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 | d1t3ea3 | Gephyrin, domain 5 | 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 <-- 0.668 --> HitDALI alignment (Z-score: 3.7 Raw score:378.90) d1efpa1 1 -AVLLLG---eVTNG--------ALNRdATAKAVAAVKA-lGDVTVLCAgasakaaaeea 47 :::::: :::: :::: ::::::::::: :::::::: d1t3ea3 1 pVVAVMStgneLLNPeddllpgkIRDS-NRSTLLATIQEhgYPTINLGI----------- 48 d1efpa1 48 akiagvakvlvaedalyghRLAEPTAALIVGL-AGDYSHIAAPATTdakNVMPRVAA-LL 105 ::::::::::::: ::::::::::::: :::::::: :: d1t3ea3 49 ------------------vGDNPDDLLNALNEgISRADVIITSGGV---DYLKQVLDiDL 87 d1efpa1 106 DVMVlsdvsaildadtfeRPIYA----gnaiqvvksKDAKKVFTI------RTASFdaag 155 :::: ::::: ::::::::: ::::: d1t3ea3 88 HAQI-----------hfgRVFMKpglpttfatldidGVRKIIFALpgnpvsAVVTC---- 132 d1efpa1 156 eggtapvtetaaaadpglsswvadevae 183 d1t3ea3 133 ----------nlfvvpalrkmqgildpr 150 FAST alignment (Normalized score: 3.39 Raw score:561.70) d1efpa1 1 -AVLLLGEVTNGALN-----------------RDATAKAVAAVKAL-GDVTVLCAGASAK 41 ::::::: :::::::::::::: :::::: d1t3ea3 1 PVVAVMST-------GNELLNPEDDLLPGKIRDSNRSTLLATIQEHGYPTINL------- 46 d1efpa1 42 AAAEEAAKIAGVAKVLVAEDALYGH----RLAEPTAALIVGLAGDYSHIAAPA---TTDA 94 :::::::::::::::::::::: :::: d1t3ea3 47 -------------------------GIVGDNPDDLLNALNEGISRADVIIT--SGGVDYL 79 d1efpa1 95 KNVMPRVAALLDVMVLSDVSAILDADTFERPIYAGNAIQVVKSKD--------------- 139 ::::: ::::::: :::::: d1t3ea3 80 KQVLD---IDLHAQI------------HFGRVF------------MKPGLPTTFATLDID 112 d1efpa1 140 --AKKVFTIRTASFDAAGEGGTAPVTETAAAADPGLSSWVADEVAE-------------- 183 ::::::::: d1t3ea3 113 GVRKIIFALPG-----------------------------------NPVSAVVTCNLFVV 137 d1efpa1 184 ------------- 184 d1t3ea3 138 PALRKMQGILDPR 150 TMalign alignment (TM-score: 0.42 Raw score:76.10) d1efpa1 1 -AVLLLGEVTNGAL----------NRDATAKAVAAVK-ALGDVTVLCAGASAKAAAEEAA 48 ::::::::::::: ::::::::::::: ::::::::::: d1t3ea3 1 PVVAVMSTGNELLNPEDDLLPGKIRDSNRSTLLATIQEHGYPTINLGIV----------- 49 d1efpa1 49 KIAGVAKVLVAEDALYGHRLAEPTAALIVGL-AGDYSHIAAPATTDAKNVMPRVAA-LLD 106 :::: ::::::::: ::::::::::::: ::: ::::: ::: d1t3ea3 50 -----------------GDNP-DDLLNALNEGISRADVIITSGGV--DYL-KQVLDIDLH 88 d1efpa1 107 VMVLSDVSAILDADTFERPIYAGN--AI---QVVKSKD----AKKVFTIR--TAS-FD-- 152 :::::: ::: :: : ::::: :::::::: ::: :: d1t3ea3 89 AQIHFG------------RVF-MKPG-LPTT--FATLDIDGVRKIIFALPGNPVSAVVTC 132 d1efpa1 153 ------------------AAGEGGTAPVTETAAAADPGLSSWVADEVAE 183 d1t3ea3 133 NLFVVPALRKMQGILDPR------------------------------- 150 HHsearch alignment (Probability: 0.04 E-value:0.28) d1efpa1 69 AEPTAALIVGLAGDYSHIAAPA 90 :::::::::::::::::::::: d1t3ea3 53 PDDLLNALNEGISRADVIITSG 74