------AGLTAP-PRDKVV--IL--------------- 179 :: :: :::::: :::::: : d1dcta_ 216 GSYSTIFMSRNRVRQWNEPAFTVQASGRQCQLHPQAPVMLKVS-KNLNKFVEGKEHLYRR 274 d1qyca_ 180 --------GDGNARVVFVK-----------------------EEDIGTFTIKAVDDPRTL 208 ::: :::::::::::::::: d1dcta_ 275 LTVRECAR--------VQGFPDDFIFHYESLNDGYKMIGNAVPVNLAYEIAKTIKSAL-- 324 d1qyca_ 209 NKTLYLRLPANTLSLNELVALWEKKIDKTLEKAYVPEEEVLKLIADTPFPANISIAISHS 268 d1dcta_ 325 ------------------------------------------------------------ 325 d1qyca_ 269 IFVKGDQTNFEIGPAGVEASQLYPDVKYTTVDEYLSNFV 307 d1dcta_ 325 --------------------------------------- 325 HHsearch alignment (Probability: 0.01 E-value:0.59) d1qyca_ 20 AKASLDLGHPTFLLVRESTASSNSEKAQLLESFKASGANIVHGSIDDHASLVEAVKNVDV 79 ::::::::::::::::::::: ::::: ::::::::::::::::::: :::::: d1dcta_ 14 DLGFQKAGFRIICANEYDKSI-----WKTYE--SNHSAKLIKGDISKISSDE--FPKCDG 64 d1qyca_ 80 VI 81 :: d1dcta_ 65 II 66