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_Ad1.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1j93a_ | Uroporphyrinogen decarboxylase, UROD | UROD/MetE-like | TIM beta/alpha-barrel | α/β |
| Hit | d1ojxa_ | Archaeal fructose 1,6-bisphosphate aldolase | Aldolase | TIM beta/alpha-barrel | α/β |
Query <-- 0.875 --> IntermediateDALI alignment (Z-score: 2.8 Raw score:517.50) query 1 ------------------------------------------------------------ 1 d1j93a_ 1 tqpllldavrgkeverppvwlmrqagrymksyqllcekyplfrdrsenvdlvveislqpw 60 query 1 ------------------------------------------------------------ 1 d1j93a_ 61 kvfrpdgvilfsdiltplsgmnipfdiikgkgpvifdplrtaadvekvrefipeksvpyv 120 query 1 ------------sLQLRLALN-qidSTVG---------------------------DIAG 20 :::::::: :::: :::: d1j93a_ 121 gealtilrkevnnQAAVLGFVgapfTLASyvveggssknftkikrlafaepkvlhaLLQK 180 query 21 NAEAILRWTRHSAEQGAHLVAFPEMaltgypvedLALRSSFVEASRTALRELAARLAEEg 80 ::::::::::::::::::::::::: ::::::::::::::::::::::::: d1j93a_ 181 FATSMAKYIRYQADSGAQAVQIFDS------watELSPVDFEEFSLPYLKQIVDSVKLT- 233 query 81 FGELPVLVGY---lDRSEsaqpkygqpagaprnaaavlhrgRVALTFAKHhlpnygvfde 137 :::::::::: :::: ::::::::: d1j93a_ 234 HPNLPLILYAsgsgGLLE------------------rlpltGVDVVSLDW---------- 265 query 138 fryfvPGDTMpivrlhgvdialaiceDLWQD----ggrvPAARSAGaglllsvnaspyer 193 ::::: ::::: ::::::: d1j93a_ 266 -----TVDMAdgrrrlgpnvaiqgnvDPGVLfgskefitNRINDTV---kkagkgkhiln 317 query 194 dkddtRLELvRKRAQEAGcttaylamiggqdelvfdgdsivvdrdgevvarapqfsegcv 253 :::: :::::::: d1j93a_ 318 lghgiKVGTpEENFAHFF------------------------------------------ 335 query 254 vldldlpaaEAEPptgvvddglridrlviseeplpayeaelaggyadrl 302 :::: d1j93a_ 336 -----eiakGLRY------------------------------------ 343 FAST alignment (Normalized score: 2.91 Raw score:937.50) query 1 S----------------------------------------------------------- 1 d1j93a_ 1 -TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDLVVEISLQP 59 query 2 ------------------------------------------------------------ 2 d1j93a_ 60 WKVFRPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIPEKSVPY 119 query 2 --------------LQLRLALNQIDSTV-------------------------------- 15 :::::::: d1j93a_ 120 VGEALTILRKEVNNQAAVLGFV------GAPFTLASYVVEGGSSKNFTKIKRLAFAEPKV 173 query 16 --GDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLAL--------RSSFV-EA 64 ::::::::::::::::::::::::::: ::::: :: d1j93a_ 174 LHALLQKFATSMAKYIRYQADSGAQAVQI---------------FDSWATELSPVDFEEF 218 query 65 SRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRG------ 118 :::::::::::::: :::::::::: d1j93a_ 219 SLPYLKQIVDSVKL-THPNLPLILY-----------------------------ASGSGG 248 query 119 --------RVALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVD-------------- 156 ::::::: d1j93a_ 249 LLERLPLTGVDVVSL-------------------------------DWTVDMADGRRRLG 277 query 157 ---IALAICEDLWQDG------------------GRVPAARSAGA---GLLLSV---NAS 189 ::::: ::::: ::::: ::: d1j93a_ 278 PNVAIQGN--------VDPGVLFGSKEFITNRINDTVKK------AGKGKHIL-NLGHGI 322 query 190 PYERDKD-----DTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGEVVAR 244 : ::::::::::: d1j93a_ 323 K------VGTPEENFAHFFEIAK------------------------------------- 339 query 245 APQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYADRL-- 302 d1j93a_ 340 ----------------------------------------------------------GL 341 query 303 -- 303 d1j93a_ 342 RY 343 TMalign alignment (TM-score: 0.44 Raw score:131.70) query 1 SLQLRL------------------------------------------------------ 6 ::::: d1j93a_ 1 -TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDLVVEISLQP 59 query 7 ------ALNQIDSTVGDIAGN--------------------------------A---E-A 24 ::::::::::::::: : : : d1j93a_ 60 WKVFRPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIPEKSVPY 119 query 25 ILRWTRHSAE--QGAHLVAFPEMAL-TG-YP-----VE--D-LAL---------RSSFVE 63 :::::::::: ::::::::::::: :: :: :: : ::: :::::: d1j93a_ 120 VGEALTILRKEVNNQAAVLGFVGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKVLHALLQ 179 query 64 ASRTALRELAARLAEEGFGELPVLVGYLDRS--ESAQPKYGQPAGAPR-NAA-AV--LHR 117 :::::::::::::::: : ::::::::::: : :::::::::: ::: :: ::: d1j93a_ 180 KFATSMAKYIRYQADS-G--AQAVQIFDSWATE---L-SPVDFEEFSLPYLKQIVDSVKL 232 query 118 GRV-ALTFA-KHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAA 175 ::: ::::: :::::: : :::::::::: ::::::::::::::::: d1j93a_ 233 THPNLPLILYASGSGG------L--LERLPLTGVD--------VVSLDWTVDMADGRRRL 276 query 176 RSAGAGLLLSVNASPYERDKDD--TRLELVRKRAQEAGCT-TAYLA-MIGGQDELVFD-G 230 ::: : ::::::: ::::::: :::::::::::::::: ::::: ::: :::: : d1j93a_ 277 GPN-V--AIQGNVD-PGVLFGSKEFITNRINDTVKKAGKGKHILNLGHGI----KVGTPE 328 query 231 --DSIVVDRDGEVVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLP 288 ::::: ::::: ::: d1j93a_ 329 ENFAHFF---EIAKG-------------LRY----------------------------- 343 query 289 AYEAELAGGYADRL 302 d1j93a_ 344 -------------- 344 HHsearch alignment (Probability: 0.14 E-value:0.02) query 18 IAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSSFVEASRTALRELAARLA 77 ::::::::::::::::::::::::::::::::::::: ::::::::::::::::: d1j93a_ 178 LQKFATSMAKYIRYQADSGAQAVQIFDSWATELSPVD------FEEFSLPYLKQIVDSVK 231 query 78 EEGFGELPVLV 88 :::: :::::: d1j93a_ 232 LTHP-NLPLIL 241
Intermediate <-- 1.185 --> HitDALI alignment (Z-score: 11.3 Raw score:1263.30) d1j93a_ 1 ------tQPLLldavrgkeVERPPVWLMR--------qaGRYMKSYqllcekyplfrdrs 46 :::: :::::::::: ::::::: d1ojxa_ 1 nltekflRIFA--------RRGKSIILAYdhgiehgpadFMDNPDS-------------- 38 d1j93a_ 47 envdlVVEISLQPWKVFRPDGVILfsdiltplsgmnipfdiikgkgpvifdplrtaadve 106 ::::::::::::::::::: d1ojxa_ 39 ----aDPEYILRLARDAGFDGVVF------------------------------------ 58 d1j93a_ 107 kvrefipeksvpyvGEALTILRKEVnnqAAVLGFVGapftlASYVVEggssknftkikrl 166 ::::::::::: :::::::: :::::: d1ojxa_ 59 -------------qRGIAEKYYDGS---VPLILKLN---gkTTLYNG------------- 86 d1j93a_ 167 afaepkvlhallqkFATSmaKYIRYQADSGAQAVQIFDswATELspvdfeEFSLpYLKQI 226 :::: :::::::::::::::::: :::: :::: ::::: d1ojxa_ 87 -----------epvSVAN--CSVEEAVSLGASAVGYTI--YPGS------GFEW-KMFEE 124 d1j93a_ 227 VDSVKLTHP--NLPLILYASG------------SGGLL-ERLPLTGVDVVSLDWT---vD 268 ::::::::: :::::::::: ::::: :::::::::::::::: : d1ojxa_ 125 LARIKRDAVkfDLPLVVWSYPrggkvvnetapeIVAYAaRIALELGADAMKIKYTgdpkT 184 d1j93a_ 269 MADGRRRLGpNVAIQGNVDPGVlfGSKEFITNRINDTVKKAgkgkHILNlgHGIK--VGT 326 ::::::::: :::::::::::: ::::::::::::::::: :::: :::: ::: d1ojxa_ 185 FSWAVKVAG-KVPVLMSGGPKT--KTEEDFLKQVEGVLEAG---aLGIA--VGRNvwQRR 236 d1j93a_ 327 PE-ENFAHFFEIAKglry 343 :: ::::::::::: d1ojxa_ 237 DAlKFARALAELVY---- 250 FAST alignment (Normalized score: 6.74 Raw score:1973.00) d1j93a_ 1 TQPLLLDAVRGKEVE-------------RPPVWLMRQ--------AGRYMKSYQLLCEKY 39 :::::: :::: d1ojxa_ 1 ---------------NLTEKFLRIFARRGKSIIL---AYDHGIEHGPAD----------- 31 d1j93a_ 40 PLFRDRSENVDLVVE--------ISLQPWK---VFRPDGVILFSDILTPLSGMNIPFDII 88 ::::::: :::::::: d1ojxa_ 32 ---------------FMDNPDSADPEYILRLARDAGFDGVV------------------- 57 d1j93a_ 89 KGKGPVIFDPLRTAADVEKVREFIPEKSVPY-VGEALTILRKEVNNQAAVLGFVGAPFTL 147 :::::::: :::::::::: d1ojxa_ 58 -------------------------------FQRGIAEKY---YDGSVPLILK------- 76 d1j93a_ 148 ASYVVEGGS----SKNFTKIKRLAFAEPKVLHALLQKFATSMAK---------YIRYQAD 194 ::::: ::::::: d1ojxa_ 77 ---------LNGKTTLYN--------------------------GEPVSVANCSVEEAVS 101 d1j93a_ 195 SGAQAVQIFDSWATELSPVDF-------EEFSLPYLKQIVDSVKLTHPNLPLILYASG-- 245 ::::::::: ::::::::::::::::: ::::::::: d1ojxa_ 102 LGASAVGYT------------IYPGSGFEWKMFEELARIKRDAVK--FDLPLVVWS--YP 145 d1j93a_ 246 -------------SGGLLERLPLTGVDVVSLDWTV------DMADGRRRLGPNVAIQ-GN 285 ::::::::::::::::::: ::::::::: ::::: :: d1ojxa_ 146 RGGKVVNETAPEIVAYAARIALELGADAMKIK---YTGDPKTFSWAVKVA-GKVPV-LMS 200 d1j93a_ 286 VDPGVLF--GSKEFITNRINDTVKKAGKGKHILNLGHGIKVGT----------------- 326 ::: ::::::::::::::: d1ojxa_ 201 GGP----KTKTEEDFLKQVEGVLE-------------------AGALGIAVGRNVWQRRD 237 d1j93a_ 327 PEENFAHFFEIAKGLRY-- 343 ::::::::::: d1ojxa_ 238 ALKFARALAEL------VY 250 TMalign alignment (TM-score: 0.46 Raw score:156.23) d1j93a_ 1 -TQPLLLDAVRGKEVERPPVWLMRQAG----R--Y-----MKSY---------------- 32 ::::::::: :::::::::::::: : : :::: d1ojxa_ 1 N-LTEKFLRIF--ARRGKSIILAYDHGIEHGPADFMDNPDSADPEYILRLARDAGFDGVV 57 d1j93a_ 33 QLLCEKYPLFRDRSENVDLVVEISLQPWKVFRPDGVILFSDILTPLSGMNIPFDIIKGKG 92 :: : :::::::: :: : ::::::::: : :: d1ojxa_ 58 ------------FQ--R-GIAEKYYD-GS--V--PLILKLNGK-----------T---TL 83 d1j93a_ 93 PVIFDP---LRTAADVEKVREFIPEKSVPYVGEALTILRKEVNNQAAVLGFVGAPFTLAS 149 ::: : : : ::: ::::::::: :::::::::::::: d1ojxa_ 84 YNG--EPVS------------V-A--NCS-VEEAVSLGA-------SAVGYTIYPGSGFE 118 d1j93a_ 150 YVVEGGSSKNFTKIKRLAFAEPKVLHALLQKFATSMAKYIRYQADSGAQAVQIFDSWATE 209 : :::::::::::::::::::::::::::: : d1ojxa_ 119 ----------------------------W-KMFEELARIKRDAVKFDLPLVVWSYPRG-G 148 d1j93a_ 210 LSPVDFEEFSLPYLKQIVDSVKLTHPNLPLILYASGSGGLLERLPLTGV----DVVSLDW 265 ::: :::::::::::::::: ::::::: d1ojxa_ 149 KVV------------------------------NETAPEIVAYAARIALELGADAMKIKY 178 d1j93a_ 266 TVDMADGRRRLGP-N-VAIQGNVDPGVLFGSKEFITNRINDTVKKAGKGKHILNLGHGIK 323 ::::::::::::: : ::::::::::: ::: :::::::::::::: :::::: ::: d1ojxa_ 179 TGDPKTFSWAVKVAGKVPVLMSGGPKT-KTE--EDFLKQVEGVLEAG--ALGIAV--GRN 231 d1j93a_ 324 VGTPEENFAHFFEIAKGLRY 343 :::::: ::::::::::::: d1ojxa_ 232 VWQRRD-ALKFARALAELVY 250 HHsearch alignment (Probability: 0.77 E-value:0.00) d1j93a_ 189 IRYQADSGAQAVQIFDSWATELSPVDFEEFSLPYLKQIVDSVKLTHPNLPLI--LYASGS 246 :::::::::::::::::: :::::::::::::::::::::: ::::: :::::: d1ojxa_ 96 VEEAVSLGASAVGYTIYP-----GSGFEWKMFEELARIKRDAVKF--DLPLVVWSYPRGG 148 d1j93a_ 247 GG-------L----LERLPLTGVDVVSLDWTVDMADGRRRLGPNVAIQGNVDPGVLFG-- 293 :: : :::::::::::::::::::::::::::: ::::: :::::: d1ojxa_ 149 KVVNETAPEIVAYAARIALELGADAMKIKYTGDPKTFSWAVK----VAGKV-PVLMSGGP 203 d1j93a_ 294 ---SKEFITNRINDTVKKAGKGKHILNLGHGIKV-GTPEENFAHFFEIAK 339 ::::::::::::::: ::::::: :::::: ::::::::::::::: d1ojxa_ 204 KTKTEEDFLKQVEGVLEA-GALGIAV--GRNVWQRRDALKFARALAELVY 250