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: T542_A.pdb A
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1tx2a_ | Dihydropteroate synthetase | Dihydropteroate synthetase-like | TIM beta/alpha-barrel | α/β |
| Hit | d1h7wa2 | Dihydropyrimidine dehydrogenase, domain 4 | FMN-linked oxidoreductases | TIM beta/alpha-barrel | α/β |
Query <-- 0.687 --> IntermediateDALI alignment (Z-score: 2.9 Raw score:483.20) query 1 ---------------SLQLRLALN----qidstvgdiagnAEAILRWTRHSAEQGAHLVA 41 ::::::::: :::::::::::::::::::: d1tx2a_ 1 kwdydlrcgeytlnlNEKTLIMGIlnvtpdsfsdggsyneVDAAVRHAKEMRDEGAHIID 60 query 42 fpemALTGypvedlalrSSFVEASRTALRELAARLAeEGFGeLPVLVGYldrsesaqpky 101 :::: ::::::::::::::::::: :::: ::::::: d1tx2a_ 61 ---iGGES-------faKVSVEEEIKRVVPMIQAVS-KEVK-LPISIDT----------- 97 query 102 gqpagaprnaaavlhrGRVALT-FAKHhlpnygvfdefryfvPGDT-mpivrlhgvdiaL 159 :::::: :::: :::: : d1tx2a_ 98 -----ykaevakqaieAGAHIInDIWG--------------aKAEPkiaevaahydvpiI 138 query 160 AICE---------dlwQDGGR----vpaarsagaglllsvnaspyerdkDDTRLELVRKR 206 :::: ::::: ::::::::::: d1tx2a_ 139 LMHNrdnmnyrnlmadMIADLydsikiakdagvrdeniildpgigfaktPEQNLEAMRNL 198 query 207 aQEAG---ctTAYLAmiggqdelvFDGD------------------sivVDRDGevvara 245 :::: ::::: :::: ::::: d1tx2a_ 199 -EQLNvlgypVLLGT-------srKSFIghvldlpveerlegtgatvclGIEKG------ 244 query 246 pqfsegCVVLdldlpaaeaepptgvvddglridrlviseeplpayeaeLAGGyadrldad 305 :::: :::: d1tx2a_ 245 cefvrvHDVK-----------------------------------emsRMAK-------- 261 query 306 eevysalvvglrayvakngfrsvliglsggidsalvaaiacdalgaqnvygvsmpskyss 365 d1tx2a_ 262 ------------------------------------------------------------ 262 query 366 dhskgdaaelarrtglnfrtvsiepmfdaymaslgltglaeenlqsrlrgttlmaisnqe 425 d1tx2a_ 262 ------------------------------------------------------------ 262 query 426 ghivlapgnkselavgystlygdsvgaygpikdvyktsifrlaewrnraaaergqtppip 485 d1tx2a_ 262 ------------------------------------------------------------ 262 query 486 easitkpdypvldailelyvdrdtgadaivaagydrelvvktlrmvdtaeykrrqyppgt 545 d1tx2a_ 262 ------------------------------------------------------------ 262 query 546 kisakgfgkdrrlpitnrwregh 568 d1tx2a_ 262 ---------------mmdamigk 269 FAST alignment (Normalized score: 1.23 Raw score:478.70) query 1 ----------------SLQLRLALNQIDSTVGD---IAGNAEAILRWTRHSAEQGAHLVA 41 ::::::::::::::::: :::::::::::::::::::::::: d1tx2a_ 1 KWDYDLRCGEYTLNLNEKTLIMGILNVTPDSFSDGGSYNEVDAAVRHAKEMRDEGAHIID 60 query 42 FPEMALTGYPVEDLALRSSFVEASRTALRELAARLAEEGF-------------------- 81 :: d1tx2a_ 61 IG--------------------------------------GESFAKVSVEEEIKRVVPMI 82 query 82 ------GELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRVALTFAKHHLPNYGVF 135 ::::::: d1tx2a_ 83 QAVSKEVKLPISI----------------------------------------------- 95 query 136 DEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGAGLLLSVNASPYERDK 195 d1tx2a_ 96 ------------------------------------------------------------ 96 query 196 DDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGEVVARAPQFSEGCVVL 255 d1tx2a_ 96 ------------------------------------------------------------ 96 query 256 DLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYADRLDADEEVYSALVVG 315 d1tx2a_ 96 ------------------------------------------------------------ 96 query 316 LRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVS----------------- 358 d1tx2a_ 96 -------------------------------------------DTYKAEVAKQAIEAGAH 112 query 359 ----------------------------MPSKYSSDHSKGDAAELARRTGLNFRTVSIEP 390 :::: d1tx2a_ 113 IINDIWGAKAEPKIAEVAAHYDVPIILMHNRD---------------------------- 144 query 391 MFDAYMASLG----LTGLAEENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLY 446 :::::::::::::::::::: d1tx2a_ 145 ----------NMNYRNLMADMIADLYDSIKIAKD-------------------------- 168 query 447 GDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVD 506 d1tx2a_ 169 ------------------------------------------------------------ 169 query 507 RDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWRE 566 d1tx2a_ 169 ------------------------------------------------------------ 169 query 567 GH---------------------------------------------------------- 568 d1tx2a_ 169 --AGVRDENIILDPGIGFAKTPEQNLEAMRNLEQLNVLGYPVLLGTSRKSFIGHVLDLPV 226 query 569 ------------------------------------------- 569 d1tx2a_ 227 EERLEGTGATVCLGIEKGCEFVRVHDVKEMSRMAKMMDAMIGK 269 TMalign alignment (TM-score: 0.25 Raw score:142.24) query 1 --SLQL------RLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPV 52 :::: ::: : :::: :::: ::: d1tx2a_ 1 KWDYDLRCGEYTLNL------------------------N-EKTL--IMGI--LNV---- 27 query 53 EDLALRSSFV--E-ASRTALRELAARLAEEGFGELPVLVGYLDR---SESAQPKYGQPAG 106 :: ::::: : :::::::::::::: ::: :::::::::: :: : : d1tx2a_ 28 --TP-DSFSDGGSYNEVDAAVRHAKEMR-DEG--AHIIDIGGESFAK---VS--V-E--- 72 query 107 APR-NAA-AV--LHRGRV-ALTFAKHHLPNYGVFDEFRYFVPGDTMPIV-RLHGVDIALA 160 ::: ::: :: :::::: ::::::::: :::::::: : ::::: d1tx2a_ 73 EEIKRVVPMIQAVSKEVKLPISIDTYKA-------------EVAKQAIEA-G---AHIIN 115 query 161 ICEDLWQDGGRVPAARSAGAGLLLSVNASP-YERD-K---DD-TRLELVRKRAQE--AGC 212 :::::::::::::::::: : ::::::::: :::: : :: :::::::::::: ::: d1tx2a_ 116 DIWGAKAEPKIAEVAAHY-D-VPIILMHNRDNMNYRNLMADMIADLYDSIKIAKDAGVRD 173 query 213 T-TAYLAMIGG-QDELV-FD--GD--SIVVDRDGEVVARAPQFSE-GCVVLDLDLPAAEA 264 : ::::::::: ::: :: :: ::::: :::::::: ::: d1tx2a_ 174 ENIILDPGIGFA--KTPEQNLEAMRNLEQLN--VLGYPVLL-GTSR-------------- 214 query 265 EPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYADRLDADEEVYSALVVGLRAYVAKNG 324 :::::::: ::::: d1tx2a_ 215 ----------------------------------------------KSFIGHVL-DLPVE 227 query 325 FR----------------------------------------SVLIGLSGGIDSALVAAI 344 :: d1tx2a_ 228 ERLEGTGATVCLGIEKGCEFVRVHDVKEMSRMAKMMDAMIGK------------------ 269 query 345 ACDALGAQNVYGVSMPSKYSSDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGL 404 d1tx2a_ 270 ------------------------------------------------------------ 270 query 405 AEENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLYGDSVGAYGPIKDVYKTSI 464 d1tx2a_ 270 ------------------------------------------------------------ 270 query 465 FRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELV 524 d1tx2a_ 270 ------------------------------------------------------------ 270 query 525 VKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 568 d1tx2a_ 270 -------------------------------------------- 270 HHsearch alignment (Probability: 0.05 E-value:0.02) query 494 YPVLDAILELYVDRDTGADAIV---AAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAK 550 :::::::::::::::::::::: ::::::::::::::::::::::::::::::::::: d1tx2a_ 156 IADLYDSIKIAKDAGVRDENIILDPGIGFAKTPEQNLEAMRNLEQLNVLGYPVLLGTSRK 215 query 551 GF 552 :: d1tx2a_ 216 SF 217
Intermediate <-- 1.259 --> HitDALI alignment (Z-score: 12.7 Raw score:1381.20) d1tx2a_ 1 kwdyDLRCgeYTLNlnektLIMG----ILNVtpdsfsdggsynevdaaVRHAKEMRDEGA 56 :::: :::: :::: :::: :::::::::::: d1h7wa2 1 -isvEMAG--LKFI----nPFGLasaaPTTS-----------------SSMIRRAFEAGW 36 d1tx2a_ 57 HIIDI-GGESfAKVS------------------------------veEEIKRVVPMIQAV 85 ::::: :::: :::: ::::::::::::: d1h7wa2 37 GFALTkTFSLdKDIVtnvsprivrgttsgpmygpgqssflnieliseKTAAYWCQSVTEL 96 d1tx2a_ 86 SKEVK-LPISIDTY-------KAEVAKQAIEAGAHIINDIW------------------- 118 ::::: :::::::: :::::::::::::::::::: d1h7wa2 97 KADFPdNIVIASIMcsynkndWMELSRKAEASGADALELNLscphgmgergmglacgqdp 156 d1tx2a_ 119 -gAKAE-PKIAEVAahyDVPIILMHNrdnmnyrnLMADMIADLYDSIKIAkdagvrdenI 176 :::: ::::::: ::::::::: :::::::::::::::: : d1h7wa2 157 elVRNIcRWVRQAV---QIPFFAKLT-------pNVTDIVSIARAAKEGG--------aD 198 d1tx2a_ 177 ILDPGIGFA--------------------------ktPEQNLEAMRNLEQL-NVLG-YPV 208 ::::::::: :::::::::::::: :::: ::: d1h7wa2 199 GVTATNTVSglmglkadgtpwpavgagkrttyggvsgTAIRPIALRAVTTIaRALPgFPI 258 d1tx2a_ 209 LLGTSrksfighvldlpveerleGTGATVCLGIEKGCEFVRVH------DVKEMSRMAKM 262 ::::: :::::::::::::::::::: ::::::::::: d1h7wa2 259 LATGG-----------------iDSAESGLQFLHSGASVLQVCsavqnqDFTVIQDYCTG 301 d1tx2a_ 263 MDAMIG----k 269 :::::: d1h7wa2 302 LKALLYlksie 312 FAST alignment (Normalized score: 7.97 Raw score:2308.00) d1tx2a_ 1 KWDYDLRCGEYTLNLNEKT------------LIMGILNVTPDSFSDGGSYNEVDA----- 43 ::::: d1h7wa2 1 -------------------ISVEMAGLKFINPFGLA-------------------SAAPT 22 d1tx2a_ 44 -AVRHAKEMRDEGAHIIDIGGESFAKVSVEE----------------------------- 73 ::::::::::::::::: d1h7wa2 23 TSSSMIRRAFEAGWGFAL-------------TKTFSLDKDIVTNVSPRIVRGTTSGPMYG 69 d1tx2a_ 74 ---------------EIKRVVPMIQAVSKE-VKLPISIDTY--------KAEVAKQAIEA 109 ::::::::::::::: ::::::::: ::::::::::: d1h7wa2 70 PGQSSFLNIELISEKTAAYWCQSVTELKADFPDNIVIASI-MCSYNKNDWMELSRKAEAS 128 d1tx2a_ 110 GAHIINDIWGAKA-----------------------EPKIAEVAA-HYDVPIILMHNRDN 145 ::::::: ::::::::: ::::::::: d1h7wa2 129 GADALEL------NLSCPHGMGERGMGLACGQDPELVRNICRWVRQAVQIPFFAK----- 177 d1tx2a_ 146 --MNYRNLMADMIADLYDSIKIAKDAGVRDEN---IILDPGIGFAK-------------- 186 :::: ::::::::::: :::: d1h7wa2 178 LTPNVT----DIVSIARAAKE-----------GGADGVT-------ATNTVSGLMGLKAD 215 d1tx2a_ 187 ----------------------TPEQNLEAMRNLEQLNV--LGYPVLLGTSRKSFIGHVL 222 ::::::: ::::::: :::::::: d1h7wa2 216 GTPWPAVGAGKRTTYGGVSGTAIRPIALR---AVTTIARALPGFPILAT----------- 261 d1tx2a_ 223 DLPVEERLEG----TGATVCLGIEKGCEFVRVH----------DVKEMSRMAKMMDAMIG 268 :::::::::::::::::: ::::::::::::::: d1h7wa2 262 ----------GGIDSAESGLQFLHSGASVLQV-CSAVQNQDFTVIQDYCTGLKALLYL-- 308 d1tx2a_ 269 K---- 269 d1h7wa2 309 -KSIE 312 TMalign alignment (TM-score: 0.61 Raw score:165.27) d1tx2a_ 1 ---KWDYDLRCGEYTLNLNEKTLIMGIL--NVTPDSFSDGGSYNEVDAAVRHAKEMRDEG 55 :::: ::: :::::::: ::: : :: ::::::::: d1h7wa2 1 ISV---EMAG----LKF---INPFGLASAAPTT-----------S---SS-MIRRAFEAG 35 d1tx2a_ 56 AHIIDIGGES----FAKV---------------------------SVEEEIKRVVPMIQA 84 :::::::::: :::: ::::::::::::::: d1h7wa2 36 WGFALTKTFSLDKDIVTNVSPRIVRGTTSGPMYGPGQSSFLNIELISEKTAAYWCQSVTE 95 d1tx2a_ 85 VSKEVK-LPISIDTYK------A-EVAKQAIEAGAHIINDIW---------------G-- 119 :::::: ::::::::: : :::::::::::::::::: : d1h7wa2 96 LKADFPDNIVIASIMCSYNKNDWMELSRKAEASGADALELNLSCPHGMGERGMGLACGQD 155 d1tx2a_ 120 A-KAEPKIAEVAAHYDVPIILMHNRDNMNYRNLMADMIADLYDSIKIAKDAGVRDENIIL 178 : ::::::::::::::::::::::: ::: ::::::::::::: : ::: d1h7wa2 156 PELVRNICRWVRQAVQIPFFAKLTP--NVT-----DIVSIARAAKEGG----A----DGV 200 d1tx2a_ 179 DPGIGFAK-----------------------TP---EQNLEAMRNLEQLNV-LG-YPVLL 210 :::::::: :: ::::::::::::::: :: ::::: d1h7wa2 201 TATNTVSGLMGLKADGTPWPAVGAGKRTTYGGVSGTAIRPIALRAVTTIARALPGFPILA 260 d1tx2a_ 211 GTSRKSFIGHVLDLPVEERLEGTG-ATVCLGIEKGCEFVRV---H----D--VKEMSRMA 260 ::: ::: :::::::::::::::: : : :::::::: d1h7wa2 261 TGG------------------IDSAESGLQFLHSGASVLQVCSAVQNQDFTVIQDYCTGL 302 d1tx2a_ 261 KMMDAMIG--K 269 :::::::: d1h7wa2 303 KALLYLKSIE- 312 HHsearch alignment (Probability: 0.79 E-value:0.00) d1tx2a_ 40 EVDAAVRHAKEMRDEGAHIIDIGGESFAKVS-------VEEEIKRVVPMIQAVSKEVKLP 92 ::::::::::::::::::::::::::::::: :::::::::::::::::::::: d1h7wa2 114 NKNDWMELSRKAEASGADALELNLSCPHGMGERGMGLACGQDPELVRNICRWVRQAVQIP 173 d1tx2a_ 93 ISI 95 ::: d1h7wa2 174 FFA 176