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 | d1o97c_ | Small, beta subunit of electron transfer flavoprotein ETFP | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | 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 <-- 1.347 --> HitDALI alignment (Z-score: 4.4 Raw score:439.70) d1l7da1 1 agyravidgayefarafpmmmtaagtvppARVLVFG------------------------ 36 ::::::: d1o97c_ 1 -----------------------------MKILVAVkqtaaleedfeiredgmdvdedfm 31 d1l7da1 37 ------vGVAGLQAIATAKRL---GAVVMATDV----RAATKEQVESLGG-KFITVK--- 79 :::::::::::::: ::::::::: ::::::::::::: :::::: d1o97c_ 32 mydlnewDDFSLEEAMKIKESsdtDVEVVVVSVgpdrVDESLRKCLAKGAdRAVRVWdda 91 d1l7da1 80 -----------kqAEAVLKElvKTDIAITTAL-IPGKPAPVL--ITEEMVT--------- 116 ::::::: :::::::::: ::::::::: ::::::: d1o97c_ 92 aegsdaivvgrilTEVIKKE--APDMVFAGVQsSDQAYASTGisVASYLNWphaavvadl 149 d1l7da1 117 ----------------------kmkPGSVIIDLA-------------------------- 128 ::::::::: d1o97c_ 150 qykpgdnkavirreleggmlqeveiNCPAVLTIQlginkpryaspieevsladiglsand 209 d1l7da1 129 ----------veaggncplsepgkivvkhgvkivghtnvpsr 160 d1o97c_ 210 vgaaqsmsrvrrmyipekgratmiegtiseqaakiiqiinef 251 FAST alignment (Normalized score: 3.58 Raw score:716.50) d1l7da1 1 AGYRAVIDGAYEFARAFPMMMTAAGTVPPARVLVFG------------------------ 36 ::::: d1o97c_ 1 -----------------------------MKILV--AVKQTAALEEDFEIREDGMDVDED 29 d1l7da1 37 -----VGVAGLQAIATAKR------LGAVVMATDV----RAATKEQVESLG-GKFITVK- 79 :::::::::::::: :::::::::: :::::::::::: ::::: d1o97c_ 30 FMMYDLNEWDDFSLEEAMKIKESSDTDVEVVVVSVGPDRVDESLRKCLAKGADRAVR--V 87 d1l7da1 80 -----------KQAEAVLKELV--KTDIAITTALIPGKPAPVLI------------TEEM 114 ::::::::::: ::::::: :::: d1o97c_ 88 WDDAAEGSDAIVVGRILTEVIKKEAPDMVFA-------------GVQSSDQAYASTGISV 134 d1l7da1 115 VTKMK-------------------------------------PGSVIIDLAVEAGGNCPL 137 ::: ::::::: d1o97c_ 135 ASY--LNWPHAAVVADLQYKPGDNKAVIRRELEGGMLQEVEINCPAVLT----------- 181 d1l7da1 138 SEPGKIVVKHGVKIVGHTNVPSR------------------------------------- 160 d1o97c_ 182 -----------------------IQLGINKPRYASPIEEVSLADIGLSANDVGAAQSMSR 218 d1l7da1 161 --------------------------------- 161 d1o97c_ 219 VRRMYIPEKGRATMIEGTISEQAAKIIQIINEF 251 TMalign alignment (TM-score: 0.42 Raw score:66.66) d1l7da1 1 ---------------------------------AGYRAVIDGAYEF--ARA--FPMMMTA 23 ::::::::::::: ::: d1o97c_ 1 MKILVAVKQTAALEEDFEIREDGMDVDEDFMMYDLNEWDDFSLEEAMKIKESS------- 53 d1l7da1 24 AGTVPPARVLVFGVGVAGLQAIATAKR-LGAVVMATDVRAAT--------KEQVESLGGK 74 : ::::::::: ::::::::::::::: :::::::::::::: d1o97c_ 54 D-TDVEVVVVS-VGPDRVDESLRKCLAKGADRAVRVWDDAAEGSDAIVVG---------- 101 d1l7da1 75 FITVKKQAEAVLKELVKTDIAIT-TALIPGKPAPV--LITEEMVTKMKPGSVIIDLAVEA 131 :::::::::::::::::: ::::: ::::: ::::::::: d1o97c_ 102 -----RILTEVIKKEAPDMVFAGVQSSDQ-AYASTGISVASYLNWP-------------- 141 d1l7da1 132 GGNCPLSEPGKIV----------V-------------KHG-V-KIVGHT------NVPSR 160 :::: :::: : ::: : :::::: : d1o97c_ 142 ----HAAV-VADLQYKPGDNKAVIRRELEGGMLQEVEINCPAVLTIQLGINKPRY----A 192 d1l7da1 161 ----------------------------------------------------------- 161 d1o97c_ 193 SPIEEVSLADIGLSANDVGAAQSMSRVRRMYIPEKGRATMIEGTISEQAAKIIQIINEF 251 HHsearch alignment (Probability: 0.19 E-value:0.02) d1l7da1 29 PARVLVFGVGVAG-LQAIATAKRLGAVVMATDVRAATKEQVESLGGKFITVKKQAEAVLK 87 ::::::::::::: ::::::::::::::::::::: :::: :::::::::::: d1o97c_ 56 DVEVVVVSVGPDRVDESLRKCLAKGADRAVRVWDD-AAEG--------SDAIVVGRILTE 106 d1l7da1 88 ELVK--TDIAITTALIPGKP 105 :::: :::::::::::::: d1o97c_ 107 VIKKEAPDMVFAGVQSSDQA 126