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 | d1mopa_ | Pantothenate synthetase (Pantoate-beta-alanine ligase, PanC) | Nucleotidylyl transferase | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1irxa2 | Class I lysyl-tRNA synthetase | Nucleotidylyl transferase | Adenine nucleotide alpha hydrolase-like | α/β |
Query <-- 0.714 --> IntermediateDALI alignment (Z-score: 5.8 Raw score:745.80) query 1 -------dadeevysalvvglrayvaKNGFRSVLIGL-SGGI-DSALVAAIACDALgaqN 51 ::::::::::: :::: ::::::::::::: : d1mopa_ 1 ipafhpgelnvysapgdvadvsralrLTGRRVMLVPTmGALHeGHLALVRAAKRVP-gsV 59 query 52 VYGVSMPSK---------ysSDHSKGDAAELARRTGL-NFRTVSIEPMFDAYMA------ 95 ::::::::: ::::::::::::::::: :::::::::::::::: d1mopa_ 60 VVVSIFVNPmqfgaggdldaYPRTPDDDLAQLRAEGVeIAFTPTTAAMYPDGLRttvqpg 119 query 96 ----slgltgLAEENLQSRLRGTTLMAISNqeGHIVLAPGNkselavGYST--------l 143 :::::::::::::::::::: ::::::::: :::: d1mopa_ 120 plaaeleggpRPTHFAGVLTVVLKLLQIVR--PDRVFFGEK-----dYQQLvlirqlvad 172 query 144 ygdsvgAYGPiKDVY---kTSIFrlaewrnraaaergqtppipeaSITK-------pdYP 193 :::: :::: :::: :::: :: d1mopa_ 173 fnldvaVVGV-PTVReadgLAMS----------------------SRNRyldpaqraaAV 209 query 194 VLDAILELYvDRDT------GADAIVaAGYD---relvvKTLRmvDTAEYkrrqyppgtk 244 ::::::::: :::: :::::: :::: :::: ::::: d1mopa_ 210 ALSAALTAA-AHAAtagaqaALDAAR-AVLDaapgvavdYLEL--RDIGL---------- 255 query 245 isakgfgkdrrlpITNRWR-----------------------egh 266 :::::: d1mopa_ 256 ------------gPMPLNGsgrllvaarlgttrlldniaieigtf 288 FAST alignment (Normalized score: 3.14 Raw score:869.40) query 1 DADEEVYSALVVGLRAYVAKNGF------------------------------RSVLIGL 30 ::::::: d1mopa_ 1 -----------------------IPAFHPGELNVYSAPGDVADVSRALRLTGRRVMLVPT 37 query 31 S--GGIDSALVAAIACDALGAQ--NVYGVSMPS-----------KYSSDHSKGDAAELAR 75 : :::::::::::::::: :::::::: ::::: :::::::::: d1mopa_ 38 MGALHEGHLALVRAAKRVP---GSVVVVSIFV-NPMQFGAGGDLDAYPR-TPDDDLAQLR 92 query 76 RTGL-NFRTVSIEPM-FDAYMASLGL------------------TGLAEENLQSRLRGTT 115 :::: ::::: :::: :::::: :::::::::::::::: d1mopa_ 93 AEGVEIAFTP-TTAAMYPDGLR----TTVQPGPLAAELEGGPRPTHFAGVLTVVLKLLQI 147 query 116 LMAISNQEG---HIVLAPGNKSELAVGYSTLYGDSVG----------------------A 150 :::::: : d1mopa_ 148 ---------VRPDRVFFG-------------------EKDYQQLVLIRQLVADFNLDVAV 179 query 151 YGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKP-------------------- 190 ::: d1mopa_ 180 VGV-------------------------------------PTVREADGLAMSSRNRYLDP 202 query 191 --------DYPVLDAILELYVDRDTGADAIVAAG-----YDRELVVKTLRMVDTAEYKRR 237 ::::::::: :::::::::::::: d1mopa_ 203 AQRAAAVALSAALTAAA-----------------HAATAGAQAALDAARAVLD------- 238 query 238 QYPPGTKISAKGFGKDRRLPITNRWREGH------------------------------- 266 d1mopa_ 239 -----------------------------AAPGVAVDYLELRDIGLGPMPLNGSGRLLVA 269 query 267 ------------------- 267 d1mopa_ 270 ARLGTTRLLDNIAIEIGTF 288 TMalign alignment (TM-score: 0.50 Raw score:134.27) query 1 ----------------------------DADEEVYSALVVGLRAYVAKNGFRSVLIGLSG 32 ::::::::::: d1mopa_ 1 IPAFHPGELNVYSAPGDVADVSRALRLT---------------------GRRVMLVPTMG 39 query 33 -GI-DSALVAAIACDALGAQNVYGVSMPSK--------YS-SDHSKGDAAELARRTGL-N 80 :: :::::::::: ::::::::::::::: :: ::::::::::::::::: : d1mopa_ 40 ALHEGHLALVRAAK-RVPGSVVVVSIFVNPMQFGAGGDLDAYPRTPDDDLAQLRAEGVEI 98 query 81 FRTVSIEPMFDAYMASL-GL-----------TGLAEENLQSRLRGTTLMAISNQEGHIVL 128 ::::::::::::::::: : ::::::::::::::::::::: ::::: d1mopa_ 99 AFTPTTAAMYPDGLRTTV-QPGPLAAELEGG-PRPTHFAGVLTVVLKLLQIVR--PDRVF 154 query 129 APGNKSELAVGYSTLYGDSVG-----------AYGPIKDVYKTSIFRLAEWRNRAAAERG 177 :::: :: : : ::::: ::::: :::::::::: d1mopa_ 155 FGEK--DY--Q--Q--LVLIRQLVADFNLDVAVVGVP--TVREADGLAM----------- 193 query 178 QTPPIPEASITK-----P--DYPVLDAILELYVDRD-----TGADAIVAAGYDRE--LVV 223 ::::: : :::::::::::::::: :::::::: ::::: ::: d1mopa_ 194 -------SSRNRYLDPAQRAAAVALSAALTAAAHAATAGAQAALDAARA-VLDAAPGVAV 245 query 224 KTLRMVDTAEYKRR----------------------QYPPGTKISAKGFGKDRR--LPIT 259 ::: :::::::::: :::: :: d1mopa_ 246 DYL-ELRDIGLGPMPLNGSGRLLVAARLGTTRLLDN----------IAIE--IGTF---- 288 query 260 NRWREGH 266 d1mopa_ 289 ------- 289 HHsearch alignment (Probability: 0.01 E-value:0.62) query 53 YGVSMPSKYSSDHSKGDAAELARRT 77 ::::::::::::::::::::::::: d1mopa_ 191 LAMSSRNRYLDPAQRAAAVALSAAL 215
Intermediate <-- 0.901 --> HitDALI alignment (Z-score: 6.9 Raw score:751.10) d1mopa_ 1 ipafhpgelnvysapgdvadvsralrLTGRRVMLVPTMG--ALHEGHLALVRAAKRV--- 55 ::::::::::::: :::::::::::::::: d1irxa2 1 -----------hwadyiadkiirergEKEKYVVESGITPsgYVHVGNFRELFTAYIVgha 49 d1mopa_ 56 -----pGSVVVVSIFVNP-----------mqfgAGGDLD-----------aYPRT-PDDD 87 :::::::::::: :::::: :::: :::: d1irxa2 50 lrdkgyEVRHIHMWDDYDrfrkvprnvpqewkdYLGMPIsevpdpwgchesYAEHfMRKF 109 d1mopa_ 88 LAQLR--AEGVeIAFTP--TTAA-MYPDgLRTT-------vQPGP-LAAE---------- 124 ::::: :::: ::::: :::: :::: :::: :::: :::: d1irxa2 110 EEEVEklGIEV-DLLYAseLYKRgEYSEeIRLAfekrdkimEILNkYREIakqpplpenw 168 d1mopa_ 125 -----------------------------------leggprpthfaGVLTVVLKLLQIVR 149 :::::::::::::: d1irxa2 169 wpamvycpehrreaeiiewdggwkvkykcpeghegwvdirsgnvklRWRVDWPMRWSHFG 228 d1mopa_ 150 PDRVFFGEKDYQqlVLIRQLVADFN-----LDVAVVGVPTVREADGlamssrnryldpaq 204 :::::::::::: ::::::::::: :::::::::::::::: d1irxa2 229 VDFEPAGKDHLVagSSYDTGKEIIKevygkEAPLSLMYEFVGIKGQ-------------- 274 d1mopa_ 205 raaavalsaaltaaahaatagAQAALDAARAVldaapgvavdylelrdiglgpmplngsg 264 ::::::::::: d1irxa2 275 --------nvillsdlyevlePGLVRFIYARH---------------------------- 298 d1mopa_ 265 rllvaarlgttrlldniaieigtf 288 d1irxa2 299 --------------rpnkeikidl 308 FAST alignment (Normalized score: 4.70 Raw score:1398.00) d1mopa_ 1 IPAFHPGELNVYSAPGDVADVSRALRL----------------TGRRVMLVPTMG--ALH 42 :::::::::::: ::: d1irxa2 1 ---------------------------HWADYIADKIIRERGEKEKYVVESGITPSGYVH 33 d1mopa_ 43 EGHLALVRAAKRV---------PGSVVVVSIFVNPMQFGAGGDLDAYPR----------- 82 :::::::::::: :::::::::: d1irxa2 34 VGNFRELFTAYI-VGHALRDKGYEVRHIHMWD-----------------DYDRFRKVPRN 75 d1mopa_ 83 -----------------------------TPDDDLAQLRAEGV-EIAFTPTTAAMYPDGL 112 :::::::::::::: ::::: :::: d1irxa2 76 VPQEWKDYLGMPISEVPDPWGCHESYAEHFMRKFEEEVEKLGIEVDLLY--ASEL----- 128 d1mopa_ 113 RTTVQ-------------------PGPLAAELEGGPRPTHFA------------------ 135 :::::: d1irxa2 129 -----YKRGEYSEEIRLAFEKRDKIMEILN------------KYREIAKQPPLPENWWPA 171 d1mopa_ 136 -------------------------------------------GVLTVVLKLLQIVRPDR 152 ::::::::::::::::: d1irxa2 172 MVYCPEHRREAEIIEWDGGWKVKYKCPEGHEGWVDIRSGNVKLRWRVDWPMRWSHFGVDF 231 d1mopa_ 153 VFFGEKDY----QQLVLIRQLVA-DFNL-DVAVVGVPTVREADGLAMSSRNRYLDPAQRA 206 ::::::: ::::::::::: :::: ::::::::::::::: d1irxa2 232 EPAGKDH-LVAGSSYDTGKEIIKEVYGKEAPLSLMYEFVGIKGQ---------------- 274 d1mopa_ 207 AAVALSAALTAAAHAATAGAQAALDAARAVLDAAPGVAVDYLELRDIGLGPMPLNGSGRL 266 d1irxa2 275 ------------------------------------------------------------ 275 d1mopa_ 267 LVAARLGTTRLLDNIAIEIGTF---------------------------------- 288 d1irxa2 275 ----------------------NVILLSDLYEVLEPGLVRFIYARHRPNKEIKIDL 308 TMalign alignment (TM-score: 0.44 Raw score:126.57) d1mopa_ 1 --------------IPAFHPGELNVYSAPGDVADVSRALRLTGRRVMLVPTMG--ALHEG 44 :::::::::::::: ::::: d1irxa2 1 HWADYIADKIIRER-------------------------GEKEKYVVESGITPSGYVHVG 35 d1mopa_ 45 HLALVRAAKRV--P-G-----SVVVVSIFVNPMQFG-----------AGGDLDA--Y--- 80 ::::::::::: : : ::::::::::::::: :::::: : d1irxa2 36 NFRELFTAYIVGHALRDKGYEVRHIHMWDDYDRFRKVPRNVPQEWKD-YLGMPISEVPDP 94 d1mopa_ 81 ------PR--TPDDDLAQLRAE-GVEIAFTP-T-TAA-MYPDGLR-TT-----VQ-PGP- 120 :: :::::::::::: :::::::: : ::: ::::::: :: :: ::: d1irxa2 95 WGCHESYAEHFMRKFEEEVEKLGIEVDLLYASELYKRGEYSEEIRLAFEKRDKIMEILNK 154 d1mopa_ 121 LAAEL-EGG-PRP--T-HF----------------------------------------- 134 ::::: :: :: : :: d1irxa2 155 YREIAK-QPP-LPENWWPAMVYCPEHRREAEIIEWDGGWKVKYKCPEGHEGWVDIRSGNV 212 d1mopa_ 135 -AGVLTVVLKLLQIVRPDRVFFGEKDYQQLVLIRQLVAD-F----NLDVAVVGVPTVREA 188 :::::::::::::::::::::::::::::::::::::: : ::::::::::::::: d1irxa2 213 KLRWRVDWPMRWSHFGVDFEPAGKDHLVAGSSYDTGKEIIKEVYGKEAPLSLMYEFVGIK 272 d1mopa_ 189 DGLAMS------------------------SRNRYLDPAQRAAAVALSAALTAAAHAATA 224 :::::: d1irxa2 273 GQNVILLSDLYEVLEPGLVRFIYARHRPNK------------------------------ 302 d1mopa_ 225 GAQAALDAARAVLDAAPGVAVDYLELRDIGLGPMPLNGSGRLLVAARLGTTRLLDNI--- 281 : d1irxa2 303 --------------------------------------------------------EIKI 306 d1mopa_ 282 --AIEIGTF 288 d1irxa2 307 DL------- 308 HHsearch alignment (Probability: 0.03 E-value:0.02) d1mopa_ 33 MLVPTMGALHEGHLA-------LVRAAKRVPGSVVVVSIFVN 67 ::::: ::::::::: ::::: :::::::::::::: d1irxa2 25 GITPS-GYVHVGNFRELFTAYIVGHAL-RDKGYEVRHIHMWD 64