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 | d1o94a1 | Trimethylamine dehydrogenase, N-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 <-- 1.459 --> HitDALI alignment (Z-score: 10.6 Raw score:1213.00) d1tx2a_ 1 ---------kwdyDLRCgeYTLNlnekTLIMGI-lNVTPdsfsdggsyNEVDAAVRHAKE 50 :::: :::: :::::: :::: :::::::::::: d1o94a1 1 ardpkhdilfepiQIGP--KTLR----NRFYQVphCIGA-------gsDKPGFQSAHRSV 47 d1tx2a_ 51 MRDEGAHIIDIGGEsfakVSVE------eEIKR--VVPMIQAVSKEVK---LPISIDTY- 98 :::::::::::::: :::: :::: ::::::::::::: :::::::: d1o94a1 48 KAEGGWAALNTEYC-sinPESDdthrlsaRIWDegDVRNLKAMTDEVHkygALAGVELWy 106 d1tx2a_ 99 --------------------------------------------kaEVAKQAIEAGAHII 114 :::::::::::::: d1o94a1 107 ggahapnmesratprgpsqyasefetlsyckemdlsdiaqvqqfyvDAAKRSRDAGFDIV 166 d1tx2a_ 115 NDIW----------------------------gaKAEPKIAEVAAHYD--VPIILMHNrd 144 :::: :::::::::::::: :::::::: d1o94a1 167 YVYGahsylplqflnpyynkrtdkyggslenrarFWLETLEKVKHAVGsdCAIATRFGvd 226 d1tx2a_ 145 NMNYR--NLMA-DMIADLYDSIKIakdagvrdenIILDPGigFAKT-----------peq 190 ::::: :::: :::::::::::: :::::: :::: d1o94a1 227 TVYGPgqIEAEvDGQKFVEMADSL---------vDMWDIT--IGDIaewgedagpsrfyq 275 d1tx2a_ 191 nleAMRNLEQLNV-LGYPVLLGTSRksfighvldlpveerleGTGATVCLGIE-KGCEFV 248 :::::::::: ::::::::::: ::::::::::: :::::: d1o94a1 276 qghTIPWVKLVKQvSKKPVLGVGRY-----------------TDPEKMIEIVTkGYADII 318 d1tx2a_ 249 R-VHDV----KEMSRMakmmdamigk 269 : :::: :::::: d1o94a1 319 GcARPSiadpFLPQKV----eqgryd 340 FAST alignment (Normalized score: 6.67 Raw score:2019.00) d1tx2a_ 1 KWD----------YDLRCGEYTLNLNEKT--LIMGILNVTPDSFSDGGSYN--------E 40 :::::::::: :::::: : d1o94a1 1 ---ARDPKHDILFEPIQIGPKTL------RNRFYQVP--------------HCIGAGSDK 37 d1tx2a_ 41 VDAAVRHAKEMRDEGAHIIDIGGESFAKVS--------------------VEEEIKRVVP 80 ::::::::::::::::::::: :::::::::: d1o94a1 38 PGFQSAHRSVKAEGGWAALNT---------EYCSINPESDDTHRLSARIWDEGDVRNLKA 88 d1tx2a_ 81 MIQAVSKEVKLPISIDTY------------------------------------------ 98 :::::: ::::::::: d1o94a1 89 MTDEVH-KYGALAGVE--LWYGGAHAPNMESRATPRGPSQYASEFETLSYCKEMDLSDIA 145 d1tx2a_ 99 -----KAEVAKQAIEAGAHIINDIWGAKA------------------------------- 122 :::::::::::::::::: d1o94a1 146 QVQQFYVDAAKRSRDAGFDIVYV------YGAHSYLPLQFLNPYYNKRTDKYGGSLENRA 199 d1tx2a_ 123 ------EPKIAEVAAHY----DVPIILMHNRDNMNYRNL--------------MADMIAD 158 :::::: ::::::: ::::::: d1o94a1 200 RFWLETLEKVKH-----AVGSDCAIATR-----------FGVDTVYGPGQIEAEVDGQKF 243 d1tx2a_ 159 LYDSIKIAKDAGVRDEN--IILDPGIGFAKTPEQN------------------LEAMRNL 198 :::::: ::::::: ::::::: d1o94a1 244 VEMADS-----------LVDMWDITI---------GDIAEWGEDAGPSRFYQQGHTIPWV 283 d1tx2a_ 199 EQLN-VLGYPVLLGTSRKSFIGHVLDLPVEERLEG----TGATVCLGIEK-GCEFVRVHD 252 :::: ::::::::: ::::::::::: :::::::: d1o94a1 284 KLVKQVSKKPVLGV---------------------GRYTDPEKMIEIVTKGYADIIGCA- 321 d1tx2a_ 253 VKEMS-------RMAKMMDAMIGK----- 269 ::::::: d1o94a1 322 -----RPSIADPFLPQKVE-----QGRYD 340 TMalign alignment (TM-score: 0.59 Raw score:158.78) d1tx2a_ 1 ------------KWDYDL-RCGEYTLNLNEKTLIMGILNVTPDSFSDGGSYNEVDAAVRH 47 ::: :: ::: d1o94a1 1 ARDPKHDILFEP---IQIGPK---TLR--------------------------------- 21 d1tx2a_ 48 AKEMRDEGAHIIDIGGESFAKVSVEEEIKRVVPMIQAVSKEVKLPISIDTY--------- 98 :::::::::: : ::::: :::::::::::::::::::::::: d1o94a1 22 -------NRFYQVPHCI-G--AGSDK-PGFQSAHRSVKAEGGWAALNTEYCSINPESDDT 70 d1tx2a_ 99 -----KA----E--VAKQAIEAG-----AHIINDIWG----------------------- 119 :: : ::::::::: ::::::::: d1o94a1 71 HRLSARIWDEGDVRNLKAMTDEVHKYGALAGVELWYGGAHAPNMESRATPRGPSQYASEF 130 d1tx2a_ 120 ----------------AK-AEPKIAEVAAH-YDVPIILMH---NRD-N-----MNY---- 148 :: ::::::::::: ::::::::: ::: : ::: d1o94a1 131 ETLSYCKEMDLSDIAQVQQFYVDAAKRSRDAGFDIVYVYGAHSYLPLQFLNPYYNKRTDK 190 d1tx2a_ 149 -RNLMADMIADLYDSIKIAKDAGVRDENIILDPGIGFAKTPE-QNL--EAMRNLEQLNVL 204 :::::::::::::::::::::::::::::::::::: :::: ::: :::::::::::: d1o94a1 191 YGGSLENRARFWLETLEKVKHAVGSDCAIATRFGVDT-VYGPGQIEAEVDGQKFVEMADS 249 d1tx2a_ 205 GYPVLLGTSRKSF-IGH-VL--DLPVE-ERL-EGTGATVCLGIEKG-CEFVRVHDV-K-- 254 ::::::::: ::: :: : ::: ::: :::::::::::::: ::::::::: : d1o94a1 250 LVDMWDITI-GDIA-EWG-EDA--GPSRFYQQGHTIPWVKLVKQVSKKPVLGVGRYTDPE 304 d1tx2a_ 255 EMSRMAKMMDA-------------------------MIGK 269 ::::::::::: d1o94a1 305 KMIEIVTKGYADIIGCARPSIADPFLPQKVEQGRYD---- 340 HHsearch alignment (Probability: 0.95 E-value:0.00) d1tx2a_ 42 DAAVRHAKEMRDEGAHIIDIGGESFA-----------KVSVEEEIKRVVPMIQAVSKEVK 90 :::::::::::::::::::::::::: ::::::::::::::::::::: : d1o94a1 39 GFQSAHRSVKAEGGWAALNTEYCSINPESDDTHRLSARIWDEGDVRNLKAMTDEVHKY-G 97 d1tx2a_ 91 LPISIDTYKAEVAKQAIEAGAHIINDIWGAKAEPKIAEVAAHYDVPIILMHNRDNMNYRN 150 ::::::::::::: :::::::: ::::: :::::::::::::::::: : d1o94a1 98 ALAGVELWYGGAH---------APNMESRA--TPRGP---SQYASEFETLSYCKEMDL-S 142 d1tx2a_ 151 LMADMIADLYDSIKIAKDAGVRDENIILDPGIGFAK-----------------T----PE 189 ::::::::::::::::::::::: ::::::::::: : :: d1o94a1 143 DIAQVQQFYVDAAKRSRDAGFDI--VYVYGAHSYLPLQFLNPYYNKRTDKYGGSLENRAR 200 d1tx2a_ 190 QNLEAMRNLEQLNVLGYPVLLGTSRKSFIGHVLDLPVEERLEGTGATVCLGIEKGCEFVR 249 ::::::::::::::::::::::::::::::::: :: :::::::::::::::::::: d1o94a1 201 FWLETLEKVKHAVGSDCAIATRFGVDTVYGPGQ---IE--AEVDGQKFVEMADSLVDMWD 255 d1tx2a_ 250 VH 251 :: d1o94a1 256 IT 257