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 | d1kbia1 | Flavocytochrome b2, C-terminal domain | FMN-linked oxidoreductases | 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 <-- 0.661 --> HitDALI alignment (Z-score: 9.5 Raw score:1153.10) d1tx2a_ 1 ------------------------------------------------------------ 1 d1kbia1 1 apgetkediarkeqlksllppldniinlydfeylasqtltkqawayyssgandevthren 60 d1tx2a_ 1 ----------------kwdydlrcgeyTLNLnekTLIMGILNVTpdsfsdggSYNEvDAA 44 :::: :::::::::: :::: ::: d1kbia1 61 hnayhriffkpkilvdvrkvdistdmlGSHV--dVPFYVSATAL------ckLGNPlEGE 112 d1tx2a_ 45 VRHAKEMRDE-GAHIIDIGGEsfakvsveeeikrvvPMIQAVSKEV---KLPISIDTYK- 99 :::::::::: :::::::::: :::::::::: :::::::::: d1kbia1 113 KDVARGCGQGvTKVPQMISTL-------------asCSPEEIIEAApsdKQIQWYQLYVn 159 d1tx2a_ 100 ------AEVAKQAIEAGAHIINDIW----------------------------------- 118 ::::::::::::::::::: d1kbia1 160 sdrkitDDLVKNVEKLGVKALFVTVdapslgqrekdmklkfsntkktnveesqgasrals 219 d1tx2a_ 119 ---gakAEPK-IAEVAAHYDVPIILMHNrdnmnyrnlmadMIADLYDSIKIAkdagvrde 174 :::: ::::::::::::::::: :::::::::::: d1kbia1 220 kfidpsLTWKdIEELKKKTKLPIVIKGV-----------qRTEDVIKAAEIG-------- 260 d1tx2a_ 175 nIILDPGI--GFAKTpEQNLeAMRNLEQLNVLG--------YPVLLGTSRksfighvldl 224 ::::::: ::::: :::: :::::::::::: ::::::::: d1kbia1 261 vSGVVLSNhgGRQLD-FSRA-PIEVLAETMPILeqrnlkdkLEVFVDGGV---------- 308 d1tx2a_ 225 pveerleGTGATVCLGIEKGCEFVRVH-----------------DVKEMSRmaKMMDA-- 265 :::::::::::::::::::: ::::::: ::::: d1kbia1 309 -------RRGTDVLKALCLGAKGVGLGrpflyanscygrngvekAIEILRD-eIEMSMrl 360 d1tx2a_ 266 --MIGK----------------------------------------- 269 :::: d1kbia1 361 lgVTSIaelkpdlldlstlkartvgvpndvlynevyegptltefeda 407 FAST alignment (Normalized score: 5.91 Raw score:1957.00) d1tx2a_ 1 KWDYDLRCGEYTLNLNEKT----------------------------------------- 19 d1kbia1 1 -------------------APGETKEDIARKEQLKSLLPPLDNIINLYDFEYLASQTLTK 41 d1tx2a_ 20 ----------------------------------------------------LIMGILNV 27 ::::::: d1kbia1 42 QAWAYYSSGANDEVTHRENHNAYHRIFFKPKILVDVRKVDISTDMLGSHVDVPFYVSAT- 100 d1tx2a_ 28 TPDSFSDGGSYNEV---------DAAVRHAKEMRDEGA----HIIDIGGESFAKVSVEEE 74 :::::::::::: :::::: d1kbia1 101 --------------ALCKLGNPLEGEKDVARGCGQ---GVTKVPQMIS------------ 131 d1tx2a_ 75 IK-----RVVPMIQAVSKEV-----KLPISIDTY--------KAEVAKQAIEAGAHIIND 116 ::::::: :::::::: :::::::::::::::::: d1kbia1 132 --TLASCSPEEIIE------AAPSDKQIQWYQL-YVNSDRKITDDLVKNVEKLGVKALFV 182 d1tx2a_ 117 IWGAKA------------------------------------------------EPKIAE 128 :::::: d1kbia1 183 ------TVDAPSLGQREKDMKLKFSNTKKTNVEESQGASRALSKFIDPSLTWKDIEELKK 236 d1tx2a_ 129 VAAHYDVPIILMHNRDNMNYRNLMAD----MIADLYDSIKIAKDAGVRDEN---IILD-- 179 :::::::: :::::::::: :::: d1kbia1 237 ---KTKLPIVI---------------KGVQRTEDVIKAAE-----------IGVSGVVLS 267 d1tx2a_ 180 PGIGFAKTPEQNL----EAMRNLEQLNVL---------GYPVLLGTSRKSFIGHVLDLPV 226 ::::::: ::::::::::: ::::::: d1kbia1 268 NHGGRQL------DFSRAPIEVLAETMP-ILEQRNLKDKLEVFVD--------------- 305 d1tx2a_ 227 EERLEG----TGATVCLGIEKGCEFVRVH------------------DVKEMSRMAKMMD 264 :::::::::::::::::: ::::::::::::: d1kbia1 306 ------GGVRRGTDVLKALCLGAKGVGL-GRPFLYANSCYGRNGVEKAIEILRDEIEMSM 358 d1tx2a_ 265 AMIGK--------------------------------------------- 269 :::: d1kbia1 359 RLLG-VTSIAELKPDLLDLSTLKARTVGVPNDVLYNEVYEGPTLTEFEDA 407 TMalign alignment (TM-score: 0.53 Raw score:141.81) d1tx2a_ 1 ------------------------------------------------------------ 1 d1kbia1 1 APGETKEDIARKEQLKSLLPPLDNIINLYDFEYLASQTLTKQAWAYYSSGANDEVTHREN 60 d1tx2a_ 1 --------------------KWDYDLRCGEYTLNLNEKT--------------------- 19 :::::: : :::: :: d1kbia1 61 HNAYHRIFFKPKILVDVRKVDISTDM-L---GSHV--DVPFYVSATALCKLGNPLEGEKD 114 d1tx2a_ 20 ----------LIMGILNVTP-DSFSDGGSYNEVDAAVRHAKEMRDEGAHIIDIGGESFAK 68 :::::::::: : :::::::::::::::::::::: d1kbia1 115 VARGCGQGVTKVPQMISTLAS----------C--SPEEIIEAAPSDKQIQWYQLYV---- 158 d1tx2a_ 69 VSVEEEIKRVVPMIQAVSKEVKLPISIDTY------------------------------ 98 : :: :::::::::::: ::::::::::: d1kbia1 159 N--SD-RKITDDLVKNVE-KLGVKALFVTVDAPSLGQREKDMKLKFSNTKKTNVEESQGA 214 d1tx2a_ 99 -----------K-AEVAKQAIEAG-AHIINDIWGAKAEPKIAEVAAHYDVPIILMHN-R- 143 : ::::::::::: :::::: ::::::: ::::::::::::::::: : d1kbia1 215 SRALSKFIDPSLTWKDIEELKKKTKLPIVIK-GVQRTED-VIKAAEIGVSGVVLSNHGGR 272 d1tx2a_ 144 -DNMNYRNLMADMIADLYDSIKIAKDAGVRDENIILDPGIGFAKTPEQNLEAMRNLEQLN 202 ::::: ::::::::::::::::::::::::::::: :: ::::::::: d1kbia1 273 QLDFSR-----APIEVLAETMPILEQRNLKDKLEVFVDGG--------VR-RGTDVLKAL 318 d1tx2a_ 203 VLGYPVLLGTSRKSFIGHVLDLPVEERL-EGTGATVCLGIEKGC--------EFVRVHDV 253 :::::::::::::: :: ::::: ::::::::::::::: d1kbia1 319 CLGAKGVGLGRPFL-YA------NSCYGRNGVEKAIEILRDEIEMSMRLLGV-------- 363 d1tx2a_ 254 KEMSRMAKMMDAMIGK----------------------------------------- 269 ::: d1kbia1 364 -------------TSIAELKPDLLDLSTLKARTVGVPNDVLYNEVYEGPTLTEFEDA 407 HHsearch alignment (Probability: 0.65 E-value:0.00) d1tx2a_ 110 GAHIINDIWGAKAEPKIAEVAAHYDVPIILMHNRDNMNYRNLMADMIADLYDSIKIAKDA 169 ::::: ::::: :::::::::::::::::::::::::::::::: :::::::::::::: d1kbia1 239 KLPIV--IKGVQ-RTEDVIKAAEIGVSGVVLSNHGGRQLDFSRAP-IEVLAETMPILEQR 294 d1tx2a_ 170 GVRDE-NIILDPGIGFAKTPEQNLEAMRNLEQLNVLGYPVLLGT 212 ::::: :::::::::::::::::::::: ::::::::::::: d1kbia1 295 NLKDKLEVFVDGGVRRGTDVLKALCLGA---KGVGLGRPFLYAN 335