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 | d1us3a2 | Xylanase 10c | (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 <-- 1.187 --> HitDALI alignment (Z-score: 12.7 Raw score:1512.10) d1j93a_ 1 tqpllldavrgkevERPPVWLMRQAgrymksYQLLcekyplfrdrsenvdLVVE--isLQ 58 ::::::::::: :::: :::: :: d1us3a2 1 -aysanvdhlrdlaPSDFPIGVAVS---ntdSATY---------------NLLTnsreQA 41 d1j93a_ 59 PWKVFrPDGVILF-SDIL-TPLSGmnipfdiikgkgpvifdplrtaadvekvREFIpekS 116 ::::: ::::::: :::: ::::: :::: : d1us3a2 42 VVKKH-FNHLTAGnIMKMsYMQPT----------------------------EGNF---N 69 d1j93a_ 117 VPYVGEALTILRKEVnnqAAVLGFVGApfTLASY-----VVEGgssknftkikrlafaep 171 ::::::::::::::: ::::::::: ::::: :::: d1us3a2 70 FTNADAFVDWATENN---MTVHGHALV--WHSDYqvpnfMKNW----------------a 108 d1j93a_ 172 KVLHALLQKFATSMAKYIRYQADSG-AQAVQIFDSwATELS--PVDF---------eefs 219 ::::::::::::::::::::::::: ::::::::: ::::: :::: d1us3a2 109 GSAEDFLAALDTHITTIVDHYEAKGnLVSWDVVNE-AIDDNspANFRttdsafyvksgns 167 d1j93a_ 220 LPYLKQIVDSVKLTHPNLPLILYASGS------GGLLERLPL------TGVDVVSLDWT- 266 ::::::::::::::::::::::::::: ::::::::: ::::::::::: d1us3a2 168 SVYIERAFQTARAADPAVILYYNDYNIeqnnakTTKMVDMVKdfqarsIPIDGVGFQMHv 227 d1j93a_ 267 -------vDMADGRRRL-GPNVAIQGnvDPGV---------------------lfGSKEF 297 ::::::::: :::::::: :::: ::::: d1us3a2 228 cmnypsiaNISAAMKKVvDLGLLVKIteLDVAvnqphcdaypankinplteaaqlAQKKR 287 d1j93a_ 298 ITNRINDTVKKAGKGKHILNLghGIKVG----------------------------tPEE 329 ::::::::::::::::::::: ::::: ::: d1us3a2 288 YCDVVKAYLDTVPVNQRGGIS-vWGTTDantwldglyreqfedekiswpllfdnnynDKP 346 d1j93a_ 330 NFAHFFEIAKG----lry 343 ::::::::::: d1us3a2 347 ALRGFADALIGtqctnth 364 FAST alignment (Normalized score: 5.77 Raw score:2038.00) d1j93a_ 1 TQPLLLDAVRGKEVE---------------RPPVWLMRQAGRYMKSYQLLCEKYPLFRDR 45 :::::: d1us3a2 1 ---------------AYSANVDHLRDLAPSDFPIGV------------------------ 21 d1j93a_ 46 SENVDLVVEISLQPWKVF------------------------RPDGVILF---SDILTPL 78 ::::::: :::::: d1us3a2 22 ------------------AVSNTDSATYNLLTNSREQAVVKKHFNHLTA-GNIMKMSYM- 61 d1j93a_ 79 SGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIPEKS--------VPYVGEALTILRKE 130 ::::::::::::: d1us3a2 62 --------------------------------------QPTEGNFNFTNADAFVDWATE- 82 d1j93a_ 131 VNN-QAAVLGFVGAPFTLASYVVEGGSSKNF------------TKIKRLAF---AEPKVL 174 :::::: :::: :::::: d1us3a2 83 ---NNMTVHG---------------------HALVWHSDYQVPNFMK----NWAGSAEDF 114 d1j93a_ 175 HALLQKFATSMAKYIRYQAD-SGAQAVQIFDSWATELSPVDFEEFS-------------- 219 ::::::: :::::::::: ::::::: d1us3a2 115 LAALDTH---ITTIVDHYEAKGNLVSWD------------------VVNEAIDDNSPANF 153 d1j93a_ 220 --------------LPYLKQIVDSVKLTHPNLPLILYASGS---GGLLERLPL------- 255 ::::::::::::::::::::::::::: ::::::::: d1us3a2 154 RTTDSAFYVKSGNSSVYIERAFQTARAADPAVILYYNDYNIEQNNAKTTKMVDMVKDFQA 213 d1j93a_ 256 --TGVDVVSLDWTV-----------DMADGRRRLG---PNVAIQGNVDPGVLFG------ 293 ::::::::: :::::::: ::::: d1us3a2 214 RSIPIDGVGFQ---MHVCMNYPSIANISAAMKK--VVDLGLLV-----------KITELD 257 d1j93a_ 294 ----------------------SKEFITNRINDTVKK----AGKGK-HILNLGHG----- 321 ::::::::::::::: ::::: :::: d1us3a2 258 VAVNQPHCDAYPANKINPLTEAAQLAQKKRYCDVVKAYLDTVPVNQRGGIS----VWGTT 313 d1j93a_ 322 ------------------------IKVGTPEENF--AHFFEIAKGLRY----------- 343 ::::: ::::::::: d1us3a2 314 DANTWLDGLYREQFEDEKISWPLLFDNNY-----NDKPALRGFAD---ALIGTQCTNTH 364 TMalign alignment (TM-score: 0.51 Raw score:174.05) d1j93a_ 1 ---------TQPLL--LDAVRGKEVERPPVWLMRQAG--R-YMKSYQL------------ 34 : ::::::::::::: : ::::::: d1us3a2 1 AYSANVDHL----RDL--------APSDFPIGVAVSNTDSATYNLLTNSREQAVVKKHFN 48 d1j93a_ 35 ---------LCEKYPLFRDRS----ENVDLVVEISLQPWKVFRPDGVILFSDILT-PL-- 78 :::::: :::::::::::::::: :: :::::::::: : d1us3a2 49 HLTAGNIMK------MSYMQPTEGNFNFTNADAFVDWATEN-NM-TVHGHALVWHS-DYQ 99 d1j93a_ 79 SGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIPEKSVPYVGEALTILRKEVNNQAAVL 138 :::: :::::: ::::::::::::::::::::::::: ::: d1us3a2 100 -----VPNF------MKNWAG----SAEDFLAALDTHITTIVDHYEAKGN-------LVS 137 d1j93a_ 139 GFVGAPFTL------ASYVVEGGSSKNFTKIKRL-AFAEPKVLHALLQKFATSMAKYIRY 191 ::::::::: ::: ::::: : : ::: ::: ::::::::::: d1us3a2 138 WDVVNEAIDDNSPANFRT-TDSAF------Y--VK-----SGN--SSV-YIERAFQTARA 180 d1j93a_ 192 QADSGAQAVQIFDSWAT--ELSPVDFEEFSLPYLKQIVDSVKLTHPNLPLILYASGSGGL 249 ::: :: :::::::::: :::::: ::::::::::::: : :::::: d1us3a2 181 ADP-AV-ILYYNDYNIEQN--NAKTTK--MVDMVKDFQARSI--P--IDGVGF------- 223 d1j93a_ 250 LERLPLTGVDVVSLDW---TVDMADGRRRLGPNV----AIQG-NVDPGVL---------- 291 :::: ::::::::::::::: :::: ::::::: d1us3a2 224 ------------QMHVCMNYPSIANISAAMKKVVDLGLLVKITELDVAVNQPHCDAYPAN 271 d1j93a_ 292 ----FGS--KEFITNRINDTVKKAGK-GK---H-ILNLGHGI-K-VG------------- 325 ::: ::::::::::::::::: :: : :::: ::: : :: d1us3a2 272 KINPLTEAAQLAQKKRYCDVVKAYLDTVPVNQRGGISV-WGTTDANTWLDGLYREQFEDE 330 d1j93a_ 326 --------TP-EENFAHFFEIAKGLRY------- 343 :: :::::::::::::::: d1us3a2 331 KISWPLLFDNNYNDKPALRGFADALIGTQCTNTH 364 HHsearch alignment (Probability: 0.06 E-value:0.26) d1j93a_ 222 YLKQIVDSVKLTHPNLPLILYASGS-------GG---LLERLPLT--GVDVVSLDWTV-- 267 ::::::::::::::::::::::::: :: :::::::: ::::::::::: d1us3a2 170 YIERAFQTARAADPAVILYYNDYNIEQNNAKTTKMVDMVKDFQARSIPIDGVGFQMHVCM 229 d1j93a_ 268 ---DMADGRRRL 276 ::::::::: d1us3a2 230 NYPSIANISAAM 241