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 | d1ji1a3 | Maltogenic amylase, central 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 <-- 1.262 --> HitDALI alignment (Z-score: 12.8 Raw score:1548.90) d1j93a_ 1 tqpllLDAVRgkeverPPVWLMRQAgrymkSYQL-LCEK--------------------- 38 ::::: ::::::::: :::: :::: d1ji1a3 1 -nfktPDWLK------NGVMYQIFP-drfyNGDSsNDVQtgsytyngtptekkawgssvy 52 d1j93a_ 39 ------ypLFRDRsenvdLVVEISLQPWKVFR----PDGVILFS--------DILTPLsg 80 ::::: :::::::::::::: :::::::: :::::: d1ji1a3 53 adpgydnsLVFFG-----GDLAGIDQKLGYIKktlgANILYLNPifkaptnhKYDTQD-- 105 d1j93a_ 81 mnipfdiikgkgpvifdplrtaadvekvrefipekSVPY-----vGEALTILRKEVNN-- 133 :::: ::::::::::::: d1ji1a3 106 -----------------------------------YMAVdpafgdNSTLQTLINDIHSta 130 d1j93a_ 134 ---QAAVLGFVGAP--------------------------------------ftlaSYVV 152 ::::::::::: :::: d1ji1a3 131 ngpKGYLILDGVFNhtgdshpwfdkynnfssqgayesqsspwynyytfytwpdsyaSFLG 190 d1j93a_ 153 EGGSSknftkikrlafaepkvLHAL-lQKFATSMA----KYIRYQAD--SGAQAVQIFDS 205 ::::: :::: :::::::: :::::::: ::::::::::: d1ji1a3 191 FNSLP--------------klNYGNsgSAVRGVIYnnsnSVAKTYLNppYSVDGWRLDAA 236 d1j93a_ 206 WA-telspvDFEEFSLPYLKQIVDSVKLTHPNLPLILYASGsggLLERLP--LTGVDVVS 262 :: :::::::::::::::::::::::::::::::: :::::: :::::::: d1ji1a3 237 QYvdangnnGSDVTNHQIWSEFRNAVKGVNSNAAIIGEYWG---NANPWTaqGNQWDAAT 293 d1j93a_ 263 LD---WTVD------------------------mADGRRRLGPNV--AIQGNVD----pG 289 :: :::: ::::::::::: ::::::: : d1ji1a3 294 NFdgfTQPVsewitgkdyqnnsasisttqfdswlRGTRANYPTNVqqSMMNFLSnhditR 353 d1j93a_ 290 VLF---GSKEFITNRINDTVKKAgkgkHILNLgHGIK-----------------vGTPEE 329 ::: ::::::::::::::::: ::::: :::: ::::: d1ji1a3 354 FATrsgGDLWKTYLALIFQMTYV----GTPTI-YYGDeygmqggadpdnrrsfdwSQATP 408 d1j93a_ 330 ---NFAHFFEIAKGLRY------- 343 :::::::::::::: d1ji1a3 409 snsAVALTQKLITIRNQypalrtg 432 FAST alignment (Normalized score: 4.28 Raw score:1648.00) d1j93a_ 1 TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRS-------------- 46 d1ji1a3 1 ----------------------------------------------NFKTPDWLKNGVMY 14 d1j93a_ 47 ---------------------------------------------------ENVDLVVEI 55 ::::::::: d1ji1a3 15 QIFPDRFYNGDSSNDVQTGSYTYNGTPTEKKAWGSSVYADPGYDNSLVFFGGDLAGIDQK 74 d1j93a_ 56 SLQPWKVFRPDGVILFSDILTPLSG---MNIPFDIIKGKGPVIFDPLRTAADVEKVREFI 112 ::::::::::::::: ::::: d1ji1a3 75 LGYIKKTLGANILYL----------NPIFKAPT--------------------------- 97 d1j93a_ 113 PEKS------------------VPYVGEALTILRKEVNN------QAAVLGFVGAPFTLA 148 :::::::::::: ::::::::: d1ji1a3 98 ----NHKYDTQDYMAVDPAFGDNSTLQTLINDIH-----STANGPKGYLILDGV------ 142 d1j93a_ 149 SYVVEGGS---------------------------------------------SKNFTKI 163 :::::: d1ji1a3 143 --------FNHTGDSHPWFDKYNNFSSQGAYESQSSPWYNYYTFYTWPDSYASFLGFNS- 193 d1j93a_ 164 KRLAFAEPKVLHALL----------QKFATSMA-----KYIRYQAD---SGAQAVQIFDS 205 ::::::: ::::::: :::::::: : d1ji1a3 194 ---------------LPKLNYGNSGSAVRGVI-YNNSNSVAKTYL-NPPYSVDGWRL--D 234 d1j93a_ 206 WATELSPVD---------FEEFSLPYLKQIVDSVKLTHPNLPLILYASGSGGLLERLPLT 256 ::: :::::::::::::::::::::::::::::: d1ji1a3 235 AAQ------YVDANGNNGSDVTNHQIWSEFRNAVKGVNSNAAIIGEYW------------ 276 d1j93a_ 257 -----------GVDVVSLDWTVDMADGRRRLGPNVAIQGNV---DPGVL----------- 291 ::::::: ::::: d1ji1a3 277 GNANPWTAQGNQWDAATN-----------------------FDGFTQPVSEWITGKDYQN 313 d1j93a_ 292 ---FGSKEFITNRINDTVKKAGK---GKHILNLGHGIKVG--------------TPEENF 331 :::::::::::::::::::: :::::: :::::: d1ji1a3 314 NSASISTTQFDSWLRGTRANYPTNVQQSMMNF--------LSNHDITRFATRSGGDLWKT 365 d1j93a_ 332 AHFFEIAKGLRY------------------------------------------------ 343 ::::::::: d1ji1a3 366 YLALIFQMT---YVGTPTIYYGDEYGMQGGADPDNRRSFDWSQATPSNSAVALTQKLITI 422 d1j93a_ 344 ---------- 344 d1ji1a3 423 RNQYPALRTG 432 TMalign alignment (TM-score: 0.62 Raw score:212.10) d1j93a_ 1 ---TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPL---FR--------D-- 44 ::::: : :::::::::::: :: ::: :::: :: : d1ji1a3 1 NFK----TPDWL-K-----NGVMYQIFPDRF--YN-GDS-SNDVQTGSYTYNGTPTEKKA 46 d1j93a_ 45 --------------R----SENVDLVVEISLQPWKV--FRPDGVILFSDILTPLSGMNIP 84 : ::::::::::::: :::::::::::::: d1ji1a3 47 WGSSVYADPGYDNSLVFFG----GDLAGIDQKLGYIKKTLGANILYLNPIFK-------- 94 d1j93a_ 85 FDIIKGKGPVIFDPLRTAADVEKVREFIP-----EKSVPYVGEALTILRKEVNNQAAVLG 139 ::: ::::::: ::::: :::::::::::::::::::::::: d1ji1a3 95 -APT-NHKYDTQ------------DYMAVDPAFG--DNSTLQTLINDIHSTANGPKGYLI 138 d1j93a_ 140 FVGAPFTLASYV--VEGG------------------------------SSKNFTKIKRLA 167 :::::::::::: :::: ::::::::::: d1ji1a3 139 LDGVFNHTGDSHPWFDKYNNFSSQGAYESQSSPWYNYYTFYTWPDSYA-SFLGFNSLPKL 197 d1j93a_ 168 FAEPKVL-HALLQKFAT---SMAKYIRYQADSGAQAVQIFDSWATELS---PVDFEEFSL 220 ::::: ::::::::: ::::::::: :::: :::::: :::::: ::::::::: d1ji1a3 198 --NYGNSGSAVRGVIYNNSNSVAKTYLNP-PYSV-DGWRLD-AAQYVDANGNNGSDVTNH 252 d1j93a_ 221 PYLKQIVDSVKLTHPNLPLILYASGSGGLLERLP-L-TGVDVVSLD---WTV-------- 267 ::::::::::::::: ::::::: ::::::::: : ::::::::: ::: d1ji1a3 253 QIWSEFRNAVKGVNS-NAAIIGE--YWGNANPWTAQGNQWDAATNFDGFTQPVSEWITGK 309 d1j93a_ 268 ----------------DMADGRRRLGPNV--AIQGNVDP----GVLF-G--SKEFITNRI 302 ::::::::::::: :::::::: :::: : ::::::::: d1ji1a3 310 DYQNNSASISTTQFDSWLRGTRANYPTNVQQSMMNFLSNHDITRFATRSGGDLWKTYLAL 369 d1j93a_ 303 NDTVKKAGKGKHILNLGHGI-----------K-VGTP--E----ENFAHFFEIAK-GL-- 341 ::::::: ::::::::: : :::: : ::::::::::: :: d1ji1a3 370 IFQMTYV----GTPTIYYGDEYGMQGGADPDNRRSFDWSQATPSNSAVALTQKLITIRNQ 425 d1j93a_ 342 R--Y--- 343 : : d1ji1a3 426 YPALRTG 432 HHsearch alignment (Probability: 0.13 E-value:0.02) d1j93a_ 170 EPKVLHALLQKFATSMAKYIRYQADSGAQAVQIFDSWATELSPVDF---EEFSLPYLKQI 226 :::::::::::::::::::::: ::::::::: :: ::::::::: ::::::::::: d1ji1a3 203 GSAVRGVIYNNSNSVAKTYLNP--PYSVDGWRL-DA-AQYVDANGNNGSDVTNHQIWSEF 258 d1j93a_ 227 VDSVKLTHPNLPL 239 ::::::::::::: d1ji1a3 259 RNAVKGVNSNAAI 271