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: T542_A.pdb A
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1tx2a_ | Dihydropteroate synthetase | Dihydropteroate synthetase-like | TIM beta/alpha-barrel | α/β |
| Hit | d1q6oa_ | 3-keto-L-gulonate 6-phosphate decarboxylase | Ribulose-phoshate binding barrel | TIM beta/alpha-barrel | α/β |
Query <-- 0.687 --> IntermediateDALI alignment (Z-score: 2.9 Raw score:483.20) query 1 ---------------SLQLRLALN----qidstvgdiagnAEAILRWTRHSAEQGAHLVA 41 ::::::::: :::::::::::::::::::: d1tx2a_ 1 kwdydlrcgeytlnlNEKTLIMGIlnvtpdsfsdggsyneVDAAVRHAKEMRDEGAHIID 60 query 42 fpemALTGypvedlalrSSFVEASRTALRELAARLAeEGFGeLPVLVGYldrsesaqpky 101 :::: ::::::::::::::::::: :::: ::::::: d1tx2a_ 61 ---iGGES-------faKVSVEEEIKRVVPMIQAVS-KEVK-LPISIDT----------- 97 query 102 gqpagaprnaaavlhrGRVALT-FAKHhlpnygvfdefryfvPGDT-mpivrlhgvdiaL 159 :::::: :::: :::: : d1tx2a_ 98 -----ykaevakqaieAGAHIInDIWG--------------aKAEPkiaevaahydvpiI 138 query 160 AICE---------dlwQDGGR----vpaarsagaglllsvnaspyerdkDDTRLELVRKR 206 :::: ::::: ::::::::::: d1tx2a_ 139 LMHNrdnmnyrnlmadMIADLydsikiakdagvrdeniildpgigfaktPEQNLEAMRNL 198 query 207 aQEAG---ctTAYLAmiggqdelvFDGD------------------sivVDRDGevvara 245 :::: ::::: :::: ::::: d1tx2a_ 199 -EQLNvlgypVLLGT-------srKSFIghvldlpveerlegtgatvclGIEKG------ 244 query 246 pqfsegCVVLdldlpaaeaepptgvvddglridrlviseeplpayeaeLAGGyadrldad 305 :::: :::: d1tx2a_ 245 cefvrvHDVK-----------------------------------emsRMAK-------- 261 query 306 eevysalvvglrayvakngfrsvliglsggidsalvaaiacdalgaqnvygvsmpskyss 365 d1tx2a_ 262 ------------------------------------------------------------ 262 query 366 dhskgdaaelarrtglnfrtvsiepmfdaymaslgltglaeenlqsrlrgttlmaisnqe 425 d1tx2a_ 262 ------------------------------------------------------------ 262 query 426 ghivlapgnkselavgystlygdsvgaygpikdvyktsifrlaewrnraaaergqtppip 485 d1tx2a_ 262 ------------------------------------------------------------ 262 query 486 easitkpdypvldailelyvdrdtgadaivaagydrelvvktlrmvdtaeykrrqyppgt 545 d1tx2a_ 262 ------------------------------------------------------------ 262 query 546 kisakgfgkdrrlpitnrwregh 568 d1tx2a_ 262 ---------------mmdamigk 269 FAST alignment (Normalized score: 1.23 Raw score:478.70) query 1 ----------------SLQLRLALNQIDSTVGD---IAGNAEAILRWTRHSAEQGAHLVA 41 ::::::::::::::::: :::::::::::::::::::::::: d1tx2a_ 1 KWDYDLRCGEYTLNLNEKTLIMGILNVTPDSFSDGGSYNEVDAAVRHAKEMRDEGAHIID 60 query 42 FPEMALTGYPVEDLALRSSFVEASRTALRELAARLAEEGF-------------------- 81 :: d1tx2a_ 61 IG--------------------------------------GESFAKVSVEEEIKRVVPMI 82 query 82 ------GELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRVALTFAKHHLPNYGVF 135 ::::::: d1tx2a_ 83 QAVSKEVKLPISI----------------------------------------------- 95 query 136 DEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGAGLLLSVNASPYERDK 195 d1tx2a_ 96 ------------------------------------------------------------ 96 query 196 DDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGEVVARAPQFSEGCVVL 255 d1tx2a_ 96 ------------------------------------------------------------ 96 query 256 DLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYADRLDADEEVYSALVVG 315 d1tx2a_ 96 ------------------------------------------------------------ 96 query 316 LRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVS----------------- 358 d1tx2a_ 96 -------------------------------------------DTYKAEVAKQAIEAGAH 112 query 359 ----------------------------MPSKYSSDHSKGDAAELARRTGLNFRTVSIEP 390 :::: d1tx2a_ 113 IINDIWGAKAEPKIAEVAAHYDVPIILMHNRD---------------------------- 144 query 391 MFDAYMASLG----LTGLAEENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLY 446 :::::::::::::::::::: d1tx2a_ 145 ----------NMNYRNLMADMIADLYDSIKIAKD-------------------------- 168 query 447 GDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVD 506 d1tx2a_ 169 ------------------------------------------------------------ 169 query 507 RDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWRE 566 d1tx2a_ 169 ------------------------------------------------------------ 169 query 567 GH---------------------------------------------------------- 568 d1tx2a_ 169 --AGVRDENIILDPGIGFAKTPEQNLEAMRNLEQLNVLGYPVLLGTSRKSFIGHVLDLPV 226 query 569 ------------------------------------------- 569 d1tx2a_ 227 EERLEGTGATVCLGIEKGCEFVRVHDVKEMSRMAKMMDAMIGK 269 TMalign alignment (TM-score: 0.25 Raw score:142.24) query 1 --SLQL------RLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPV 52 :::: ::: : :::: :::: ::: d1tx2a_ 1 KWDYDLRCGEYTLNL------------------------N-EKTL--IMGI--LNV---- 27 query 53 EDLALRSSFV--E-ASRTALRELAARLAEEGFGELPVLVGYLDR---SESAQPKYGQPAG 106 :: ::::: : :::::::::::::: ::: :::::::::: :: : : d1tx2a_ 28 --TP-DSFSDGGSYNEVDAAVRHAKEMR-DEG--AHIIDIGGESFAK---VS--V-E--- 72 query 107 APR-NAA-AV--LHRGRV-ALTFAKHHLPNYGVFDEFRYFVPGDTMPIV-RLHGVDIALA 160 ::: ::: :: :::::: ::::::::: :::::::: : ::::: d1tx2a_ 73 EEIKRVVPMIQAVSKEVKLPISIDTYKA-------------EVAKQAIEA-G---AHIIN 115 query 161 ICEDLWQDGGRVPAARSAGAGLLLSVNASP-YERD-K---DD-TRLELVRKRAQE--AGC 212 :::::::::::::::::: : ::::::::: :::: : :: :::::::::::: ::: d1tx2a_ 116 DIWGAKAEPKIAEVAAHY-D-VPIILMHNRDNMNYRNLMADMIADLYDSIKIAKDAGVRD 173 query 213 T-TAYLAMIGG-QDELV-FD--GD--SIVVDRDGEVVARAPQFSE-GCVVLDLDLPAAEA 264 : ::::::::: ::: :: :: ::::: :::::::: ::: d1tx2a_ 174 ENIILDPGIGFA--KTPEQNLEAMRNLEQLN--VLGYPVLL-GTSR-------------- 214 query 265 EPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYADRLDADEEVYSALVVGLRAYVAKNG 324 :::::::: ::::: d1tx2a_ 215 ----------------------------------------------KSFIGHVL-DLPVE 227 query 325 FR----------------------------------------SVLIGLSGGIDSALVAAI 344 :: d1tx2a_ 228 ERLEGTGATVCLGIEKGCEFVRVHDVKEMSRMAKMMDAMIGK------------------ 269 query 345 ACDALGAQNVYGVSMPSKYSSDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGL 404 d1tx2a_ 270 ------------------------------------------------------------ 270 query 405 AEENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLYGDSVGAYGPIKDVYKTSI 464 d1tx2a_ 270 ------------------------------------------------------------ 270 query 465 FRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELV 524 d1tx2a_ 270 ------------------------------------------------------------ 270 query 525 VKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 568 d1tx2a_ 270 -------------------------------------------- 270 HHsearch alignment (Probability: 0.05 E-value:0.02) query 494 YPVLDAILELYVDRDTGADAIV---AAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAK 550 :::::::::::::::::::::: ::::::::::::::::::::::::::::::::::: d1tx2a_ 156 IADLYDSIKIAKDAGVRDENIILDPGIGFAKTPEQNLEAMRNLEQLNVLGYPVLLGTSRK 215 query 551 GF 552 :: d1tx2a_ 216 SF 217
Intermediate <-- 2.334 --> HitDALI alignment (Z-score: 14.8 Raw score:1396.00) d1tx2a_ 1 kwdydlrcgeytlnlneKTLIMGILNVTpdsfsdggsynEVDAAVRHAKEMRDeGAHIID 60 ::::::::::: :::::::::::::: :::::: d1q6oa_ 1 -----------------LPMLQVALDNQ-----------TMDSAYETTRLIAE-EVDIIE 31 d1tx2a_ 61 I---GGESfakvsveeeikRVVPMIQAVSKEV-KLPISIDTY----KAEVAKQAIEAGAH 112 : :::: ::::::::::::: ::::::::: :::::::::::::: d1q6oa_ 32 VgtiLCVG-----------EGVRAVRDLKALYpHKIVLADAKiadaGKILSRMCFEANAD 80 d1tx2a_ 113 IINDIW-gaKAEP-KIAEVAAHYDVPIILMHNRDnmnyrnlmaDMIADLYDSIKIAkdag 170 :::::: :::: :::::::::::::::::::: ::::::::::::: d1q6oa_ 81 WVTVICcadINTAkGALDVAKEFNGDVQIELTGY---------WTWEQAQQWRDAG---- 127 d1tx2a_ 171 vrdenIILDPGIG--faktpEQNL-EAMRNLEQLNVLGYPVLLGTSRksfighvldlpve 227 :::::::: :::: :::::::::::::::::::::: d1q6oa_ 128 ----iGQVVYHRSrdaqaagVAWGeADITAIKRLSDMGFKVTVTGGL------------- 170 d1tx2a_ 228 erlegTGATVCLGIEKGCEFVRVH-----------DVKEMSRMAKMMDamigk 269 ::::::::::::::::::: ::::::::::::: d1q6oa_ 171 -----ALEDLPLFKGIPIHVFIAGrsirdaaspveAARQFKRSIAELW----- 213 FAST alignment (Normalized score: 9.94 Raw score:2380.00) d1tx2a_ 1 KWDYDLRCGEYTLNLNEK-TLIMGILNVTPDSFSDGGSYN-EVDAAVRHAKEMRDEGAHI 58 ::::::::: :::::::::::::: :::: d1q6oa_ 1 ------------------LPMLQVALDN------------QTMDSAYETTRLIAE-EVDI 29 d1tx2a_ 59 IDIGGESFAKVSVEEEIK-------RVVPMIQAVSKE-VKLPISIDTY-----KAEVAKQ 105 ::: :::::::::::: ::::::::: ::::::: d1q6oa_ 30 IEV---------------GTILCVGEGVRAVRDLKALYPHKIVLADA-KIADAGKILSRM 73 d1tx2a_ 106 AIEAGAHIINDIWGAKA--------EPKIAEVAAHYDVPIILMHNRDNMNYRNLMADMIA 157 ::::::::::: ::::::::::::::::::: d1q6oa_ 74 CFEANADWVTV------ICCADINTAKGALDVAKEFNGDVQIEL---------------- 111 d1tx2a_ 158 D----LYDSIKIAKDAGVRDENIILDPGIGFAKTPEQ------------NLEAMRNLEQL 201 :::::::::::: ::::::: ::::::::::: d1q6oa_ 112 -TGYWTWEQAQQWRDAG----IGQVVYH---------RSRDAQAAGVAWGEADITAIKRL 157 d1tx2a_ 202 NVLGYPVLLGTSRKSFIGHVLDLPVEERLEG---TGATVCLGIEKGCEFVRVH------- 251 :::::::::: ::::::::::::::::::: d1q6oa_ 158 SDMGFKVTVT---------------------GGLALEDLPLFKGIPIHVFIAGRSIRDAA 196 d1tx2a_ 252 ----DVKEMSRMAKMMDAMIGK-- 269 ::::::::::: d1q6oa_ 197 SPVEAARQFKRSIAE-------LW 213 TMalign alignment (TM-score: 0.60 Raw score:161.35) d1tx2a_ 1 KWDYDLRCGEYTLNLNEKTLIMGILNVTPDSFSDGGSYNEVDAAVRHAKEMRDEGAHIID 60 ::::::::::: :::::::::::::: :::::: d1q6oa_ 1 -----------------LPMLQVALDNQ-----------TMDSAYETTRLIAE-EVDIIE 31 d1tx2a_ 61 IGGESFAKVSVEEEIKRVVPMIQAVSKEVK-LPISIDTYK---A-EVAKQAIEAGAHIIN 115 ::::: :: ::::::::::::::: ::::::::: : ::::::::::::::: d1q6oa_ 32 VGTIL-------CV-GEGVRAVRDLKALYPHKIVLADAKIADAGKILSRMCFEANADWVT 83 d1tx2a_ 116 DIWGAKA-EP-KIAEVAAHYDVPIILMHNRDNMNYRNLMADMIADLYDSIKIAKDAGVRD 173 ::::::: :: ::::::::::::::::::::: :: :::::::: :: : d1q6oa_ 84 VICCADINTAKGALDVAKEFNGDVQIELTGYW--------TW-EQAQQWRD-AG---I-- 128 d1tx2a_ 174 ENIILDPGIGFAK---TPEQNLEAMRN-LEQLNVLGYPVLLGTSRKSFIGHVLDLPVEER 229 ::::::::::: ::: ::::::: ::::::::::::::::: d1q6oa_ 129 --GQVVYHRSRDAQAAGVA-WGEADITAIKRLSDMGFKVTVTGGL--------------- 170 d1tx2a_ 230 LEGTGATVCLGIEKGCEFVRVH-DV------K-EMSRMAKMMDAMIGK 269 ::::::::::::::::::: :: : ::::::::::::: d1q6oa_ 171 ---ALEDLPLFKGIPIHVFIAGRSIRDAASPVEAARQFKRSIAELW-- 213 HHsearch alignment (Probability: 0.97 E-value:0.00) d1tx2a_ 38 YNEVDAAVRHAKEMRDEGAHIIDIGGESFAKVSVEEEIKRVVPMIQAVSKEV-KLPISID 96 :::::::::::::: :::::::::::::::::: ::::::::::: ::::::: d1q6oa_ 10 NQTMDSAYETTRLI-AEEVDIIEVGTILCVGEG--------VRAVRDLKALYPHKIVLAD 60 d1tx2a_ 97 TYKAE----VAKQAIEAGAHIIN--DIWGAKAEPKIAEVAAHYDVPIIL-MHNRDNMNYR 149 ::::: :::::::::::::: :::::::::::::::::::::::: :::::::: d1q6oa_ 61 AKIADAGKILSRMCFEANADWVTVICCADINTAKGALDVAKEFNGDVQIELTGYWTWE-- 118 d1tx2a_ 150 NLMADMIADLYDSIKIAKDAGVRD--ENIILDPGIGFAKTPEQNLEAMRNLEQLNVLGYP 207 : ::::::::::: ::::::::::::::::::::::::: :::::: d1q6oa_ 119 ----Q--------AQQWRDAGIGQVVYHRSRDAQAAGVAWGEADITAIKRL---SDMGFK 163 d1tx2a_ 208 VLLGTSRKSFIGHVLDLPVEERLEGTGATVCLGIEKGCEF-------VRVHDVKEM 256 ::::: :::::: ::::::::::: ::::::::: d1q6oa_ 164 VTVTG----------GLALED--------LPLFKGIPIHVFIAGRSIRDAASPVEA 201