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: T0542_Ad2+3.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1efpa1 | Large, alpha subunit of electron transfer flavoprotein ETFP, N-terminal domain | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1uz5a3 | MoeA, central domain | Molybdenum cofactor biosynthesis proteins | Molybdenum cofactor biosynthesis proteins | α/β |
Query <-- 0.729 --> IntermediateDALI alignment (Z-score: 4.7 Raw score:461.40) query 1 dadeevysalvvglrayvakngfrSVLIGLS------gGIDSALVAAIACdALGAqnVYG 54 ::::::: :::::::::::: :::: ::: d1efpa1 1 ------------------------AVLLLGEvtngalnRDATAKAVAAVK-ALGD--VTV 33 query 55 VSMPSKyssDHSKGDAAELarRTGLNFRTVSiEPMFdaymaslgltglaeenlQSRL--R 112 :::::: :::::::::: :::::::::: :::: :::: : d1efpa1 34 LCAGAS--aKAAAEEAAKI--AGVAKVLVAE-DALY----------------gHRLAepT 72 query 113 GTTLMAISnQEGHIVLAPGnkselavgysTLYGDSVG----------------------- 149 :::::::: :::::::::: :::::::: d1efpa1 73 AALIVGLA-GDYSHIAAPA----------TTDAKNVMprvaalldvmvlsdvsaildadt 121 query 150 ---------------------AYGPIKDVyktsifrlaewrnraaaergqtpPIPEasit 188 :::::::: :::: d1efpa1 122 ferpiyagnaiqvvkskdakkVFTIRTAS--------------------fdaAGEG---- 157 query 189 kpdypvldailelyvdrdtgadaivaagydrelvvktlrmvdtaeykrrqyppgtkisak 248 d1efpa1 158 ----------------------------------------------------gtapvtet 165 query 249 gfgkdrrlpitnrwregh 266 d1efpa1 166 aaaadpglsswvadevae 183 FAST alignment (Normalized score: 2.23 Raw score:493.20) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGID--------SALVAAIACDALGAQ-- 50 ::::: ::::::::::: d1efpa1 1 ------------------------AVLLL------GEVTNGALNRDATAKAVAA----VK 26 query 51 ---NVYGVSMPSKYSSDH--SKGDAAELARR-TGL-NFRTVSIEPMFDAYMASLGLTGLA 103 ::::::: ::::::::::: ::: ::::::: d1efpa1 27 ALGDVTVLCA--------GASAKAAAEEAAKIAGVAKVLVAED----------------- 61 query 104 EENL------QSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLYGDSVGAYGPIKDV 157 :::::::::::::::: ::::: d1efpa1 62 ----ALYGHRLAEPTAALIVGLAGDY-SHIAA---------------------------- 88 query 158 YKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGY 217 d1efpa1 89 ------------------------------------------------------------ 89 query 218 DRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH----------- 266 d1efpa1 89 -------------------------------------------------PATTDAKNVMP 99 query 267 ------------------------------------------------------------ 267 d1efpa1 100 RVAALLDVMVLSDVSAILDADTFERPIYAGNAIQVVKSKDAKKVFTIRTASFDAAGEGGT 159 query 267 ------------------------ 267 d1efpa1 160 APVTETAAAADPGLSSWVADEVAE 183 TMalign alignment (TM-score: 0.34 Raw score:89.61) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGL-S----GG-IDSALVAAIACDALGAQNVYG 54 :::::: : :: ::::::::::: ::: : ::: d1efpa1 1 ------------------------AVLLLGEVTNGALNRDATAKAVAAVK-ALG-D-VTV 33 query 55 VSMPSKYSSDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEENLQSR-LRG 113 :::::: ::: :::::::: :::::::::::: :: :: ::: ::: d1efpa1 34 LCAGAS-AKA-AAEEAAKI--AGVAKVLVAEDA-LY-------------GH--RLAEPTA 73 query 114 TTLMAISNQEGHIVLAPGNKSELAVGYSTLYGDSVG------------------------ 149 ::::::: ::::::::::: :: ::::: d1efpa1 74 ALIVGLA-GDYSHIAAPAT---------TD-AKNVMPRVAALLDVMVLSDVSAILDADTF 122 query 150 --------------------AYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPE----- 184 :::::: : :: :: : ::: d1efpa1 123 ERPIYAGNAIQVVKSKDAKKVFTIRT-A---SF--DA---A-----------GEGGTAPV 162 query 185 ---------------------ASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVV 223 d1efpa1 163 TETAAAADPGLSSWVADEVAE--------------------------------------- 183 query 224 KTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 266 d1efpa1 184 ------------------------------------------- 184 HHsearch alignment (Probability: 0.02 E-value:0.18) query 27 LIGLSGGIDSALVAAIACDALGA--QNVYGVSMPSKYSSDHSKGDAAELARRTGLNF 81 ::::::::::::::::::::::: ::::::::: :::::::::::::::::::: d1efpa1 56 VLVAEDALYGHRLAEPTAALIVGLAGDYSHIAAP---ATTDAKNVMPRVAALLDVMV 109
Intermediate <-- 0.889 --> HitDALI alignment (Z-score: 3.9 Raw score:332.50) d1efpa1 1 -AVLLLGeVTNG-----------ALNRdATAKAVAAVKA-lGDVTV-LCAGasakaaaee 46 :::::: :::: :::: ::::::::::: ::::: :::: d1uz5a3 1 pKVAVIStGNEIvppgnelkpgqIYDI-NGRALCDAINElgGEGIFmGVAR--------- 50 d1efpa1 47 aakiagvakvlvaedalyghRLAEPTAALIVGLAGDYSHIAAPATTdakNVMPRVAALLD 106 :::::::::::::::::::::::::: ::::::::::: d1uz5a3 51 --------------------DDKESLKALIEKAVNVGDVVVISGGA---DLTASVIEELG 87 d1efpa1 107 VMvlsdvsaildadtfeRPIYAgnaiqvvkskDAKKVFTIRtasfdaageggtapvteta 166 :: ::::: ::::::::: d1uz5a3 88 EV------------kvhGIAIQpgkptiigviKGKPVFGLP---------gyptscltnf 126 d1efpa1 167 aaadpglsswvadevae 183 d1uz5a3 127 tllvvplllralgregk 143 FAST alignment (Normalized score: 3.42 Raw score:554.10) d1efpa1 1 -AVLLLGEVTNGALN-----------------RDATAKAVAAVKAL-GDVTVLCAGASAK 41 ::::::: :::::::::::::: :::::: d1uz5a3 1 PKVAVIST-------GNEIVPPGNELKPGQIYDINGRALCDAINELGGEGIFM------- 46 d1efpa1 42 AAAEEAAKIAGVAKVLVAEDALYGH----RLAEPTAALIVGLAGDYSHIAAPATTDA--- 94 :::::::::::::::::::::: d1uz5a3 47 -------------------------GVARDDKESLKALIEKAVNVGDVVVI------SGG 75 d1efpa1 95 KNVMPRVAALLDVMVLSDVSAILDADTFE--RPIYAGNAIQVVKSK------------DA 140 :::::::::: :::: :::: :: d1uz5a3 76 ADLTASVIEE-LGEV--------------KVHGIA-----------IQPGKPTIIGVIKG 109 d1efpa1 141 KKVFTIRTASFDAAGEGGTAPVTETAAAADPGLSSWVADEVAE----------------- 183 :::::::: d1uz5a3 110 KPVFGLPG-----------------------------------YPTSCLTNFTLLVVPLL 134 d1efpa1 184 --------- 184 d1uz5a3 135 LRALGREGK 143 TMalign alignment (TM-score: 0.41 Raw score:74.83) d1efpa1 1 -AVLLLGEVTNGAL----------NRDATAKAVAAVK-ALGDVTVLCAGASAKAAAEEAA 48 ::::::::::::: ::::::::::::: ::::::::::: d1uz5a3 1 PKVAVISTGNEIVPPGNELKPGQIYDINGRALCDAINELGGEGIFMGVA----------- 49 d1efpa1 49 KIAGVAKVLVAEDALYGHRLAEPTAALIVGLAGDYSHIAAPATTDAKNVMPRVAALLDVM 108 ::::::::::::::::::::::::::: ::: :::::::::: d1uz5a3 50 -----------------RDDKESLKALIEKAVNVGDVVVISGGA--DLT-ASVIEELGEV 89 d1efpa1 109 VLSDVSAILDADTFERPIYAGN-AI---QVVKSKD-AKKVFTIR--TAS-FD-------- 152 :::: :: ::: : :::: :::::::: ::: :: d1uz5a3 90 KVHG------------IA-IQPG-KPTI---IGVIKGKPVFGLPGYPTSCLTNFTLLVVP 132 d1efpa1 153 -----------AAGEGGTAPVTETAAAADPGLSSWVADEVAE 183 d1uz5a3 133 LLLRALGREGK------------------------------- 143 HHsearch alignment (Probability: 0.06 E-value:0.16) d1efpa1 37 GASAKAAAEEAAKIAGVAKVL--VAEDALYGHRLAEPTAALIVGLAGDYSHIAAPATTDA 94 ::::::::::: ::::::::: :::: :::::::::::::::::::::: :: d1uz5a3 26 DINGRALCDAI-NELGGEGIFMGVARD------DKESLKALIEKAVNVGDVVVIS---GG 75 d1efpa1 95 KNVMPRVAALLDVMVLSD 112 :::::::::::::::::: d1uz5a3 76 ADLTASVIEELGEVKVHG 93