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 | d1ur3m_ | Hypothetical oxidoreductase YdhF | NAD(P)-linked oxidoreductase | 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 <-- 1.383 --> HitDALI alignment (Z-score: 10.3 Raw score:1146.20) d1tx2a_ 1 -----kwdYDLRcgeytlnlnektLIMGIL-NVTPdsfsdggsyNEVDAAVRHAKEMRDE 54 :::: :::::: :::: :::::::::::::::: d1ur3m_ 1 lvqritiaPQGP---------efsRFVMGYwRLMD-------wnMSARQLVSFIEEHLDL 44 d1tx2a_ 55 GAHIIDIGGESfakvsveeEIKRVVPMIQAV--sKEVK--LPISIDTY------------ 98 ::::::::::: :::::::::::: :::: :::::::: d1ur3m_ 45 GVTTVDHADIY-------gGYQCEAAFGEALklaPHLRerMEIVSKCGiattareenvig 97 d1tx2a_ 99 --------KAEVAKQAIEAG----AHIINDIW--gaKAEPKIAEVAAHYD-----VPIIL 139 :::::::::::: :::::::: :::::::::::::: ::::: d1ur3m_ 98 hyitdrdhIIKSAEQSLINLatdhLDLLLIHRpdplMDADEVADAFKHLHqsgkvRHFGV 157 d1tx2a_ 140 MHNrdnmnyrnlmadMIADLYDSIKIAKdagvrDENIILDPGIgfaktpeqNLEAMRN-l 198 ::: ::::::::::::: :::::::::: ::::::: d1ur3m_ 158 SNF------------TPAQFALLQSRLP-----FTLATNQVEI-----spvHQPLLLDgt 195 d1tx2a_ 199 EQLN-VLGYPVLLGTSRKSfiGHVLDL--------------pveerlEGTGATVCLGIEK 243 :::: :::::::::::::: :::::: ::::::::::::: d1ur3m_ 196 LDQLqQLRVRPMAWSCLGG--GRLFNDdyfqplrdelavvaeelnagSIEQVVNAWVLRL 253 d1tx2a_ 244 -GCEFVRVH-----DVKEMSRMAKMmdAMIG--------------k 269 :::::::: ::::::::::: :::: d1ur3m_ 254 pSQPLPIIGsgkieRVRAAVEAETL--KMTRqqwfrirkaalgydv 297 FAST alignment (Normalized score: 5.57 Raw score:1574.00) d1tx2a_ 1 KWDYDLRCGEYTLNLNEKT---------------LIMGILNVTPDSFSDGGSYN------ 39 ::::: d1ur3m_ 1 -------------------LVQRITIAPQGPEFSRFVMG---------------YWRLMD 26 d1tx2a_ 40 ---EVDAAVRHAKEMRDEGAHIIDIGGESFAKVSVEEEIKRV--VPMIQAVSKEV----- 89 :::::::::::::::::::::::::: ::::::::: d1ur3m_ 27 WNMSARQLVSFIEEHLDLGVTTVDHADIY-------------GGYQCEAAFGE--ALKLA 71 d1tx2a_ 90 -----KLPISID----------------TYKAEVAKQAIE--------AGAHIINDIWGA 120 ::::::: :::::::::::: :::::::::::: d1ur3m_ 72 PHLRERMEIVSKCGIATTAREENVIGHYITDRDHIIKSAEQSLINLATDHLDLLLIHRPD 131 d1tx2a_ 121 KAE-----PKIAEVAAHYD-------VPIILMHNRDNMNYRNLMAD---MIADLYDSIKI 165 ::::::::: ::::: ::::::::::: d1ur3m_ 132 ---PLMDADEVADAFKH--LHQSGKVRHFGV---------------SNFTPAQFALLQSR 171 d1tx2a_ 166 AKDAGVRDENIILDPGIGFAKTPEQNLEA---------------MRNLEQL--------N 202 ::::: : d1ur3m_ 172 -----------------------------LPFTLATNQVEISPVHQPLL--LDGTLDQLQ 200 d1tx2a_ 203 VLGYPVLLG-TSRKSFIGHVLDLPVEERL---------------------EGTGATVCLG 240 ::::::::: ::::::::: :::::::::: d1ur3m_ 201 QLRVRPMAWSCLGGGRLFN----------DDYFQPLRDELAVVAEELNAGSIEQVVNAWV 250 d1tx2a_ 241 IEKGC-EFVRVHD---VKEMSRMAKMMDAMIGK--------------------- 269 ::::: ::::: :::::::::::: d1ur3m_ 251 LRLPSQPLPII--GSGKIERVRAAVEAE-----TLKMTRQQWFRIRKAALGYDV 297 TMalign alignment (TM-score: 0.60 Raw score:161.76) d1tx2a_ 1 ----KW-DYDLRCGEYTLNLNEKTLIMGIL-NVTPDSFSDGGSYNEVDAAVRHAKEMRDE 54 :: ::::: :: ::::::: :::::: :::::::::::::::: d1ur3m_ 1 LVQRITIAPQGP-----EF----SRFVMGYWRLMDWN-------MSARQLVSFIEEHLDL 44 d1tx2a_ 55 GAHIIDIGGESFAKVSVEEEIKRVVPMIQAVSKEV-KLPISIDTY--------------- 98 :::::::::::: :: ::::::::::::::::: ::::::::: d1ur3m_ 45 GVTTVDHADIYG-GY---QCEAAFGEALKLAPHLRERMEIVSKCGIATTAREENVIGHYI 100 d1tx2a_ 99 ----KA-EVAKQAIE---A-GAHIINDIWGAKAEP--KIAEVAA-HY----DVPIILMHN 142 :: :::::::: : ::::::::::::::: ::::::: :: ::::::::: d1ur3m_ 101 TDRDHIIKSAEQSLINLATDHLDLLLIHRPDPLMDADEVADAFKHLHQSGKVRHFGVSNF 160 d1tx2a_ 143 RDNMNYRNLMADMIADLYDSIKIAKDAGVRDENIILDPGIGFAKTPEQNLEAMRN-LEQL 201 ::::::::::: :::: ::::::::: :: ::::::: :::: d1ur3m_ 161 ---------------TPAQFALLQSR-LPFT-LATNQVEIS----PV-HQPLLLDGTLDQ 198 d1tx2a_ 202 -NVLGYPVLLGTSRKSFIG--H--VL-DL---PVEE--------RLEGTGATVCLGIEKG 244 :::::::::::::::::: : :: :: : ::::::::::::::: d1ur3m_ 199 LQQLRVRPMAWSCLGGGRLFNDDYFQPLRDEL---AVVAEELNA-GSIEQVVNAWVLRLP 254 d1tx2a_ 245 -CEFVRVH-----DVKEMSRMAKMMD-AM---------------IGK 269 ::::::: ::::::::::::: : d1ur3m_ 255 SQPLPIIGSGKIERVRAAVEAETLKMT-RQQWFRIRKAALGYDV--- 297 HHsearch alignment (Probability: 0.59 E-value:0.00) d1tx2a_ 7 RCGEYTLNLNEKTLIMGILNVTPDSFSDGGSYNEVDAAVRHAKEMRDEGAHIIDIGGESF 66 ::::::::: :::::::: :::::::::::::::::::::::::::::::::: d1ur3m_ 6 TIAPQGPEF--SRFVMGYW-------RLMDWNMSARQLVSFIEEHLDLGVTTVDHADIYG 56 d1tx2a_ 67 AKVSVEEEIKRVVPMIQAVSK-EVKLPISID 96 ::::::: :::::::::: ::::::::: d1ur3m_ 57 -GYQCEAA---FGEALKLAPHLRERMEIVSK 83