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 | d1ilea3 | 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 <-- 1.552 --> HitDALI alignment (Z-score: 7.7 Raw score:1041.90) d1jila_ 1 --------tnvliedlkwrgliyqqtdeqgiedllNKEQVTLYCG-ADPTAdSLHIGHLL 51 :::::::::: ::::: :::::::: d1ilea3 1 mfkevgepnfpkleeevlafwkrekifqksvenrkGGPRYTVYEGpPTANG-LPHVGHAQ 59 d1jila_ 52 PFLTLRRFQEHG------HRPIVLiGGGTgmIGDPsgkseeRVLQ--------------- 90 :::::::::::: :::::: :::: :::: :::: d1ilea3 60 ARSYKDLFPRYKtmrgyyAPRRAG-WDTH--GLPV------ELEVekklglkskreieay 110 d1jila_ 91 --------TEEQVDKNIEGISKQMHN-IFEFgtdhgavlVNNRdwLGQIslISFLrDYGK 141 :::::::::::::::::: :::: :::: :::: :::: :::: d1ilea3 111 gierfnqaCRESVFTYEKEWEAFTERiAYWV----dledAYAT--LEPTyiESIW-WSLK 163 d1jila_ 142 ------------------hvgvnymLGKDsIQSRLEHGIS-------------------- 163 :::: :::::::::: d1ilea3 164 nlfdrgllyrdhkvvpycprcgtplSSHE-VALGYPHCWRcstplmyyateswfikntlf 222 d1jila_ 164 ------------------------------------------------------------ 164 d1ilea3 223 kdelirnnqeihwvpphikegrygewlknlvdwalsrnrywgtplpiwvcqacgkeeaig 282 d1jila_ 164 ----------------------------------------yteFTYTILQAIDFGH---- 179 ::::::::::::: d1ilea3 283 sfqelkaratkplpepfdphrpyvdqvelacacggtmrrvpyvIDVWYDSGAMPFAslhy 342 d1jila_ 180 -----lnRELN--CKIQVGGSDQW-GNITSGIELMRRMYGQTDAY-GLTIPLVTKSDGKK 230 :::: ::::::::::: :::::::::::::::::::: :::::::::::::: d1ilea3 343 pfeheevFRESfpADFIAEGIDQTrGWFNSLHQLGVMLFGSIAFKnVICHGLILDEKGQK 402 d1jila_ 231 FgKSESG-AVWLDAektspyefyqfwinqsdedvikflkyftflgkeeidrleqskneap 289 : ::::: :::::: d1ilea3 403 M-SKSKGnVVDPWD---------------------------------------------- 415 d1jila_ 290 hlreaqktLAEEVTKF---------------ihgedaLNDAIRisqalf 323 :::::::: :::::: d1ilea3 416 ------iiRKFGADALrwyiyvsappeadrrfgpnlvRETVRD------ 452 FAST alignment (Normalized score: 4.51 Raw score:1724.00) d1jila_ 1 TNVLIEDLKWRGLIYQQTDEQGIEDLLN-------------------------------- 28 d1ilea3 1 ----------------------------MFKEVGEPNFPKLEEEVLAFWKREKIFQKSVE 32 d1jila_ 29 ----KEQVTLY-CGADPTADSLHIGHLLPFLTLRRFQE------HGHRPIVLIGGGTGMI 77 ::::::: :::::: ::::::::::::::::::: ::::::::::: d1ilea3 33 NRKGGPRYTVYEGPPTAN-GLPHVGHAQARSYKDLFPRYKTMRGYYAPRRAGWDT----- 86 d1jila_ 78 GDPSGKSEERVLQ--------------------------------TEEQVDKNIEGISKQ 105 ::::::::::::::: d1ilea3 87 -------------HGLPVELEVEKKLGLKSKREIEAYGIERFNQACRESVFTYEKEWEAF 133 d1jila_ 106 MHNIFEFGTDHG-------AVLVNNRDWLGQI---SLISFLRDYGKHVG----------- 144 ::: ::::::: :::::: ::::: d1ilea3 134 TER---------IAYWVDLEDAYATL------EPTYIESIW-WSLKN--LFDRGLLYRDH 175 d1jila_ 145 -------------VNYMLGKDSIQSR---LEHGISYTEF--------------------- 167 ::::: :::: d1ilea3 176 KVVPYCPRCGTPLSSHEV--------ALGYPHC------WRCSTPLMYYATESWFIKNTL 221 d1jila_ 168 ------------------------------------------------------------ 168 d1ilea3 222 FKDELIRNNQEIHWVPPHIKEGRYGEWLKNLVDWALSRNRYWGTPLPIWVCQACGKEEAI 281 d1jila_ 168 ---------------------------------------------TYTILQAIDFGHLNR 182 ::::::::::::: d1ilea3 282 GSFQELKARATKPLPEPFDPHRPYVDQVELACACGGTMRRVPYVIDVWYDSGAMPFAS-- 339 d1jila_ 183 E--------------LNCKIQVGGSDQW-GNITSGIELMRRMYGQTD---AYGLTIPLVT 224 ::::::::::::: :::::::::::::::: :::::::::: d1ilea3 340 -LHYPFEHEEVFRESFPADFIAEGIDQTRGWFNSLHQLGVMLFGS--IAFKNVICHGLIL 396 d1jila_ 225 KSDGKKFGKSES-------GAVWLDAEKTSPYEFYQFWINQSDEDVIKFLKYFTFLGKEE 277 ::::: ::::: d1ilea3 397 DEKGQ-------KMSKSKGNVVDP------------------------------------ 413 d1jila_ 278 IDRLEQSKNEAPHLREAQKTLAEEVTKFIHGEDALNDAIRISQALF-------------- 323 d1ilea3 414 ----------------------------------------------WDIIRKFGADALRW 427 d1jila_ 324 ------------------------- 324 d1ilea3 428 YIYVSAPPEADRRFGPNLVRETVRD 452 TMalign alignment (TM-score: 0.53 Raw score:169.67) d1jila_ 1 ------------------------------------TNVLIEDLKWRGLIYQQTDEQGIE 24 d1ilea3 1 MFKEVGEPNFPKLEEEVLAFWKREKIFQKSVENRKG------------------------ 36 d1jila_ 25 DLLNKEQVTLYCGADPTADSLHIGHLLPFLTLRRFQ-EHG---H-RPIVLIGGGTGMIGD 79 :::::::::::::::::::::::::::::::: ::: : ::::::: :::::: d1ilea3 37 ----GPRYTVYEGPPTANGLPHVGHAQARSYKDLFPRYKTMRGYYAPRRAGW--DTHGLP 90 d1jila_ 80 PSGKSEERVL----------------------QTEEQVDKNIEGISKQMHN-IFEFGTDH 116 : :::: ::::::::::::::::::: ::::: d1ilea3 91 V-----ELEVEKKLGLKSKREIEAYGIERFNQACRESVFTYEKEWEAFTERIAYWVD--- 142 d1jila_ 117 GAVLVNNR-DWLGQISLISFLRDYG--KHVGV----N---------YMLGKDSIQSRLEH 160 ::::::: :::::::::::::::: ::::: : :::: :::::::: d1ilea3 143 -LEDAYATLEPTYIESIWWSLKNLFDRGLLYRDHKVVPYCPRCGTP-LSSH-EVALGYPH 199 d1jila_ 161 GI--------------------------------------------------------SY 164 :: :: d1ilea3 200 CWRCSTPLMYYATESWFIKNTLFKDELIRNNQEIHWVPPHIKEGRYGEWLKNLVDWALSR 259 d1jila_ 165 -T--E------------------------------------------------------- 166 : : d1ilea3 260 NRYWGTPLPIWVCQACGKEEAIGSFQELKARATKPLPEPFDPHRPYVDQVELACACGGTM 319 d1jila_ 167 ------FTYTILQAIDFGHLN-R------EL--NCKI--QVGGSDQWG-NITSGIELMRR 208 ::::::::::::::: : :: :::: ::::::::: ::::::::::: d1ilea3 320 RRVPYVIDVWYDSGAMPFASLHYPFEHEEVFRESFPADFIAEGIDQTRGWFNSLHQLGVM 379 d1jila_ 209 MYGQTDAYGLTIPLVTKS-DGKKFGKSESGAVWLDAEKTSPYEFYQ-FWINQSDEDVIKF 266 :::::::::::::::::: ::::::::::::::: : :::: ::: :: : :::: d1ilea3 380 LFGSIAFKNVICHGLILDEKGQKMSKSKGNVVDP-W--DIIR-KFGA-DA-L----RWYI 429 d1jila_ 267 LKYF----------TFLGKEEIDRLEQSKNEAPHLREAQKTLAEEVTKFIHGEDALNDAI 316 :::: : :::::::: d1ilea3 430 YVSAPPEADRRFGP---------------------N-LVRETVRD--------------- 452 d1jila_ 317 RISQALF 323 d1ilea3 453 ------- 453 HHsearch alignment (Probability: 0.97 E-value:0.00) d1jila_ 184 LNCKIQVGGSDQWG---NITSGIELMRRMYGQTD-AYGLTIPLVTKSDGKKFGKSESGAV 239 :::::::::::::: :::::::: ::::::: ::::::::::::::::::::::::: d1ilea3 354 FPADFIAEGIDQTRGWFNSLHQLGV--MLFGSIAFKNVICHGLILDEKGQKMSKSKGNVV 411 d1jila_ 240 WLDAEKTSPYEFYQFWINQSDEDVIKFLKYF 270 ::: ::::::: :::::::::: d1ilea3 412 DPW-------DIIRKFG----ADALRWYIYV 431