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 | d1ug6a_ | Beta-glucosidase A | (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 <-- 1.272 --> HitDALI alignment (Z-score: 13.7 Raw score:1649.30) d1j93a_ 1 tqpllldavrgKEVErPPVWLMR------------------qagrymksyqllcekypLF 42 :::: ::::::: :: d1ug6a_ 1 -----------NAEK-FLWGVATsayqiegatqedgrgpsiwdafaqrpgairdgstgEP 48 d1j93a_ 43 RDRSENvdLVVEIsLQPWKVFRPDGVILfSDILTPLSGMnipfdiikgkgpvifdplrta 102 :::::: ::::: :::::::::::::: :::::::::: d1ug6a_ 49 ACDHYR--RYEED-IALMQSLGVRAYRFsVAWPRILPEG--------------------- 84 d1j93a_ 103 advekVREFIpEKSVPYVGEALTILRKEVnnqAAVLGFVGapfTLASY-VVEGgssknft 161 ::::: :::::::::::::::::: :::::::: ::::: :::: d1ug6a_ 85 -----RGRIN-PKGLAFYDRLVDRLLASG---ITPFLTLY--hWDLPLaLEER------- 126 d1j93a_ 162 kikrlafaepkvLHALLQKFATSMAKYIRYQADsGAQAVQIFDSWATELS---------- 211 ::::::::::::::::::::: :::::::::::::::: d1ug6a_ 127 --------ggwrSRETAFAFAEYAEAVARALAD-RVPFFATLNEPWCSAFlghwtgehap 177 d1j93a_ 212 -------pVDFEEFSLPYLKQIVDSVKLTHpnLPLILYASG-----------------SG 247 :::::::::::::::::::::: ::::::::: :: d1ug6a_ 178 glrnleaaLRAAHHLLLGHGLAVEALRAAG-aRRVGIVLNFapaygedpeavdvadryHN 236 d1j93a_ 248 GL-LERLP-------------------------LTGVDVVSLDWT--------------- 266 :: ::::: :::::::::::: d1ug6a_ 237 RFfLDPILgkgypespfrdpppvpilsrdlelvARPLDFLGVNYYapvrvapgtgtlpvr 296 d1j93a_ 267 ---------------------vDMADGRRRLgpNVAIQGnvDPGV------------lFG 293 ::::::::: :::::: :::: :: d1ug6a_ 297 ylppegpatamgwevypeglyhLLKRLGREV--PWPLYVteNGAAypdlwtgeavvedPE 354 d1j93a_ 294 SKEFITNRINDTVKKAG--kGKHILNLgHGIKV-----------------------gtPE 328 ::::::::::::::::: ::::::: ::::: :: d1ug6a_ 355 RVAYLEAHVEAALRAREegvDLRGYFV-WSLMDnfewafgytrrfglyyvdfpsqrriPK 413 d1j93a_ 329 ENFAHFFEIAKGlry 343 :::::::::::: d1ug6a_ 414 RSALWYRERIAR--a 426 FAST alignment (Normalized score: 6.05 Raw score:2313.00) d1j93a_ 1 TQPLLLDAVRGKEV--ERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSEN---------- 48 ::::::: d1ug6a_ 1 --------------NAEKFLWGV---------------------------ATSAYQIEGA 19 d1j93a_ 49 ---------------------------------VDLVVEISLQPWKVFRPDGVIL--FSD 73 ::::::::::: :::::::: ::: d1ug6a_ 20 TQEDGRGPSIWDAFAQRPGAIRDGSTGEPACDHYRRYEEDIALM-QSLGVRAY--RFSVA 76 d1j93a_ 74 ILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIPEKS------------VPYVG 121 :::: ::::: d1ug6a_ 77 WPRI---------------------------------------LPEGRGRINPKGLAFYD 97 d1j93a_ 122 EALTILRKEVNNQAAVLGFVGAPFTLASYVVEGGSSKN------FTKIKRLAFAEPKVLH 175 :::::::: :::::::: :::::: d1ug6a_ 98 RLVDRLLA---SGITPFLT-------------------LYHWDLPLALEE---------- 125 d1j93a_ 176 AL-----LQKFATSMAKYIRYQAD---SGAQAVQIFDSWATEL----------------- 210 ::::::::::::::::: ::::::: d1ug6a_ 126 --RGGWRSRETAFAFAEYAEAVARALADRVPFFA---------TLNEPWCSAFLGHWTGE 174 d1j93a_ 211 ------SPVDFE---EFSLPYLKQIVDSVKLTHPN---LPLILYASGS------------ 246 :::::: :::::::::::::::: ::::::: d1ug6a_ 175 HAPGLRNLEAALRAAHHLLLGHGLAVEALRA----AGARRVGIVL---NFAPAYGEDPEA 227 d1j93a_ 247 ---------GGLLERLP--------------------------LTGVDVVSLDWTV---- 267 ::::::: ::::::::: d1ug6a_ 228 VDVADRYHNRFFLDPI-LGKGYPESPFRDPPPVPILSRDLELVARPLDFLGV----NYYA 282 d1j93a_ 268 ------------------------------------DMADGRRRLGPNVAI--QGNVDPG 289 :::::::: ::::: ::::: d1ug6a_ 283 PVRVAPGTGTLPVRYLPPEGPATAMGWEVYPEGLYHLLKRLGRE--VPWPLYVTENGA-- 338 d1j93a_ 290 VLFG----------------SKEFITNRINDTVKKAGKGK-------HILNLGHGIKVGT 326 ::::::::::::::: :::: :::: d1ug6a_ 339 ----AYPDLWTGEAVVEDPERVAYLEAHVEAALRA-----REEGVDLRGYF-VWSL---- 384 d1j93a_ 327 P----------------------------EENFAHFFEIAKGLRY--- 343 ::::::::::: d1ug6a_ 385 -MDNFEWAFGYTRRFGLYYVDFPSQRRIPKRSALWYRERI-----ARA 426 TMalign alignment (TM-score: 0.57 Raw score:194.00) d1j93a_ 1 TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFR--D-------------- 44 :::: :::::::::::: :::::::::::: : d1ug6a_ 1 -----------NAEK-FLWGVATSAYQI---EGATQEDGRGPSIWDAFAQRPGAIRDGST 45 d1j93a_ 45 ------------------------------RSENV---------D-LVVEISLQPWKV-- 62 ::::: : :::::::::::: d1ug6a_ 46 GEPACDHYRRYEEDIALMQSLGVRAYRFSVAWPRILPEGRGRINPKGLAFYDRLVDRLLA 105 d1j93a_ 63 FRPDGVILFSDILTPL-SGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIPEKSVPYVG 121 :::::::::::::::: ::::::: :::::::::::::: d1ug6a_ 106 SGITPFLTLYHWDLPLALEERGGW----------------------RSRETAFAFAEYAE 143 d1j93a_ 122 EALTILRKEVNNQAAVLGFVGAPFTLASYVVEGGSS-KNFTKIKRLAFAEPKVLHALLQK 180 :::::::::: : :::::::::::::::::::::: : :: : : ::::: d1ug6a_ 144 AVARALADRV-P--FFATLNEPWCSAFLGHWTGEHAP--G-LR--N-------L-EAALR 187 d1j93a_ 181 FATSMAKYIRYQAD-S----G-AQAVQIFDS-WAT-----ELSPVDFEEFSLPYLKQIVD 228 :::::::::::::: : : ::::::::: :: :::::::::::::::::: d1ug6a_ 188 AAHHLLLGHGLAVEALRAAGARRVGIVLNFAP-AYGEDPE--AVDVADRYHNRFFLDPIL 244 d1j93a_ 229 S--------------------VK-LTHPNLPLILYASGSGGLL----------------- 250 : :: ::::::::::::: ::::: d1ug6a_ 245 GKGYPESPFRDPPPVPILSRDLELVARPLDFLGVNYY-APVRVAPGTGTLPVRYLPPEGP 303 d1j93a_ 251 ---ERLPLTGVDVVSLD-WTVDMADGRRRLGPNV------AIQ-GNVDPGVL------FG 293 : :::::::::::::::: ::: :::::::: :: d1ug6a_ 304 ATA-------------MGWEVYPEGLYHLLKRLGREVPWPLYVTENGAAYPDLWTGEAVV 350 d1j93a_ 294 SKEFITNRINDTVKKAG---K---GKHILNLGHGIKV--------------GT-----PE 328 ::::::::::::::::: : ::::::::::::: :: :: d1ug6a_ 351 EDPERVAYLEAHVEAALRAREEGVDLRGYFVWSLMDNFEWAFGYTRRFGLYYVDFPSQRR 410 d1j93a_ 329 ENF--AHFFEIAKGLRY 343 ::: ::::::::::: d1ug6a_ 411 IPKRSALWYRERIARA- 426 HHsearch alignment (Probability: 0.12 E-value:0.02) d1j93a_ 293 GSKEFITNRINDTVKKAGKGKHILNLGHGIK 323 ::::::::::::::::::::::::::::::: d1ug6a_ 311 VYPEGLYHLLKRLGREVPWPLYVTENGAAYP 341