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 | d1oyba_ | Old yellow enzyme (OYE) | 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 <-- 1.107 --> HitDALI alignment (Z-score: 9.9 Raw score:1193.80) d1tx2a_ 1 ----------------kwdyDLRCgeYTLNlneKTLIMGIL-NVTPDSfSDGGsynEVDA 43 :::: :::: :::::::: :::::: :::: :::: d1oyba_ 1 sfvkdfkpqalgdtnlfkpiKIGN--NELL---HRAVIPPLtRMRALH-PGNI--pNRDW 52 d1tx2a_ 44 AVRHAKEMRDegaHIID-IGGEsfakVSVE-----eEIKR--VVPMIQAVSKEVK---LP 92 :::::::::: :::: :::: :::: :::: ::::::::::::: :: d1oyba_ 53 AVEYYTQRAQrpgTMIItEGAF--isPQAGgydnapGVWSeeQMVEWTKIFNAIHekkSF 110 d1tx2a_ 93 ISIDT------------------------------------------------------- 97 ::::: d1oyba_ 111 VWVQLwvlgwaafpdnlardglrydsasdnvfmdaeqeakakkannpqhsltkdeikqyi 170 d1tx2a_ 98 -yKAEVAKQAIEAGAHIINDIW------------------------------gAKAE-PK 125 :::::::::::::::::::: :::: :: d1oyba_ 171 keYVQAAKNSIAAGADGVEIHSangyllnqfldphsntrtdeyggsienrarfTLEVvDA 230 d1tx2a_ 126 IAEVAAhyDVPIILMHN------rDNMN-YRNLMADMIADLYDSIKIaKDAGVRdeNIIL 178 :::::: ::::::::: :::: :::::::::::::::::: :::::: :::: d1oyba_ 231 LVEAIG--HEKVGLRLSpygvfnsMSGGaETGIVAQYAYVAGELEKR-AKAGKR--LAFV 285 d1tx2a_ 179 DPGIG----------fakTPEQNleamrnLEQLNV-LGYPVLLGTSrksfighvldlpve 227 ::::: ::::: :::::: :::::::::: d1oyba_ 286 HLVEPrvtnpfltegegeYEGGS------NDFVYSiWKGPVIRAGN-------------- 325 d1tx2a_ 228 erlegTGAT---vclgieKGCEFVRVHD-VKEMSRMAKMMDAM----------------- 266 :::: :::::::::: :::::::::::::: d1oyba_ 326 -----FALHpevvreevkDKRTLIGYGRfFISNPDLVDRLEKGlplnkydrdtfyqmsah 380 d1tx2a_ 267 ----------------igk 269 d1oyba_ 381 gyidyptyeealklgwdkk 399 FAST alignment (Normalized score: 6.20 Raw score:2032.00) d1tx2a_ 1 KWD-----------------YDLRCGEYTLNLNEKT--LIMGILNV--TPDSFS-DGGSY 38 :::::::::: :::::::: ::::: :::: d1oyba_ 1 ---SFVKDFKPQALGDTNLFKPIKIGNNEL------LHRAVIPPLTRMRALHP-GNIPN- 49 d1tx2a_ 39 NEVDAAVRHAKEMRDEGA--HIIDIGGESFAKVS-------------------VEEEIKR 77 :::::::::::::: ::::: ::::::: d1oyba_ 50 --RDWAVEYYTQRAQR--PGTMIIT---------EGAFISPQAGGYDNAPGVWSEEQMVE 96 d1tx2a_ 78 VVPMIQAVSKEVKLPISIDTY--------------------------------------- 98 ::::::::: ::::::::: d1oyba_ 97 WTKIFNAIH-EKKSFVWVQ--LWVLGWAAFPDNLARDGLRYDSASDNVFMDAEQEAKAKK 153 d1tx2a_ 99 -------------------KAEVAKQAIEAGAHIINDIWGAKA----------------- 122 :::::::::::::::::: d1oyba_ 154 ANNPQHSLTKDEIKQYIKEYVQAAKNSIAAGADGVEI------HSANGYLLNQFLDPHSN 207 d1tx2a_ 123 --------------------EPKIAEVAAHYDV----PIILMHNRD---------NMNYR 149 ::::::: ::::::: ::::: d1oyba_ 208 TRTDEYGGSIENRARFTLEVVDALVEA------IGHEKVGLRLS--PYGVFNSMSGGAET 259 d1tx2a_ 150 NLMADMIADLYDSIKIAKDAGVRDEN-----IILDPGIGFAKTPEQNLEAMR-------- 196 :::::::::::::::::: :::::: d1oyba_ 260 GIVAQYAYVAGELEKRAK--------AGKRLAFVHLV---------------EPRVTNPF 296 d1tx2a_ 197 -----------NLEQLN-VLGYPVLLGTSRKSFIGHVLDLPVEERLEG-----TGATVCL 239 :::::: ::::::::: ::::::: d1oyba_ 297 LTEGEGEYEGGSNDFVYSIWKGPVIRA---------------------GNFALHPEVVRE 335 d1tx2a_ 240 GIEKGC--EFVRVH---------DVKEMSRMAKMMDAMIGK------------------- 269 :::: ::::: :::::: d1oyba_ 336 EVKD--KRTLIGY-GRFFISNPDLVDRLE------------KGLPLNKYDRDTFYQMSAH 380 d1tx2a_ 270 ------------------- 270 d1oyba_ 381 GYIDYPTYEEALKLGWDKK 399 TMalign alignment (TM-score: 0.53 Raw score:142.02) d1tx2a_ 1 --------------KW-DYDLRCGEYTLNLNEKTLI------------------------ 21 :: :::::: :::: :::::: d1oyba_ 1 SFVKDFKPQALGDTNLFKPIKIG--NNEL-LHRAVIPPLTRMRALHPGNIPNRDWAVEYY 57 d1tx2a_ 22 ----------MGILNVTPDSFSD-------GGSYNEVDAAVRHAKEMRDEGAHIIDIGGE 64 ::::::::::::: :::::::::::::::::::::::::::::: d1oyba_ 58 TQRAQRPGTMIITEGAFISPQAGGYDNAPGVWSEEQMVEWTKIFNAIHEKKSFVWVQLWV 117 d1tx2a_ 65 S---F---------A-KV-----------------------------SVEEEIKRVVPMI 82 : : : :: ::::::::::::: d1oyba_ 118 LGWAAFPDNLARDGLRYDSASDNVFMDAEQEAKAKKANNPQHSLTKDEIKQYIKEYVQAA 177 d1tx2a_ 83 QAVSKEVKLPISIDT-----Y-------------------------KAEVAKQAIEAGA- 111 ::::::::::::::: : ::::::::::::: d1oyba_ 178 KNSIAAGADGVEIHSANGYLLNQFLDPHSNTRTDEYGGSIENRARFTLEVVDALVEAIGH 237 d1tx2a_ 112 -HIINDIWGAKAEPKIAEVAAHYDVPIILMHNR----DNMNYRNLMADMIADLYDSIKIA 166 :::::: :::: ::::::: :: :::::::::: d1oyba_ 238 EKVGLRL----------------------SPYGVFNSMSGGAET---GI-VAQYAYVAGE 271 d1tx2a_ 167 KDAGVR---DENIILD-PGIGFAKTPEQNLEAMRNLEQLNVLG--Y-PVLLGTSRKSFIG 219 :::::: ::::::: :::::::::::::::::::::::::: : :::::: d1oyba_ 272 LEKRAKAGKRLAFVHLVEPRVTNPFLTEGEGEYEGGSNDFVYSIWKGPVIRAG------- 324 d1tx2a_ 220 HVLDLPVEERLEGTGATVCLGIEKG---C-----EFVRVHDVKEMSRMAKMMDAMI---- 267 ::::::::: : :::::::::::::::::::::: d1oyba_ 325 ----------------NFALHPEVVREEVKDKRTLIGYGRFFISNPDLVDRLEKGLPLNK 368 d1tx2a_ 268 -------------------------------GK 269 d1oyba_ 369 YDRDTFYQMSAHGYIDYPTYEEALKLGWDKK-- 399 HHsearch alignment (Probability: 0.83 E-value:0.00) d1tx2a_ 6 LRCGEYTLNLNEKTLIMGILNVTPDSF-SDGGSYNEVDAAVRHAKEMRDEGAHIIDIGGE 64 :::::::: ::: :::: ::::::: :::: ::::::::::::::::::::::::::: d1oyba_ 20 IKIGNNEL--LHR-AVIP--PLTRMRALHPGN-IPNRDWAVEYYTQRAQRPGTMIITEGA 73 d1tx2a_ 65 SFA----------KVSVEEEIKRVVPMIQAVSKEVKLPISIDTYK 99 ::: ::::::::::::::::::::: :::::::::: d1oyba_ 74 FISPQAGGYDNAPGVWSEEQMVEWTKIFNAIHEK-KSFVWVQLWV 117