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 | d1ta3a_ | Xylanase inhibitor protein I, XIP-I | (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 <-- 1.014 --> HitDALI alignment (Z-score: 11.1 Raw score:1292.90) d1j93a_ 1 tqpllldavrgkEVERPPVWLMRQ-AGRYMksyqllcekyplfrdrsenvdlvveISLQP 59 :::::::::::: ::::: ::::: d1ta3a_ 1 -----------aGGKTGQVTVFWGrNKAEG-------------------------SLREA 24 d1j93a_ 60 WKVFRPDGVILFSdILTPLsgmnipfdiikgkgpvifdplrtaadvekvREFIpeksvpy 119 ::::::::::::: ::::: :::: d1ta3a_ 25 CDSGMYTMVTMSF-LDVFG-----------------------------aNGKYhldlsgh 54 d1j93a_ 120 vgeALTILRKEV-NNQAAVLGFVGapftLASYvveggssknftkikrlafaepkvlhaLL 178 ::::::::: ::::::::::: :::: :: d1ta3a_ 55 dlsSVGADIKHCqSKGVPVSLSIG---gYGTG-----------------------yslPS 88 d1j93a_ 179 QKFATSMAKYIR-YQAD------------SGAQAVQIFDSWAtelspvdfEEFSlpYLKQ 225 :::::::::::: :::: ::::::::::::: :::: :::: d1ta3a_ 89 NRSALDLFDHLWnSYFGgskpsvprpfgdAWLDGVDLFLEHG--------TPAD--RYDV 138 d1j93a_ 226 IVDSVKlTHPN-------LPLILYASGSGGL---lerlPLTG-VDVVSLDWT-------- 266 :::::: :::: ::::::::::::: :::: ::::::::: d1ta3a_ 139 LALELA-KHNIrggpgkpLHLTATVRCGYPPaahvgraLATGiFERVHVRTYesdkwcnq 197 d1j93a_ 267 -vdMADGRRRL---GPNVAIQGNVDPGvLFGSkefITNRIN-DTVKKAGKG--KHILNLg 319 :::::::: ::::::::::::: :::: :::::: ::::::::: :::::: d1ta3a_ 198 nlgWEGSWDKWtaaYPATRFYVGLTAD-DKSHqwvHPKNVYyGVAPVAQKKdnYGGIML- 255 d1j93a_ 320 HGIKvgtpEENFahFFEIAKGLry 343 :::: :::: :::::::: d1ta3a_ 256 WDRY--fdKQTN--YSSLIKYY-a 274 FAST alignment (Normalized score: 6.18 Raw score:1894.00) d1j93a_ 1 TQPLLLDAVRGKEVER-PPVWLMR---QAGRYMKSYQLLCEKYPLFRDRSENVDLVVE-- 54 :::: ::::: :::: d1ta3a_ 1 ------------AGGKTGQVTV--FWGRNKA---------------------------EG 19 d1j93a_ 55 ISLQPWKVF--RPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFI 112 ::::::: :::::::: d1ta3a_ 20 SLREACD--SGMYTMVTMS----------------------------------------- 36 d1j93a_ 113 PEKS-------------------VPYVGEALTILRKEVNN-QAAVLGFVGAPFTLASYVV 152 ::::::::::::: ::::::: d1ta3a_ 37 ----FLDVFGANGKYHLDLSGHDLSSVGADIKHCQS----KGVPVSLS------------ 76 d1j93a_ 153 EGGSSKNFTKIKRLAFAEPKVLHAL-----------LQKFATSMAKYIRYQAD------- 194 :::::::::::::: d1ta3a_ 77 -------------------------IGGYGTGYSLPSNRSALDLFDHLWN---SYFGGSK 108 d1j93a_ 195 ---------SGAQAVQIFDSWATELSPVDFEEFSL-----PYLKQIVDSVKLTH------ 234 ::::::::::: :::::::::::: d1ta3a_ 109 PSVPRPFGDAWLDGVDLFLE---------------HGTPADRYDVLALELAK--HNIRGG 151 d1j93a_ 235 --PNLPLILYASGS------GGLLERLPL-TGVDVVSLDWTV-----------------D 268 ::::::::: ::::::::: :::::::: : d1ta3a_ 152 PGKPLHLTATV---RCGYPPAAHVGRALATGIFERVHV----RTYESDKWCNQNLGWEGS 204 d1j93a_ 269 MADGRRRLGPNVAIQ-GNVDPGVL------FGSKEFIT-NRINDTVKKAGKGKHILNLGH 320 ::::::: :::::: ::::: :::::::: :::::::: :::::: d1ta3a_ 205 WDKWTAA-YPATRF-YVGLTA---DDKSHQWVHPKNVYYGVAPVAQK---KDNYGG---- 252 d1j93a_ 321 GIKVGTP-----------EENFAHFFEIAKGLRY-- 343 ::::::::: d1ta3a_ 253 -------IMLWDRYFDKQTNYSSLIKY-------YA 274 TMalign alignment (TM-score: 0.53 Raw score:180.41) d1j93a_ 1 -TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDLVVEISLQP 59 ::::::::::::::::: : : :::: d1ta3a_ 1 A------------GGKTGQVTVFWGRNKAE-G----------------------S-LREA 24 d1j93a_ 60 WKVFRPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIP-----E 114 :::::::::::: ::: :: : : :::::: d1ta3a_ 25 CDSGMYTMVTMS-FLD-VF--G-----------------------A--NGKYHLDLSGH- 54 d1j93a_ 115 KSVPYVGEALTILRKEVNNQAAVLGFVGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKVL 174 ::::::::::::::::::::::::: :: :::: : d1ta3a_ 55 ----DLSSVGADIKHCQSKGVPVSLSIGG--YG-TGYS---------------------L 86 d1j93a_ 175 HALLQKFATSMAKYIRY-QAD------------SGAQAVQIFDSWATELSPVDFEEFSLP 221 : :::::::::::::: ::: ::::::::::::: : ::: d1ta3a_ 87 P--SNRSALDLFDHLWNSYFGGSKPSVPRPFGDAWLDGVDLFLEHG-------T-PAD-- 134 d1j93a_ 222 YLKQIVDSVKLTHP------NLPLILYASGSGGLL--ER-LPLT-GVDVVSLDW------ 265 :::::::::::::: ::::::::::::::: :: :::: ::::::::: d1ta3a_ 135 RYDVLALELAKHNIRGGPGKPLHLTATVRCGYPPAAHVGRALATGIFERVHVRTYESDKW 194 d1j93a_ 266 -T----VD-MADGRRRLGPNVAIQGNVDPGVLFG-SKEFITNRINDTVKKAG--KGKHIL 316 : :: ::::::::::::::::::::::::: :::::::::::::::: :::::: d1ta3a_ 195 CNQNLGWEGSWDKWTAAYPATRFYVGLTADDKSHQ-WVHPKNVYYGVAPVAQKKDNYGGI 253 d1j93a_ 317 NLGHGIKVGTPEENFAHFFEIAKGLRY 343 :: ::::: ::: :: ::::::::: d1ta3a_ 254 ML-WDRYF-DKQ--TN-YSSLIKYYA- 274 HHsearch alignment (Probability: 0.01 E-value:0.15) d1j93a_ 116 SVPYVGEALTILRKEVNNQAAVLGFVG 142 ::::::::::::::: :::::::::: d1ta3a_ 55 DLSSVGADIKHCQSK--GVPVSLSIGG 79