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 | d1h7ea_ | CMP:2-keto-3-deoxy-manno-octonic acid (CMP-KDO)synthetase | Nucleotide-diphospho-sugar transferases | Nucleotide-diphospho-sugar transferases | 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 <-- 0.732 --> HitDALI alignment (Z-score: 4.1 Raw score:329.20) d1mopa_ 1 ipafhpgelnvysapgdvadvsralrltGRRVMLVPTM-------GALH------EGHLA 47 :::::::::: :::: ::::: d1h7ea_ 1 ----------------------------SKAVIVIPARygssrlpGKPLldivgkPMIQH 32 d1mopa_ 48 LVRAAKRVPGS-VVVVSIFvnpmqfgaggdldayprtPDDDLAQLRAEGVeIAFTPTTAa 106 ::::::::::: ::::::: ::::::::::::: :::::::: d1h7ea_ 33 VYERALQVAGVaEVWVATD------------------DPRVEQAVQAFGG-KAIMTRND- 72 d1mopa_ 107 mypdglrttvqpgplaaeleggprpthfAGVLTVVLKLLQIVR--pDRVFFgekdyqqlv 164 ::::::::::::::: ::::: d1h7ea_ 73 ---------------------------hESGTDRLVEVMHKVEadiYINLQ--------- 96 d1mopa_ 165 lirqlvadfnldvavvGVPT---------------------------------------v 185 :::: d1h7ea_ 97 --------------gdEPMIrprdvetllqgmrddpalpvatlchaisaaeaaepstvkv 142 d1mopa_ 186 readglamssrnryldpaqraaavalsaaltaaahaatagaqaaldaaravldaapgvav 245 d1h7ea_ 143 vvntrqdalyfsrspipyprnaekarylkhvgiyayrrdvlqnysqlpesmpeqaesleq 202 d1mopa_ 246 dylelrdiglgpmplngsgrllvaarlgttrlldniaieigtf 288 d1h7ea_ 203 lrlmnaginirtfevaatgpgvdtpaclekvralmaqelaena 245 FAST alignment (Normalized score: 2.56 Raw score:679.80) d1mopa_ 1 IPAFHPGELNVYSAPGDVADVSRALRLTGRRVMLVPTMGALH------------------ 42 ::::::::: d1h7ea_ 1 ----------------------------SKAVIVIPA-----RYGSSRLPGKPLLDIVGK 27 d1mopa_ 43 EGHLALVRAAKRVPG-SVVVVSIFVNPMQFGAGGDLDAYPRT-PDDDLAQLRAEGVEIAF 100 ::::::::::::::: ::::::: :::::::::::: :::: d1h7ea_ 28 PMIQHVYERALQVAGVAEVWVAT-------------------DDPRVEQAVQAFG-GKAI 67 d1mopa_ 101 TPTTAAMYPDGLRTTVQPGPLAAELEGGPRPTHFA---GVLTVVLKLLQIVRP--DRVFF 155 :::: ::::::::::::::: ::::: d1h7ea_ 68 MTRN-------------------------------DHESGTDRLVEVMHKVEADIYINLQ 96 d1mopa_ 156 GEKDYQQLVLIRQLVADFNLDVAVVGVPTVREADGLAMSSRNRYLDPAQRAAAVALSAAL 215 d1h7ea_ 97 ------------------------------------------------------------ 97 d1mopa_ 216 TAAAHAATAGAQAALDAARAVLDAAPGVAVDYLELRDIGLGPMPLNGSGRLLVAARLGTT 275 d1h7ea_ 97 ------------------------------------------------------------ 97 d1mopa_ 276 RLLDNIAIEIGTF----------------------------------------------- 288 d1h7ea_ 97 -------------GDEPMIRPRDVETLLQGMRDDPALPVATLCHAISAAEAAEPSTVKVV 143 d1mopa_ 289 ------------------------------------------------------------ 289 d1h7ea_ 144 VNTRQDALYFSRSPIPYPRNAEKARYLKHVGIYAYRRDVLQNYSQLPESMPEQAESLEQL 203 d1mopa_ 289 ------------------------------------------ 289 d1h7ea_ 204 RLMNAGINIRTFEVAATGPGVDTPACLEKVRALMAQELAENA 245 TMalign alignment (TM-score: 0.28 Raw score:81.23) d1mopa_ 1 IPAFHPGELNVYSAPGDVADVSRALRLTGRRVMLVPTMGALHEGHLALVRAAKRVPGSVV 60 ::: d1h7ea_ 1 ---------------------------------------------------------SKA 3 d1mopa_ 61 VVSIFVNPMQFGAGGDLDAY-P------RTPDDDLAQLRAEGVEIAFTPT-TA------- 105 :::::::: :: ::::::: : :::::::::::::::::::::: :: d1h7ea_ 4 VIVIPARY--GS-SRLPGKPLLDIVGKPMIQHVYERALQVAGVAEVWVATDDPRVEQAVQ 60 d1mopa_ 106 ------AMYPDGLRTTVQPGPLAAELEGGPRPTHFAGVLTVVLKLLQIVRPDRVFFG--- 156 ::: :: :: :::::::::::::::::::::: d1h7ea_ 61 AFGGKAIMT--RN--DH------------------ESGTDRLVEVMHKVEADIYINLQGD 98 d1mopa_ 157 --------------------EKDYQQLVLIRQLVADFNLDVAVVGVPTVREADGLAMSSR 196 ::::::::: :::: d1h7ea_ 99 EPMIRPRDVETLLQGMRDDP---------------------ALPVATLCH-AISA----- 131 d1mopa_ 197 NRYLDPAQRAAAVAL----SA-------------ALTAAAHAA---TAGAQAALDA---- 232 ::::: :: ::::: ::: : d1h7ea_ 132 ----------AEAAEPSTVKVVVNTRQDALYFSRSPIPY-PRNAEK---------ARYLK 171 d1mopa_ 233 ------------------------ARAVLDAAPGVAVDYLELR-DIGLG-PM-------- 258 ::::: :::: : d1h7ea_ 172 HVGIYAYRRDVLQNYSQLPESMPE--------------QAESLE-QLRLM-NAGINIRTF 215 d1mopa_ 259 ---------PLNGSGRLLVAARLGTT-------------------RLLDNIAIEIGTF 288 :: d1h7ea_ 216 EVAATGPGV---------------DTPACLEKVRALMAQELAENA------------- 245 HHsearch alignment (Probability: 0.01 E-value:0.08) d1mopa_ 142 LKLLQIVRPDRVFFGEKDYQQLVLIRQLVAD 172 :::::::::::::::::::::: ::::::: d1h7ea_ 89 ADIYINLQGDEPMIRPRDVETL--LQGMRDD 117