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 | d1ffya3 | Isoleucyl-tRNA synthetase (IleRS) | 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 <-- 1.674 --> HitDALI alignment (Z-score: 9.2 Raw score:1042.90) d1jila_ 1 ------------------tnvliedlkwrgliyqqtdeqgiedllNKEQVTLYC-GADPT 41 ::::::::: ::::: d1ffya3 1 mdyektllmpktdfpmrgglpnkepqiqekwdaedqyhkaleknkGNETFILHDgPPYAN 60 d1jila_ 42 AdSLHIGHLLPFLTLRRFQEHG------HRPIVLIGggtGMIGdpsgkseeRVLQ----- 90 : :::::::::::::::::::: :::::::: :::: :::: d1ffya3 61 G-NLHMGHALNKILKDFIVRYKtmqgfyAPYVPGWD---THGL------piEQALtkkgv 110 d1jila_ 91 -------------TEEQVDKNIEGISKQMHN-IFEFgtdhgaVLVNNRDWlgqislisfl 136 :::::::::::::::::: :::: :::::::: d1ffya3 111 drkkmstaefrekCKEFALEQIELQKKDFRRlGVRG---dfnDPYITLKP----eyeaaq 163 d1jila_ 137 rDYGKHV----------------------------------------------------- 143 :::::: d1ffya3 164 iRIFGEMadkgliykgkkpvywspssesslaeaeieyphdwrtkkpvifratpqwfasis 223 d1jila_ 144 -----------------------------gvNYMLgkdsiqsrlehgISYT--------- 165 :::: :::: d1ffya3 224 kvrqdildaientnfkvnwgktriynmvrdrGEWV-----------iSRQRvwgvplpvf 272 d1jila_ 166 ---------------------------------------------------------EFT 168 ::: d1ffya3 273 yaengeiimtketvnhvadlfaehgsniwfereakdllpegfthpgspngtftketdIMD 332 d1jila_ 169 YTILQAIDFGHLNRE---LNCK--IQVGGSDQW-GNITSGIELMRRMYGqTDAY--GLTI 220 ::::::::::::::: :::: ::::::::: ::::::::::::::: :::: :::: d1ffya3 333 VWFDSGSSHRGVLETrpeLSFPadMYLEGSDQYrGWFNSSITTSVATRG-VSPYkfLLSH 391 d1jila_ 221 PLVTKSDGKKfgksesgavwLDAEktspyefyqfwinqsdedvikflkyftflgkeeidr 280 :::::::::: :::: d1ffya3 392 GFVMDGEGKKmskslgnvivPDQV------------------------------------ 415 d1jila_ 281 leqskneaphlreaqktlaeevtkfIHGE-----------------dalndairisqalf 323 :::: d1ffya3 416 -------------------------VKQKgadiarlwvsstdyladvrisdeilkqtsdd 450 FAST alignment (Normalized score: 5.12 Raw score:1951.00) d1jila_ 1 TNVLIEDLKWRGLIYQQTDEQGIEDLLN-------------------------------- 28 d1ffya3 1 ----------------------------MDYEKTLLMPKTDFPMRGGLPNKEPQIQEKWD 32 d1jila_ 29 --------------KEQVTLY-CGADPTADSLHIGHLLPFLTLRRFQE------HGHRPI 67 ::::::: :::::: ::::::::::::::::::: :::::: d1ffya3 33 AEDQYHKALEKNKGNETFILHDGPPYAN-GNLHMGHALNKILKDFIVRYKTMQGFYAPYV 91 d1jila_ 68 VLIGGGTGMIGDPSGKSEERVLQ---------------------------TEEQVDKNIE 100 ::::: :::::::::: d1ffya3 92 PGWDT------------------HGLPIEQALTKKGVDRKKMSTAEFREKCKEFALEQIE 133 d1jila_ 101 GISKQMHNIFEFGTDHG-------AVLVNNRDWLGQISL--------ISFLRDYG--KHV 143 :::::::: ::::::: :::::::: ::: d1ffya3 134 LQKKDFRR---------LGVRGDFNDPYITL--------KPEYEAAQIRIFGEMADKGLI 176 d1jila_ 144 GVNYMLGKDSIQSRLEHGISYTEF------------------------------------ 167 : d1ffya3 177 Y-----------------------KGKKPVYWSPSSESSLAEAEIEYPHDWRTKKPVIFR 213 d1jila_ 168 ------------------------------------------------------------ 168 d1ffya3 214 ATPQWFASISKVRQDILDAIENTNFKVNWGKTRIYNMVRDRGEWVISRQRVWGVPLPVFY 273 d1jila_ 168 ----------------------------------------------------------TY 169 :: d1ffya3 274 AENGEIIMTKETVNHVADLFAEHGSNIWFEREAKDLLPEGFTHPGSPNGTFTKETDIMDV 333 d1jila_ 170 TILQAIDFGHLNRE-----LNCKIQVGGSDQW-GNITSGIELMRRMYGQTD---AYGLTI 220 :::::::::::::: ::::::::::::: :::::::::::::::: :::::: d1ffya3 334 WFDSGSSHRGVLETRPELSFPADMYLEGSDQYRGWFNSSITTSVATRGV--SPYKFLLSH 391 d1jila_ 221 PLVTKSDGKKFGKS-----ESGAVWLDAEKTSPYEFYQFWINQSDEDVIKFLKYFTFLGK 275 ::::::::: ::::::: d1ffya3 392 GFVMDGEGK-----KMSKSLGNVIVP---------------------------------- 412 d1jila_ 276 EEIDRLEQSKNEAPHLREAQKTLAEEVTKFIHGEDALNDAIRISQALF------------ 323 d1ffya3 413 ------------------------------------------------DQVVKQKGADIA 424 d1jila_ 324 -------------------------- 324 d1ffya3 425 RLWVSSTDYLADVRISDEILKQTSDD 450 TMalign alignment (TM-score: 0.27 Raw score:86.75) d1jila_ 1 --------------------------------------------------------TNVL 4 d1ffya3 1 MDYEKTLLMPKTDFPMRGGLPNKEPQIQEKWDAEDQYHKALEKNKGNETFILHDGP---- 56 d1jila_ 5 IEDLKWRGLI---------------------------------YQQTDEQGIEDLLNKEQ 31 :::: d1ffya3 57 ------PYANGNLHMGHALNKILKDFIVRYKTMQGFYAPYVPG----------------- 93 d1jila_ 32 VTLYCGADPTADSLHIGHLLPFLTLRRFQEHGHRPI------------------------ 67 :::::::::::::::::::: d1ffya3 94 ----------------WDTHGLPIEQALTKKGVDRKKMSTAEFREKCKEFALEQIELQKK 137 d1jila_ 68 ------------------------VLIGGGTGMIGDPSGK--SE-E-RVLQTEEQVDKNI 99 ::::: :: : :::::: ::: : d1ffya3 138 DFRRLGVRGDFNDPYITLKPEYEA-----------AQIRIFGEMADKGLIYKG--KKP-V 183 d1jila_ 100 E-------GISKQMHNIFE---FGTDH--GAV-LVNNRD--------------------- 125 : :::::::: ::::: : :::::: d1ffya3 184 YWSPSSES---SLAEAEIEYPHDWRTKKP--VIFRATPQWFASISKVRQDILDAIENTNF 238 d1jila_ 126 -----------------------W----------LGQISLISFLRDYG--KHVGVNYMLG 150 : ::::::: : :::::: d1ffya3 239 KVNWGKTRIYNMVRDRGEWVISRQRVWGVPLPVF---YAENGEI---IMT----KETVNH 288 d1jila_ 151 KDSIQSRLEHGISYTEFTYTILQAIDFGHLNRELNCKIQVGGS-DQWGNITSGIELMRRM 209 :::: : : ::: ::::::::::: d1ffya3 289 VADL---------------F----------------------AE-HGS-NIWFEREAKDL 309 d1jila_ 210 --------------------YGQTDAYG--LTI--PL--V---TK---------SDGKKF 231 : : :: : :: ::::: d1ffya3 310 LPEGFTHPGSPNGTFTKETD-------IMD--VWFDSGSSHRGVLETRPELSFP-ADMYL 359 d1jila_ 232 GKSESGAVW---------------------LDAEKTSPYEFYQFWIN------------- 257 ::::::::: :::::: d1ffya3 360 EGSDQYRGWFNSSITTSVATRGVSPYKFLL-----------SHGFVMDGEGKKMSKSLGN 408 d1jila_ 258 --QSDEDVIKFLKYFTFLGKEEIDRLEQ-SKNEAP-HLR--EAQ---KTLAEEVTKFIHG 308 ::::::: :::::: ::: : d1ffya3 409 VI-------------------VPDQVVKQKGADIARLWVSS--TDYL------------- 434 d1jila_ 309 EDALNDAIRISQA------------LF 323 :::: d1ffya3 435 ---------ADVRISDEILKQTSDD-- 450 HHsearch alignment (Probability: 0.98 E-value:0.00) d1jila_ 184 LNCKIQVGGSDQW---GNITSGIELMRRMYGQTD-AYGLTIPLVTKSDGKKFGKSESGAV 239 ::::::::::::: :::::::::: :::::: ::::::::::::::::::::::::: d1ffya3 353 FPADMYLEGSDQYRGWFNSSITTSVA--TRGVSPYKFLLSHGFVMDGEGKKMSKSLGNVI 410 d1jila_ 240 WLDAEKTSPYEFYQFWINQSDEDVIKFLKYFT 271 : ::::::::: ::::::::::: d1ffya3 411 V-------PDQVVKQKG----ADIARLWVSST 431