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 | d1p0ka_ | Isopentenyl-diphosphate delta-isomerase | FMN-linked oxidoreductases | 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 <-- 0.988 --> HitDALI alignment (Z-score: 12.9 Raw score:1391.10) d1tx2a_ 1 ---------------------kwdydlrcgeYTLNlnektLIMGILNVTPDsfsdggSYN 39 :::: ::::::::::: ::: d1p0ka_ 1 retgldditfvhvslpdlaleqvdistkigeLSSS----sPIFINAMTGGG------GKL 50 d1tx2a_ 40 EVDAAVRHAKEMRDEGaHIIDI-GGESfakvsveeEIKR--vVPMIQAVSKEVK-LPISI 95 :::::::::::::::: ::::: :::: :::: :::::::::::: ::::: d1p0ka_ 51 TYEINKSLARAASQAG-IPLAVgSQMS--------ALKDpseRLSYEIVRKENPnGLIFA 101 d1tx2a_ 96 DTY---KAEVAKQAIEA-GAHIINDIW--------gaKAEP-KIAEVAahyDVPIILMHN 142 ::: ::::::::::: ::::::::: :::: :::::: ::::::::: d1p0ka_ 102 NLGseaTAAQAKEAVEMiGANALQIHLnviqeifsgaLKRIeQICSRV---SVPVIVKEV 158 d1tx2a_ 143 rdnmnyrnlmadMIADLYDSIKIAkdagvrdenIILDPGI--gfakTPEQNleAMRN-LE 199 :::::::::::: ::::::: ::::: :::: :: d1p0ka_ 159 --------gfgmSKASAGKLYEAG--------aAAVDIGGrqisffNSWGI--STAAsLA 200 d1tx2a_ 200 QLNVL--GYPVLLGTSRksfighvldlpveerleGTGATVCLGIEKGCEFVRVH------ 251 ::::: :::::::::: :::::::::::::::::::: d1p0ka_ 201 EIRSEfpASTMIASGGL-----------------QDALDVAKAIALGASCTGMAghflka 243 d1tx2a_ 252 -----------DVKEMSRMAKMMDA--MIGK----------------------------- 269 :::::::::::::: :::: d1p0ka_ 244 ltdsgeeglleEIQLILEELKLIMTvlGARTiadlqkaplvikgethhwltergvntssy 303 d1tx2a_ 270 --- 270 d1p0ka_ 304 svr 306 FAST alignment (Normalized score: 8.55 Raw score:2452.00) d1tx2a_ 1 KWDYDLRCGEYTLNLNEKT------------------------------------LIMGI 24 ::::: d1p0ka_ 1 -------------------RETGLDDITFVHVSLPDLALEQVDISTKIGELSSSSPIFIN 41 d1tx2a_ 25 LNVTPDSFSD-GGSYNEVDAAVRHAKEMRDEGAHIIDIGGESFAKVSVEEE--------I 75 ::: ::::::::::::::::::::: ::::: : d1p0ka_ 42 AMT-------GGGGKLTYEINKSLARAASQAG-IPLAV-------------GSQMSALKD 80 d1tx2a_ 76 KRVVPMIQAVSKE-VKLPISIDT----YKAEVAKQAIE-AGAHIINDIWGAKA------- 122 ::::::::::::: :::::::: ::::::::::: :::::::: d1p0ka_ 81 PSERLSYEIVRKENPNGLIFAN-LGSEATAAQAKEAVEMIGANALQI------HLNVIQE 133 d1tx2a_ 123 -----EPKIAEVAAHYDVPIILMHNRDNMNYRNLMAD-----MIADLYDSIKIAKDAGVR 172 ::::::::::::::::::: :::::::::: d1p0ka_ 134 IFSGALKRIEQICSRVSVPVIVKE-------------VGFGMSKASAGKLYE-------- 172 d1tx2a_ 173 DEN---IILDPGIGFAKTPE------------QNLEAMRNLEQLNV--LGYPVLLGTSRK 215 :::::: ::::: :::::: ::::::: d1p0ka_ 173 ---AGAAAVDIG--------GRQISFFNSWGISTAAS---LAEIRSEFPASTMIA----- 213 d1tx2a_ 216 SFIGHVLDLPVEERLEG-----TGATVCLGIEKGCEFVRVH-----------------DV 253 ::::::::::::::::::: :: d1p0ka_ 214 -----------------SGGLQDALDVAKAIALGASCTGMAGHFLKALTDSGEEGLLEEI 256 d1tx2a_ 254 KEMSRMAKMMDAMIGK----------------------------------- 269 ::::::::::::::: d1p0ka_ 257 QLILEELKLIMTVLG-ARTIADLQKAPLVIKGETHHWLTERGVNTSSYSVR 306 TMalign alignment (TM-score: 0.63 Raw score:169.12) d1tx2a_ 1 ---------------------------KWDYDLRCGEYTLNLNEKTLIMGILNVTPDSFS 33 :::: ::: ::::::::::::: : d1p0ka_ 1 RETGLDDITFVHVSLPDLALEQVDIST---KIGE----LSS---SSPIFINAMTGGG--G 48 d1tx2a_ 34 DGGSYNEVDAAVRHAKEMRDEGAHIIDIGGESFAKVSVEEEI-K-RVVPMIQAVSKEV-K 90 ::::::::::::::::::: ::::::: : ::: : ::::::::::::: : d1p0ka_ 49 ----KLTYEINKSLARAASQAGI-PLAVGSQ------M-SALKDPSERLSYEIVRKENPN 96 d1tx2a_ 91 LPISIDTY--KA-EVAKQAIEA-GAHIINDIWG-----A-KAEPKIAEVAAHYDVPIILM 140 :::::::: :: ::::::::: :::::::::: : :::::::::::::::::::: d1p0ka_ 97 GLIFANLGSEATAAQAKEAVEMIGANALQIHLNVIQEIFSGALKRIEQICSRVSVPVIVK 156 d1tx2a_ 141 HNRDNMNYRNLMADMIADLYDSIKIAKDAGVRDENIILDPGI-----GFAKTPEQNLEAM 195 ::: : : ::::::::::::: :::::::: ::::::: :: d1p0ka_ 157 EVG--F----G--MSKASAGKLYEAG--------AAAVDIGGRQISF--FNSWGIS--TA 196 d1tx2a_ 196 RNLEQLN-VL-GYPVLLGTSRKSFIGHVLDLPVEERLEGTGATVCLGIEKGCEFVRVH-- 251 ::::::: :: :::::::::: :::::::::::::::::::: d1p0ka_ 197 ASLAEIRSEFPASTMIASGGL-----------------QDALDVAKAIALGASCTGMAGH 239 d1tx2a_ 252 D---------------VKEMSRMAKMMDA--MIGK------------------------- 269 : ::::::::::::: :::: d1p0ka_ 240 FLKALTDSGEEGLLEEIQLILEELKLIMTVLGARTIADLQKAPLVIKGETHHWLTERGVN 299 d1tx2a_ 270 ------- 270 d1p0ka_ 300 TSSYSVR 306 HHsearch alignment (Probability: 0.92 E-value:0.00) d1tx2a_ 71 VEEEIKRVVPMIQAVSKEVKLPISID-T---YKAEVAKQAIEAGAHIINDIWGAKA 122 :::::::::::::::::::::::::: : :::::::::::::::::: :::::: d1p0ka_ 131 IQEIFSGALKRIEQICSRVSVPVIVKEVGFGMSKASAGKLYEAGAAAVD-IGGRQI 185