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 | d1l7da1 | Nicotinamide nucleotide transhydrogenase dI component | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | α/β |
| Hit | d1ixka_ | Hypothetical methyltransferase PH1374 | S-adenosyl-L-methionine-dependent methyltransferases | S-adenosyl-L-methionine-dependent methyltransferases | α/β |
Query <-- 1.100 --> IntermediateDALI alignment (Z-score: 5.1 Raw score:345.40) query 1 ---------------GMEN----------KKMNLLLfsgdydkALASLIIANAAREMEIE 35 :::: ::::::: ::::::::::::::::: d1l7da1 1 agyravidgayefarAFPMmmtaagtvppARVLVFG------vGVAGLQAIATAKRLGAV 54 query 36 VTIFCafwgLLLLrdpekasqedkslyeqafssltpreaeelplskmnlggigkkmllem 95 ::::: :::: d1l7da1 55 VMATD----VRAA----------------------------------------------- 63 query 96 mkeekapklsdllSGARKKEVKFYAXQLsveimgfkkeelfpevqimDVKEYLKNALESD 155 ::::::::::::::: ::::::::::::: d1l7da1 64 -----------tkEQVESLGGKFITVKK-------------------QAEAVLKELVKTD 93 query 156 LQLFI------------------------------------------------------- 160 ::::: d1l7da1 94 IAITTalipgkpapvliteemvtkmkpgsviidlaveaggncplsepgkivvkhgvkivg 153 query 161 ------- 161 d1l7da1 154 htnvpsr 160 FAST alignment (Normalized score: 3.90 Raw score:624.80) query 1 GME----------------------------NKKMNLLLFSGDYDK---ALASLIIANAA 29 :::::: ::::::::::: d1l7da1 1 ---AGYRAVIDGAYEFARAFPMMMTAAGTVPPARVLV---------FGVGVAGLQAIATA 48 query 30 REMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNLGGIGK 89 :::::::::: d1l7da1 49 KRLGAVVMAT-------------------------------------------------- 58 query 90 KMLLEMMKEEKAPKLSD-----LLSGARKKEVKFYAXQLSVEIMGFKKEELFPEVQIM-- 142 :::::::::::::: d1l7da1 59 -----------------DVRAATKEQVESLGGKFIT----------------------VK 79 query 143 -DVKEYLKNALESDLQLFI----------------------------------------- 160 :::::::::::::::: d1l7da1 80 KQAEAVLKELVKTDIAI--TTALIPGKPAPVLITEEMVTKMKPGSVIIDLAVEAGGNCPL 137 query 161 ----------------------- 161 d1l7da1 138 SEPGKIVVKHGVKIVGHTNVPSR 160 TMalign alignment (TM-score: 0.23 Raw score:37.44) query 1 ------------------------------GMENKKMNLLLFSGDYDKALASLIIANAAR 30 d1l7da1 1 AGYRAVIDGAYEFARAFPMMMTAAGTVPPA------------------------------ 30 query 31 EMEIEVTIFCAFWGLLLLRDPEK--AS--QEDKSLYEQAFSSLTPREAE----------- 75 :: ::: ::::: :: :::::: : :: :: ::: d1l7da1 31 -----------RV-LVF-GVGVAGLQAIATAKRLG-A--VV--MA-TDVRAATKEQVESL 71 query 76 ---ELPL-SK-----------------MNLGGIGKKMLLEMMKEEKAPKLSDLLSGARKK 114 :::: :: ::::::: d1l7da1 72 GGKFITVKKQAEAVLKELVKTDIAITT--------------------------ALIPGKP 105 query 115 EVKFYA---X----QLSVEIMGFKKEELFPE---V----Q----IMDVKEY--------- 147 :::::: : :::: : : :::: : : ::::::: d1l7da1 106 APVLITEEMVTKMKPGSV----I-I--DLAVEAGGNCPLSEPGKIVVKHGVKIVGHTNVP 158 query 148 --LKNALESDLQLFI 160 d1l7da1 159 SR------------- 160 HHsearch alignment (Probability: 0.09 E-value:0.01) query 21 ASLIIANAAREMEIEVTIF 39 ::::::::::::::::::: d1l7da1 40 AGLQAIATAKRLGAVVMAT 58
Intermediate <-- 1.389 --> HitDALI alignment (Z-score: 5.9 Raw score:521.30) d1l7da1 1 ------------------------------------------------------------ 1 d1ixka_ 1 lspsmldkllrlgysklfadryfqlwgerairiaeamekplprcfrvntlkisvqdlvkr 60 d1l7da1 1 -------------------------------------------AGYRAVIDGAyefarAF 17 :::::::::: :: d1ixka_ 61 lnkkgfqfkrvpwakegfcltrepfsitstpefltgliyiqeaSSMYPPVALD-----PK 115 d1l7da1 18 PMmmtaagtvppARVLVFGVGvaGLQAIATAKRLG---AVVMATDVRA-ATKEQVESL-- 71 :: ::::::::: :::::::::::: :::::::::: ::::::::: d1ixka_ 116 PG----------EIVADMAAA--PGGKTSYLAQLMrndGVIYAFDVDEnRLRETRLNLsr 163 d1l7da1 72 ----GGKFITvkkqaeAVLKElVKTDIAITTAL------------iPGKP---APVLITe 112 :::::: ::::: ::::::::::: :::: :::::: d1ixka_ 164 lgvlNVILFH--ssslHIGELnVEFDKILLDAPctgsgtihrtmddIKFCqglQMRLLE- 220 d1l7da1 113 emVTKMKPGSVIIDLAVE--aggncPLSE--------------------pgkivvkhgvk 150 :::::::::::::::: :::: d1ixka_ 221 kgLEVLKPGGILVYSTCSlepeeneFVIQwaldnfdvellplkygepaltnpfgielsee 280 d1l7da1 151 ivgHTNV---------------psr 160 :::: d1ixka_ 281 iknARRLypdvhetsgffiakirkl 305 FAST alignment (Normalized score: 3.82 Raw score:844.00) d1l7da1 1 A----------------------------------------------------------- 1 d1ixka_ 1 -LSPSMLDKLLRLGYSKLFADRYFQLWGERAIRIAEAMEKPLPRCFRVNTLKISVQDLVK 59 d1l7da1 2 ---------------------------------------------GYRAVIDGAYEFARA 16 ::::::: d1ixka_ 60 RLNKKGFQFKRVPWAKEGFCLTREPFSITSTPEFLTGLIYIQEASSMYPPVA-------- 111 d1l7da1 17 FPMMMTAAGTVP-----PARVLVFGVGV---AGLQAIATAKR---LGAVVMATDVRAATK 65 :::::: ::::::::::: ::::::::::::::: d1ixka_ 112 ------------LDPKPGEIVAD-----MAAAPGGKTSYLAQLMRNDGVIYAFDVDENRL 154 d1l7da1 66 EQVESL--------GGKFITVKKQAE------AVLKELV---KTDIAITTALIPGKPAPV 108 ::::: :::: :::: :::::::: d1ixka_ 155 RETRL-NLSRLGVLNVIL--------FHSSSLHIGE---LNVEFDKILLD---------- 192 d1l7da1 109 LI--------------------------TEEMVTKMKPGSVIIDLAVEAGGNCPLSEPGK 142 :::::::::::::::: d1ixka_ 193 --APCTGSGTIHRTMDDIKFCQGLQMRLLEKGLEVLKPGGILVY---------------- 234 d1l7da1 143 IVVK--------------------HGVKIVGHTNVPSR---------------------- 160 :::::::: d1ixka_ 235 ----STCSLEPEENEFVIQWALDNFDVELLPL------KYGEPALTNPFGIELSEEIKNA 284 d1l7da1 161 --------------------- 161 d1ixka_ 285 RRLYPDVHETSGFFIAKIRKL 305 TMalign alignment (TM-score: 0.62 Raw score:98.97) d1l7da1 1 ------------------------------------------------------------ 1 d1ixka_ 1 LSPSMLDKLLRLGYSKLFADRYFQLWGERAIRIAEAMEKPLPRCFRVNTLKISVQDLVKR 60 d1l7da1 1 -------------------------------------------AGYRAVIDGAYEFARAF 17 :::::::::: :: d1ixka_ 61 LNKKGFQFKRVPWAKEGFCLTREPFSITSTPEFLTGLIYIQEASSMYPPVALD-----PK 115 d1l7da1 18 PMMMTAAGTVPPARVLVFGVGVAGLQAIATAKRLG---AVVMATDVRAATKEQVES-L-- 71 : :::::::::: :::::::::::: :::::::::::::::::: : d1ixka_ 116 P----------GEIVADMAAA--PGGKTSYLAQLMRNDGVIYAFDVDENRLRETRLNLSR 163 d1l7da1 72 --G--GKFITVKKQAEAVLKELVKTDIAITTAL-IP-----G---KP--A--PV-LITEE 113 : :::::: :::: :::::::::::::::: :: : :: : :: ::::: d1ixka_ 164 LGVLNVILFHS-SSLH-IGELNVEFDKILLDAPCTGSGTIHRTMDDIKFCQGLQMRLLEK 221 d1l7da1 114 MVTKMKPGSVIIDLA-VEA--GGNCPLSE-PGKIVV-KHGVKI----------------- 151 ::::::::::::::: ::: :: ::::: ::: :::::: d1ixka_ 222 GLEVLKPGGILVYSTCSLEPEEN-EFVIQW---ALDNFDVELLPLKYGEPALTNPFGIEL 277 d1l7da1 152 -----VGHTNVP--S-R----------- 160 ::::::: : : d1ixka_ 278 SEEIKNARRLYPDVHETSGFFIAKIRKL 305 HHsearch alignment (Probability: 0.92 E-value:0.00) d1l7da1 25 GTVPPARVLVFGVGVAGLQAIATAKRL--GAVVMATDVRAATKEQVESLGG-----KFIT 77 ::::::::::::::::::: ::::::: :::::::::::::::::::::: :::: d1ixka_ 113 DPKPGEIVADMAAAPGGKT-SYLAQLMRNDGVIYAFDVDENRLRETRLNLSRLGVLNVIL 171 d1l7da1 78 VKKQAEAVLKELVKTDIAITTALIP------GKPAPVL----------ITEEMVTKMKPG 121 ::::::::::::::::::::: :: ::::::: :::::::::::: d1ixka_ 172 FHSSSLHIGELNVEFDKILLD--APCTGSGTIHRTMDDIKFCQGLQMRLLEKGLEVLKPG 229 d1l7da1 122 SVIIDL 127 :::::: d1ixka_ 230 GILVYS 235