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 | d1k92a1 | Argininosuccinate synthetase, N-terminal domain | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1v93a_ | Methylenetetrahydrofolate reductase | FAD-linked oxidoreductase | TIM beta/alpha-barrel | α/β |
Query <-- 0.968 --> IntermediateDALI alignment (Z-score: 11.2 Raw score:922.90) query 1 dadeevysalvvGLRAyvakngfRSVLIGLSGGIDSALVAAIACDALGaqNVYGVSMPSK 60 :::: ::::::::::::::::::::::::: :::::::::: d1k92a1 1 -------ttilkHLPV------gQRIGIAFSGGLDTSAALLWMRQKGA--VPYAYTANLG 45 query 61 Y-SSDHsKGDAAELARRTGL-NFRTVSIEPMFDAYMASLG-----------ltGLAEENL 107 : :::: ::::::::::::: ::::::::::::::::::: ::::::: d1k92a1 46 QpDEED-YDAIPRRAMEYGAeNARLIDCRKQLVAEGIAAIqcgafhnttggltYFNTTPL 104 query 108 QSRLRGTTLMAISNQEGH-IVLAPGNKselavGYST-lyGDSV--------gAYGPIKD- 156 :::::::::::::::::: :::::::: :::: :::: ::::::: d1k92a1 105 GRAVTGTMLVAAMKEDGVnIWGDGSTY-----KGNDierFYRYglltnaelqIYKPWLDt 159 query 157 --vyktSIFRLAEWRNRAAAergqtppipeasITKPDYpvldailelyvdrdtgadaiva 214 :::::::::::::: :::::: d1k92a1 160 dfidelGGRHEMSEFMIACG---------fdyKMSVEK---------------------- 188 query 215 agydrelvvktlrmvdtaeykrrqyppgtkisakgfgkdrrlpitnrwregh 266 d1k92a1 189 ---------------------------------------------------- 189 FAST alignment (Normalized score: 6.79 Raw score:1519.00) query 1 DADEEVYSALVVGLRAYVAKNGF----------RSVLIGLSGGIDSALVAAIACDALGAQ 50 :::::::::::::::::::::: d1k92a1 1 -----------------------TTILKHLPVGQRIGIAFSGGLDTSAALLWMRQ----- 32 query 51 ---NVYGVSMPSKYSSDH------SKGDAAELARRTG-LNFRTVSIEPMFDAYMA---SL 97 ::::::::: ::::::::::::: ::::::::::::::::: :: d1k92a1 33 KGAVPYAYTANL------GQPDEEDYDAIPRRAMEYGAENARLIDCRKQLVAEGIAAIQC 86 query 98 GLTG----------LAEENLQSRLRGTTLMAISNQEG-HIVLAPGNKSELAVGYSTLY-- 144 :: ::::::::::::::::::::::: :::::::::: d1k92a1 87 GA--FHNTTGGLTYFNTTPLGRAVTGTMLVAAMKEDGVNIWGDGSTYK----------GN 134 query 145 ----GDSVG---------AYGPIKD----------VYKTSIFRLAEWRNRAAAERGQTPP 181 :::: :::: :::::::::::: d1k92a1 135 DIERFYRY-GLLTNAELQIYKP---WLDTDFIDELGGRHEMSEFMIA------------- 177 query 182 IPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPP 241 d1k92a1 178 ------------------------------------------------------------ 178 query 242 GTKISAKGFGKDRRLPITNRWREGH----------- 266 d1k92a1 178 -------------------------CGFDYKMSVEK 188 TMalign alignment (TM-score: 0.49 Raw score:130.18) query 1 ----DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVS 56 ::: :: :::::::::::::::::::::::::: :::::: d1k92a1 1 TTIL-----------KHL---PV---GQRIGIAFSGGLDTSAALLWMRQKGA--VPYAYT 41 query 57 MPSKYSSDHSKGDAAELARRTGL-NFRTVSIEPMFDAYMASLG---LT--------GLAE 104 ::::::::::::::::::::::: ::::::::::::::::::: :: :::: d1k92a1 42 ANLGQPDEEDYDAIPRRAMEYGAENARLIDCRKQLVAEGIAAIQCGAFHNTTGGLTYFNT 101 query 105 ENLQSRLRGTTLMAISNQEGH-IVLAPGNKSELAVGYSTL-YGDS--V-------GAYGP 153 ::::::::::::::::::::: :::::: :: ::::: ::: : ::::: d1k92a1 102 TPLGRAVTGTMLVAAMKEDGVNIWGDGS---TY--KGNDIE-RFYRYGLLTNAELQIYKP 155 query 154 IKD---VY-KTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGA 209 ::: :: ::::::::::::::: : ::: ::: :: d1k92a1 156 WLDTDFIDE-LGGRHEMSEFMIACG-----F-DYK--MSV-EK----------------- 188 query 210 DAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 266 d1k92a1 189 --------------------------------------------------------- 189 HHsearch alignment (Probability: 0.97 E-value:0.00) query 24 RSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHSKGDAAELARRTGL-NFR 82 ::::::::::::::::::::::: ::::::::::::::::::::::::::::::: ::: d1k92a1 11 QRIGIAFSGGLDTSAALLWMRQK--GAVPYAYTANLGQPDEEDYDAIPRRAMEYGAENAR 68 query 83 TVSIEPMFDAYMASLGLTGLAEENLQSR-----------LRGTTLMAISNQEGHIVLAPG 131 :::::::::::::::::::::::::::: ::::::::::::::::::::: d1k92a1 69 LIDCRKQLVAEGIAAIQCGAFHNTTGGLTYFNTTPLGRAVTGTMLVAAMKEDGVNIWGDG 128 query 132 ------NKSELAVGYSTLYGDSVGAYGPIKDVY-------KTSIFRLAEWRNRAAAERGQ 178 :::::::::::::::::: :::::::: :::::::::::::::::::: d1k92a1 129 STYKGNDIERFYRYGLLTNAELQI-YKPWLDTDFIDELGGRHEMSEFMIACGFDYKMSVE 187 query 179 T 179 : d1k92a1 188 K 188
Intermediate <-- 0.917 --> HitDALI alignment (Z-score: 2.0 Raw score:347.60) d1k92a1 1 ----------------------------ttilKHLP-----vgQRIGIAFS----gGLDT 23 :::: :::::::: :::: d1v93a_ 1 mkirdllkarrgplfsfeffppkdpegeealfRTLEelkafrpAFVSITYGamgstRERS 60 d1k92a1 24 SAALLWMRQKGAVPYAYTANLGQpDEEDYDAIPRRAMEYGAENARLIDCRkQLVAEGIAA 83 ::::::::::::::::::::::: :::::::::::::::::::::::::: ::::::::: d1v93a_ 61 VAWAQRIQSLGLNPLAHLTVAGQ-SRKEVAEVLHRFVESGVENLLALRGD-PPRGERVFR 118 d1k92a1 84 ---------------------iqcgafhnttggltyfnttplgravtgtmlvaamKEDGv 122 :::: d1v93a_ 119 phpegfryaaelvalirerygdrvsvggaaypeghpesesleadlrhfkakveagLDFA- 177 d1k92a1 123 niwgdgstykgndierfyrYGLL-----------------------TNAE---------- 149 :::: :::: d1v93a_ 178 ------------------iTQLFfnnahyfgflerarragigipilPGIMpvtsyrqlrr 219 d1k92a1 150 --------------------------------------------------LQIYKPWLdt 159 :::::::: d1v93a_ 220 ftevcgasipgpllaklerhqddpkavleigvehavrqvaelleagvegvHFYTLNKS-- 277 d1k92a1 160 dfidelggrhemsefmiacgfdykmsvek 188 d1v93a_ 278 --------------patrmvlerlglrpa 292 FAST alignment (Normalized score: 2.41 Raw score:565.10) d1k92a1 1 TTILKHLPVGQRIGIAFSG----------------------------------------- 19 d1v93a_ 1 -------------------MKIRDLLKARRGPLFSFEFFPPKDPEGEEALFRTLEELKAF 41 d1k92a1 20 ---------------GLDTSAALLWMRQKGAVPYAYTANLGQPD----EEDYDAIPRRAM 60 :::::::::::::::::::::::: :::::::::::: d1v93a_ 42 RPAFVSITYGAMGSTRERSVAWAQRIQSLGLNPLAHLTV-----AGQSRKEVAEVLHRFV 96 d1k92a1 61 EYGAENARLIDCRKQLVAEGIAAIQCGAFHNTTGGLTYFN-------------------- 100 :::::::::: d1v93a_ 97 ESGVENLLAL------------------------------RGDPPRGERVFRPHPEGFRY 126 d1k92a1 101 -------------------------------TTPLGRAVTGTMLVAAMKEDGVNIWGDGS 129 ::::::: ::::::: ::::::: d1v93a_ 127 AAELVALIRERYGDRVSVGGAAYPEGHPESESLEADLR-HFKAKVE----AGLDFAI--- 178 d1k92a1 130 TYK------GNDIERFYRYGLLTN--AELQIYKPWLDTDFIDELGGRHEMSEFMIACGFD 181 ::::::::::::: ::::::: d1v93a_ 179 ---TQLFFNNAHYFGFLERARR--AGIGIPILP--------------------------- 206 d1k92a1 182 YKMSVEK----------------------------------------------------- 188 d1v93a_ 207 -------GIMPVTSYRQLRRFTEVCGASIPGPLLAKLERHQDDPKAVLEIGVEHAVRQVA 259 d1k92a1 189 --------------------------------- 189 d1v93a_ 260 ELLEAGVEGVHFYTLNKSPATRMVLERLGLRPA 292 TMalign alignment (TM-score: 0.42 Raw score:78.28) d1k92a1 1 -----------TTILKHLPVGQRIGIAFSG-----GLDTSAALLWMRQKGAVPYAYTANL 44 ::::::::::: ::::::::::::::::::::::::: d1v93a_ 1 MKIRDLLKARR--------GPLFSFEFFPPKDPEGEEALFRTLEELKAFRPAFVSITYGA 52 d1k92a1 45 GQPDEEDY-DAIPRRAMEYGAENARLIDCRK-------------------------QLVA 78 ::: :::: :::::::::::::::::::::: :::: d1v93a_ 53 MGS-TRERSVAWAQRIQSLGLNPLAHLTVAGQSRKEVAEVLHRFVESGVENLLALRGDPP 111 d1k92a1 79 EGIAAI---------------------------QCGAFHNTTGGLTYFNTTPLGRAVTGT 111 :::::: d1v93a_ 112 RGERVFRPHPEGFRYAAELVALIRERYGDRVSV--------------------------- 144 d1k92a1 112 MLVA---------------------------AMKE----------------------DGV 122 :::: :::: ::: d1v93a_ 145 GGAAYPEGHPESESLEADLRHFKAKVEAGLDFAITQLFFNNAHYFGFLERARRAGIGIPI 204 d1k92a1 123 NIWGDGSTYKGNDIERFYRYGLL---------------------------------TNA- 148 ::::::::::::::::::::::: : d1v93a_ 205 LPGIMPVTSYRQLRRFTEVCGASIPGPLLAKLERHQDDPKAVLEIGVEHAVRQVAE--LL 262 d1k92a1 149 ---E--LQIYK---PWL--DTDF-------IDELGGRHEMSEFMIACGFDYKMSVEK 188 : ::::: ::: :::: d1v93a_ 263 EAGVEGVHFYTLNKSPATRMVLERLGLRPA--------------------------- 292 HHsearch alignment (Probability: 0.92 E-value:0.00) d1k92a1 21 LDTSAALLWMRQKGAVPYAYTANLGQPDEEDYDAIPRRAMEYGAENARLIDCRKQLVAEG 80 :::::::::::::::::: ::::::::::::::::::::::::::::::::::::::::: d1v93a_ 58 ERSVAWAQRIQSLGLNPL-AHLTVAGQSRKEVAEVLHRFVESGVENLLALRGDPPRGERV 116 d1k92a1 81 ----------IAAIQCGAFHN-----TTGGLTYF--NTTPLGRAVTGTMLVAAMKEDGVN 123 ::::::::::: :::::::: ::::::::::::::: :::::::: d1v93a_ 117 FRPHPEGFRYAAELVALIRERYGDRVSVGGAAYPEGHPESESLEADLRHFK-AKVEAGLD 175 d1k92a1 124 IWGDGSTYKGNDIERFYRYGLLTNAELQIYKPWLDTDFIDELGGRHEMSEFMIACGFDYK 183 :::::::::::::::::::::::::::::::::: :::::::::::::::::::: d1v93a_ 176 FAITQLFFNNAHYFGFLERARRAGIGIPILPGIM------PVTSYRQLRRFTEVCGASIP 229 d1k92a1 184 MS 185 :: d1v93a_ 230 GP 231