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 | d1dosa_ | Fructose-bisphosphate aldolase (FBP aldolase) | Aldolase | 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 <-- 0.626 --> HitDALI alignment (Z-score: 9.6 Raw score:1144.90) d1j93a_ 1 ------------tqplLLDAvrGKEV--ERPPVWLMRQagrymksyqllcekyplfrdrs 46 :::: :::: :::::::::: d1dosa_ 1 skifdfvkpgvitgddVQKV--FQVAkeNNFALPAVNC---------------------- 36 d1j93a_ 47 envdlVVEISLQPWKVFR----PDGVILFSD-----iltplSGMNipfdiikgkgpvifd 97 ::::::::::::: ::::::::: :::: d1dosa_ 37 ----vGTDSINAVLETAAkvkaPVIVQFSNGgasfiagkgvKSDV--------------- 77 d1j93a_ 98 plrtaadvekvreFIPEksVPYVGEALTILRKEVN---nQAAVLGFVGAPftlasyvveg 154 :::: :::::::::::::::: ::::::::::: d1dosa_ 78 -------------PQGA-aILGAISGAHHVHQMAEhygvPVILHTDHCAK---------- 113 d1j93a_ 155 gssknftkikrlafaepkvlhallqkfatSMAKYIRYQA--------dsGAQAVQIFDSW 206 :::::::::: ::::::::::: d1dosa_ 114 --------------------------kllPWIDGLLDAGekhfaatgkpLFSSHMIDLSE 147 d1j93a_ 207 AtelspvDFEEfSLPYLKQIVDSVKLthPNLPLILYASG--------------------s 246 : :::: :::::::::::::: ::::::::::: d1dosa_ 148 E------SLQE-NIEICSKYLERMSK--IGMTLEIELGCtggeedgvdnshmdasalytq 198 d1j93a_ 247 GGLLERL-PLTG----vDVVSLDWTV------------DMADGRRRLG----------PN 279 ::::::: :::: ::::::::: :::::::::: :: d1dosa_ 199 PEDVDYAyTELSkisprFTIAASFGNvhgvykagnvvlTPTILRDSQEyvskkhnlphNS 258 d1j93a_ 280 VAIQGNVDPGVlfgskefITNRINDTVKKAgkgkHILNLghGIKV-GTPE---------- 328 ::::::::::: :::::::::::: ::::: :::: :::: d1dosa_ 259 LNFVFHGGSGS-------TAQEIKDSVSYG----VVKMN--IDTDtQWATwegvlnyyka 305 d1j93a_ 329 -------------------------------------ENFAHFFEIA-KGLRy 343 :::::::::: :::: d1dosa_ 306 neaylqgqlgnpkgedqpnkkyydprvwlragqtsmiARLEKAFQELnAIDVl 358 FAST alignment (Normalized score: 3.49 Raw score:1222.00) d1j93a_ 1 TQ--------------PLLLDAVRGKEV------ERPPVWLMRQAGRYMKSYQLLCEKYP 40 ::::::: :::::: d1dosa_ 1 --SKIFDFVKPGVITGDDVQKVF-----QVAKENNFALPA-------------------- 33 d1j93a_ 41 LFRDRSENVDLVVEI----SLQPWKVFRP-----------DGVILFSDILTPLSGMNIPF 85 ::::::: ::::: d1dosa_ 34 ---------------VNCVGTDSINA---VLETAAKVKAPVIVQF--------------- 60 d1j93a_ 86 DIIKGKGPVIFDPLRTAADVEKVREFIPE----------------KSVPYVGEALTILRK 129 ::::::::::::::: d1dosa_ 61 -----------------------------SNGGASFIAGKGVKSDVPQGAAILGAISGAH 91 d1j93a_ 130 EVNNQAA----------------------------------------------VLGFVGA 143 : ::::: d1dosa_ 92 H------VHQMAEHYGVPVILHTDHCAKKLLPWIDGLLDAGEKHFAATGKPLFSSHMI-- 143 d1j93a_ 144 PFTLASYVVEGGSSKNFTKIKRLAFAEPKVLHALLQK-----FATSMAKYIRYQADSGA- 197 :::::::::::::: d1dosa_ 144 -------------------------------------DLSEESLQENIEICSKYLE---R 163 d1j93a_ 198 -----QAVQIFDSWATELSPVDFEEF----------------------SLPYLKQIVDSV 230 ::::::: :::::::::::: d1dosa_ 164 MSKIGMTLEIEL--------------GCTGGEEDGVDNSHMDASALYTQPEDVDYAYTEL 209 d1j93a_ 231 KLTHPNLPLILYASGSG---------------GLLERLPLTGV---------------DV 260 ::::: :::::: :::::::: :: d1dosa_ 210 SKISP--RFTIAA----SFGNVHGVYKAGNVVLTPTILRD---SQEYVSKKHNLPHNSLN 260 d1j93a_ 261 VSL--DWTV---DMADGRRRLGPNVAIQGNV-----------DPGVLFG----------- 293 ::: :::: ::::::: :::::: d1dosa_ 261 FVFHGGSGSTAQEIKDSVS------------YGVVKMNIDTDTQWATW-EGVLNYYKANE 307 d1j93a_ 294 -----------------------------SKEFITNRINDTVKKAGKGKHILNLGHGIKV 324 :::::::::::::::: d1dosa_ 308 AYLQGQLGNPKGEDQPNKKYYDPRVWLRAGQTSMIARLEKAFQEL--------------- 352 d1j93a_ 325 GTPEENFAHFFEIAKGLRY------ 343 d1dosa_ 353 -------------------NAIDVL 358 TMalign alignment (TM-score: 0.53 Raw score:182.92) d1j93a_ 1 -----TQ----P---LLLDAVRGK-EV-------------------------ERPPVWLM 22 :: : ::::::::: :: :::::::: d1dosa_ 1 SKIFDFVKPGVITGDDVQKVFQVAKENNFALPAVNCVGTDSINAVLETAAKVKAPVIVQF 60 d1j93a_ 23 RQ-AGRYMKSYQLLCEKYPLFRDRSENVDLVVEISLQPWKVF--RP------DGVILFSD 73 :: ::::: ::::: :::: ::::: : :::::::::: :: :::::::: d1dosa_ 61 SNGGASFI-AGKGV-KSDV-PQGAA-----I-LGAISGAHHVHQMAEHYGVPVILHTDHC 111 d1j93a_ 74 ILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIPEKSVPYVGEALTILRKEVNN 133 :::::: : : : ::::::::::::::: d1dosa_ 112 AKKLLP-------W-------------------------I---D-GLLDAGEKHFAATGK 135 d1j93a_ 134 QAAVLGFVGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKVLHALLQKFATSMAKYIRYQA 193 :::::::::: :: : ::::::::::::::::: d1dosa_ 136 PLFSSHMIDL-SE-E----------------------------SLQENIEICSKYLERMS 165 d1j93a_ 194 DSGAQAVQIFDSWATEL-----------SPVDFEEFSLPYLKQIVDSVKLTHPNLPLILY 242 :::: :::::: ::::: ::::::: :::::::::::::::: :::::: d1dosa_ 166 KIGM-TLEIEL-GCTGGEEDGVDNSHMDASALYTQ--PEDVDYAYTELSKISP-RFTIAA 220 d1j93a_ 243 A--SGS--------GGLLERLP-LT--G----------VDVVSL-DWTVDMADGRRRLGP 278 : ::: :::::::: :: : :::::: ::::::::::::::: d1dosa_ 221 SFGNVHGVYKAGNVVLTPTILRDSQEYVSKKHNLPHNSLNFVFHGGSGSTAQEIKDSVSY 280 d1j93a_ 279 NVAIQGNV-DP-GVLFGS-------------------------------------K--EF 297 :::::::: :: :::::: : :: d1dosa_ 281 GVVKMNIDTDTQWATWEGVLNYYKANEAYLQGQLGNPKGEDQPNKKYYDPRVWLRAGQTS 340 d1j93a_ 298 ITNRINDTVKKAGKGKHILNLGHGIKVGTPEENFAHFFEIAKGLRY 343 ::::::::::::::: ::: d1dosa_ 341 MIARLEKAFQELNAI----------------------------DVL 358 HHsearch alignment (Probability: 0.36 E-value:0.15) d1j93a_ 165 RLAFAEPKVLHALLQKFATSMAKYIRYQADSGAQAVQIF-DSWATELSPVDFEEFSLPYL 223 ::::::::::::::::: :::::::::::: ::::::::: :::::::::: d1dosa_ 193 SALYTQPEDVDYAYTEL----------SKISPRFTIAASFGNVHGVYKA-GNVVLTPTIL 241 d1j93a_ 224 KQIVDSVKLTH----PNLPLILYASGSG--GLLERLPLTGVDVVSLDWTVDMADGR---R 274 ::::::::::: ::::::::::::: :::::::::::::::::::::::::: : d1dosa_ 242 RDSQEYVSKKHNLPHNSLNFVFHGGSGSTAQEIKDSVSYGVVKMNIDTDTQWATWEGVLN 301 d1j93a_ 275 RLGP-NVAIQG--------------NVDPGVLFGS-KEFITNRINDTVKKAGKGK 313 :::: :::::: :::::::::: ::::::::::::::::::: d1dosa_ 302 YYKANEAYLQGQLGNPKGEDQPNKKYYDPRVWLRAGQTSMIARLEKAFQELNAID 356