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 | d1q74a_ | 1D-myo-inosityl 2-acetamido-2-deoxy-alpha-D-glucopyranoside deacetylase MshD | LmbE-like | LmbE-like | 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 <-- 0.885 --> HitDALI alignment (Z-score: 4.3 Raw score:538.20) d1efpa1 1 ---AVLLLGEVtngALNR-DATAKAVAAVK-alGDVTVLCAGAS---------------- 39 :::::::: :::: ::::::::::: ::::::::::: d1q74a_ 1 etpRLLFVHAH---PDDEsLSNGATIAHYTsrgAQVHVVTCTLGeegevigdrwaqltad 57 d1efpa1 40 ---------aKAAAEEAAKIaGVAKVLV-aEDALYGH------------rlAEPTAALIV 77 :::::::::: ::::::: ::::::: ::::::::: d1q74a_ 58 hadqlggyriGELTAALRAL-GVSAPIYlgGAGRWRDsgmarsqrrfvdadPRQTVGALV 116 d1efpa1 78 GLAG--DYSHIAAPA---------TTDAKNVMPRVAALLDvmvlsdvsaildadtferpi 126 :::: ::::::::: :::::::::::::::: d1q74a_ 117 AIIRelRPHVVVTYDpnggyghpdHVHTHTVTTAAVAAAG-------------------- 156 d1efpa1 127 yagnaiqvvkskDAKKVFTIR--------------------------------------- 147 ::::::::: d1q74a_ 157 -----vhpgdpwTVPKFYWTVlglsalisgaralvpddlrpewvlpradeiafgysddgi 211 d1efpa1 148 -tASFD-----aAGEGgtapvtetaaaadpglsswvadEVAE------------------ 183 :::: :::: :::: d1q74a_ 212 daVVEAdeqaraAKVA--alaahatqvvvgptgraaalSNNLalpiladehyvlaggsag 269 d1efpa1 184 ------------------ 184 d1q74a_ 270 ardergwetdllaglgft 287 FAST alignment (Normalized score: 3.95 Raw score:904.50) d1efpa1 1 ---AVLLLGEVTNGAL-----NRDATAKAVAAVKAL--GDVTVLCAGA------------ 38 :::::: :::::::::::::: ::::::::: d1q74a_ 1 ETPRLLFVH-------AHPDDESLSNGATIAHYTS-RGAQVHVVTCT-LGEEGEVIGDRW 51 d1efpa1 39 --------------SAKAAAEEAAKIAGVAKVLVAE---DALYG-------------HRL 68 ::::::::::: :::::::: :::: ::: d1q74a_ 52 AQLTADHADQLGGYRIGELTAALRA-LGVSAPIY--LGGAGRW-RDSGMARSQRRFVDAD 107 d1efpa1 69 AEPTAALIVGLAG--DYSHIAAPA----------TTDAKNVMPRVAALL-------DVMV 109 ::::::::::::: :::::::: :::::::::::::: :::: d1q74a_ 108 PRQTVGALVAIIRELRPHVVVTY-DPNGGYGHPDHVHTHTVTTAAVAA-AGVHPGDPWTV 165 d1efpa1 110 LSDVSAILDADTFERPIYAGNAIQVVKSKDAKKVFTIRTASFDAAGEGGTAPVTETAAAA 169 ::::: d1q74a_ 166 -------------------------------PKFYW------------------------ 170 d1efpa1 170 DPGLSSWVADEVAE---------------------------------------------- 183 d1q74a_ 171 --------------TVLGLSALISGARALVPDDLRPEWVLPRADEIAFGYSDDGIDAVVE 216 d1efpa1 184 ------------------------------------------------------------ 184 d1q74a_ 217 ADEQARAAKVAALAAHATQVVVGPTGRAAALSNNLALPILADEHYVLAGGSAGARDERGW 276 d1efpa1 184 ----------- 184 d1q74a_ 277 ETDLLAGLGFT 287 TMalign alignment (TM-score: 0.51 Raw score:93.16) d1efpa1 1 ---AVLLLGEVTNGALNRDATAK-AVAAVKAL----GDVTVLCAGA-S------------ 39 :::::::: : : :::: :::::::: :::::::::: : d1q74a_ 1 ETPRLLFVHAH----P-D-DESLSNGATIAHYTSRGAQVHVVTCTLGEEGEVIGDRWAQL 54 d1efpa1 40 --------AKAAAEEAAKI--AG-VAKVLV--A-EDA--------LYGHR-LAE-PTAAL 75 ::::::::::: :: :::::: : ::: ::::: ::: ::::: d1q74a_ 55 TADHADQLGGYRIGELTAALRALGVSAPIYLGGAGRWRDSGMARSQRRFVDADPRQTVGA 114 d1efpa1 76 IVGLA-GDYS-HIAAPA--T-------TDAKNVMPRVAALLD--------V-MVLSDVSA 115 ::::: :::: :::::: : ::::::::::::::: : :::::::: d1q74a_ 115 LVAIIRELRPHVVVTYDPNGGYGHPDHVHTHTVTTAAVAAAGVHPGDPWTVPKFYWTVLG 174 d1efpa1 116 -------------------------------ILDADTFERPIYAGNAIQVV-KSKDAKKV 143 :::::::: d1q74a_ 175 LSALISGARALVPDDLRPEWVLPRADEIAFG------------YSDDGIDAV-------- 214 d1efpa1 144 FTI-----RTASFD--AA-G-EGG------------------------------------ 158 : :: :: : ::: d1q74a_ 215 --VEADEQ----ARAAKVAALAAHATQVVVGPTGRAAALSNNLALPILADEHYVLAGGSA 268 d1efpa1 159 -------------------TAPVTETAAAADPGLSSWVADEVAE 183 d1q74a_ 269 GARDERGWETDLLAGLGFT------------------------- 287 HHsearch alignment (Probability: 0.46 E-value:0.01) d1efpa1 2 VLLLGEVTNGALNRDATAKAVAAVKALGDVTVLCAGASAK-------------------- 41 ::::::::::::: :::::::::::::::::::::::::: d1q74a_ 5 LLFVHAHPDDESL-SNGATIAHYTSRGAQVHVVTCTLGEEGEVIGDRWAQLTADHADQLG 63 d1efpa1 42 ----AAAEEAAKIAGVAKVLVAEDA-------------LYGHRLAEPTAALIVGLAG--D 82 ::::::::::::::::::::: ::::::::::::::::::: : d1q74a_ 64 GYRIGELTAALRALGVSAPIYLGGAGRWRDSGMARSQRRFVDADPRQTVGALVAIIRELR 123 d1efpa1 83 YSHIAA 88 :::::: d1q74a_ 124 PHVVVT 129