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 | d1uasa2 | Melibiase | (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 <-- 0.995 --> HitDALI alignment (Z-score: 11.7 Raw score:1305.20) d1j93a_ 1 tqpllldaVRGKeverpPVWLM-RQAGrymksyqllcekyplfrdrsenvdlVVEISLQP 59 :::: ::::: :::: :::::::: d1uasa2 1 ----fengLGRT----pQMGWNsWNHF---------------------ycgiNEQIIRET 31 d1j93a_ 60 WKVFR--------PDGVILFSDilTPLSGMnipfdiikgkgpvifdplrtaadvekvREF 111 ::::: ::::::::: :::::: ::: d1uasa2 32 ADALVntglaklgYQYVNIDDC-wAEYSRD---------------------------SQG 63 d1j93a_ 112 IPekSVPY--vgEALTILRKEV-NNQAAVLGFVGAPFTLasyvveggssknftkikrlaf 168 :: :::: :::::::::: :::::::::::::::: d1uasa2 64 NF--VPNRqtfpSGIKALADYVhAKGLKLGIYSDAGSQT--------------------- 100 d1j93a_ 169 aepkvlhallqkFATSMAKYIRYQADSGAQAVQIFDSWAtelspvdfeEFSLPYLKQIVD 228 ::::::::::::::::::::::::::: :::::::::::: d1uasa2 101 -----csnkmpgSLDHEEQDVKTFASWGVDYLKYDNCND-------agRSVMERYTRMSN 148 d1j93a_ 229 SVKLTHPNLPLILYASgSGGL-LERLPLtGVDVVSLD------------WTVDMADGRRr 275 :::::::::::::::: :::: :::::: :::::::: :::::::::: d1uasa2 149 AMKTYGKNIFFSLCEW-GKENpATWAGR-MGNSWRTTgdiadnwgsmtsRADENDQWAA- 205 d1j93a_ 276 LGPN-VAIQ-GNVDPgvLFGSKEFITNRINDTVKKAgkgkHILNlghgikvgtPEENFAH 333 :::: :::: ::::: ::::::::::::::::::: :::: ::::::: d1uasa2 206 YAGPgGWNDpDMLEVgnGGMSEAEYRSHFSIWALAK----APLL--igcdvrsMSQQTKN 259 d1j93a_ 334 FFEIakGLRY---- 343 :::: :::: d1uasa2 260 ILSNseVIAVnqds 273 FAST alignment (Normalized score: 6.24 Raw score:1909.00) d1j93a_ 1 TQPLLLDAVRGKEV------ERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRS-------- 46 ::::::: d1uasa2 1 --------------FENGLGRTPQMGW-------------------------NSWNHFYC 21 d1j93a_ 47 -ENVDLVVEISLQPWK----VFRPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRT 101 ::::::::::::::: ::::::::: d1uasa2 22 GINEQIIRETADALVNTGLAKLGYQYVNI------------------------------- 50 d1j93a_ 102 AADVEKVREFIPEKSVP------------------------YVGEALTILRKEVNNQAAV 137 ::::::::::: ::::: d1uasa2 51 -----------------DDCWAEYSRDSQGNFVPNRQTFPSGIKALADYVHA---KGLKL 90 d1j93a_ 138 LGFVGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKVLHALLQKF-------------ATS 184 ::::: ::: d1uasa2 91 GIYSD---------------------------------------AGSQTCSNKMPGSLDH 111 d1j93a_ 185 MAKYIRYQADSGAQAVQIFDSWATELSPVDFEE--------FSLPYLKQIVDSVKLTHPN 236 :::::::::::::::::: ::::::::::::::::::: d1uasa2 112 EEQDVKTFASWGVDYLKY---------------DNCNDAGRSVMERYTRMSNAMKTYGKN 156 d1j93a_ 237 LPLILYASGSG----GLLERLPLTGVDVVSLDWTV-----------------DMADGRRR 275 ::::::: :::::::: :::::: :::::::: d1uasa2 157 IFFSLCE----WGKENPATWAGR-MGNSWR-----TTGDIADNWGSMTSRADENDQWAAY 206 d1j93a_ 276 LGPNVAIQGNVDPGVL----------FGSKEFITNRINDTVKKAGKG-KHILNLGHGIKV 324 ::::::: :::::::::::::::: ::::: d1uasa2 207 AGPGGWN---------DPDMLEVGNGGMSEAEYRSHFSIWAL-----AKAPLL------- 245 d1j93a_ 325 GTP--------EENFAHFFEIAKGLRY----------- 343 ::::::::: d1uasa2 246 ---IGCDVRSMSQQTKNILS-------NSEVIAVNQDS 273 TMalign alignment (TM-score: 0.54 Raw score:184.96) d1j93a_ 1 --TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDLVVEISLQ 58 :::: : : :::::::::::: : :: ::::::: d1uasa2 1 FE-----NGLG-R--T-PQMGWNSWNHFY----C------------GI-----NEQIIRE 30 d1j93a_ 59 PWKVFR--------PDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVRE 110 :::::: :::::::::::: :::: :: d1uasa2 31 TADALVNTGLAKLGYQYVNIDDCWAE-YSRD---------------------------SQ 62 d1j93a_ 111 FIPEKSVPY--VGEALTILRKEV-NNQAAVLGFVGAPFTLASYVVEGGS-SKNFTKIKRL 166 ::: :::: :::::::::::: :::::::::::::: :::: :: d1uasa2 63 GNF--VPNRQTFPSGIKALADYVHAKGLKLGIYSDAGS-QTCS----NKM---------- 105 d1j93a_ 167 AFAEPKVLHALLQKFATSMAKYIRYQADSGAQAVQIFDSWATELSPVDFEEFSLPYLKQI 226 : :::::::::::::::::::::::::::: : : :::::::::: d1uasa2 106 -----------P-GSLDHEEQDVKTFASWGVDYLKYDNCND--A---G--RSVMERYTRM 146 d1j93a_ 227 VDSVKLTHPNLPLILYASGSGGLLERLPLTGVDVVSLD--W---------TVD-MADGRR 274 ::::::::::::::::: :::::::::::::::::::: : ::: :::::: d1uasa2 147 SNAMKTYGKNIFFSLCE-WGKENPATWAGRMGNSWRTTGDIADNWGSMTSRADENDQWAA 205 d1j93a_ 275 RLGPNVAIQGNVDPGVL-FGSKEFITNRINDTVKKAGKGKHILNLGHGIKV--GTPEE-N 330 ::::::::::::::::: :::::::::::::::::: ::::: :: : ::: : d1uasa2 206 YAGPGGWNDPDMLEVGNGGMSEAEYRSHFSIWALAK----APLLI--GC-DVR--SMSQQ 256 d1j93a_ 331 FAHFFEIAKGLRY---- 343 ::::::::::::: d1uasa2 257 TKNILSNSEVIAVNQDS 273 HHsearch alignment (Probability: 0.22 E-value:0.04) d1j93a_ 187 KYIRYQADSGAQAVQIFDSWATELSPVDFEEFSLPYLKQIVDSVKLTHPNLPLILYASGS 246 :::::::::::::::::::::::: ::::::::::::::::::: :::::::: d1uasa2 114 QDVKTFASWGVDYLKYDNCNDAGR-------SVMERYTRMSNAMKTYGKN--IFFSLCEW 164 d1j93a_ 247 GGLLER---LPLTGVDVVSLDWTVDMADGRR------RLGPNVAIQGNVDPGVLFGSKE- 296 :::::: :::::::::::::::::::::: :::::::::::::::::::::: d1uasa2 165 GKENPATWAGRMGNSWRTTGDIADNWGSMTSRADENDQWAAYAGPGGWNDPDMLEVGNGG 224 d1j93a_ 297 --FITNRINDTVKKAGKGKHILNLGHGIKVGTPEENFAHF 334 :::::::::::::::::::: ::: :::::::::::: d1uasa2 225 MSEAEYRSHFSIWALAKAPLLI--GCD-VRSMSQQTKNIL 261