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 | d1j93a_ | Uroporphyrinogen decarboxylase, UROD | UROD/MetE-like | 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 <-- 1.243 --> HitDALI alignment (Z-score: 11.4 Raw score:1296.60) d1tx2a_ 1 kwdydlrcgEYTL-------NLNEKTLIMGI------------lnvtpDSFSdggsynEV 41 :::: ::::::::::: :::: :: d1j93a_ 1 ---------TQPLlldavrgKEVERPPVWLMrqagrymksyqllcekyPLFR--drseNV 49 d1tx2a_ 42 DAAVRHAKEMRDEG-AHIIDIGGES--fAKVS---------------------------- 70 :::::::::::::: :::::::::: :::: d1j93a_ 50 DLVVEISLQPWKVFrPDGVILFSDIltpLSGMnipfdiikgkgpvifdplrtaadvekvr 109 d1tx2a_ 71 -VEEE--IKRVVPMIQAVSKEVK--LPISIDTY--------------------------- 98 :::: :::::::::::::::: :::::::: d1j93a_ 110 eFIPEksVPYVGEALTILRKEVNnqAAVLGFVGapftlasyvveggssknftkikrlafa 169 d1tx2a_ 99 ---------------kAEVAKQAIEAGAHIINDIW-------------gaKAEP-KIAEV 129 ::::::::::::::::::: :::: ::::: d1j93a_ 170 epkvlhallqkfatsmAKYIRYQADSGAQAVQIFDswatelspvdfeefsLPYLkQIVDS 229 d1tx2a_ 130 AAH--YDVPIILMHNRdnmnyrnlmadMIADLYDSIKIAkdagvrdeNIILDPGIGfakt 187 ::: ::::::::::: :::::::::::: ::::::::: d1j93a_ 230 VKLthPNLPLILYASG-----------SGGLLERLPLTG--------VDVVSLDWT---- 266 d1tx2a_ 188 peqnleamrNLEQLNV---LGYPVLLGTsrKSFIGhvldlpveERLEGTGATVCLGIEKG 244 ::::::: ::::::::: ::::: ::::::::::::::::: d1j93a_ 267 --------vDMADGRRrlgPNVAIQGNV-dPGVLF--------GSKEFITNRINDTVKKA 309 d1tx2a_ 245 ---cEFVR----------vhdvKEMSRMAKMMDAmigk 269 :::: :::::::::::: d1j93a_ 310 gkgkHILNlghgikvgtpeenfAHFFEIAKGLRY---- 343 FAST alignment (Normalized score: 6.08 Raw score:1846.00) d1tx2a_ 1 KWDYDLRCGEYTLNLNE------------------------------------------- 17 d1j93a_ 1 -----------------TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFR 43 d1tx2a_ 18 ------------------------------------------------------------ 18 d1j93a_ 44 DRSENVDLVVEISLQPWKVFRPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAA 103 d1tx2a_ 18 ------------------------------KTLIMGILNVTPDSFSDGG----------- 36 :::::::::: d1j93a_ 104 DVEKVREFIPEKSVPYVGEALTILRKEVNNQAAVLGFVGA---------PFTLASYVVEG 154 d1tx2a_ 37 -----------------------SYNEVDAAVRHAKEMRDEGAHIIDIGGESFA-----K 68 :::::::::::::::::::::::::: : d1j93a_ 155 GSSKNFTKIKRLAFAEPKVLHALLQKFATSMAKYIRYQADSGAQAVQIF-----DSWATE 209 d1tx2a_ 69 VSVEEEIKRVVPMIQAVSKE-----VKLPISIDTY-KAEVAKQAIEAGAHIINDIWGAKA 122 :::::::::::::::::::: :::::::::: :::::::::::::::::: d1j93a_ 210 LSPVDFEEFSLPYLKQIVDSVKLTHPNLPLILYASGSGGLLERLPLTGVDVVSL------ 263 d1tx2a_ 123 -----EPKIAEVAAHY---DVPIILMHNRD---NMNYRNLMADMIADLYDSIKIAKDAGV 171 ::::::: :::::::: :::: ::::::::::::::: : d1j93a_ 264 DWTVDMADGRRR----LGPNVAIQGNV---DPGVLFG--SKEFITNRINDTVKK-----A 309 d1tx2a_ 172 RDENIILDPGIGFA-------KTPEQNLEAMRNLEQLNVLGYPVLLGTSRKSFIGHVLDL 224 ::::::::: ::::::::: ::::::: d1j93a_ 310 GKGKHILNL-----GHGIKVGTPEENFAHF---FEIAKGL-------------------- 341 d1tx2a_ 225 PVEERLEGTGATVCLGIEKGCEFVRVHDVKEMSRMAKMMDAMIGK-- 269 d1j93a_ 342 ---------------------------------------------RY 343 TMalign alignment (TM-score: 0.61 Raw score:164.97) d1tx2a_ 1 ----KWDYDLRC-GEYTLNLNEKTLIMGI-LNV-----T---P---DSFS--DGGSYNEV 41 :::: ::::::::::::: ::: : : :::: ::::: :: d1j93a_ 1 TQPL----LLDAV---RGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVD-LV 52 d1tx2a_ 42 DAAVRHAKEMRDEGAHIIDIGGESFAKVSVEEE--------------------------- 74 :::::::::: :::::::::::: ::::::: d1j93a_ 53 VEISLQPWKV--FRPDGVILFSDI--LTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKV 108 d1tx2a_ 75 ----I---K-RVVPMIQAVSKEVK--LPISIDT-Y------------------------- 98 : : :::::::::::::: ::::::: : d1j93a_ 109 REFIPEKSVPYVGEALTILRKEVNNQAAVLGFVGAPFTLASYVVEGGSSKNFTKIKRLAF 168 d1tx2a_ 99 ----------------KAEVAKQAIEAGAHIINDIWG-------------AK-AEPKIA- 127 ::::::::::::::::::::: :: :::::: d1j93a_ 169 AEPKVLHALLQKFATSMAKYIRYQADSGAQAVQIFDSWATELSPVDFEEFSLPYLKQIVD 228 d1tx2a_ 128 EVAAHYD-VPIILMHNRDNMNYRNLMADMIADLYDSIKIAKDAGVRDENIILDPGIGFAK 186 ::::::: ::::::::: : : :::::::::: : ::::: :: d1j93a_ 229 SVKLTHPNLPLILYASG--S----G--GLLERLPLTG--V---------DVVSL-DW--- 265 d1tx2a_ 187 TPEQNLEAMRNLEQLNVLGYPVLLGTSRKSFIGHVLDLPVEERLE-GTGATVCLGIEKGC 245 : :::::::::::::::::::::: : : ::::: :::::::::::::: d1j93a_ 266 ----T-VDMADGRRRLGPNVAIQGNVDP---G---V----LFGSKEFITNRINDTVKKAG 310 d1tx2a_ 246 ---EFVRV---H-----D--VKEMSRMAKMMDAMIGK 269 ::::: : : :::::::::: :: : d1j93a_ 311 KGKHILNLGHGIKVGTPEENFAHFFEIAKG-LR---Y 343 HHsearch alignment (Probability: 0.97 E-value:0.00) d1tx2a_ 41 VDAAVRHAKEMRDEGAHIIDIGGESFAKVSVEEEIKRVVPMIQAVSKEV-----KLPISI 95 ::::::::::::::::::::::::::::::::::::::::::::::::: :::::: d1j93a_ 182 ATSMAKYIRYQADSGAQAVQIFDSWATELSPVDFEEFSLPYLKQIVDSVKLTHPNLPLIL 241 d1tx2a_ 96 DTYKA-EVAKQAIEAGAHIINDIWGAKAEPKIAEVAAHYDVPIILMHNRDNMNYRNLMAD 154 ::::: ::::::::::::::: ::::::::::::::::::::: ::::::::::: d1j93a_ 242 YASGSGGLLERLPLTGVDVVS----LDWTVDMADGRRRLGPNVAIQ---GNVDPGVLFGS 294 d1tx2a_ 155 MIADLYDSIKIAKDAGVRDENIILDPGIGFA-KTPEQNLEAMRN 197 : ::::::::::::::: ::::::::::::: :::::::::::: d1j93a_ 295 K-EFITNRINDTVKKAG-KGKHILNLGHGIKVGTPEENFAHFFE 336