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 | d1geha1 | Ribulose 1,5-bisphosphate carboxylase-oxygenase | RuBisCo, C-terminal domain | 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 <-- 1.273 --> HitDALI alignment (Z-score: 13.7 Raw score:1463.90) d1tx2a_ 1 ----kwdYDLRcgeyTLNLNEKTLIMGIL--NVTPdsfsdggsynEVDAAVRHAKEMRDE 54 :::: :::::::::::::: :::: ::::::::::::::: d1geha1 1 dgpafgiEGVR---kMLEIKDRPIYGVVPkpKVGY----------SPEEFEKLAYDLLSN 47 d1tx2a_ 55 GAHIIDIG--GESFAkvsveeeikRVVPMIQAVSKEVK---------LPISIDTY----- 98 :::::::: ::::: :::::::::::::: :::::::: d1geha1 48 GADYMKDDenLTSPW-------ynRFEERAEIMAKIIDkvenetgekKTWFANITadlle 100 d1tx2a_ 99 KAEVAKQAIEAGAHIINDIW--gaKAEP-KIAEVAAHYDVPIILMHN-RDNMNYRN-lmA 153 :::::::::::::::::::: :::: :::::::::::::::::: :::::::: : d1geha1 101 MEQRLEVLADLGLKHAMVDVvitgWGALrYIRDLAADYGLAIHGHRAmHAAFTRNPyhgI 160 d1tx2a_ 154 DMIADLYDSIKIAkdagvrdenIILDPGIgfaktpeqnLEAMRNLEQ-LNVLG------- 205 ::::::::::::: ::::::: ::::::::: ::::: d1geha1 161 SMFVLAKLYRLIG--------iDQLHVGT--------aEGGKWDVIQnARILReshykpd 204 d1tx2a_ 206 ----------------YPVLLGTSRksfighvldlpveerlegTGATVCLGIEKG--CEF 247 ::::::::: :::::::::::: ::: d1geha1 205 endvfhleqkfysikaAFPTSSGGL------------------HPGNIQPVIEALgtDIV 246 d1tx2a_ 248 VRVH------------DVKEMSRMAKMMDAM----------------------igk 269 :::: ::::::::::::::: d1geha1 247 LQLGggtlghpdgpaaGARAVRQAIDAIMQGipldeyakthkelaralekwghvtp 302 FAST alignment (Normalized score: 7.96 Raw score:2270.00) d1tx2a_ 1 KWDYDLRCG------------EYTLNLNEKTLIMGILNVTPDSFSDGGSYN------EVD 42 :::: :::::::::: ::: d1geha1 1 ---------DGPAFGIEGVRKMLEI--KDRPIYGVVP--------------KPKVGYSPE 35 d1tx2a_ 43 AAVRHAKEMRDEGAHIIDIGGESFA---------KVSVEEEIKRVVPMIQAVSKEVK--L 91 :::::::::::::::::: ::::::::::::::::::::::: : d1geha1 36 EFEKLAYDLLSNGADYMK-------DDENLTSPWYNRFEERAEIMAKIIDKVENETGEKK 88 d1tx2a_ 92 PISIDTY-----KAEVAKQAIEAGAHIINDIWGAKA---------EPKIAEVAAHYDVPI 137 ::::::: :::::::::::::::::: ::::::::::::::: d1geha1 89 TWFANITADLLEMEQRLEVLADLGLKHAMV------DVVITGWGALRYIRDLAADYGLAI 142 d1tx2a_ 138 ILMHNRD------NMNYRNLMA----DMIADLYDSIKIAKDAGVRDEN---IILDPGIGF 184 :::: :::: ::::::::::: ::::: d1geha1 143 HGHR---AMHAAFTRNP-----YHGISMFVLAKLYRL-----------IGIDQLHV---- 179 d1tx2a_ 185 AK-----TPEQNLEAMRNLEQLNVL-----------------------GYPVLLGTSRKS 216 :::::::: :::: ::::::: d1geha1 180 --GTAEGGKWDVIQN---ARIL---RESHYKPDENDVFHLEQKFYSIKAAFPTSS----- 226 d1tx2a_ 217 FIGHVLDLPVEERLEG---TGATVCLGIEKGC-----EFVRVH------------DVKEM 256 :::::::::: :::::: ::::: d1geha1 227 ----------------GGLHPGNIQPVIE---ALGTDIVLQLGGGTLGHPDGPAAGARAV 267 d1tx2a_ 257 SRMAKMMDAMIGK--------------------------- 269 :::::::: d1geha1 268 RQAIDAIM-----QGIPLDEYAKTHKELARALEKWGHVTP 302 TMalign alignment (TM-score: 0.63 Raw score:169.07) d1tx2a_ 1 -----KWDYDLRCGEYTLNLNEKTLIMGILN-VTPDSFSDGGSYNEVDAAVRHAKEMRDE 54 ::::::: ::::::::::::::: :::: ::::::::::::::: d1geha1 1 DGPAF-GIEGVRK---MLEIKDRPIYGVVPKPKVGY---------SPEEFEKLAYDLLSN 47 d1tx2a_ 55 GAHIIDIGGESFAKVSVEEEIKRVVPMIQAVSKEVK------LPISIDTYK----AE-VA 103 :::::::::::: ::: ::::::::::::::::::: ::::::::: :: :: d1geha1 48 GADYMKDDENLT-SPW-YNRFEERAEIMAKIIDKVENETGEKKTWFANITADLLEMEQRL 105 d1tx2a_ 104 KQAIEAGAHIINDIWGAKA--EP-KIAEVAAHYDVPIILMHN-R-DNMNYRNL-MADMIA 157 ::::::::::::::::::: :: :::::::::::::::::: : :::::::: ::::: d1geha1 106 EVLADLGLKHAMVDVVITGWGALRYIRDLAADYGLAIHGHRAMHAAFTRNPYHG-ISMFV 164 d1tx2a_ 158 DLYDSIKIAKDAGVRDENIILDPGIGFAKTPEQNLEAMRNLEQL-NVL------------ 204 ::::::::: :::::: :: :::::::::::::: ::: d1geha1 165 LAKLYRLIG--------IDQLHV-GT----AEGGKWDVIQNARILRESHYKPDENDVFHL 211 d1tx2a_ 205 -------GYPVLLGTSRKSFIGHVLDLPVEERLEGTGATVCLGIE-KG-CEFVRVH--D- 252 :::::::::: ::: :: :::::: :: ::::::: : d1geha1 212 EQKFYSIKAAFPTSSGG--------------LHP--GN-IQPVIEALGTDIVLQLGGGTL 254 d1tx2a_ 253 ---------VKEMSRMAKMMDAMI------------------------GK 269 ::::::::::::::: d1geha1 255 GHPDGPAAGARAVRQAIDAIMQGIPLDEYAKTHKELARALEKWGHVTP-- 302 HHsearch alignment (Probability: 0.78 E-value:0.01) d1tx2a_ 11 YTLNLNEKTLIMGILNVTPDSFSDGGSYNEVDAAVRHAKEMRDEGAHIID--IGGESFAK 68 ::::::::::::::: ::::::::::::::::::::::::::: ::::: :: d1geha1 12 KMLEIKDRPIYGVVP--------KPKVGYSPEEFEKLAYDLLSNGADYMKDDENLTS-PW 62 d1tx2a_ 69 VSV-EEEIKRVVPMIQAVSKEVK--LPISID-TYKA----EVAKQAIEAGAHIIN--DI- 117 ::: ::::::::::::::::::: :::::: :::: ::::::::::::::: :: d1geha1 63 YNRFEERAEIMAKIIDKVENETGEKKTWFANITADLLEMEQRLEVLADLGLKHAMVDVVI 122 d1tx2a_ 118 WGAKAEPKIAEVAAHY--DVPIILM 140 :::: :::::::: ::::::: d1geha1 123 TGWG----ALRYIRDLAADYGLAIH 143