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 | d1bqca_ | Beta-mannanase | (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 <-- 1.019 --> HitDALI alignment (Z-score: 11.8 Raw score:1372.80) d1j93a_ 1 -tqpllldaVRGK--everPPVWLMRQagrymksyqllcekyplfrdrsenvdLVVEisL 57 :::: :::::::: :::: : d1bqca_ 1 atglhvkngRLYEangqefIIRGVSHP-----------------------hnwYPQH--T 35 d1j93a_ 58 QPWKVFR---PDGVILFSDilTPLSgmnipfdiikgkgpvifdplrtaadvekvrefipe 114 ::::::: ::::::::: :::: d1bqca_ 36 QAFADIKshgANTVRVVLS-nGVRW----------------------------------- 59 d1j93a_ 115 kSVPYvGEALTILRKEVNN-QAAVLGFVGapfTLASYVVeggssknftkikrlafaepkv 173 :::: ::::::::::::: ::::::::: ::::::: d1bqca_ 60 -SKNG-PSDVANVISLCKQnRLICMLEVHdttGYGEQSG--------------------- 96 d1j93a_ 174 lhallqkFATSMAKYIRYQADSG-----aQAVQI-FDSWaTELSpVDFEeFSLPYLKQIV 227 :::::::::::::::: ::::: :::: :::: :::: :::::::::: d1bqca_ 97 -----asTLDQAVDYWIELKSVLqgeedyVLINIgNEPY-GNDS-ATVA-AWATDTSAAI 148 d1j93a_ 228 DSVKLTHPNLPLILYA---SGSGGL--LERLPLTG------vDVVSLDWT------vDMA 270 :::::::::::::::: :::::: :::::::: :::::::: ::: d1bqca_ 149 QRLRAAGFEHTLVVDApnwGQDWTNtmRNNADQVYasdptgnTVFSIHMYgvysqasTIT 208 d1j93a_ 271 DGRRRLG-PNVAIQG-nVDPGVLfgskefitnRINDTVKKAGKGKHILNL-----ghgiK 323 ::::::: ::::::: :::::: :::::::::::::::::: : d1bqca_ 209 SYLEHFVnAGLPLIIgeFGHDHS-----dgnpDEDTIMAEAERLKLGYIGwswsgngggV 263 d1j93a_ 324 VGT----------PEENFAHFFE---IAKGL------ry 343 ::: :::::::::: ::::: d1bqca_ 264 EYLdmvynfdgdnLSPWGERIFYgpnGIASTakeavifg 302 FAST alignment (Normalized score: 4.44 Raw score:1428.00) d1j93a_ 1 TQPLLLDAVRGKEVE------------------RPPVWLMRQAGRYMKSYQLLCEKYPLF 42 :::::: d1bqca_ 1 ---------------ATGLHVKNGRLYEANGQEFIIRGV--------------------- 24 d1j93a_ 43 RDR----SENVDLVVEISLQPWKVFRPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDP 98 ::::: :::::::::: ::::::::::: d1bqca_ 25 ---SHPHNWYPQ-HTQAFADIKS-HGANTVRVVLS------------------------- 54 d1j93a_ 99 LRTAADVEKVREFIPEKS---------VPYVGEALTILRKEVNNQAAVLGFVGAPF---- 145 ::::::::::::: ::::::::: d1bqca_ 55 ------------------NGVRWSKNGPSDVANVISLCKQ---NRLICMLEV----HDTT 89 d1j93a_ 146 TLASYVVEGGSSKNFTKIKRLAFAEPKVLHALLQK-----FATSMAKYIRYQADSGA--- 197 :::: :::::::::::::: d1bqca_ 90 GYGE-------------------------------QSGASTLDQAVDYWIELKS---VLQ 115 d1j93a_ 198 -----QAVQIFDSWATELSPVDFE-------------EFSLPYLKQIVDSVKLTH--PNL 237 :::: :::::::::::::::: ::: d1bqca_ 116 GEEDYVLIN---------------IGNEPYGNDSATVAAWATDTSAAIQRLRA--AGFEH 158 d1j93a_ 238 PLILYASG------------SGGLLERLPLTGV------DVVSLDWTVDMADGRRRLGPN 279 :::: :::::::::: ::::: d1bqca_ 159 TLVV----DAPNWGQDWTNTMRNNADQVYA---SDPTGNTVFSI---------------- 195 d1j93a_ 280 VAIQGNV-DPGVLFGSKEFITNRINDTVKKAGKGKHILNL------GHGIK-----VGTP 327 :::::: :::::::::::::: ::::: :::: d1bqca_ 196 -------HMYGVYS-QASTITSYLEHFVN-----------AGLPLIIGEFGHDHSDGNPD 236 d1j93a_ 328 EENFAHFFEIAKGLRY-------------------------------------------- 343 :::::::::: d1bqca_ 237 EDTIMAEAER------LKLGYIGWSWSGNGGGVEYLDMVYNFDGDNLSPWGERIFYGPNG 290 d1j93a_ 344 ------------ 344 d1bqca_ 291 IASTAKEAVIFG 302 TMalign alignment (TM-score: 0.51 Raw score:175.97) d1j93a_ 1 TQPLLLD--AVRG--KEVERPPVWLMRQAGRYMKSY-------------------QLLCE 37 ::::::: :::: ::: ::::::::::::::::: d1bqca_ 1 ATGLHVKNGRLYEANGQE-FIIRGVSHPHNWYPQHTQAFADIKSHGANTVRVVLS----- 54 d1j93a_ 38 KYPLFRDRSENVDLVVEISLQPWKVFR---PDGVILFSDILTPLSGMNIPFDIIKGKGPV 94 ::::::: :::::::::::::: :::::::::::: : : : :: d1bqca_ 55 --NGVRWSK----NGPSDVANVISLCKQNRLICMLEVHDTTG-Y----G-E-------QS 95 d1j93a_ 95 IF-DPLRTAADVEKVREFIPEKSVPYVGEALTILRKEVNNQAAVLGFVGAPFTLASYVVE 153 :: ::: :::::::::::::: ::::::::::::: :::: : d1bqca_ 96 GAS--------------TLD--QAVDYWIELKSVLQ-GEEDYVLINIGNE--PYGN--D- 133 d1j93a_ 154 GGSSKNFTKIKRLAFAEPKVLHALLQKFATSMAKYIRYQADS-G-AQAVQIFDSWATELS 211 : :::::::::::::::::::: : :::::::::::: : d1bqca_ 134 --------------------S-ATVAAWATDTSAAIQRLRAAGFEHTLVVDAPNWGQ-D- 170 d1j93a_ 212 PVDFEEFSLPYLKQIVDSVKLTH-PNLPLILYASG--SGG--LLERLP-LT----GVDVV 261 : : : ::::::::::::: ::::::::::: ::: :::::: :: ::::: d1bqca_ 171 ---W--T-N-TMRNNADQVYASDPTGNTVFSIHMYGVYSQASTITSYLEHFVNAGLPLII 223 d1j93a_ 262 SLDWT-------VDMADGRRRLGPNVAIQGNVDP----------GVLF--GSKEF---IT 299 ::::: ::: :::::::::::::::::: :::: ::::: :: d1bqca_ 224 GEFGHDHSDGNPDED-TIMAEAERLKLGYIGWSWSGNGGGVEYLDMVYNFDGDNLSPWGE 282 d1j93a_ 300 NRIND--TVKKAGKGKHILNLGHGIKVGTPEENFAHFFEIAKG-LR-Y 343 ::::: :::: ::: ::: : d1bqca_ 283 RIFYGPNGIAS-TAK-------------------------EAVI-FG- 302 HHsearch alignment (Probability: 0.11 E-value:0.19) d1j93a_ 60 WKVFRPDGVIL 70 ::::::::::: d1bqca_ 41 IKSHGANTVRV 51