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 | d1i60a_ | Hypothetical protein IolI | 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 <-- 0.831 --> HitDALI alignment (Z-score: 8.9 Raw score:992.40) d1tx2a_ 1 kwdydlrcgeytlnlnekTLIMGIL--NVTPdsfsdggsynEVDAAVRHAKEMRdegAHI 58 ::::::: :::: ::::::::::::: ::: d1i60a_ 1 ------------------MKLCFNEatTLEN---------sNLKLDLELCEKHG---YDY 30 d1tx2a_ 59 IDIGGESfakvsveeeikRVVP-----miqAVSKEV---KLPI-SIDTY----------- 98 ::::::: :::: :::::: :::: ::::: d1i60a_ 31 IEIRTMD-----------KLPEylkdhsldDLAEYFqthHIKPlALNALvffnnrdekgh 79 d1tx2a_ 99 -----KAEVAKQAIEAG-AHIINDIW--------------gaKAEP-KIAEVAAHYDVPI 137 :::::::::::: :::::::: :::: ::::::::::::: d1i60a_ 80 neiitEFKGMMETCKTLgVKYVVAVPlvteqkivkeeikkssVDVLtELSDIAEPYGVKI 139 d1tx2a_ 138 ILMHN-rDNMNyrnlmadMIADLYDSIKIakdagvrDENIILDPGIGFaktpeqNLEAMR 196 ::::: :::: ::::::::::: :::::::::::: :::::: d1i60a_ 140 ALEFVghPQCT----vntFEQAYEIVNTV------nRDNVGLVLDSFH----fhAMGSNI 185 d1tx2a_ 197 -NLEQLnVLGYPVLLGTSRksfIGHV---ldlpVEER--LEGTgATVCLGIEKG-----C 245 ::::: :::::::::::: :::: :::: :::: :::::::::: : d1i60a_ 186 eSLKQA-DGKKIFIYHIDD---TEDFpigfltdEDRVwpGQGA-IDLDAHLSALkeigfS 240 d1tx2a_ 246 EFVRVH-----------------DVKEMSRMAKMMDAmigk 269 :::::: :::::::::::::: d1i60a_ 241 DVVSVElfrpeyykltaeeaiqtAKKTTVDVVSKYFS---m 278 FAST alignment (Normalized score: 6.19 Raw score:1692.00) d1tx2a_ 1 KWDYDLRCGEYTLNLNEKTLIMGILNVTPDSFSDGGSYNEVD--------AAVRHAKEMR 52 :::::: :::::::::: d1i60a_ 1 ------------------MKLCFN------------------EATTLENSNLKLDLELCE 24 d1tx2a_ 53 DEGAHIIDIGGESFAKVSVEEEIK-----------RVVPMIQAVSKEVKLP-ISIDTY-- 98 ::::::::::: ::::: :::::::::: :::: d1i60a_ 25 KHGYDYIEIRT-------------MDKLPEYLKDHSLDDL-AEYFQTHHIKPLALN--AL 68 d1tx2a_ 99 -------------KAEVAKQAIE----AGAHIINDIWGAKA------------------- 122 :::::::::: :::::::: d1i60a_ 69 VFFNNRDEKGHNEIITEFKGMMETCKTLGVKYVVA------VPLVTEQKIVKEEIKKSSV 122 d1tx2a_ 123 --EPKIAEVAAHYDVPIILMHNRDNMNYRNLMADMIA-------DLYDSIKIAKDAGVR- 172 ::::::::::::::::::::: ::::::::::: d1i60a_ 123 DVLTELSDIAEPYGVKIALEFVG--------------HPQCTVNTFEQAYEIVNT----V 164 d1tx2a_ 173 -DENIILDPGIGFAKTPEQNLE--------AMRNLEQLNVLGYP------VLLGTSRKSF 217 :::::::::: ::::::: :::::::: d1i60a_ 165 NRDNVGLVLDS-----------FHFHAMGSNIESLKQ-------ADGKKIFIYHIDDT-- 204 d1tx2a_ 218 IGHVLD-------LPVEERLE---------GTGATVCLGIEKG-CEFVRVH--------- 251 ::::: ::::::::::::: ::::: d1i60a_ 205 ------EDFPIGFLTDED---RVWPGQGAIDLDAHLSALKEIGFSDVVS--VELFRPEYY 253 d1tx2a_ 252 ------DVKEMSRMAKMMDAMIGK---- 269 ::::::::::::::: d1i60a_ 254 KLTAEEAIQTAKKTTVDVVSK---YFSM 278 TMalign alignment (TM-score: 0.53 Raw score:143.28) d1tx2a_ 1 KWDYDLRCGEYTLNLNEKTLIMGIL--NVTPDSFSDGGSYNEVDAAVRHAKEMRDEGAHI 58 : :::::: ::::: ::::::::::::: ::: d1i60a_ 1 -----------------M-KLCFNEATTLENS---------NLKLDLELCEKHG---YDY 30 d1tx2a_ 59 IDIGGESFAKVSVEEEIKRVVP-MIQAVSKEVKLPISIDTYKAEVAKQAIEAGAHIINDI 117 ::::::: : :::::::::: :::::::::::::: ::::: d1i60a_ 31 IEIRTMD---K-LPEYLKDHSLDDLAEYFQTHHIKPL------------------ALNAL 68 d1tx2a_ 118 WGAK--------AEPKIAEVAAH--Y--DVPIILMHNRDNM-NYRNLMADMIADLYDSIK 164 :::: ::::::::::: : ::::::::::::: :::: :::::::::::: d1i60a_ 69 VFFNNRDEKGHNEIITEFKGMMETCKTLGVKYVVAVPLVTEQKIVK--EEIKKSSVDVLT 126 d1tx2a_ 165 IAKDAGVRDENIILDPGIGF--A--KT-----------------------PEQNLEAMRN 197 :::::::::::::::::::: : :: :::::::::: d1i60a_ 127 ELSDIAEPYGVKIALEFVGHPQCTVNTFEQAYEIVNTVNRDNVGLVLDSFHFHAMGSNIE 186 d1tx2a_ 198 LEQLNVLGYPVLLGTSRKSFIGHVL---D--LPVEERLEGTGATVCLGIEKG----C-EF 247 ::::::::::::::::: ::::: : :::::::::::::::::::: : :: d1i60a_ 187 SLKQADGKKIFIYHIDD---TEDFPIGFLTD-EDRVWPGQGAIDLDAHLSALKEIGFSDV 242 d1tx2a_ 248 VRVH-----------------DVKEMSRMAKMMDAMIGK 269 :::: :::::::::::::: : d1i60a_ 243 VSVELFRPEYYKLTAEEAIQTAKKTTVDVVSKYFS---M 278 HHsearch alignment (Probability: 0.95 E-value:0.00) d1tx2a_ 38 YNEVDAAVRHAKEMRDEGAHIIDIGGESFAKVS-VEEEIKRVVPMIQAVSKEVKLPI-SI 95 :::::::::::: :::::::::::::::::: :::::::::: :: ::::::: :: d1i60a_ 13 NSNLKLDLELCE---KHGYDYIEIRTMDKLPEYLKDHSLDDLAE---YF-QTHHIKPLAL 65 d1tx2a_ 96 D------TYKAEVAKQAIEAGAHIINDIWGAKAEPKIAEVAAHYDVPIILMHNRDNM--- 146 : ::::::::::::: : ::::::::::::::::::::::: d1i60a_ 66 NALVFFNNRDEKGHNEIITE----------F---KGMMETCKTLGVKYVVAVPLVTEQKI 112 d1tx2a_ 147 NYRNLMADMIADLYDSIKIAKDAGVRDENIILDPG---IGFAKTPEQNLEAMRNLEQ 200 :::::::::::::::::::::::::: :::::: ::::::::::::::::::: d1i60a_ 113 VKEEIKKSSVDVLTELSDIAEPYGVK---IALEFVGHPQCTVNTFEQAYEIVNTVNR 166