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 | d1ujpa_ | Trp synthase alpha-subunit | 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 <-- 2.311 --> HitDALI alignment (Z-score: 14.2 Raw score:1413.20) d1tx2a_ 1 kwdydlrcgEYTLN-LNEK-----TLIMGILNVTPdsfsdggsynEVDAAVRHAKEMRDe 54 ::::: :::: ::::::::::: :::::::::::::: d1ujpa_ 1 ---------MTTLEaFAKArsegrAALIPYLTAGF---------pSREGFLQAVEEVLP- 41 d1tx2a_ 55 GAHIIDIGGES-------------FAKVsveeEIKRVVPMIQAVSKEVKLPISIDTYK-- 99 ::::::::::: :::: :::::::::::::::::::::::::: d1ujpa_ 42 YADLLEIGLPYsdgpviqraselaLRKG---mSVQGALELVREVRALTEKPLFLMTYLnp 98 d1tx2a_ 100 ------aEVAKQAIEAGAHIINDIWG-AKAEPKIAEVAAHYDVPIILMHNrdnmnyrnLM 152 ::::::::::::::::::: ::::::::::::::::::::::: :: d1ujpa_ 99 vlawgpeRFFGLFKQAGATGVILPDLpPDEDPGLVRLAQEIGLETVFLLA-------pTS 151 d1tx2a_ 153 ADmiADLYDSIKIakdagvrdeNIILDPGIGfaktpeqnleAMRNL-EQLNV-LGYPVLL 210 :: ::::::::: ::::::::: ::::: ::::: ::::::: d1ujpa_ 152 TD--ARIATVVRH--------aTGFVYAVSV----------EVKDLvRRIKArTALPVAV 191 d1tx2a_ 211 GTSRksfighvldlpveerleGTGATVCLGIekGCEFVRVH---------------DVKE 255 :::: :::::::::: :::::::: :::: d1ujpa_ 192 GFGV-----------------SGKATAAQAA--VADGVVVGsalvraleegrslapLLQE 232 d1tx2a_ 256 MSRMAKMMdamigk 269 :::::::: d1ujpa_ 233 IRQGLQRL---plp 243 FAST alignment (Normalized score: 9.82 Raw score:2511.00) d1tx2a_ 1 KWDYDLRCGEYTLNLN-------------EKTLIMGILNVTPDSFSDGGSYN----EVDA 43 :::::::::: :::: d1ujpa_ 1 ----------------MTTLEAFAKARSEGRAALIPYLT-------------AGFPSREG 31 d1tx2a_ 44 AVRHAKEMRDEGAHIIDIGGESFAKVSVEE---------------------EIKRVVPMI 82 :::::::::: :::::::: ::::::::: d1ujpa_ 32 FLQAVEEVLP-YADLLEIG-----------LPYSDGPVIQRASELALRKGMSVQGALELV 79 d1tx2a_ 83 QAVSKEVKLPISIDTY---------KAEVAKQAIEAGAHIINDI-WGAKAEPKIAEVAAH 132 ::::::::::::::: ::::::::::::::::::: ::::::::::::::: d1ujpa_ 80 REVRALTEKPLFLMT-YLNPVLAWGPERFFGLFKQAGATGVILPDLPPDEDPGLVRLAQE 138 d1tx2a_ 133 YDVPIILMHNRDNMNYRNLMAD-----MIADLYDSIKIAKDAGVRDEN---IILDPGIGF 184 :::::::: :::::::::: :::::: d1ujpa_ 139 IGLETVFL--------------LAPTSTDARIATVVR-----------HATGFVYAV--- 170 d1tx2a_ 185 AKTPE--QNLEAMRNLEQLNV-LGYPVLLGTSRKSFIGHVLDLPVEERLEG----TGATV 237 :::: ::::::: :::::::: ::::: d1ujpa_ 171 -----SVEVKD---LVRRIKARTALPVAVG---------------------FGVSGKATA 201 d1tx2a_ 238 CLGIEKGCEFVRVH----------------DVKEMSRMAKMMDAMIGK------ 269 :::: ::::::: ::::::::: d1ujpa_ 202 AQAA--VADGVVV-GSALVRALEEGRSLAPLLQEIRQGL---------QRLPLP 243 TMalign alignment (TM-score: 0.62 Raw score:165.89) d1tx2a_ 1 KWDYDLRCGEYTLNL--NE--KTLIMGILNVTPDSFSDGGSYNEVDAAVRHAKEMRDEGA 56 ::: ::::: :: ::::::::::::: :::::::::::::: :: d1ujpa_ 1 -----MTT--LEAFAKARSEGRAALIPYLTAGFP---------SREGFLQAVEEVLP-YA 43 d1tx2a_ 57 HIIDIGGE----------SFAKV---SVEEEIKRVVPMIQAVSKEVKLPISIDTYK--A- 100 :::::::: ::::: ::::::::::::::::::::::::::: : d1ujpa_ 44 DLLEIGLPYSDGPVIQRASELALRKG---MSVQGALELVREVRALTEKPLFLMTYLNPVL 100 d1tx2a_ 101 ---E--VAKQAIEAGAHIINDIW-GAKAEPKIAEVAAHYDVPIILMHNRDNMNYRNLMAD 154 : ::::::::::::::::: :::::::::::::::::::::::: :: : d1ujpa_ 101 AWGPERFFGLFKQAGATGVILPDLPPDEDPGLVRLAQEIGLETVFLLA--------PT-S 151 d1tx2a_ 155 MIADLYDSIKIAKDAGVRDENIILDPGIGFAKTPEQNLEAMRNL-EQLNVLG-YPVLLGT 212 :::::::::: : : ::::::::: : :::: ::::::: ::::::: d1ujpa_ 152 TDARIATVVR-H----A---TGFVYAVSV--------E--VKDLVRRIKARTALPVAVGF 193 d1tx2a_ 213 SRKSFIGHVLDLPVEERLEGTGATVCLGIEKGCEFVRV---H------------DVKEMS 257 :: :: ::::::::: :::::: : :::::: d1ujpa_ 194 GV---------------SG--KATAAQAAV--ADGVVVGSALVRALEEGRSLAPLLQEIR 234 d1tx2a_ 258 RMAKMMDAM---IGK 269 :::: : : d1ujpa_ 235 QGLQ-R--LPLP--- 243 HHsearch alignment (Probability: 0.96 E-value:0.00) d1tx2a_ 35 GGSYNEVDAAVRHAKEMRDEGAHIIDIGGESFA-KVS---------VEEEIKRVVPMIQA 84 :: :::::::::::::: ::::::::::::::: ::: :::::::::::::: d1ujpa_ 24 AG-FPSREGFLQAVEEV-LPYADLLEIGLPYSDGPVIQRASELALRKGMSVQGALELVRE 81 d1tx2a_ 85 VSKEVKLPISIDTYKAEVA--------KQAIEAGAH--IINDIWGAKAEPKIAEVAAHYD 134 ::::::::::::::::::: ::::::::: :::::::: ::::::::::::: d1ujpa_ 82 VRALTEKPLFLMTYLNPVLAWGPERFFGLFKQAGATGVILPDLPPD-EDPGLVRLAQEIG 140 d1tx2a_ 135 VPIILMHNRDNMN 147 ::::::::::::: d1ujpa_ 141 LETVFLLAPTSTD 153