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 | d1uhva2 | Beta-D-xylosidase, catalytic domain | (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 <-- 0.967 --> HitDALI alignment (Z-score: 11.2 Raw score:1372.90) d1j93a_ 1 tqpllldavrgkevERPP--VWLMRQagrymksyqllcekyplfrdrsenvdLVVE---- 54 :::: :::::: :::: d1uhva2 1 --------------FSDRwrYCVGTG-----------------------rlgLALQkeyi 23 d1j93a_ 55 -islQPWKVFRPDGVIlfSDILT---PLSGmnipfdiikgkgpvifdplrtaadveKVRE 110 :::::::::::: ::::: :::: :::: d1uhva2 24 etlkYVKENIDFKYIRghGLLCDdvgIYRE---------------------dvvgdEVKP 62 d1j93a_ 111 FIpekSVPYVGEALTILRKEVnnqAAVLGFVGapftlasyVVEGGSSKnftkikrlafae 170 :: :::::::::::::::: :::::::: :::::::: d1uhva2 63 FY---NFTYIDRIFDSFLEIG---IRPFVEIG--fmpkklASGTQTVF---------ywe 105 d1j93a_ 171 pkvlhaLLQKFATSMAKYIRYQAD-------sgaQAVQIFDSwATEL---spvDFEEfSL 220 :::::::::::::::::: :::::::: :::: :::: :: d1uhva2 106 gnvtppKDYEKWSDLVKAVLHHFIsrygieevlkWPFEIWNE-PNLKefwkdaDEKE-YF 163 d1j93a_ 221 PYLKQIVDSVKLTHPNLPLIL-YASG-SGGLLERLPL------TGVDVVSLDWT------ 266 ::::::::::::::::::::: :::: :::::::::: ::::::::::: d1uhva2 164 KLYKVTAKAIKEVNENLKVGGpAICGgADYWIEDFLNfcyeenVPVDFVSRHAYtskqge 223 d1j93a_ 267 -----------------vDMADGRRRLG----PNVAIQGnvDPGV---------lfGSKE 296 :::::::::: ::::::: :::: :::: d1uhva2 224 ytphliyqeimpseymlnEFKTVREIIKnshfPNLPFHIteYNTSyspqnpvhdtpFNAA 283 d1j93a_ 297 FITNRINDTVKKAgkgkHILNLgHGIKV----------------------gtPEENFAHF 334 ::::::::::::: ::::: ::::: :::::::: d1uhva2 284 YIARILSEGGDYV----DSFSY-WTFSDvfeerdvprsqfhggfglvalnmiPKPTFYTF 338 d1j93a_ 335 FEIaKGLRY 343 ::: ::::: d1uhva2 339 KFF-NAMGE 346 FAST alignment (Normalized score: 5.02 Raw score:1729.00) d1j93a_ 1 TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSEN------------ 48 d1uhva2 1 ------------------------------------------------FSDRWRYCVGTG 12 d1j93a_ 49 ------VDLVVEISLQPWKVFRPDGVILFS-DILTPLSGMNIPFDIIKGKGPVIFDPLRT 101 :::::::::::::::::::: ::::: d1uhva2 13 RLGLALQKEYIETLKYVKENIDFKYI----RGHGLL------------------------ 44 d1j93a_ 102 AADVEKVREFIPEK--------------------SVPYVGEALTILRKEVNN-QAAVLGF 140 :::::::::::::: ::::::: d1uhva2 45 --------------CDDVGIYREDVVGDEVKPFYNFTYIDRIFDSFLE----IGIRPFVE 86 d1j93a_ 141 VGAPFTLASY--------VVEGGSSKNFTKIKRLAFAEPKVLHA--------------LL 178 :::: :: d1uhva2 87 ----------IGFMPKKLASGT----------------------QTVFYWEGNVTPPKDY 114 d1j93a_ 179 QKFATSMAKYIRYQADSGA---------QAVQIFDSWATELSPVD--------------F 215 :::::::::::::::: :::: : d1uhva2 115 EKWSDLVKAVLHHFIS---RYGIEEVLKWPFE-------------IWNEPNLKEFWKDAD 158 d1j93a_ 216 EEFSLPYLKQIVDSVKLTHPNLPLILYASGS--------GGLLERLP------LTGVDVV 261 ::::::::::::::::::::::::: :::::::: ::::::: d1uhva2 159 EKEYFKLYKVTAKAIKEVNENLKVG------GPAICGGADYWIEDFLNFCYEENVPVDFV 212 d1j93a_ 262 SLDWTV---------------------------DMADGRRRL-----GPNVAI--QGNVD 287 :: :::::::: :::::: :::: d1uhva2 213 SR----HAYTSKQGEYTPHLIYQEIMPSEYMLNEFKTVREI-IKNSHFPNLPFHITEYN- 266 d1j93a_ 288 ------PGVLFGSKEFITNRINDTVKKAGKGK-----HILNLGHGIKVGTPEENF----- 331 ::::: :::::::::::::: :::: d1uhva2 267 TSYSPQNPVHD--TPFNAAYIARILSE-----GGDYVDSFS--------------YWTFS 305 d1j93a_ 332 --------------------------AHFFEIAKGLRY------ 343 ::::::::: d1uhva2 306 DVFEERDVPRSQFHGGFGLVALNMIPKPTFYTFKF---FNAMGE 346 TMalign alignment (TM-score: 0.53 Raw score:181.83) d1j93a_ 1 TQPLLLDAVRGKEVERP-PVWLMRQAG-RYMKSYQL--------------------LCEK 38 :::: ::::::::: :::::::: d1uhva2 1 -------------FSDRWRYCVGTGRLGLALQKEYIETLKYVKENIDFKYIRGHGL---- 43 d1j93a_ 39 YPLFRDRSE--------------NVDLVVEISLQPWKVFRPDGVILFSDILTPLSGMNIP 84 ::::::: ::::::::::::::: :: :::::::::: ::: ::: d1uhva2 44 --LCDDVGIYREDVVGDEVKPFYNFTYIDRIFDSFLEI-GI-RPFVEIGFMP-KKL-ASG 97 d1j93a_ 85 FDIIKGKGPVIFDPLRTAADVEKVREFIPEKSVPYVGEALTILRKEVNNQAAVLGFVGAP 144 ::::::::::: :: ::::::::::::::::::::::::::: :::::::::: d1uhva2 98 TQTVFYWEGNV--TP-------PKDYEKWSDLVKAVLHHFISRYGIEEV-LKWPFEIWNE 147 d1j93a_ 145 FTLASYVVEGGSSKNFTKIKRLAFAEPKVLHALLQKFATSMAKYIRYQADSG--AQAVQI 202 :::::::: : : :::::::::::::::::::: :::::: d1uhva2 148 PNLKEFWK----------D----------A--DEKEYFKLYKVTAKAIKEVNENLKVGGP 185 d1j93a_ 203 FDSWATELSPVDFEEFSLPYLKQIVDSVKLTHPNLPLILYASGSGG-----------LLE 251 ::: : :: :: :::::::::::: :::: :::::::::::: d1uhva2 186 AIC--G--GA--DY--WIEDFLNFCYEE-NVPV-DFVSRHAYTSKQGEYTPHLIYQE--- 232 d1j93a_ 252 RLPLTGVDVVSLDWTVD--MADGRRRLGP--N-------VAIQ-GNVDP-----GVLFGS 294 :::: :::::::::: : :::: ::::: :::::: d1uhva2 233 -------------IMPSEYMLNEFKTVREIIKNSHFPNLPFHITEYNTSYSPQNPVHDTP 279 d1j93a_ 295 KEFITNRINDTVKKAGKGKHILNLGHGIKV-------------G---TP--EENF--AHF 334 ::: ::::::::::::::::::::::::: : :: :::: ::: d1uhva2 280 -FNA-AYIARILSEGGDYVDSFSYWTFSDVFEERDVPRSQFHGGFGLVALNMIPKPTFYT 337 d1j93a_ 335 FEIAKGLRY 343 ::::::::: d1uhva2 338 FKFFNAMGE 346 HHsearch alignment (Probability: 0.21 E-value:0.15) d1j93a_ 122 EALTILRKEVNNQAAVLGFVGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKVLHALLQKF 181 ::::::::: ::::::::::::::::::: :::: :: ::::::::::::::::: d1uhva2 71 RIFDSFLEI--GIRPFVEIGFMPKKLASGT---QTVF-YW---EGNVTPPKDYEKWSDLV 121 d1j93a_ 182 ATSMAKYIRYQADSGAQAVQIFDSWAT--------ELSPVDFEEFSLPYLKQIVDSVKLT 233 ::::::::::::::::: ::::::::: ::::::: :::::::::::::: d1uhva2 122 KAVLHHFISRYGIEEVL-KWPFEIWNEPNLKEFWKDADEKEY----FKLYKVTAKAIKEV 176 d1j93a_ 234 HPNLPLILYASGSG------GLLERLPLT--GVDVVSLDW 265 :::::::::::::: ::::::::: ::::::::: d1uhva2 177 NENLKVGGPAICGGADYWIEDFLNFCYEENVPVDFVSRHA 216