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 | d1d2ka1 | Chitinase 1 | (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 <-- 1.063 --> HitDALI alignment (Z-score: 11.5 Raw score:1371.70) d1j93a_ 1 tqpllldavrgkevERPPVWLMRQagrymksYQLLcekyplfrdrsenvdlVVEIslQPW 60 :::::::::: :::: :::: ::: d1d2ka1 1 --------------GGFRSVVYFV---nwaiYGRG---------------hNPQD--LKA 26 d1j93a_ 61 KvfRPDGVILFSDIltPLSGmnipfdiikgkgpvifdplrtaadvekvrefipeksVPYV 120 : ::::::::::: :::: :::: d1d2ka1 27 D--QFTHILYAFAN--IRPS-----------------------------gevylsdTWAD 53 d1j93a_ 121 -----------------gEALTILRKEVN--NQAAVLGFVG---apfTLASyvveggssk 158 ::::::::::: :::::::::: :::: d1d2ka1 54 tdkhypgdkwdepgnnvyGCIKQMYLLKKnnRNLKTLLSIGgwtyspNFKT--------- 104 d1j93a_ 159 nftkikrlafaepkvlhaLLQKFATSMAKYIRYQAD-SGAQAVQIFDSWaTELSpVDFEe 217 :::::::::::::::::: :::::::::::: :::: :::: d1d2ka1 105 ----------------paSTEEGRKKFADTSLKLMKdLGFDGIDIDWEY-PEDE-KQAN- 145 d1j93a_ 218 FSLPYLKQIVDSVKLTH------pNLPLILYAS----GSGGL-LERLPLtGVDVVSLDWT 266 ::::::::::::::::: ::::::::: ::::: :::::: :::::::::: d1d2ka1 146 DFVLLLKACREALDAYSakhpngkKFLLTIASPagpqNYNKLkLAEMDK-YLDFWNLMAY 204 d1j93a_ 267 ---------------------------vDMADGRRRL--GPNV--AIQGNVDPgvlfGSK 295 ::::::::: :::: :::::::: ::: d1d2ka1 205 dfsgswdkvsghmsnvfpsttkpestpfSSDKAVKDYikAGVPanKIVLGMPL----DTV 260 d1j93a_ 296 EFITNRINDTVKKAgkgKHILNLgHGIKVGTPEENF--AHFFEIAKG------------- 340 :::::::::::::: :::::: :::::::::::: ::::::::: d1d2ka1 261 KIAGKKAEYITKNG---MGGGMW-WESSSDKTGNESlvGTVVNGLGGtgkleqrenelsy 316 d1j93a_ 341 -----------lry 343 d1d2ka1 317 pesvydnlkngmps 330 FAST alignment (Normalized score: 6.16 Raw score:2074.00) d1j93a_ 1 TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDLVVE------ 54 ::::::: :::::: d1d2ka1 1 --------------GGFRSVV-YFVNWA--------------------------IYGRGH 19 d1j93a_ 55 ISLQPWKVF----RPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVRE 110 :::: ::::::: d1d2ka1 20 NPQD-----LKADQFTHILY---------------------------------------- 34 d1j93a_ 111 FIPEKS-----------------------------------VPYVGEALTILRKEVNNQA 135 ::::::::::::::: ::: d1d2ka1 35 ------AFANIRPSGEVYLSDTWADTDKHYPGDKWDEPGNNVYGCIKQMYLLKKNN-RNL 87 d1j93a_ 136 AVLGFVGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKV---------------LHALLQK 180 ::::: ::::::: d1d2ka1 88 KTLLS---------------------------------IGGWTYSPNFKTPASTEEGRKK 114 d1j93a_ 181 FATSMAKYIRYQADSGAQAVQIFDSWATELS---PVDFEEFSLPYLKQIVDSVKLTHP-- 235 ::::::::::: ::::::::::: :::::::::::::::::::::: d1d2ka1 115 FADTSLKLMKD---LGFDGIDIDWE------YPEDEKQANDFVLLLKACREALDAY--SA 163 d1j93a_ 236 ------NLPLILYAS-----GSGG-LLERLPLTGVDVVSLDWT----------------- 266 :::::::: :::: ::::::: ::::::: d1d2ka1 164 KHPNGKKFLLTIAS-PAGPQNYNKLKLAEMDK-YLDFWNL---MAYDFSGSWDKVSGHMS 218 d1j93a_ 267 -------------VDMADGRRR-----LGPNVAIQ---GNVDPGVLFGSKEFITNRINDT 305 ::::::::: :::: :::: :::::::::::::: d1d2ka1 219 NVFPSTTKPESTPFSSDKAVKDYIKAGVPAN----KIVLGMP----LDTVKIAGKKAEYI 270 d1j93a_ 306 VKKAGKGKHILNLGHGI------KVGTPE---ENFAHFFEIAKGLRY------------- 343 :: :::: :::::: ::::::::: d1d2ka1 271 TK--NGMG---------GGMWWESSSDKTGNESLVGTVVNG------LGGTGKLEQRENE 313 d1j93a_ 344 ----------------- 344 d1d2ka1 314 LSYPESVYDNLKNGMPS 330 TMalign alignment (TM-score: 0.55 Raw score:188.85) d1j93a_ 1 TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDLVVEISLQPW 60 :: ::::::::::: ::::: ::::::: d1d2ka1 1 ------------GG--FRSVVYFVNWA---IYGRG------------------HNPQDLK 25 d1j93a_ 61 KVFRPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIP--EKSV- 117 : ::::::::: ::: :: : :::::: :: d1d2ka1 26 A-DQFTHILYA-FAN-IR--------------------------P--SGEVYLSD--TWA 52 d1j93a_ 118 PYV-------------GE--ALTILRKEVN-NQAAVLGFVGAPFTLASYVVEGGSSKNFT 161 ::: :: :::::::::: ::::::::::::::::::: d1d2ka1 53 DTDKHYPGDKWDEPGNNVYGCIKQMYLLKKNNRNLKTLLSIGGWTYSPNF---------- 102 d1j93a_ 162 KIKRLAFAEPKVLHALLQKFATSMAKYIRYQADSGAQAVQIFDSWATELSPVDFEEFSLP 221 : : :::: :::::::::::::::::::::::::::::: :: ::::::::: d1d2ka1 103 -K---T-----PAST-EEGRKKFADTSLKLMKDLGFDGIDIDWEYP--ED-EKQANDFVL 149 d1j93a_ 222 YLKQIVDSVKLTHP------NLPLILYASG---SGG-L-LERLPLTGVDVVSLDW----- 265 :::::::::::::: :::::::::: ::: : :::::: ::::::::: d1d2ka1 150 LLKACREALDAYSAKHPNGKKFLLTIASPAGPQNYNKLKLAEMDK-YLDFWNLMAYDFSG 208 d1j93a_ 266 ------------------------TVD--MADGRRRLGPNVAIQGNVDPGVLFGSKEFIT 299 ::: :::::::::: ::::::::: ::: ::::: d1d2ka1 209 SWDKVSGHMSNVFPSTTKPESTPFSSDKAVKDYIKAGVP-ANKIVLGMP--LDT-VKIAG 264 d1j93a_ 300 NRINDTVKKAGKGKHILNLGHGIKVGTPE--ENF-AHFFEIAKGL-RY------------ 343 ::::::::::: ::::: :::::::: ::: :::::::::: :: d1d2ka1 265 KKAEYITKNGM---GGGMW--WESSSDKTGNESLVGTVVNGLGGTGKLEQRENELSYPES 319 d1j93a_ 344 ----------- 344 d1d2ka1 320 VYDNLKNGMPS 330 HHsearch alignment (Probability: 0.06 E-value:0.05) d1j93a_ 116 SVPYVGEALTILRKEVNNQAAVLGFVGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKVLH 175 ::::::::::::::::::::::::::: :: ::::::: ::::::::: d1d2ka1 69 NVYGCIKQMYLLKKNNRNLKTLLSIGG--WT---------YSPNFKT----PASTEEGRK 113 d1j93a_ 176 ALLQKFATSMAKYIRYQADSGAQAVQIFDSWATELSPVDFE 216 :::::::: :: :::::::::: :::::::::::: d1d2ka1 114 KFADTSLK----LM---KDLGFDGIDI--DWEYPEDEKQAN 145