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 | d1r5ja_ | Putative phosphotransacetylase SPy1128 | Isocitrate/Isopropylmalate dehydrogenase-like | Isocitrate/Isopropylmalate dehydrogenase-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 <-- 1.267 --> HitDALI alignment (Z-score: 5.8 Raw score:549.70) d1jila_ 1 -------TNVLiedlkwrgliyqqtdeqgiedlLNKEQVTLYCGAdptadslhigHLLPF 53 :::: :::::::::::: ::::: d1r5ja_ 1 msirslfGGLR--------------------ekILGKNMKIVFPE--------gnDERVV 32 d1jila_ 54 LTLRRFQEHG-HRPIVLIgggtgmigdpsgkseervlqteeqvdkniegISKQMHNIF-- 110 :::::::::: ::::::: ::::::::: d1r5ja_ 33 RAAARLKFEGlLEPIILG-------------------------------QSEEVRNLLtk 61 d1jila_ 111 ---EFGTdhgAVLVNN--RDWLGQIslisflRDYGKhvgvnymlgkdsiqsrlehgisyt 165 :::: :::::: ::::::: ::::: d1r5ja_ 62 lgfADQD---YTIINPneYADFDKM--keafVEVRK------------------gkatle 98 d1jila_ 166 eftYTIL-qaIDFGHLN-RELNCKIQVGGSDQWGNITSGIE-LMRR-------------- 208 :::: ::::::: ::::::::::::::::::::::: :::: d1r5ja_ 99 dadKMLRdvnYFGVMLVkMGLADGMVSGAIHSTADTVRPALqIIKTkpgisrtsgvflmn 158 d1jila_ 209 ------------------------------------------------------------ 209 d1r5ja_ 159 rentseryvfadcainidptaqelaeiavntaetakifdidpkiamlsfstkgsgkapqv 218 d1jila_ 209 ------------------------------------------------------------ 209 d1r5ja_ 219 dkvreateiatglnpdlaldgelqfdaafvpetaaikapdsavagqantfvfpdlqsgni 278 d1jila_ 209 -----------------myGQTDAYGLTIPLvtksdgkkfgksesgavwldaektspyef 251 :::::::::::: d1r5ja_ 279 gykiaqrlgmfdaigpilqGLNKPVNDLSRG----------------------------- 309 d1jila_ 252 yqfwinqsdedvikflkyftflgkeeidrleqskneaphlreaqktlaeevtkfihgeda 311 d1r5ja_ 310 ----------------------------------------------------ssaediyk 317 d1jila_ 312 lndairisqalf 323 d1r5ja_ 318 laiitaaqaies 329 FAST alignment (Normalized score: 2.85 Raw score:928.10) d1jila_ 1 TNVLIEDLKWRGLIYQQT--DEQGIEDLLNK---EQVTLYCGADPTADSLHIG----HLL 51 ::::::::::: ::::::: ::: d1r5ja_ 1 ------------------MSIRSLFGGLREKILGKNMKIVF------------PEGNDER 30 d1jila_ 52 PFLTLRRFQEH-GHRPIVLIGGGTGMIGDPSGKSEERVLQTEEQVDK--NIEGISKQMHN 108 ::::::::::: :::::: ::::::::::: d1r5ja_ 31 VVRAAARLKFEGLLEPII-----------------------------LGQSEEVRNLLTK 61 d1jila_ 109 -IFEFGTDH-GAVLVNNRDWLGQI---SLISFLRDYGKHVGVNYMLGKDSIQSRLEHGIS 163 :::: :::::::: ::::::::::::: d1r5ja_ 62 LGFAD----QDYTIINPN------EYADFDKMKEAFVEVR-------------------- 91 d1jila_ 164 YTEF--------------TYTILQAIDFGHLNREL--NCKIQVGGSD-----QWGNITSG 202 ::::::::::: :::::: :::::::: d1r5ja_ 92 ----KGKATLEDADKMLRDVNYFGVMLVK------MGLADGMV----SGAIHSTADTVRP 137 d1jila_ 203 IELMRRMYGQT------------------------------------------------- 213 :: d1r5ja_ 138 AL---------QIIKTKPGISRTSGVFLMNRENTSERYVFADCAINIDPTAQELAEIAVN 188 d1jila_ 214 ------------------------------------------------------------ 214 d1r5ja_ 189 TAETAKIFDIDPKIAMLSFSTKGSGKAPQVDKVREATEIATGLNPDLALDGELQFDAAFV 248 d1jila_ 214 ---------------------------------------------------DAYGLTIPL 222 :::::::: d1r5ja_ 249 PETAAIKAPDSAVAGQANTFVFPDLQSGNIGYKIAQRLGMFDAIGPILQGLNKPVNDLS- 307 d1jila_ 223 VTKSDGKKFGKSESGAVWLDAEKTSPYEFYQFWINQSDEDVIKFLKYFTFLGKEEIDRLE 282 d1r5ja_ 308 ------------------------------------------------------------ 308 d1jila_ 283 QSKNEAPHLREAQKTLAEEVTKFIHGEDALNDAIRISQALF------------------- 323 d1r5ja_ 308 -----------------------------------------RGSSAEDIYKLAIITAAQA 326 d1jila_ 324 --- 324 d1r5ja_ 327 IES 329 TMalign alignment (TM-score: 0.33 Raw score:105.32) d1jila_ 1 ------TNVLIEDLKWRGLIYQQTDEQGIEDLLNKEQVTLYCGADPTADSLHIGHLLPFL 54 : d1r5ja_ 1 MSIRSL-----------------------------------------------------F 7 d1jila_ 55 --TLRRFQEHGHRPIVLIGGGTGMIGDPSGKSEERVLQTEEQVDKNIEGISKQMHNIFEF 112 ::::::::::::::::: : ::: :: :: :::: d1r5ja_ 8 GG--LREKILGKNMKIVFPEG----------------------N--DER-VV-RA-AARL 38 d1jila_ 113 GTDHGAVLVNNRDWLG----------------QISLISFLRDYGKHVGVNYMLGKDSIQS 156 :::::::::::::::: :::: ::: ::: :::: :::::::::: d1r5ja_ 39 KFEGLLEPIILGQSEEVRNLLTKLGFADQDYTIINP-NEY-ADF-DKMK-EAFVEVRKGK 94 d1jila_ 157 RLEHGISYTEFTYT-ILQA-IDFG-HLNRELNCKIQVG--------------GSDQWGNI 199 ::: :::::::::: ::: ::: : :::::: ::::: d1r5ja_ 95 ATL-EDADKMLRDVN-YFGV-MLVK--M----GLADGMVSGAIHSTADTVRPALQII--- 142 d1jila_ 200 TSGIELMRRMYGQTDAYGLTIPLVTKSDGKKFGKSESGAVWL----------DAEKTSPY 249 ::::::: : ::: ::: d1r5ja_ 143 -------------------KTKPGIS--R-TSG------VFLMNRENTSERY-------- 166 d1jila_ 250 EFYQFWI---NQ-S--DE-DVIKFLKYFTFLGKEEIDRL--------------------- 281 :::::: :: : :: :::::::::::::: ::::: d1r5ja_ 167 -VFADCAINIDPTAQELAEIAVNTAETAKIFDI-DPKIAMLSFSTKGSGKAPQVDKVREA 224 d1jila_ 282 ---------EQSKNEAPH--LRE-------------A--QKTLAE-----------EVTK 304 ::::::::: ::: : :::::: d1r5ja_ 225 TEIATGLNPDLALDGELQFDAAFVPETAAIKAPDSAVAGQANTFVFPDLQSGNIGY---- 280 d1jila_ 305 FIHGEDALNDAIRI----------------------------------------SQALF 323 ::::::::: d1r5ja_ 281 -----KIAQRLGMFDAIGPILQGLNKPVNDLSRGSSAEDIYKLAIITAAQAIES----- 329 HHsearch alignment (Probability: 0.26 E-value:0.03) d1jila_ 184 LNCKIQVGGSDQWGNITSGIELMRRMYGQTDAYGL 218 ::::::::::::::::::::::::::::::::::: d1r5ja_ 171 CAINIDPTAQELAEIAVNTAETAKIFDIDPKIAML 205