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: T0542_Ad2+3.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1jila_ | Tyrosyl-tRNA synthetase (TyrRS) | Nucleotidylyl transferase | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1r6ta2 | Tryptophanyl-tRNA synthetase (TrpRS) | Nucleotidylyl transferase | Adenine nucleotide alpha hydrolase-like | α/β |
Query <-- 0.690 --> IntermediateDALI alignment (Z-score: 6.1 Raw score:653.80) query 1 ---dadeeVYSAL-----vvglrayvAKNGFRSVLIGLS-----ggIDSALVAAIACDAL 47 ::::: ::::::::::::: :::::::::::::: d1jila_ 1 tnvliedlKWRGLiyqqtdeqgiedlLNKEQVTLYCGADptadslhIGHLLPFLTLRRFQ 60 query 48 G-aqNVYGVSMP--SKYS----------------SDHSKGDAAELARRTG-------LNF 81 : :::::::: :::: :::::::::::::::: ::: d1jila_ 61 EhghRPIVLIGGgtGMIGdpsgkseervlqteeqVDKNIEGISKQMHNIFefgtdhgAVL 120 query 82 RTVS--IEPMfdAYMASL----------------------gltGLAEENLQSRLRGTTLM 117 :::: :::: :::::: ::::::::::::::::: d1jila_ 121 VNNRdwLGQI--SLISFLrdygkhvgvnymlgkdsiqsrlehgISYTEFTYTILQAIDFG 178 query 118 AISNQEGH-IVLAPGNkselavgystlyGDSV--------------gAYGPiKDVY---- 158 :::::::: ::::::: :::: :::: :::: d1jila_ 179 HLNRELNCkIQVGGSD---------qwgNITSgielmrrmygqtdayGLTI-PLVTksdg 228 query 159 ----------------------------------ktsifrLAEW---------------- 168 :::: d1jila_ 229 kkfgksesgavwldaektspyefyqfwinqsdedvikflkYFTFlgkeeidrleqsknea 288 query 169 --------rnRAAAerGQTPpipeasitkpdypvldailelyvdrdtgadaivaagydre 220 :::: :::: d1jila_ 289 phlreaqktlAEEV--TKFI---------------------------------------- 306 query 221 lvvktlrmvdtaeykrrqyppgtkisakgfgkdrrlpitnrwregh 266 d1jila_ 307 -----------------------------hgedalndairisqalf 323 FAST alignment (Normalized score: 2.35 Raw score:689.80) query 1 DADEEVYSA------------------LVVGLRAYVAKNGF--RSVLIGLSG-------- 32 ::::::::::: :::::: d1jila_ 1 ---------TNVLIEDLKWRGLIYQQTDEQGIEDLLNK---EQVTLYCG---ADPTADSL 45 query 33 ---GIDSALVAAIACDALGAQ-NVYGVSMPSKYS-------------------------- 62 ::::::::::::: :::::::: d1jila_ 46 HIGHLLPFLTLRRFQE-----HGHRPIVLI----GGGTGMIGDPSGKSEERVLQTEEQVD 96 query 63 --SDHSKGDAAELARRTGL-------NFRTVSIEPMFDAYMASLGLTG------------ 101 ::::::::::: ::::::::::::: d1jila_ 97 KNIEGISKQMHNI------FEFGTDHGAVLVNNRDWLGQ---------ISLISFLRDYGK 141 query 102 ---------------------LAEENLQSRLRGTTLMAISNQEGHIVLA---PGNKSELA 137 :::::::::::::::::::::::: :::: d1jila_ 142 HVGVNYMLGKDSIQSRLEHGISYTEFTYTILQAIDFGHLNRELNC----KIQVGGS---- 193 query 138 VGYSTLY-GDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLD 196 :::: d1jila_ 194 -------DQWGN------------------------------------------------ 198 query 197 AILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRL 256 d1jila_ 199 ------------------------------------------------------------ 199 query 257 PITNRWREGH-------------------------------------------------- 266 d1jila_ 199 ----------ITSGIELMRRMYGQTDAYGLTIPLVTKSDGKKFGKSESGAVWLDAEKTSP 248 query 267 ------------------------------------------------------------ 267 d1jila_ 249 YEFYQFWINQSDEDVIKFLKYFTFLGKEEIDRLEQSKNEAPHLREAQKTLAEEVTKFIHG 308 query 267 --------------- 267 d1jila_ 309 EDALNDAIRISQALF 323 TMalign alignment (TM-score: 0.46 Raw score:121.20) query 1 ------DADEEVYSALV--VG--L--RAYVAKNGFRSVLIGLSG----G-IDSALVAAIA 43 :::::::: : : :::::::::::::::::: : :::::::::: d1jila_ 1 TNVLIE---DLKWRGLIYQ-QTDEQGIEDLLNKEQVTLYCGADPTADSLHIGHLLPFLTL 56 query 44 CDALG-AQNVYGVSMPS--K------------YS----S-DHSKGDAAELARRTG----- 78 ::::: ::::::::::: : :: : ::::::::::::::: d1jila_ 57 RRFQEHGHRPIVLIGGGTGMIGDPSGKSEERVLQTEEQVDKNIEGISKQMHNIFEFGTDH 116 query 79 -LNFRTVS--IEPMFDAYMASL-----------------------GLTGLAEENLQSRLR 112 ::::::: :::: ::::::: ::::::::::::: d1jila_ 117 GAVLVNNRDWLGQI-SLISFLRDYGKHVGVNYMLGKDSIQSRLEH--GISYTEFTYTILQ 173 query 113 GTTLMAISNQEGHIVLAPGNKSELAVGYSTLYGDS-VG------------AYGPIKDVYK 159 :::::::::::::::::::: :: : : ::: :: ::::: ::: d1jila_ 174 AIDFGHLNRELNCKIQVGGS--DQ--W--G--NITSGIELMRRMYGQTDAYGLTI--PLV 223 query 160 TS-----IF-----------------------------R---LAEWRN------------ 170 :: :: : :::::: d1jila_ 224 TKSDGKKFGKSESGAVWLDAEKTSPYEFYQFWINQSDEDVIKFLKYFTFLGKEEIDRLEQ 283 query 171 -------------RAAAERGQTPP----------------IPEASITKPDYPVLDAILEL 201 ::::::::::: d1jila_ 284 SKNEAPHLREAQKTLAEEVTKFIHGEDALNDAIRISQALF-------------------- 323 query 202 YVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNR 261 d1jila_ 324 ------------------------------------------------------------ 324 query 262 WREGH 266 d1jila_ 324 ----- 324 HHsearch alignment (Probability: 0.02 E-value:0.47) query 163 FRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVA--AGYDRE 220 :::::::::::::::::::::::::::: ::::::::::::::::::::::: :::::: d1jila_ 203 IELMRRMYGQTDAYGLTIPLVTKSDGKK-FGKSESGAVWLDAEKTSPYEFYQFWINQSDE 261 query 221 LVVKTLRMV 229 ::::::::: d1jila_ 262 DVIKFLKYF 270
Intermediate <-- 2.078 --> HitDALI alignment (Z-score: 19.6 Raw score:2230.30) d1jila_ 1 -------------------------------------------TNVLiEDLKWRGLIYQQ 17 :::: :::::::::::: d1r6ta2 1 edfvdpwtvqtssakgidydklivrfgsskidkelinrieratGQRP-HHFLRRGIFFSH 59 d1jila_ 18 TDEQGIEDLLN-KEQVTLYCGADPTADSLHIGHLLPFLTLRRFQEH-GHRPIVLIGGGTG 75 ::::::::::: :::::::::::::::::::::::::::::::::: ::::::::::::: d1r6ta2 60 RDMNQVLDAYEnKKPFYLYTGRGPSSEAMHVGHLIPFIFTKWLQDVfNVPLVIQMTDDEK 119 d1jila_ 76 MIGdpsgkseerVLQTEEQVDKNIEGISKQMHNIFEFGTdhGAVLVNNRDWLGQIS-lis 134 ::: ::::::::::::::::::::::::::: ::::::::::::::: d1r6ta2 120 YLW---------KDLTLDQAYGDAVENAKDIIACGFDIN--KTFIFSDLDYMGMSSgfyk 168 d1jila_ 135 flrDYGKHVGVNYMLGKdsIQSRLehGISYTEFTYTILQAIDFGhlNREL---------N 185 :::::::::::::: ::::: :::::::::::::::::: :::: : d1r6ta2 169 nvvKIQKHVTFNQVKGI--FGFTD--SDCIGKISFPAIQAAPSF--SNSFpqifrdrtdI 222 d1jila_ 186 CKIQVGGSDQWGNITSGIELMRRMYgQTDAYGLTIPLVT--KSDGkKFGK--sESGAVWL 241 ::::::::::::::::::::::::: ::::::::::::: :::: :::: ::::::: d1r6ta2 223 QCLIPCAIDQDPYFRMTRDVAPRIG-YPKPALLHSTFFPalQGAQ-TKMSasdPNSSIFL 280 d1jila_ 242 DaekTSPYEFYQFWI-NQSD------------------EDVIKFLKYFTfLGKEEIDRLE 282 : ::::::::::: :::: ::::::::::: :::::::::: d1r6ta2 281 T---DTAKQIKTKVNkHAFSggrdtieehrqfggncdvDVSFMYLTFFL-EDDDKLEQIR 336 d1jila_ 283 QSKNEA-PHLREAQKTLAEEVTKFIHG--------edalndairisqalf 323 :::::: :::::::::::::::::::: d1r6ta2 337 KDYTSGaMLTGELKKALIEVLQPLIAEhqarrkevtdeivkefmtprkla 386 FAST alignment (Normalized score: 12.01 Raw score:4241.00) d1jila_ 1 TNVLI-----------------------------------------------EDLKWRGL 13 :::::::: d1r6ta2 1 -----EDFVDPWTVQTSSAKGIDYDKLIVRFGSSKIDKELINRIERATGQRPHHFLRRGI 55 d1jila_ 14 IYQQTDEQGIEDLLN-KEQVTLYCGADPTA-DSLHIGHLLPFLTLRRFQE-HGHRPIVLI 70 ::::::::::::::: ::::::::::::: ::::::::::::::::::: ::::::::: d1r6ta2 56 FFSHRDMNQVLDAYENKKPFYLYTGRGPS-SEAMHVGHLIPFIFTKWLQDVFNVPLVIQM 114 d1jila_ 71 GGGTGMIGDPSGKSEERV---LQTEEQVDKNIEGISKQMHNIFEFGTD-----HGAVLVN 122 :::::: :::::::::::::::::::: ::::::: d1r6ta2 115 TDDEKY------------LWKDLTLDQAYGDAVENAKDIIA-------CGFDINKTFIFS 155 d1jila_ 123 NRDWLGQI---SLISFLRDYGKHVGVNYMLGKDSIQSRLE-----HGISYTEFTYTILQA 174 ::::::: ::::: :::::::::::::: ::::::::::::::: d1r6ta2 156 DLDYMGM-SSGFYKNV-VKIQKHVTFNQVKG---------IFGFTDSDCIGKISFPAIQA 204 d1jila_ 175 IDFGHLNRELNC----------------KIQVGGSDQWGNITSGIELMRRMYGQT-DAYG 217 ::: :::::::::::::::::::::: ::: :::: d1r6ta2 205 APS---------FSNSFPQIFRDRTDIQCLIPCAIDQDPYFRMTRDVAPR-IGY-PKPAL 253 d1jila_ 218 LTIPLVTKSDG------KKFGKSE-----SGAVWLDAEKTSPYEFYQFWINQSD------ 260 :::::: :::: :::::: :::::::::::: d1r6ta2 254 LHSTFF-----PALQGAQTKM---SASDPNSSIFL---TDTAKQIKTKVN----KHAFSG 298 d1jila_ 261 -----------------EDVIKFLKYFTFLGKEEIDRLEQSKNEAPHL------REAQKT 297 :::::::::::: ::::::::::::: :::::: d1r6ta2 299 GRDTIEEHRQFGGNCDVDVSFMYLTFFLE-DDDKLEQIRKDYT-----SGAMLTGELKKA 352 d1jila_ 298 LAEEVTKFIHGEDALNDAIRISQALF------------------------- 323 ::::::::: d1r6ta2 353 LIEVLQPLI-----------------AEHQARRKEVTDEIVKEFMTPRKLA 386 TMalign alignment (TM-score: 0.71 Raw score:230.78) d1jila_ 1 ------------------------------------TN-V-----LIEDLKWRGLIYQQT 18 :: : ::::::::::::::: d1r6ta2 1 EDFVDPWTVQTSSAKGIDYDKLIVRFGSSKIDKELINRIERATGQRPHHFLRRGIFFSHR 60 d1jila_ 19 DEQGIEDLLNKE-QVTLYCGADPTADSLHIGHLLPFLTLRRFQEHGHRPIVLIGGGTGMI 77 :::::::::::: ::::::::::::::::::::::::::::::::::::::::: :::: d1r6ta2 61 DMNQVLDAYENKKPFYLYTGRGPSSEAMHVGHLIPFIFTKWLQDVFNVPLVIQM--TDDE 118 d1jila_ 78 GDPSGKSEERVLQTEEQVDKNIEGISKQMHNIFEFGTDHGAVLVNNR-DWLGQIS--LIS 134 :: :::::::::::::::::::::::::::: :: :::::: ::::::: : d1r6ta2 119 KY------LWKDLTLDQAYGDAVENAKDIIACGFDI-NK--TFIFSDLDYMGMSSGF--Y 167 d1jila_ 135 FLRDYGKHVGVNYMLGKDSIQSRLEHGISYTEFTYTILQAIDFGHLNR--EL-----NCK 187 :::::::::::::::::: :: :: ::::::::::::::::::::::: :: ::: d1r6ta2 168 KNVVKIQKHVTFNQVKGI-FG-FT-DSDCIGKISFPAIQAAPSFSNSFPQIFRDRTDIQC 224 d1jila_ 188 IQVGGSDQWGNITSGIELMRRMYGQTDAYGLTIPLVTK-SDGKKFGKS-ESGAVWLDAEK 245 :::::::::::::::::::::::::: ::::::::::: ::::::::: ::::::::: d1r6ta2 225 LIPCAIDQDPYFRMTRDVAPRIGYPK-PALLHSTFFPALQGAQTKMSASDPNSSIFLT-- 281 d1jila_ 246 TSPYEFYQFWI--NQSD--------------E--D-VIKFLKYFTFLGKEEIDRLEQSKN 286 ::::::::::: :::: : : ::::::::: :::::::::::::: d1r6ta2 282 DTAKQIKTKVNKHAFSGGRDTIEEHRQFGGNCDVDVSFMYLTFFL-EDDDKLEQIRKDYT 340 d1jila_ 287 E-APHLREAQKTLAEEVTKFIHGEDA--------------------LNDAIRISQALF 323 : :::::::::::::::::::::::: d1r6ta2 341 SGAMLTGELKKALIEVLQPLIAEHQARRKEVTDEIVKEFMTPRKLA------------ 386 HHsearch alignment (Probability: 1.00 E-value:0.00) d1jila_ 8 LKWRGLIYQQTDEQG-IEDLLNKEQVTLYCGADPTADSLHIGHLLPFLTLRRFQEH-GHR 65 ::::::::::::::: :::::::::::::::::::::::::::::::::::::::: ::: d1r6ta2 50 FLRRGIFFSHRDMNQVLDAYENKKPFYLYTGRGPSSEAMHVGHLIPFIFTKWLQDVFNVP 109 d1jila_ 66 PIVLIGGGTGMIGDPSGKSEERVLQTEEQVDKNIEGISKQMHNIFEFGTDHGAVLVNNRD 125 :::::::::::::: ::::::::::::::::::::::: :::::::::::: d1r6ta2 110 LVIQMTDDEKYLWK---------DLTLDQAYGDAVENAKDIIACGF--DINKTFIFSDLD 158 d1jila_ 126 WLGQ-ISLISFLRDYGKHVGVNYMLGKDSIQSRLEHGISYTEFTYTILQAIDFGHLN--- 181 :::: :::::::::::::::::::::::::: :::::::::::::::::::::: d1r6ta2 159 YMGMSSGFYKNVVKIQKHVTFNQVKGIFGFT----DSDCIGKISFPAIQAAPSFSNSFPQ 214 d1jila_ 182 ----RELNCKIQVGGSDQWGNITSGIELMRRMYGQTDAYGLTIPLVTKSDG-KKFGKSES 236 ::::::::::::::::::::::::::::::::::::::::::::::: :::::::: d1r6ta2 215 IFRDRTDIQCLIPCAIDQDPYFRMTRDVAPRIGYPKPALLHSTFFPALQGAQTKMSASDP 274 d1jila_ 237 GA-VWLDAEKTSPYEFYQFWI-------------------NQSDEDVIKFLKYFTFLGKE 276 :: :::: ::::::::::: :::::::::::::::: ::: d1r6ta2 275 NSSIFLT---DTAKQIKTKVNKHAFSGGRDTIEEHRQFGGNCDVDVSFMYLTFFLE-DDD 330 d1jila_ 277 EIDRLEQSKNEA-PHLREAQKTLAEEVTKFIHGEDALN 313 :::::::::::: ::::::::::::::::::::::::: d1r6ta2 331 KLEQIRKDYTSGAMLTGELKKALIEVLQPLIAEHQARR 368