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 | d1d8ca_ | Malate synthase G | Malate synthase G | 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 <-- 0.874 --> HitDALI alignment (Z-score: 10.0 Raw score:1490.40) d1tx2a_ 1 ------------------------------------------------------------ 1 d1d8ca_ 1 qtitqsrlridanfkrfvdeevlpgtgldaaafwrnfdeivhdlapenrqllaerdriqa 60 d1tx2a_ 1 -------------------------------------kwdYDLRcgeyTLNLnEKTLIMG 23 :::: :::: ::::::: d1d8ca_ 61 aldewhrsnpgpvkdkaayksflrelgylvpqpervtvetTGID----SEIT-SQAGPQL 115 d1tx2a_ 24 ILNVTpdsfsdggsynEVDAAVRHAKeMRDE----------------------------- 54 ::::: :::::::::: :::: d1d8ca_ 116 VVPAM-----------NARYALNAAN-ARWGslydalygsdiipqegamvsgydpqrgeq 163 d1tx2a_ 55 ------------------------------------------------------------ 55 d1d8ca_ 164 viawvrrfldeslplengsyqdvvafkvvdkqlriqlkngkettlrtpaqfvgyrgdaaa 223 d1tx2a_ 55 -------------------------------------GAHIIDIGGES--FAKVsvEEEI 75 ::::::::::: :::: :::: d1d8ca_ 224 ptcillknnglhielqidangrigkddpahindviveAAISTILDCEDsvAAVD--AEDK 281 d1tx2a_ 76 KRVVPMIQAVSKE-----------------------vKLPISIDTY-------------- 98 ::::::::::::: ::::::::: d1d8ca_ 282 ILLYRNLLGLMQGtlqrklnddrhytaadgseislhgRSLLFIRNVghlmtipviwdseg 341 d1tx2a_ 99 -----KAEVAKQAIEAG-------------aHIINDIWG--aKAEPKIAEVAAHY----- 133 :::::::::::: :::::::: ::::::::::::: d1d8ca_ 342 neipeGILDGVMTGAIAlydlkvqknsrtgsVYIVKPKMhgpQEVAFANKLFTRIetmlg 401 d1tx2a_ 134 ----DVPIILMHNRDnmnyrnlmaDMIADLYDSIKIAkdagvrDENI-ILDPGIGFAK-- 186 ::::::::::: ::::::::::::: :::: :::::::::: d1d8ca_ 402 mapnTLKMGIMDEER---------RTSLNLRSCIAQA------RNRVaFINTGFLDRTgd 446 d1tx2a_ 187 ----------------TPEQ--NLEAMRNLEQ-LNVLGY----PVLLGTSRksfighvld 223 :::: :::::::::: :::::: :::::::: d1d8ca_ 447 emhsvmeagpmlrknqMKSTpwIKAYERNNVLsGLFCGLrgkaQIGKGMWA--------- 497 d1tx2a_ 224 lpVEERLEGTGATVCLGIEKGCEFVRVH---DVKEMSRMAKMMD---------------- 264 :::::::::::::::::::::::::: ::::::::::::: d1d8ca_ 498 --MPDLMADMYSQKGDQLRAGANTAWVPsptAATLHALHYHQTNvqsvqaniaqtefnae 555 d1tx2a_ 265 ------------------------------------------------------------ 265 d1d8ca_ 556 fepllddlltipvaenanwsaqeiqqeldnnvqgilgyvvrwveqgigcskvpdihnval 615 d1tx2a_ 265 ------------------------------------------------------------ 265 d1d8ca_ 616 medratlrissqhianwlrhgiltkeqvqaslenmakvvdqqnagdpayrpmagnfansc 675 d1tx2a_ 265 -----------------------------amigk 269 d1d8ca_ 676 afkaasdliflgvkqpngytepllhawrlrekes 709 FAST alignment (Normalized score: 3.51 Raw score:1534.00) d1tx2a_ 1 KWDYDLRCGEYTL----------------------------------------------- 13 d1d8ca_ 1 -------------QTITQSRLRIDANFKRFVDEEVLPGTGLDAAAFWRNFDEIVHDLAPE 47 d1tx2a_ 14 ----------------------------------------------------------NL 15 :: d1d8ca_ 48 NRQLLAERDRIQAALDEWHRSNPGPVKDKAAYKSFLRELGYLVPQPERVTVETTGIDSEI 107 d1tx2a_ 16 NEK-TLIMGILNVTPDSFSDGGSYN--EVDAAVRHAKEMRDE------------------ 54 :: :::::::: :::::::::: d1d8ca_ 108 TS-QAGPQLVVP-------------AMNARYALNAAN-----ARWGSLYDALYGSDIIPQ 148 d1tx2a_ 55 ------------------------------------------------------------ 55 d1d8ca_ 149 EGAMVSGYDPQRGEQVIAWVRRFLDESLPLENGSYQDVVAFKVVDKQLRIQLKNGKETTL 208 d1tx2a_ 55 ----------------------------------------------------GAHIIDIG 62 :::::::: d1d8ca_ 209 RTPAQFVGYRGDAAAPTCILLKNNGLHIELQIDANGRIGKDDPAHINDVIVEAAISTILD 268 d1tx2a_ 63 GESFAKVS------VEEEIKRVVPMIQAVSKEV--------------------------K 90 :: :::::::::::::::: : d1d8ca_ 269 CE------DSVAAVDAEDKILLYRNLLGLM---QGTLQRKLNDDRHYTAADGSEISLHGR 319 d1tx2a_ 91 LPISIDTY---------------------KAEVAKQAIEAGA----------------HI 113 :::::: :::::::::: :: d1d8ca_ 320 SLLFIR--NVGHLMTIPVIWDSEGNEIPEGILDGVMTGA---IALYDLKVQKNSRTGSVY 374 d1tx2a_ 114 INDIWGAKAEPKIAEVAAHYDVPIILMHNRDNMNYRNLMAD---MIADLYDSIKIAKDAG 170 :::: :::::::::::::: d1d8ca_ 375 IVKP-------------------------------------KMHGPQEVAFANKLFTR-- 395 d1tx2a_ 171 VRD---------ENIILDPGIGFAKTPEQ--NLEAMRNLEQLNVLG------YPVLLGTS 213 :::::::: ::::::::::::: :::::: d1d8ca_ 396 ---IETMLGMAPNTLKMGIM---------DEERRTSLNLRSCIA--QARNRVAFINTG-- 439 d1tx2a_ 214 R----KSFIGHVL------DLPVEER--LEGTGATVCLGIEKGC------------EFVR 249 ::::::: ::::::: ::::::::::::: :::: d1d8ca_ 440 -FLDRTGDEMHS-VMEAGPMLRKNQMKSTPWIKAYERNNVL---SGLFCGLRGKAQIGKG 494 d1tx2a_ 250 VHD--------------VKEMSR----------------------------MAKMMDAMI 267 :::::: ::::::: d1d8ca_ 495 ---MWAMPDLMADMYSQKGDQLRAGANTAWVPSPTAATLHALHYHQTNVQSVQANIAQ-- 549 d1tx2a_ 268 GK---------------------------------------------------------- 269 d1d8ca_ 550 --TEFNAEFEPLLDDLLTIPVAENANWSAQEIQQELDNNVQGILGYVVRWVEQGIGCSKV 607 d1tx2a_ 270 ------------------------------------------------------------ 270 d1d8ca_ 608 PDIHNVALMEDRATLRISSQHIANWLRHGILTKEQVQASLENMAKVVDQQNAGDPAYRPM 667 d1tx2a_ 270 ------------------------------------------ 270 d1d8ca_ 668 AGNFANSCAFKAASDLIFLGVKQPNGYTEPLLHAWRLREKES 709 TMalign alignment (TM-score: 0.67 Raw score:179.88) d1tx2a_ 1 ------------------------------------------------------------ 1 d1d8ca_ 1 QTITQSRLRIDANFKRFVDEEVLPGTGLDAAAFWRNFDEIVHDLAPENRQLLAERDRIQA 60 d1tx2a_ 1 ------------------------------------KWDYDLRCGEYTLNLNEKTLIMGI 24 ::::::: ::::: :::::::: d1d8ca_ 61 ALDEWHRSNPGPVKDKAAYKSFLRELGYLVPQPERV-TVETTGI--DSEIT-SQAGPQLV 116 d1tx2a_ 25 LNVTPDSFSDGGSYNEVDAAVRHAKEMRDE------------------------------ 54 ::: : :: :::::::::::: d1d8ca_ 117 VPA-M----------NA-RYALNAANARWGSLYDALYGSDIIPQEGAMVSGYDPQRGEQV 164 d1tx2a_ 55 ------------------------------------------------------------ 55 d1d8ca_ 165 IAWVRRFLDESLPLENGSYQDVVAFKVVDKQLRIQLKNGKETTLRTPAQFVGYRGDAAAP 224 d1tx2a_ 55 ------------------------------------GAHIIDIGGE-SFAKVSVEEEIKR 77 :::::::::: :::::: :::::: d1d8ca_ 225 TCILLKNNGLHIELQIDANGRIGKDDPAHINDVIVEAAISTILDCEDSVAAVD-AEDKIL 283 d1tx2a_ 78 VVPMIQAVS-K-----EV-----------------KLPISIDT-Y--------------- 98 ::::::::: : :: :::::::: : d1d8ca_ 284 LYRNLLGLMQGTLQRKLNDDRHYTAADGSEISLHGRSLLFIRNVGHLMTIPVIWDSEGNE 343 d1tx2a_ 99 ---KAEVAKQAIEAG--A-----------HIINDIWGAK-AEP-KIAEVAA--H------ 132 :::::::::::: : :::::::::: ::: ::::::: : d1d8ca_ 344 IPEGILDGVMTGAIALYDLKVQKNSRTGSVYIVKPKMHGPQEVAFANKLFTRIETMLGMA 403 d1tx2a_ 133 YD-VPIILMHNRDNMNYRNLMADMIADLYDSIKIAKDAGVRDENIILDPGIGFAK----- 186 :: ::::::::: : ::::::::::: : :::::::::::::::: d1d8ca_ 404 PNTLKMGIMDEE----R-----RTSLNLRSCIA--Q---ARNRVAFINTGFLDRTGDEMH 449 d1tx2a_ 187 ----------TPEQNLE--AMRNLEQLNVL--G--Y----PVLLGTSRKSFIGHVLDLPV 226 ::::::: ::::::::::: : : :::::::: : d1d8ca_ 450 SVMEAGPMLRKNQMKSTPWIKAYERNNVLSGLFCGLRGKAQIGKGMWA-----------M 498 d1tx2a_ 227 EERLEGTGATVCLGIEKGCEFVRVH---DVKEMSRMAKMMDAMIGK-------------- 269 ::::::::::::::::::::::::: :::::::::::::::::: d1d8ca_ 499 PDLMADMYSQKGDQLRAGANTAWVPSPTAATLHALHYHQTNVQSVQANIAQTEFNAEFEP 558 d1tx2a_ 270 ------------------------------------------------------------ 270 d1d8ca_ 559 LLDDLLTIPVAENANWSAQEIQQELDNNVQGILGYVVRWVEQGIGCSKVPDIHNVALMED 618 d1tx2a_ 270 ------------------------------------------------------------ 270 d1d8ca_ 619 RATLRISSQHIANWLRHGILTKEQVQASLENMAKVVDQQNAGDPAYRPMAGNFANSCAFK 678 d1tx2a_ 270 ------------------------------- 270 d1d8ca_ 679 AASDLIFLGVKQPNGYTEPLLHAWRLREKES 709 HHsearch alignment (Probability: 0.01 E-value:0.06) d1tx2a_ 81 MIQAVSKEVKLPISIDTYKAE----VAKQAIEAGAHIINDIWGAKAEPKIAEVAAHY--- 133 ::::::::::::::::::::: :::::::::::::: ::: :: ::::::::: d1d8ca_ 399 MLGMAPNTLKMGIMDEERRTSLNLRSCIAQARNRVAFIN--TGF-LD-RTGDEMHSVMEA 454 d1tx2a_ 134 D------------------VPII-L---MHNRDNMNYR---NLMADMIADLYDSIKIAKD 168 : :::: : :::::::::: ::::::::::::::::::: d1d8ca_ 455 GPMLRKNQMKSTPWIKAYERNNVLSGLFCGLRGKAQIGKGMWAMPDLMADMYSQKGDQLR 514 d1tx2a_ 169 AGVRD 173 ::::: d1d8ca_ 515 AGANT 519