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 | d1qtwa_ | Endonuclease IV | Xylose isomerase-like | 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 <-- 1.261 --> HitDALI alignment (Z-score: 10.4 Raw score:1148.50) d1tx2a_ 1 kwdydlrcgeytlnlneKTLIMGILNVTpdsfsdggsynevDAAVRHAKEMRDEGAHIID 60 ::::::::::: ::::::::::::::::::: d1qtwa_ 1 -----------------MKYIGAHVSAA-------------GGLANAAIRAAEIDATAFA 30 d1tx2a_ 61 IG-GESFakVSVEEeikrvvpmiQAVSKE---VKLP---ISIDT---------------- 97 :: :::: ::::: :::::: :::: ::::: d1qtwa_ 31 LFtKNQR--QWRAA--plttqtiDEFKAAcekYHYTsaqILPHDsylinlghpvtealek 86 d1tx2a_ 98 ---yKAEVAKQAIEAGAHIINDIW------------gakaePKIAEVAAH-YDVPIILMH 141 :::::::::::::::::::: ::::::::: ::::::::: d1qtwa_ 87 srdaFIDEMQRCEQLGLSLLNFHPgshlmqiseedclariaESINIALDKtQGVTAVIEN 146 d1tx2a_ 142 N-RDNMnyrnlmadMIADLYDSIKIAkdAGVRdeNIILDPGIGFaKTPEQNL---eAMRN 197 : :::: :::::::::::: :::: :::::::::: ::::::: :::: d1qtwa_ 147 TaGQGS----nlgfKFEHLAAIIDGV--EDKS--RVGVCIDTCHaFAAGYDLrtpaECEK 198 d1tx2a_ 198 -LEQLNV--LGYPV-LLGTSRksfIGHV--ldlpveeRLEG---tGATVCLGI-EKGC-- 245 :::::: ::::: :::::: :::: :::: :::::::: :::: d1qtwa_ 199 tFADFARtvGFKYLrGMHLND---AKSTfgsrvdrhhSLGEgnigHDAFRWIMqDDRFdg 255 d1tx2a_ 246 EFVRVH-----DVKEMSRMAKMMDAMIG-k 269 :::::: ::::::::::::::::: d1qtwa_ 256 IPLILEtinpdIWAEEIAWLKAQQTEKAva 285 FAST alignment (Normalized score: 5.69 Raw score:1575.00) d1tx2a_ 1 KWDYDLRCGEYTLNLNEKTLIMGILNVTPDSFSDGGSYNEVD--AAVRHAKEMRDEGAHI 58 :::::::::: :::::::::::::::: d1qtwa_ 1 -----------------MKYIGAHVSA---------------AGGLANAAIRAAEIDATA 28 d1tx2a_ 59 IDIGGESFAKVSVEEEIKR------------VVPMIQAVSK---EVKL---PISIDTY-- 98 :::: :::::::::: :::: :::: d1qtwa_ 29 FALF---------------TKNQRQWRAAPLTTQTIDEFKAACEKYHYTSAQILP---HD 70 d1tx2a_ 99 ----------------KAEVAKQAIE----AGAHIINDIWGAKA---------------- 122 :::::::::: :::::::: d1qtwa_ 71 SYLINLGHPVTEALEKSRDAFIDEMQRCEQLGLSLLNF------HPGSHLMQISEEDCLA 124 d1tx2a_ 123 -EPKI-AEVAAHY-DVPIILMHNRDNMNYRNLMAD----------MIADLYDSIKIAKDA 169 :::: ::::::: :::::::: ::::::::::: d1qtwa_ 125 RIAESINIALDKTQGVTAVIEN-------------TAGQGSNLGFKFEHLAAIIDG---- 167 d1tx2a_ 170 G-VRDENIILDPGI----GFAKT----PEQNLEAMRNLEQLNVLGYP-------VLLGTS 213 :::::::::::: :::: :::::::: ::::: :::::: d1qtwa_ 168 -VEDKSRVGVCIDTCHAFAAGY-DLRTPAECEKTF---ADFAR----TVGFKYLRGMHLN 218 d1tx2a_ 214 RKSFIGHVLDLPVEERLEG-------------------TGATVCLGIEKGC-----EFVR 249 :: ::::::::::: :::: d1qtwa_ 219 DA-----------------KSTFGSRVDRHHSLGEGNIGHDAFRWIMQD--DRFDGIPLI 259 d1tx2a_ 250 V--HDVKEMSRMAKMMDAMIGK------- 269 : :::::::::::::::: d1qtwa_ 260 LETINPDIWAEEIAWLKAQ---QTEKAVA 285 TMalign alignment (TM-score: 0.51 Raw score:136.12) d1tx2a_ 1 KWDYDLRCGEYTLNLNEKTLI----------------------MGILN-VTPDSFSDGGS 37 ::::: ::::: :::: ::::: d1qtwa_ 1 ----------------MKYIGAHVSAAGGLANAAIRAAEIDATAFALFTKNQR--QWRAA 42 d1tx2a_ 38 YN--EVDAAVRHAKEMR-DEG--AHIIDIGGESFA--KV----SVEEEIKRVVPMIQAVS 86 :: ::::::::::: ::: :::::::::::: : ::::::::::::::::: d1qtwa_ 43 PLTT--QTIDEFKAACEKYHYTSAQILPHDSYLINLG-HPVTEALEKSRDAFIDEMQRCE 99 d1tx2a_ 87 KEVKLPISIDTY---------------KAEVAKQAI-EAG-AHIINDI--------W--G 119 :: ::::::::: ::::::::: ::: ::::::: : : d1qtwa_ 100 QL-GLSLLNFHPGSHLMQISEEDCLARIAESINIALDKTQGVTAVIENTAGQGSNLGFKF 158 d1tx2a_ 120 AKAEPKIAEVAAHYDVPIILMHNRDNMNYRNLMADMIADLYDSIKIAKDAGVRDENIILD 179 :::::::::: ::::::::::: : d1qtwa_ 159 EHLAAIIDGV-EDKSRVGVCID-------------------------------------T 180 d1tx2a_ 180 PGIGFAKTPEQNLEAMRNLEQLNV--LG--YP--V-LLGTSRKSFI------GHVLDLPV 226 ::::::: :::::::::::::: :: :: : :::::::::: :: d1qtwa_ 181 CHAFAAG---YDLRTPAECEKTFADFARTVGFKYLRGMHLNDAKSTFGSRVD------RH 231 d1tx2a_ 227 EERLEGT--GA-TVCLGIEKGCE--F-VRVHD--V--KE-MSRMAKMMDAMIG--K 269 :::::: :: ::::::::::: : ::::: : :: ::::::::::::: d1qtwa_ 232 -HSLGEGNIGHDAFRWIMQDDRFDGIPLILETINPDIWAEEIAWLKAQQTEKAVA- 285 HHsearch alignment (Probability: 0.92 E-value:0.00) d1tx2a_ 40 EVDAAVRHAKEMRDEGAHIIDIGGESFA----KVSVEEEIKRVVPMIQAVSKEVKLPIS- 94 :::::::::: ::::::::::::::: :::::::::::::::::::: :::::: d1qtwa_ 13 GLANAAIRAA---EIDATAFALFTKNQRQWRAAPLTTQTIDEFKAACEKYHY-TSAQILP 68 d1tx2a_ 95 -------IDTYKAEVAKQAIEAGAHIINDIWGAKAEPKIAEVAAHYDVPIILMHNRDNMN 147 ::::::::::::::: : :::::::::::::::::::::::: d1qtwa_ 69 HDSYLINLGHPVTEALEKSRDA----------F---IDEMQRCEQLGLSLLNFHPGSHLM 115 d1tx2a_ 148 ---YRNLMADMIADLYDSIKIAKDAGVRDENIILDPGI----GFAKTPEQNLEAMRNLEQ 200 :::::::::::::::::::::::: :::::: :::::::::::::::::: d1qtwa_ 116 QISEEDCLARIAESINIALDKTQGVTA-----VIENTAGQGSNLGFKFEHLAAIIDGVED 170 d1tx2a_ 201 LNVLG 205 ::::: d1qtwa_ 171 KSRVG 175