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 | d1li5a2 | Cysteinyl-tRNA synthetase (CysRS) | 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 <-- 1.852 --> HitDALI alignment (Z-score: 10.6 Raw score:1231.40) d1jila_ 1 tNVLIedlkwrgliyqQTDEQgiEDLL--nKEQVTLYC-GADPTAdSLHIGHLLPFLTLR 57 :::: ::::: :::: :::::::: :::::: :::::::::::::: d1li5a2 1 -MLKI---------fnTLTRQ-kEEFKpihAGEVGMYVcGITVYD-LCHIGHGRTFVAFD 48 d1jila_ 58 RFQEHG------HRPIVLIGggtGMIGdpsgkseeRVLQ------TEEQVDKNIEGISKQ 105 :::::: :::::::: :::: :::: ::::::::::::::: d1li5a2 49 VVARYLrflgykLKYVRNIT---DIDD------kiIKRAnengesFVAMVDRMIAEMHKD 99 d1jila_ 106 MH--NIFEfgtdhgAVLVNNRDwLGQIslisflrDYGKHV--------------GVNY-- 147 :: :::: :::::::: :::: :::::: :::: d1li5a2 100 FDalNILR-----pDMEPRATH-HIAE-----iiELTEQLiakghayvadngdvMFDVpt 148 d1jila_ 148 ------------mLGKD--------siqsrlehgiSYTEfTYTILQAIDFGHLNRelNCK 187 :::: :::: ::::::::::::::: ::: d1li5a2 149 dptygvlsrqkrnPMDFvlwkmskegepswpspwgAGRP-GWHIECSAMNCKQLG-nHFD 206 d1jila_ 188 IQVGGSDQW-GNITSGIELMRRMYGQTDA-YGLTIPLVTKsdGKKFGKSESG-AVWLDAe 244 ::::::::: ::::::::::::::::::: :::::::::: :::::::::: :::::: d1li5a2 207 IHGGGSDLMfPHHENEIAQSTCAHDGQYVnYWMHSGMVMV--DREKMSKSLGnFFTVRD- 263 d1jila_ 245 ktspyefyqfwinqsdedvikfLKYFTFlgkeeidrleqskneaphlrEAQKTLAEEvtk 304 :::::: ::::::::: d1li5a2 264 -----------vlkyydaetvrYFLMSG----------hyrsqlnyseENLKQARAA--- 299 d1jila_ 305 fihgedalndairisqalf 323 d1li5a2 300 ------------------- 300 FAST alignment (Normalized score: 6.78 Raw score:2106.00) d1jila_ 1 TNVLIEDLKWRGLIYQ------QTDEQGIEDLLN---------KEQVTLYC-GADPTADS 44 :::: :::::::: ::::: :: d1li5a2 1 ----------------MLKIFNTLTR--------QKEEFKPIHAGEVGMYVCGITVY-DL 35 d1jila_ 45 LHIGHLLPFLTLRRFQE------HGHRPIVLIGGGTGMIGDPSGKSEERVLQ-------- 90 ::::::::::::::::: :::::::::::: d1li5a2 36 CHIGHGRTFVAFDVVARYLRFLGYKLKYVRNITDI-----------------DDKIIKRA 78 d1jila_ 91 ------TEEQVDKNIEGISKQMHNIFEFGTDHG------AVLVNNRDWLGQISLISFLRD 138 :::::::::::::::::: :::::::: :::::: : d1li5a2 79 NENGESFVAMVDRMIAEMHKDFDA---------LNILRPDMEPRATH-----HIAEII-E 123 d1jila_ 139 YGKHVGVNYMLGKDSIQSRLEHGISYTEF------------------------------- 167 :::: d1li5a2 124 LTEQ-------------------------LIAKGHAYVADNGDVMFDVPTDPTYGVLSRQ 158 d1jila_ 168 -----------------------------TYTILQAIDFGHLNRE--LNCKIQVGGSDQ- 195 ::::::::::::: :::::::::::: d1li5a2 159 KRNPMDFVLWKMSKEGEPSWPSPWGAGRPGWHIECSAMNCKQ---LGNHFDIHGGGSDLM 215 d1jila_ 196 WGNITSGIELMRRMYGQTD--AYGLTIPLVTKSDGKKFGKS-----ESGAVWLDAEKTSP 248 ::::::::::::::: ::: :::::::::: :::: ::::::: d1li5a2 216 FPHHENEIAQSTCAH-DGQYVNYWMHSGMVM-VDRE-----KMSKSLGNFFTV------- 261 d1jila_ 249 YEFYQFWINQSDEDVIKFLKYFTFLGKEEIDRLEQSKNEAPHLREAQKTLAEEVTKFIHG 308 d1li5a2 262 ------------------------------------------------------------ 262 d1jila_ 309 EDALNDAIRISQALF-------------------------------------- 323 d1li5a2 262 ---------------RDVLKYYDAETVRYFLMSGHYRSQLNYSEENLKQARAA 299 TMalign alignment (TM-score: 0.56 Raw score:179.41) d1jila_ 1 TNVLIEDLKWRGLIYQQTDEQGIEDLLN-KEQVTLYC-GADPTADSLHIGHLLPFLTLRR 58 :: :: : ::::::::::::: :::::::: :::::: ::::::::::::::: d1li5a2 1 ML-KI--------F-NTLTRQKEEFKPIHAGEVGMYVCGITVYD-LCHIGHGRTFVAFDV 49 d1jila_ 59 FQ-EHG---H-R-PIVLIGGGTGMIGDPSGKSEERVLQ------TEEQVDKNIEGISKQM 106 :: ::: : : ::::::: :::: ::::: :::::::::::::::: d1li5a2 50 VARYLRFLGYKLKYVRNITD---IDDK------IIKRANENGESFVAMVDRMIAEMHKDF 100 d1jila_ 107 HN-IFEFGTDHGAVLVNNRDWLGQISLISFLRDYGKH-V----------GVNYML--GK- 151 :: :::: ::::::::::::::: ::::::::: : :::::: :: d1li5a2 101 DALNILR-----PDMEPRATHHIAEII-ELTEQLIAKGHAYVADNGDVMFDVPTDPTYGV 154 d1jila_ 152 -D-----SIQSRLE-HGISYT----------------EFTYTILQAIDFGHLNRELNCKI 188 : :: ::::: :::::::::::::::::: :::: d1li5a2 155 LSRQKRN-----PMD-FVLWKMSKEGEPSWPSPWGAGRPGWHIECSAMNCKQLGN-HFDI 207 d1jila_ 189 QVGGSDQW-GNITSGIELMRRMYGQTDAY-GLTIPLVTKSDGKKFGKSESGAVWLDAEKT 246 :::::::: :::::::::::::::::::: ::::::::: :::::::::::::::: : d1li5a2 208 HGGGSDLMFPHHENEIAQSTCAHDGQYVNYWMHSGMVMV-DREKMSKSLGNFFTVR---D 263 d1jila_ 247 SPYEFY--QFWI-NQSDEDVIKFLKYF--------TFLGKEEIDRLEQSKNEAPHLREAQ 295 :::::: :: :::::::: : :: d1li5a2 264 VLKYYDAE--TVR------YFLMSGHYRSQLNYSE---------------------E-NL 293 d1jila_ 296 KTLAEEVTKFIHGEDALNDAIRISQALF 323 :::::: d1li5a2 294 KQARAA---------------------- 299 HHsearch alignment (Probability: 0.99 E-value:0.00) d1jila_ 183 ELNCKIQVGGSDQWGNITSGIEL-MRRMYGQTDAYGLTIPLVTKSDGKKFGKSESGAVWL 241 ::::::::::::::::::::::: :::::::::::::::::::::::::::::::::::: d1li5a2 202 GNHFDIHGGGSDLMFPHHENEIAQSTCAHDGQYVNYWMHSGMVMVDREKMSKSLGNFFTV 261 d1jila_ 242 DA 243 :: d1li5a2 262 RD 263