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 | d1pfva2 | Methionyl-tRNA synthetase (MetRS) | 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 <-- 1.419 --> HitDALI alignment (Z-score: 9.0 Raw score:1125.60) d1jila_ 1 tnvliedlkwrgliyqqtdeqgiedllnKEQVTLYC-GADPTAdSLHIGHLLPFLTLRRF 59 :::::::: :::::: :::::::::::::::: d1pfva2 1 ----------------------------AKKILVTCaLPYANG-SIHLGHMLEHIQADVW 31 d1jila_ 60 QEHG------HRPIVLIGGgtGMIGdpsgkseerVLQT-------EEQVDKNIEGISKQM 106 :::: ::::::::: :::: :::: ::::::::::::::: d1pfva2 32 VRYQrmrgheVNFICADDA--HGTP--------iMLKAqqlgitpEQMIGEMSQEHQTDF 81 d1jila_ 107 HN-IFEFgtdhgAVLVNNRD-WLGQislisflrDYGKHV--------------------- 143 :: :::: :::::::: :::: :::::: d1pfva2 82 AGfNISY-----DNYHSTHSeENRQ-----lseLIYSRLkengfiknrtisqlydpekgm 131 d1jila_ 144 -------------------------------------------------------gvNYM 148 ::: d1pfva2 132 flpdrfvvsgatpvmrdsehfffdlpsfsemlqawtrsgalqeqvankmqewfesglQQW 191 d1jila_ 149 L---gkdsiqsrlehgiSYTEfTYTILQAIDFGHLNREL-------------------nc 186 : :::: ::::::::::::::::: d1pfva2 192 DisrdapyfgfeipnapGKYF-YVWLDAPIGYMGSFKNLcdkrgdsvsfdeywkkdstae 250 d1jila_ 187 KIQVGGSDQWGNIT-SGIELMRRMYgQTDA-YGLTIPLVTKsdGKKFGKSESG-AVWLDA 243 :::::::::::::: :::::::::: :::: :::::::::: :::::::::: :::::: d1pfva2 251 LYHFIGKDIVYFHSlFWPAMLEGSN-FRKPsNLFVHGYVTV--NGAKMSKSRGtFIKAST 307 d1jila_ 244 ektspyefyqfwinqsdedvikflkyftflgkeeidrleqskneaphlreaqktlaeevT 303 : d1pfva2 308 -------------------------------------------------------wlnhF 312 d1jila_ 304 KFIH------------------gedalNDAIRISqalf 323 :::: ::::::: d1pfva2 313 DADSlryyytaklssriddidlnledfVQRVNADivnk 350 FAST alignment (Normalized score: 6.04 Raw score:2032.00) d1jila_ 1 TNVLIEDLKWRGLIYQQTDEQGIEDLLNKEQVTLY-CGADPTADSLHIGHLLPFLTLRRF 59 ::::::: :::::: ::::::::::::::::: d1pfva2 1 ----------------------------AKKILVTCALPYAN-GSIHLGHMLEHIQADVW 31 d1jila_ 60 QE------HGHRPIVLIGGGTGMIGDPSGKSEERVLQ---------------TEEQVDKN 98 :: ::::::::::: :::::::: d1pfva2 32 VRYQRMRGHEVNFICADDA------------------HGTPIMLKAQQLGITPEQMIGEM 73 d1jila_ 99 IEGISKQMHNIFEFGTDHG-----AVLVNN-RDWLGQIS--LISFLRDYGKHV------- 143 :::::::::: :::::: ::::: :::::::::: d1pfva2 74 SQEHQTDFAG---------FNISYDNYHSTHSEENR---QLSELIYSRLKE--NGFIKNR 119 d1jila_ 144 ---------------------------------------GVNYMLGKDS----------- 153 ::::::: d1pfva2 120 TISQLYDPEKGMFLPDRFVVSGATPVMRDSEHFFFDLPSFSEMLQA---WTRSGALQEQV 176 d1jila_ 154 ---IQSRLEHGISYTEF-----------------------TYTILQAIDFGHLNRELNC- 186 :::::::::: :::::::::::::::: d1pfva2 177 ANKMQEWFESGLQ----QWDISRDAPYFGFEIPNAPGKYFYVWLDAPIGYMGSFKN---L 229 d1jila_ 187 ---------------------KIQVGGSDQWGNI-TSGIELMRRMYGQTD------AYGL 218 ::::::::::::: ::::::::: :::: d1pfva2 230 CDKRGDSVSFDEYWKKDSTAELYHFIGKDIVYFHSLFWPAMLEG------SNFRKPSNLF 283 d1jila_ 219 TIPLVTKSDGKKFGKS-ESGAVWLDAEKTSPYEFYQFWINQSDEDVIKFLKYFTFLGKEE 277 :::::: :::: :::: ::::::: d1pfva2 284 VHGYVT-VNGA-KMSKSRGTFIKA------------------------------------ 305 d1jila_ 278 IDRLEQSKNEAPHLREAQKTLAEEVTKFIHGEDALNDAIRISQALF-------------- 323 d1pfva2 306 ----------------------------------------------STWLNHFDADSLRY 319 d1jila_ 324 ------------------------------- 324 d1pfva2 320 YYTAKLSSRIDDIDLNLEDFVQRVNADIVNK 350 TMalign alignment (TM-score: 0.52 Raw score:168.39) d1jila_ 1 TNVLIEDLKWRGLIYQQTDEQGIEDLLNKEQVTLYC-GADPTADSLHIGHLLPFLTLRRF 59 :::::::: :::::: :::::::::::::::: d1pfva2 1 ----------------------------AKKILVTCALPYANG-SIHLGHMLEHIQADVW 31 d1jila_ 60 QEHGH-----RPIVLIGGGTGMIGDPSGKSEERVLQ------TEEQVDKNIEGISKQMHN 108 ::::: ::::::: :::::: ::::: :::::::::::::::::: d1pfva2 32 VRYQRMRGHEVNFICAD--DAHGTP------IMLKAQQLGITPEQMIGEMSQEHQTDFAG 83 d1jila_ 109 IFEFGTDHGAVLVNNRDWLGQISLISFLRDYGKH-VG----------------------- 144 :::: :::::::::::::::::::::::::: :: d1pfva2 84 FNIS----YDNYHSTHSEENRQLSELIYSRLKENGFIKNRTISQLYDPEKGMFLPDRFVV 139 d1jila_ 145 --------------VNYML-G-------------------K--D--SIQ--SRL--EHGI 162 ::::: : : : : : :: d1pfva2 140 SGATPVMRDSEHFFFDLPSFSEMLQAWTRSGALQEQVANKMQEWFE--SGL--QQW--DI 193 d1jila_ 163 SYT--E------------FTYTILQAIDFGH-LN----------RE-LN-------CKIQ 189 ::: : ::::::::::::: :: :: :: :::: d1pfva2 194 SRDAPYFGFEIPNAPGKYFYVWLDAPIGYMGSFKNLCDKRGDSVSFDEYWKKDSTAELYH 253 d1jila_ 190 VGGSDQWGNIT-SGIELMRRMYGQTDAYGLTIPLVTKSDGKKFGKSESGAVWLDAEKTSP 248 ::::::::::: ::::::::::::::::::::::::::: ::::::::::::::: ::: d1pfva2 254 FIGKDIVYFHSLFWPAMLEGSNFRKPSNLFVHGYVTVNG-AKMSKSRGTFIKAST--WLN 310 d1jila_ 249 YEFY--QFWINQSDEDVIKFLKYFTFLGK----------EEIDRLEQSKNEAPHLREAQK 296 : :: : :::::::::: : ::: d1pfva2 311 H-FDAD--S----------LRYYYTAKLSSRIDDIDLNL----------------E-DFV 340 d1jila_ 297 TLAEE-VTK---FIHGEDALNDAIRISQALF 323 ::::: : d1pfva2 341 QRVNAD--IVNK------------------- 350 HHsearch alignment (Probability: 0.98 E-value:0.00) d1jila_ 33 TLYCGADPT--ADSLHIGHLLPFL----TLRRFQEHGHRPIVLIGGGTG--MIGDPSGKS 84 ::::::::: :: :::::::::: ::::::::::::::::::::: ::: ::: d1pfva2 4 ILVTCALPYANGS-IHLGHMLEHIQADVWVRYQRMRGHEVNFICADDAHGTPIM---LKA 59 d1jila_ 85 EERVLQTEEQVDKNIEGISKQMHNIFE 111 ::::::::::::::::::::::::::: d1pfva2 60 QQLGITPEQMIGEMSQEHQTDFAGFNI 86