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 | d1nzja_ | Glutamyl-Q tRNA-Asp synthetase YadB | 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 <-- 0.883 --> HitDALI alignment (Z-score: 7.8 Raw score:819.90) d1mopa_ 1 ipafhpgelnvysapgdvadvsralrltGRRVMLVPTMG--ALHEGHLALVRAAKRV--- 55 ::::::::::: :::::::::::::::: d1nzja_ 1 ----------------------------TQYIGRFAPSPsgELHFGSLIAALGSYLQara 32 d1mopa_ 56 PGSVVVVSIFVNPmqfgaggdLDAYP-RTPDDDLAQLR--AEGVEI-AFTPTtaAMYPdg 111 ::::::::::::: ::::: ::::::::::: :::::: ::::: :::: d1nzja_ 33 RQGRWLVRIEDID--------PPREVpGAAETILRQLEhyGLHWDGdVLWQS--QRHDay 82 d1mopa_ 112 LRTT-------------------------------------------------------- 115 :::: d1nzja_ 83 REALawlheqglsyyctctrariqsiggiydghcrvlhhgpdnaavrirqqhpvtqftdq 142 d1mopa_ 116 -----vqpgPLAAEleggprPTHF------aGVLTVVLKLLQIVRPDRVFFGEKDYQQLV 164 ::::: :::: ::::::::::::::::::::::::::::: d1nzja_ 143 lrgiihadeKLARE------DFIIhrrdglfAYNLAVVVDDHFQGVTEIVRGADLIEPTV 196 d1mopa_ 165 LIRQLVADF-NLDVAVVGVPTVREadglamssrnryldpaqraaavalsaaltaaahaat 223 ::::::::: :::::::::::::: d1nzja_ 197 RQISLYQLFgWKVPDYIHLPLALN------------------------------------ 220 d1mopa_ 224 agaqaaldaaravldaapgvavdylelrdiglgpmplngsgrllvaarlgttrlldniai 283 d1nzja_ 221 ------------alpkgdprpvliaalqflgqqaeahwqdfsveqilqsavknwrltavp 268 d1mopa_ 284 eigtf 288 d1nzja_ 269 esaiv 273 FAST alignment (Normalized score: 5.43 Raw score:1522.00) d1mopa_ 1 IPAFHPGELNVYSAPGDVADVSRALRLTGRRVMLVPTMG--ALHEGHLALVRAAKRV--- 55 ::::::::::: :::::::::::::: d1nzja_ 1 ----------------------------TQYIGRFAPSPSGELHFGSLIAALGSY--LQA 30 d1mopa_ 56 --PGSVVVVSIFVNPMQFGAGGD--LDAYPR-TPDDDLAQLRAEGV---EIAFTP---TT 104 ::::::::::: :::::: :::::::::::::: ::::: :: d1nzja_ 31 RARQGRWLVRIED----------IDPPREVPGAAETILRQLEHYGLHWDGDVLW-QSQRH 79 d1mopa_ 105 AAMYPDGLRTTVQPGPLAAELEGGPRPTHFA----------------------------- 135 ::: d1nzja_ 80 DAY----------------------------REALAWLHEQGLSYYCTCTRARIQSIGGI 111 d1mopa_ 136 --------------------------------------------------------GVLT 139 :::: d1nzja_ 112 YDGHCRVLHHGPDNAAVRIRQQHPVTQFTDQLRGIIHADEKLAREDFIIHRRDGLFAYNL 171 d1mopa_ 140 VVLKLLQIVRPDRVFFGEKDYQQLVLIRQLVADFNL-DVAVVGVPTVREADGLAMSSRNR 198 :::::::::::::::::::::::::::::::::::: :::::::::: d1nzja_ 172 AVVVDDHFQGVTEIVRGADLIEPTVRQISLYQLFGWKVPDYIHLPLA------------- 218 d1mopa_ 199 YLDPAQRAAAVALSAALTAAAHAATAGAQAALDAARAVLDAAPGVAVDYLELRDIGLGPM 258 d1nzja_ 219 ------------------------------------------------------------ 219 d1mopa_ 259 PLNGSGRLLVAARLGTTRLLDNIAIEIGTF------------------------------ 288 d1nzja_ 219 ------------------------------LNALPKGDPRPVLIAALQFLGQQAEAHWQD 248 d1mopa_ 289 ------------------------- 289 d1nzja_ 249 FSVEQILQSAVKNWRLTAVPESAIV 273 TMalign alignment (TM-score: 0.42 Raw score:121.51) d1mopa_ 1 IPAFHPGELNVYSAPGDVADVSRALRLTGRRVMLVPTMG-A-LHEGHLALVRAAKRV--P 56 : : ::::::::: : ::::::::::::::: : d1nzja_ 1 -------------------------T--Q-YIGRFAPSPSGELHFGSLIAALGSYLQARA 32 d1mopa_ 57 -GSVVVVSIFVNPMQFGAGGDLDAYPR-TPDDDLAQLR-AEGVEI-AFTPTTAAMYPDGL 112 :::::::::::: :::::: :::::::::: :::::: :::::: ::::::: d1nzja_ 33 RQGRWLVRIEDID--------PPREVPGAAETILRQLEHYGLHWDGDVLWQS-QRHDAYR 83 d1mopa_ 113 RTT--V----------------------------------------QPG----------- 119 ::: : ::: d1nzja_ 84 EALAWLHEQGLSYYCTCTRARIQSIGGIYDGHCRVLHHGPDNAAVRIRQQHPVTQFTDQL 143 d1mopa_ 120 --------PLAAE-LEG--GPRPTHFAGVLTVVLKLLQIVRPDRVFFGEKDYQQLVLIRQ 168 ::::: :: ::::::::::::::::::::::::::::::::::::::: d1nzja_ 144 RGIIHADEKLARED-FIIH--RRDGLFAYNLAVVVDDHFQGVTEIVRGADLIEPTVRQIS 200 d1mopa_ 169 LVAD-FNLDVAVVGVPTVREADGLAM---------------------------------- 193 :::: ::::::::::::::: : d1nzja_ 201 LYQLFGWKVPDYIHLPLALN-----ALPKGDPRPVLIAALQFLGQQAEAHWQDFSVEQIL 255 d1mopa_ 194 --------------SSRNRYLDPAQRAAAVALSAALTAAAHAATAGAQAALDAARAVLDA 239 d1nzja_ 256 QSAVKNWRLTAVPE---------------------------------------------- 269 d1mopa_ 240 APGVAVDYLELRDIGLGPMPLNGSGRLLVAARLGTTRLLDNIA-IEIGTF 288 ::: d1nzja_ 270 ----------------------------------------SAIV------ 273 HHsearch alignment (Probability: 0.07 E-value:0.01) d1mopa_ 38 MGALHEGHLALV----RAAKRVPGSVVVVSIFVNPMQFGAGGDLDAYPRTPDDDL-AQLR 92 :::::::::::: ::::: ::::::::: :::::::::::::::: :::: d1nzja_ 12 SGELHFGSLIAALGSYLQARA-RQGRWLVRI--------EDIDPPREVPGAAETILRQLE 62 d1mopa_ 93 AEGV----EIAFTPTTAAMYPDGLRT 114 :::: :::::::::::::::::: d1nzja_ 63 HYGLHWDGDVLWQSQRHDAYREALAW 88