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 | d2ebna_ | 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 <-- 1.067 --> HitDALI alignment (Z-score: 10.4 Raw score:1214.50) d1j93a_ 1 tqpllldavrgkeVERPPVWLMRQagrymksyqllcekyplfrdrsenvdlvvEISLQPW 60 ::::::::::: ::::::: d2ebna_ 1 -----------ttKANIKLFSFTE--------------------------vndTNPLNNL 23 d1j93a_ 61 KV-------FRPDGVILFSDILTplsgMNIPfdiikgkgpvifdplrtaadvekVREFIP 113 :: :::::::::::::: :::: :::::: d2ebna_ 24 NFtlknsgkPLVDMVVLFSANIN----YDAA-----------------------NDKVFV 56 d1j93a_ 114 eksVPYVGEALTIL---RKEV-NNQAAVLGFVGapftLASYVveggssknftkikrlafa 169 ::::::::::: :::: ::::::::::: ::::: d2ebna_ 57 -snNPNVQHLLTNRakyLKPLqDKGIKVILSIL----GNHDR------------------ 93 d1j93a_ 170 epkvlhalLQKFATSMAKYIRYQAD-SGAQAVQIFDSW--atelspvdfeEFSLPYLKQI 226 ::::::::::::::::: :::::::::::: :::::::::: d2ebna_ 94 --sgianlSTARAKAFAQELKNTCDlYNLDGVFFDDEYsayqtpppsgfvTPSNNAAARL 151 d1j93a_ 227 VDSVKLTHPNLPLILYASgsgglleRLPL---------tGVDVVSLDWTVDMadGRRRL- 276 :::::::::::::::::: :::: ::::::::::::: ::::: d2ebna_ 152 AYETKQAMPNKLVTVYVY----srtSSFPtavdgvnagsYVDYAIHDYGGSY--DLATNy 205 d1j93a_ 277 GPNV--AIQGNVDP---GVLFgskefITNRINDTVKKAGkgkHILNLghGIKV------- 324 :::: :::::::: :::: ::::::::::::: ::::: :::: d2ebna_ 206 PGLAksGMVMSSQEfnqGRYA-----TAQALRNIVTKGY---GGHMI--FAMDpnrsnft 255 d1j93a_ 325 GTPEENFAHFFEIAKG-----------lry 343 :::::::::::::::: d2ebna_ 256 SGQLPALKLIAKELYGdelvysntpyskdw 285 FAST alignment (Normalized score: 4.61 Raw score:1441.00) d1j93a_ 1 TQPLLLDAVRGKEVE----RPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDLVVE-- 54 :::::: :::: d2ebna_ 1 ---------------TTKANIKLFS-FTEV----------------------------ND 16 d1j93a_ 55 -ISLQPWKVF---------RPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAAD 104 ::::::: ::::::: d2ebna_ 17 TNPLNNLN--FTLKNSGKPLVDMVVL---------------------------------- 40 d1j93a_ 105 VEKV-----------REFIPEKS---VPYVGE---ALTILRKEVNN----QAAVLGFVGA 143 :::: :::::: :::::::: :::::::: d2ebna_ 41 ----FSANINYDAANDKVF----VSNNPNVQHLLTNRAKYLKP---LQDKGIKVILSI-- 87 d1j93a_ 144 PFTLASYVVEGGSSKNFTKIKRLAFAEPKV------------LHALLQKFATSMAKYIRY 191 :::::::::::::::::: d2ebna_ 88 ------------------------------LGNHDRSGIANLSTARAKAFAQELKNTCDL 117 d1j93a_ 192 QADSGAQAVQIFDSWATELSPVDFEEF---------------SLPYLKQIVDSVKLTHPN 236 ::::::::::: :::::::::::::::::: d2ebna_ 118 ---YNLDGVFFDDE-------------YSAYQTPPPSGFVTPSNNAAARLAYETKQAMPN 161 d1j93a_ 237 LPLILYASGSGGLLERLPLT--------------------GVDVVSLDWTVD----MADG 272 ::::: ::::::: :::: d2ebna_ 162 KLVTV---------------YVYSRTSSFPTAVDGVNAGSYVDYAIH-----DYGGSYDL 201 d1j93a_ 273 RRRLGPNVAIQGNVDPGVLFGSKEF---------------------ITNRINDTVKKAGK 311 :::: :::::::::: d2ebna_ 202 ATNY---------------------PGLAKSGMVMSSQEFNQGRYATAQALRNIVT---- 236 d1j93a_ 312 GK---HILNLGHGIKVGT--------------PEENFAHFFEIAKGLRY----------- 343 :::: :::::::::::: d2ebna_ 237 --KGYGGHM---------IFAMDPNRSNFTSGQLPALKLIAKEL-----YGDELVYSNTP 280 d1j93a_ 344 ----- 344 d2ebna_ 281 YSKDW 285 TMalign alignment (TM-score: 0.53 Raw score:180.96) d1j93a_ 1 -TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDLVVEISLQP 59 : :::::::::::::: : ::::: d2ebna_ 1 T---T---------KANIKLFSFTEVND----T----------------------NPLNN 22 d1j93a_ 60 WKVF------RPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIP 113 :::: :::::::::::: :: : : :::::::::: d2ebna_ 23 LNFTLKNSGKPLVDMVVLFSAN-IN--Y-D--------------------AANDKVFVSN 58 d1j93a_ 114 ---EKSVPYVGEALTILRKEVNNQAAVLGFVGAPFTLASYVVEGGSSKNFTKIKRLAFAE 170 :::::::: :::::::::::::::::: :: ::::: : :: : d2ebna_ 59 NPN--VQHLLTNR-AKYLKPLQDKGIKVILSI---LG-NHDRS------G--IA--N--- 98 d1j93a_ 171 PKVLH-ALLQKFATSMAKYIRYQADSGAQAVQIFDSWATEL---------SPVDFEEFSL 220 :: ::::::::::::::::: : : :::::::::::: ::::: ::: d2ebna_ 99 ---LSTARAKAFAQELKNTCDLY--N-L-DGVFFDDEYSAYQTPPPSGFV-TPSNN-AAA 149 d1j93a_ 221 PYLKQIVDSVKLTHPNLPLILYASGSGGLLER-----LPLTGVDVVSLDWTVDMADGRRR 275 ::::::::::: ::::::::::::::::: ::::::::::::::::: ::::: d2ebna_ 150 RLAYETKQAMP----NKLVTVYVYSRTSSFPTAVDGVNAGSYVDYAIHDYGGSY-DLATN 204 d1j93a_ 276 LGPNV-AIQGNVDPGV--LFGSKEFITNRINDTVKKAGKGKHILNLGHGIK--V-GT--P 327 ::::: :::::::::: ::: :::::::::::::: ::::: :::: : :: : d2ebna_ 205 YPGLAKSGMVMSSQEFNQGRY---ATAQALRNIVTKGY---GGHMI-FAMDPNRSNFTSG 257 d1j93a_ 328 EENFAHFFEI-AKGL-------------RY 343 :::::::::: :::: d2ebna_ 258 QLPALKLIAKELYGDELVYSNTPYSKDW-- 285 HHsearch alignment (Probability: 0.18 E-value:0.01) d1j93a_ 180 KFATSMAKYIRYQADSGAQAVQIFDSWATELS--PVDFEEFSLPYLKQIVDSVKLTHPNL 237 :::::::::::: ::::::::::::::::: :::::::::::::::::::::::::: d2ebna_ 106 AFAQELKNTCDL---YNLDGVFFDDEYSAYQTPPPSGFVTPSNNAAARLAYETKQAMPNK 162 d1j93a_ 238 PLILYASGSGGL-LE--RLP--LTGVDVVSLDWTVDMADGRRRLGPNVAIQGNVDPGVL- 291 :::::::::::: :: ::: ::::::::::::::::: ::::::::::::::::: d2ebna_ 163 LVTVYVYSRTSSFPTAVDGVNAGSYVDYAIHDYGGSYDL---ATNYPGLAKSGMVMSSQE 219 d1j93a_ 292 -FGSKEFITNRINDTVKKA 309 :::::::::::::::::: d2ebna_ 220 FNQGRYATAQALRNIVTKG 238