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 | d1g55a_ | DNMT2 | 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 <-- 0.642 --> HitDALI alignment (Z-score: 6.9 Raw score:753.10) d1qyca_ 1 gSRSRILLIGATgyigRHVAKASLDLG--HPTF-LLVREStassnsEKAQLLESFKAsGA 57 ::::::::::: ::::::::::: :::: :::::: ::::::::::: :: d1g55a_ 1 -EPLRVLELYSG---vGGMHHALRESCipAQVVaAIDVNT------VANEVYKYNFP-HT 49 d1qyca_ 58 NIVHGSIDDHAslVEAVK--NVDVVISTVGslqiESQVNIIKAIKEV-GTVKRFFPsEFG 114 ::::::::::: ::::: :::::::::: ::::::::::::: :::::::: ::: d1g55a_ 50 QLLAKTIEGIT--LEEFDrlSFDMILMSPP----NSFLHILDILPRLqKLPKYILL-ENV 102 d1qyca_ 115 NDVDNvhavepaksvFEVKAKVRRAIEAEGIpytyvssncfagyflrslaqagltapprd 174 ::::: :::::::::::::::: d1g55a_ 103 KGFEV----------SSTRDLLIQTIENXGF----------------------------- 123 d1qyca_ 175 kvvilgdgnarvvfvkeedigtftikavddprtLNKTLYLRLPantlslnelvalwekki 234 :::::::::: d1g55a_ 124 ---------------------------------QYQEFLLSPT----------------- 133 d1qyca_ 235 dktlekayvpeeevlkliadtpfpanisiaishsifvkgdqtnfeigPAGVEAsqLYPDv 294 :::::: :::: d1g55a_ 134 --------------------slgipnsrlryfliaklqseplpfqapGQVLME--FPKL- 170 d1qyca_ 295 kytTVDEYLSNFV----------------------------------------------- 307 :::::::::: d1g55a_ 171 --sVKMLKDFLEDdtdvnqyllppksllryallldivqptxrrsvcftkgygsyiegtgs 228 d1qyca_ 308 ------------------------------------------------------------ 308 d1g55a_ 229 vlqtaedvqveniyksltnlsqeeqitkllilklryftpkeianllgfppefgfpekitv 288 d1qyca_ 308 ------------------------- 308 d1g55a_ 289 kqryrllgnslnvhvvaklikilye 313 FAST alignment (Normalized score: 4.50 Raw score:1396.00) d1qyca_ 1 GSRSRILLIGATGYIG---RHVAKASLDLGHP-----TFLLVRESTASSNSE-KAQLLES 51 ::::::::: ::::::::::: ::::: ::::::: d1g55a_ 1 -EPLRVLELY------SGVGGMHHALRESC--IPAQVVAAID----------VNTVANEV 41 d1qyca_ 52 FKA--SGANIVHGSID--DHASLVEAVK-NVDVVISTVGSLQIESQVNIIKAIKEVG-TV 105 ::: ::::::::::: ::::::: ::::::::: ::::::::::::::: :: d1g55a_ 42 YKYNFPHTQLLAKTIEGITLEEFDR---LSFDMILMSP----PNSFLHILDILPRLQKLP 94 d1qyca_ 106 KRFFPSEFGNDVDNVHAVEPAKSV--------FEVKAKVRRAIEAEGIPYTYVSSNCFAG 157 ::::: ::::::::::::::::::::::: d1g55a_ 95 KYILL-------------------ENVKGFEVSSTRDLLIQTIENAGFQYQEFLL----- 130 d1qyca_ 158 YFLRSLAQAG-------------------------------------------------- 167 d1g55a_ 131 ----------SPTSLGIPNSRLRYFLIAKLQSEPLPFQAPGQVLMEFPKLSVKMLKDFLE 180 d1qyca_ 168 --------------------------------------------LTAPPRDKVVILGDGN 183 ::::: d1g55a_ 181 DDTDVNQYLLPPKSLLRYALLLDIVQPTARRSVCFTKGYGSYIEGTGSV----------- 229 d1qyca_ 184 ARVVFVK----------------------------------------------------- 190 d1g55a_ 230 -------LQTAEDVQVENIYKSLTNLSQEEQITKLLILKLRYFTPKEIANLLGFPPEFGF 282 d1qyca_ 191 -----------------EEDIGTFTIKAVDDPRTLNKTLYLRLPANTLSLNELVALWEKK 233 :::::::::::: d1g55a_ 283 PEKITVKQRYRLLGNSLNVHVVAKLIKIL------------------------------- 311 d1qyca_ 234 IDKTLEKAYVPEEEVLKLIADTPFPANISIAISHSIFVKGDQTNFEIGPAGVEASQLYPD 293 d1g55a_ 312 ------------------------------------------------------------ 312 d1qyca_ 294 VKYTTVDEYLSNFV-- 307 d1g55a_ 312 --------------YE 313 TMalign alignment (TM-score: 0.43 Raw score:132.80) d1qyca_ 1 GSRSRILLIGATGYIGRHVAKASLD-L-GHPTFLLVRESTASSNSEKAQLLESFKASGAN 58 :::::::::::: ::::::::: : ::::::::::: : : :::::::::: ::: d1g55a_ 1 -EPLRVLELYSGV---GGMHHALRESCIPAQVVAAIDVN-T---V-ANEVYKYNFP-HTQ 50 d1qyca_ 59 IVHGSIDDHASLVEAV-KNVDVVISTVGSLQIESQVNIIKAIKEVGT-VKRFFPSEFGND 116 :::::::::: ::::: ::::::::::: ::::::::::::::: :::::::::::: d1g55a_ 51 LLAKTIEGIT-LEEFDRLSFDMILMSPP----NSFLHILDILPRLQKLPKYILLENVKGF 105 d1qyca_ 117 VDNVHAVEPAKSVFEVKAKVRRAIEAEGIPYTYVSSNCFA-----GYF------------ 159 : ::::::::::::::::::::::::::: ::: d1g55a_ 106 E------------VSSTRDLLIQTIENAGFQYQEFLLSPTSLGIPNSRLRYFLIAKLQSE 153 d1qyca_ 160 ---------------------------------------------------------LRS 162 ::: d1g55a_ 154 PLPFQAPGQVLMEFPKLSVKMLKDFLEDDTDVNQYLLPPKSLLRYALLLDIVQPTARRSV 213 d1qyca_ 163 LA--------QAGLTAPP------RD--K------------------------------V 176 :: :::::::: :: : d1g55a_ 214 CFTKGYGSYIEGTGSVLQTAEDVQVENIYKSLTNLSQEEQITKLLILKLRYFTPKEIAN- 272 d1qyca_ 177 VILGDGNARVVFVK------------------------EEDIGTFTIKAVDDPRTLNKTL 212 ::: :::::::::::::: d1g55a_ 273 -----------LLGFPPEFGFPEKITVKQRYRLLGNSLNVHVVAKLIKILYE-------- 313 d1qyca_ 213 YLRLPANTLSLNELVALWEKKIDKTLEKAYVPEEEVLKLIADTPFPANISIAISHSIFVK 272 d1g55a_ 314 ------------------------------------------------------------ 314 d1qyca_ 273 GDQTNFEIGPAGVEASQLYPDVKYTTVDEYLSNFV 307 d1g55a_ 314 ----------------------------------- 314 HHsearch alignment (Probability: 0.01 E-value:1.20) d1qyca_ 21 KASLDLG--HPTFLLVRESTASSNSEKAQLLESFKASGANIVHGSIDDHASLVEAVKNVD 78 ::::::: :::::::::: :::::::: ::::::::::::::::::::::::::: d1g55a_ 17 HALRESCIPAQVVAAIDVN-----TVANEVYK-YNFPHTQLLAKTIEGITLEEFDRLSFD 70 d1qyca_ 79 VVI 81 ::: d1g55a_ 71 MIL 73