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 | d1ct5a_ | (Hypothetical( protein ybl036c | PLP-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 <-- 0.727 --> HitDALI alignment (Z-score: 9.2 Raw score:976.50) d1tx2a_ 1 --------------kwdydlrcgeytlnlneKTLIMGILNVTpdsfsdggsynevdaAVR 46 ::::::::::: ::: d1ct5a_ 1 tgitydedrktqliaqyesvrevvnaeaknvKILLLVVSKLK---------------PAS 45 d1tx2a_ 47 HAKEMRDEGAHIIDIGGesfakvsveeeIKRVVPMIQAVSKevKLPISI-DTYK---AEV 102 ::::::::::::::::: ::::::::::::: :::::: :::: ::: d1ct5a_ 46 DIQILYDHGVREFGENY-----------VQELIEKAKLLPD--DIKWHFiGGLQtnkCKD 92 d1tx2a_ 103 AKQAIeaGAHIINDiWGAKAE-PKIAEV-----aahYDVPIILMHNrdNMNYrnlmaDMI 156 ::::: ::::::: :::::: :::::: :::::::::: :::: ::: d1ct5a_ 93 LAKVP--NLYSVET-IDSLKKaKKLNESrakfqpdcNPILCNVQINtsHEDQ-ksglNNE 148 d1tx2a_ 157 ADLYDSIKIAK--DAGVrdeNIILDPGIGfaktpeqNLEAMRNLEQ-LNVL------GYP 207 ::::::::::: :::: ::::::::: :::::::::: :::: ::: d1ct5a_ 149 AEIFEVIDFFLseECKY-ikLNGLMTIGS-------WNRDFATLVEwKKKIdakfgtSLK 200 d1tx2a_ 208 VLLGTSRksfighvldlpveerlegtgaTVCLGIEKGCEFVRVH-DVKEmsrmakmmdam 266 ::::::: :::::::::::::::: :::: d1ct5a_ 201 LSMGMSA---------------------DFREAIRQGTAEVRIGtDIFG----------- 228 d1tx2a_ 267 igk 269 d1ct5a_ 229 --- 229 FAST alignment (Normalized score: 6.54 Raw score:1620.00) d1tx2a_ 1 KWDYDLRCGEYTLNLNE-------------------------------KTLIMGILNVTP 29 ::::::: d1ct5a_ 1 -----------------TGITYDEDRKTQLIAQYESVREVVNAEAKNVKILLLVV----- 38 d1tx2a_ 30 DSFSDGGSYNEVDA----AVRHAKEMRDEGAHIIDIGGESFAKVSVEEEIKR-VVPMIQA 84 :::::::::::::::::: ::::::: d1ct5a_ 39 --------------SKLKPASDIQILYDHGVREFGE----------------NYVQELIE 68 d1tx2a_ 85 VSKE--VKLPISIDT-YKAEVAKQAIE-AGAHIINDIWGAKAE---------PKIAEVAA 131 :::: ::::::::: ::::::::::: :::::: :::::::: d1ct5a_ 69 KAKLLPDDIKWHFIGGLQTNKCKDLAKVPNLYSV---------ETIDSLKKAKKLNESRA 119 d1tx2a_ 132 H-----YDVPIILMHNRDNMNYRNLMAD-------------MIADLYDSIKIAKDAGVRD 173 : :::::::: :::::::::::: d1ct5a_ 120 KFQPDCNPILCNVQ--------------INTSHEDQKSGLNNEAEIFEVIDFF------- 158 d1tx2a_ 174 EN----------IILDPGIGFAKTPEQ--NLEAMRNLEQLNV--------LGYPVLLGTS 213 :::::: :::::::::::: :::::: d1ct5a_ 159 --LSEECKYIKLNGLMTI---------GSWNRDFATLVEWK-KKIDAKFGTSLKLS---- 202 d1tx2a_ 214 RKSFIGHVLDLPVEERLEG--TGATVCLGIEKGCEFVRVHDVKEMSRMAKMMDAMIGK-- 269 ::::::::::::::::::: d1ct5a_ 203 -------------------MGMSADFREAIRQGTAEVRIG------------------TD 225 d1tx2a_ 270 --- 270 d1ct5a_ 226 IFG 228 TMalign alignment (TM-score: 0.51 Raw score:138.27) d1tx2a_ 1 -------------------------------KWDYDLRCGEYTLNLNEKTLIMGILNVTP 29 ::::::::::: d1ct5a_ 1 TGITYDEDRKTQLIAQYESVREVVNAEAKNV-----------------KILLLVVSKLK- 42 d1tx2a_ 30 DSFSDGGSYNEVDAAVRHAKEMRDEGAHIIDIGGESFAKVSVEEEIKRVVPMIQAVSKEV 89 : ::::::::::::::::::: :: ::::::::::: d1ct5a_ 43 -------------P-ASDIQILYDHGVREFGENY----------VQ-ELIEKAKLLPD-- 75 d1tx2a_ 90 KLPISID-TYKAEVAKQAIEAGAHIINDIWGAKAE-PKIAEVAAH--Y---DVPIILMHN 142 ::::::: ::::::::::::::::::::::::::: ::::::::: : ::::::::: d1ct5a_ 76 DIKWHFIGGLQTNKCKDLAKVPNLYSVETIDSLKKAKKLNESRAKFQPDCNPILCNVQIN 135 d1tx2a_ 143 RDNMN-----YRNLMADMIADLYDSIKIAKDAGVRDENIILDPGIGFAKTPEQNLEAMRN 197 ::::: :::::::::::::::::::::::::::::: ::::::::::: d1ct5a_ 136 TSHEDQKSGL------NNEAEIFEVIDFFLSEECKYIKLNGLMTIG---SWNRDFATLVE 186 d1tx2a_ 198 LEQ-LNV--LGYPVLLGTSRKSFIGHVLDLPVEERLEGTGATVCLGIEKGCEFVRVHDVK 254 ::: ::: ::::::::::: : :::::::: : :::::::::: d1ct5a_ 187 WKKKIDAKFGTSLKLSMGMS--------------A---DFREAIRQ--G-TAEVRIGTDI 226 d1tx2a_ 255 E-MSRMAKMMDAMIGK 269 : d1ct5a_ 227 FG-------------- 228 HHsearch alignment (Probability: 0.74 E-value:0.00) d1tx2a_ 96 DTYKAEVAKQAIEAGAHIINDIWGAKAEPKIAEVAAHYDV--PIILMHNRDNMNYRNL 151 ::::::::::::::::::: ::::: ::::::::: :::::::::::::::: d1ct5a_ 40 KLKPASDIQILYDHGVREF----GENYV---QELIEKAKLLPDDIKWHFIGGLQTNKC 90