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 | d1eoka_ | Endo-beta-N-acetylglucosaminidase | (Trans)glycosidases | 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 <-- 0.829 --> HitDALI alignment (Z-score: 10.2 Raw score:1210.20) d1j93a_ 1 tqpllldavrgkeveRPPVWLMRQAGRYMKSyqllcekyplfrdrsenvdlvveISLQPw 60 :::::::::::::::: ::::: d1eoka_ 1 ---------------NGVCIAYYITDGRNPT----------------------fKLKDI- 22 d1j93a_ 61 kVFRPDGVIL-FSDILTplsgmnipfdiikgkgpvifdplrtaadvekvrefiPEKSV-- 117 ::::::::: :::::: ::::: d1eoka_ 23 -PDKVDMVILfGLKYWS-----------------------------------lQDTTKlp 46 d1j93a_ 118 --------pyvgealTILRKEV-NNQAAVLGFVGapfTLASyvveggssknftkikrlaf 168 ::::::: ::::::::::: :::: d1eoka_ 47 ggtgmmgsfksykdlDTQIRSLqSRGIKVLQNID---DDVS------------------- 84 d1j93a_ 169 aepkvlHALL---QKFATSMAKYIRYQA-DSGAQAVQIFDSW------------------ 206 :::: ::::::::::::::: ::::::::::::: d1eoka_ 85 ----wqSSKPggfASAAAYGDAIKSIVIdKWKLDGISLDIEHsgakpnpiptfpgyaatg 140 d1j93a_ 207 ----atELSPvdFEEFSLPYLKQIVDSV--KLTHpNLPLILYAsGSGG-LLER-LPLT-- 256 :::: :::::::::::::::: :::: :::::::: :::: :::: :::: d1eoka_ 141 yngwysGSMA--ATPAFLNVISELTKYFgtTAPN-NKQLQIAS-GIDVyAWNKiMENFrn 196 d1j93a_ 257 GVDVVSLDW----tvDMADGRRRL---GPNV--AIQGNVDPGVlFGSKEFITNRINDtvK 307 ::::::::: ::::::::: :::: :::::::::: ::::::::::::: : d1eoka_ 197 NFNYIQLQSyganvsRTQLMMNYAtgtNKIPasKMVFGAYAEG-GTNQANDVEVAKW--T 253 d1j93a_ 308 KAGKGKHILNLgHGIKvgTPEENFAHFFEIAKglry 343 ::::::::::: :::: :::::::::::::: d1eoka_ 254 PTQGAKGGMMI-YTYN--SNVSYANAVRDAVK---- 282 FAST alignment (Normalized score: 5.16 Raw score:1605.00) d1j93a_ 1 TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDLVVE------ 54 :::::: d1eoka_ 1 ---------------NGVCIA---------------------------------YYITDG 12 d1j93a_ 55 -----ISLQPWKVF---RPDGVIL-FSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADV 105 :::: ::::::: ::::: d1eoka_ 13 RNPTFKLKD-----IPDKVDMVILFGLKYW------------------------------ 37 d1j93a_ 106 EKVREFI---PEKS-------------VPYVGEALTILRKEVNN-QAAVLGFVGAPFTLA 148 :::: ::::::::::::: :::::::::: d1eoka_ 38 -------SLQDTTKLPGGTGMMGSFKSYKDLDTQIRSLQS----RGIKVLQNIDD----- 81 d1j93a_ 149 SYVVEGGSSKNFTKIKRLAFAEPKVLHALLQK-------------FATSMAKYIR-YQAD 194 :::::::::: :::: d1eoka_ 82 --------------------------------DVSWQSSKPGGFASAAAYGDAIKSIVID 109 d1j93a_ 195 -SGAQAVQIFDSWATELSPVDFEEFS-------------------------------LPY 222 :::::::::: ::: d1eoka_ 110 KWKLDGISLDI---------------EHSGAKPNPIPTFPGYAATGYNGWYSGSMAATPA 154 d1j93a_ 223 LKQIVDSVKLTH------PNLPLILYASGS---GGLLERLPLT----GVDVVSLDWTV-- 267 ::::::::::: ::::::::: ::::::::: ::::::: d1eoka_ 155 FLNVISELTKY-FGTTAPNNKQLQIAS---GIDVYAWNKIME-NFRNNFNYIQL----QS 205 d1j93a_ 268 ------DMADGRRR------LGPNVAIQGNVDPGVLFG------------SKEFITNRIN 303 :::::::: :::: ::::::::: d1eoka_ 206 YGANVSRTQLMMNYATGTNKIPAS--------------KMVFGAYAEGGTNQANDVEVA- 250 d1j93a_ 304 DTVKK-----AGKGKHILNLGHGIKVG--------TPEENFAHFFEIAKGLRY- 343 ::::: ::::::::::::: d1eoka_ 251 -----KWTPTQGAKG------------GMMIYTYNSNVSYANAVRDAV-----K 282 TMalign alignment (TM-score: 0.53 Raw score:182.68) d1j93a_ 1 TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDLVVEISLQPW 60 ::::::::::::::::: :::::: d1eoka_ 1 ---------------NGVCIAYYITDGRNPTF----------------------KLKDIP 23 d1j93a_ 61 KVFRPDGVILF-SDILTPLSGMNIPFDIIKGKGP------VIFDPLRTAADVEKVREFIP 113 ::::::::: ::::::::: ::::::: :: d1eoka_ 24 --DKVDMVILFGLKYWSLQDT---TKLPGGT-GMMGSFKS-------------------- 57 d1j93a_ 114 EKSVPYVGEALTILRKEVNNQAAVLGFVGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKV 173 ::::::::::::: : : :::::::: :: : :: : ::: d1eoka_ 58 ---YKDLDTQIRSLQS-R-G--IKVLQNID-DD--V-------------SW--Q---SSK 89 d1j93a_ 174 L-HALLQ-KFATSMAKYIRYQADSGAQAVQIFDSWATELSPV------------------ 213 : ::::: :::::::::::::: : : ::::::::::::::: d1eoka_ 90 PGGFASAAAYGDAIKSIVIDKW-K-L-DGISLDIEHSGAKPNPIPTFPGYAATGYNGWYS 146 d1j93a_ 214 ---DFEEFSLPYLKQIVDSVKLTHPNLPLILYASGSGG-LLERLP-LT--GVDVVSLDWT 266 ::::::::::::::::::::::::::::::::::: :::::: :: :::::::::: d1eoka_ 147 GSMAATPAFLNVISELTKYFGTTAPNNKQLQIASGIDVYAWNKIMENFRNNFNYIQLQSY 206 d1j93a_ 267 ------V--DMADGRRRLGPNVAIQGNVDPG-VLFGSKEFITNRINDTVKKAGKGKHILN 317 : :::::::::::::::::::::: :::::: :::::::: ::::::: :::: d1eoka_ 207 GANVSRTQLMMNYATGTNKIPASKMVFGAYAEGGTNQA-NDVEVAKW-TPTQGAK-GGMM 263 d1j93a_ 318 LGHGIKVGTPEENFAHFFEIAKGLRY 343 : ::::: : :::::::::::: d1eoka_ 264 I-YTYNS-N-VSYANAVRDAVK---- 282 HHsearch alignment (Probability: 0.01 E-value:0.41) d1j93a_ 121 GEALTILRKEVNNQAAVLGFVGA 143 :::::::::: ::::::: ::: d1eoka_ 62 DTQIRSLQSR--GIKVLQN-IDD 81