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 | d1cr1a_ | Gene 4 protein (g4p, DNA primase), helicase domain | P-loop containing nucleoside triphosphate hydrolases | P-loop containing nucleoside triphosphate hydrolases | 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 <-- 0.880 --> HitDALI alignment (Z-score: 4.9 Raw score:456.20) d1mopa_ 1 ----------------------------ipAFHPGELNVYS------APGDVADVSRALR 26 ::::::::::: ::::::::::::: d1cr1a_ 1 mrerirehlsseesvgllfsgctgindktlGARGGEVIMVTsgsgmgKSTFVRQQALQWG 60 d1mopa_ 27 L-TGRRVMLVPT------------------------------------------------ 37 : :::::::::: d1cr1a_ 61 TaMGKKVGLAMLeesveetaedliglhnrvrlrqsdslkreiiengkfdqwfdelfgndt 120 d1mopa_ 38 -------mgALHEGHLALVRAAKR-VPGSVVVVSIFVnpmqfgaggdldayPRTPDDDLA 89 ::::::::::::::: :::::::::::: ::::::::: d1cr1a_ 121 fhlydsfaeAETDRLLAKLAYMRSgLGCDVIILDHIS-------------iRKMIDNLMT 167 d1mopa_ 90 QLRAEG-----vEIAFTPTT---------------aamyPDGLrttvqpgplaaeleggp 129 :::::: :::::::: :::: d1cr1a_ 168 KLKGFAkstgvvLVVICHLKtdlrgsgalrqlsdtiialERNQ----------------- 210 d1mopa_ 130 rpthfagvltvvlkllqivrpdrvffgekdyqqlvlirqlvadfnldvavvgvptvread 189 d1cr1a_ 211 ------------------------------------------------------------ 211 d1mopa_ 190 glamssrnryldpaqraaavalsaaltaaahaatagaqaaldaaravldaapgvavdyle 249 d1cr1a_ 211 ------------------------------------------------------------ 211 d1mopa_ 250 lrdiglgpmplngsgrllvaarlgttrlldniaieigtf 288 d1cr1a_ 211 ----lvlvrilkcrftgdtgiagymeynketgwlepssy 245 FAST alignment (Normalized score: 3.21 Raw score:853.70) d1mopa_ 1 IPAFHPGELNVYSAPGDVADVSRALRLTGRRVMLVPTMGALH------------------ 42 d1cr1a_ 1 ------------------------------------------MRERIREHLSSEESVGLL 18 d1mopa_ 43 ----------------------------EGHLALVRAAKRV----PGSVVVVSIFVNPMQ 70 :::::::::::: :::::::: d1cr1a_ 19 FSGCTGINDKTLGARGGEVIMVTSGSGMGKSTFVRQQALQ-WGTAMGKKVGLA------- 70 d1mopa_ 71 FGAGGDLDA-YPRTPDDDLAQLRAEGV--------------------------------- 96 :::::::::::::: d1cr1a_ 71 ---------MLEESVEETAEDLIG---LHNRVRLRQSDSLKREIIENGKFDQWFDELFGN 118 d1mopa_ 97 --EIAFTPTTAAMYPDGLRTTVQPGPLAAELEGGPRPT------HFAGVLTVVLKLLQIV 148 :::: :::::::::::::::: d1cr1a_ 119 DTFHLY--------------------------------DSFAEAETDRLLAKLAYMRSGL 146 d1mopa_ 149 RPDRVFFGEK--------DYQQLVLIRQLVADFNLDVAVVGV------------------ 182 ::::::: ::::::::::::: ::::::::: d1cr1a_ 147 GCDVIIL---DHISIRKMIDNLMTKLKGFAK--STGVVLVVICHLKTDLRGSGALRQLSD 201 d1mopa_ 183 --PTVREADGLAMSSRNRYLDPAQRAAAVALSAALTAAAHAATAGAQAALDAARAVLDAA 240 :::::: d1cr1a_ 202 TIIALERN---------------------------------------------------- 209 d1mopa_ 241 PGVAVDYLELRDIGLGPMPLNGSGRLLVAARLGTTRLLDNIAIEIGTF------------ 288 d1cr1a_ 210 ------------------------------------------------QLVLVRILKCRF 221 d1mopa_ 289 ------------------------ 289 d1cr1a_ 222 TGDTGIAGYMEYNKETGWLEPSSY 245 TMalign alignment (TM-score: 0.30 Raw score:87.52) d1mopa_ 1 ---------------------------------IPAFHPGELNVYSAPGDVADVSRALRL 27 d1cr1a_ 1 MRERIREHLSSEESVGLLFSGCTGINDKTLGAR--------------------------- 33 d1mopa_ 28 TGRRVM----------LVPTMGALH-EGHLALVRAAKRV--PGSVVVVSIFVNPMQFGAG 74 : : ::::::::::::: ::::::::::: d1cr1a_ 34 -----GGEVIMVTSGS--------GMGKSTFVRQQALQWGTAMGKKVGLAML-------- 72 d1mopa_ 75 GDLDAYPRTPDDDLAQLRAEG--------------------------VEI----AFTPTT 104 ::::: :::::::::: ::: :::::: d1cr1a_ 73 -----EESVE-ETAEDLIGLHNRVRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDS 126 d1mopa_ 105 ---AAMYPDGLRTTVQPGPLAAELEGGPRPTHFAGVLTVVLKLLQIVRPDRVFFGEKDY- 160 : :::::::::::::::::::::::::::: d1cr1a_ 127 FAE-------------------------A--ETDRLLAKLAYMRSGLGCDVIILDHISIR 159 d1mopa_ 161 --Q--QLVLIRQLVADFNLDVAVVGVPTVREADGLAMSSRNRYLDPAQRAAAVALSAALT 216 : :::::::::: :: :::::::: : :: : d1cr1a_ 160 KMIDNLMTKLKGFAK--ST-GVVLVVIC-------H------------------LK---T 188 d1mopa_ 217 AAAHAATAGAQAALDAARAVLDAAPGVAVDYLELR-DIGLGPMPLNGS-GR--------- 265 : : : :::: :::: : : d1cr1a_ 189 --D---------L---R--------------GSGALRQLS-------DT-IIALERNQLV 212 d1mopa_ 266 ---LLVAARLGTTRLLDNIAI------EIGTF------------------- 288 ::: :: d1cr1a_ 213 LVR---------------ILKCRFTGD---TGIAGYMEYNKETGWLEPSSY 245 HHsearch alignment (Probability: 0.05 E-value:0.00) d1mopa_ 19 ADVSRALRLTGRRVMLVPT--------MGALHEGHLAL 48 ::::::::::::::::::: ::::::::::: d1cr1a_ 2 RERIREHLSSEESVGLLFSGCTGINDKTLGARGGEVIM 39