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 | d1ni5a1 | Putative cell cycle protein MesJ, N-terminal domain | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1jkxa_ | Glycinamide ribonucleotide transformylase, GART | Formyltransferase | Formyltransferase | α/β |
Query <-- 2.482 --> IntermediateDALI alignment (Z-score: 13.9 Raw score:1114.50) query 1 dadeevysALVVGLRAYVAknGFRSVLIGLSGGIDSALVAAIACDALG---aQNVYGVSM 57 ::::::::::: ::::::::::::::::::::::::::: :::::::: d1ni5a1 1 --------SMTLTLNRQLL--TSRQILVAFSGGLDSTVLLHQLVQWRTenpgVALRAIHV 50 query 58 PSKYS--SDHSKGDAAELARRTGLNFRTVSIEpmFDAYmaslgltgLAEE-NLQSRLRGT 114 ::::: ::::::::::::::::::::::::: :::: :::: ::::::::: d1ni5a1 51 HHGLSanADAWVTHCENVCQQWQVPLVVERVQ--LAQE--------GLGIeAQARQARYQ 100 query 115 TLMAISNqEGHIVLAPGNKSELAVGY-----------------stlygdsvgAYGPIKDV 157 ::::::: :::::::::::::::::: :::::::: d1ni5a1 101 AFARTLL-PGEVLVTAQHLDDQCETFllalkrgsgpaglsamaevsefagtrLIRPLLAR 159 query 158 YKTSIFRLAEWRNraaaergqtppIPEASitkpdypvldailelyvdrdtgadaivaagy 217 ::::::::::::: ::::: d1ni5a1 160 TRGELVQWARQYD-----------LRWIE------------------------------d 178 query 218 drelvvktlrmvdtaeykrrqyppgtkisakgfgkdrrlpitnrwregh 266 d1ni5a1 179 esnqddsydrnflrlrvvpllqqrwphfaeatarsaalcaeqeslldel 227 FAST alignment (Normalized score: 8.92 Raw score:2193.00) query 1 DADEEVYSA-LVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQ-------NV 52 ::::::::: :::::::::::::::::::::::::: :: d1ni5a1 1 ---------SMTLTLNRQL--LTSRQILVAFSGGLDSTVLLHQLVQW----RTENPGVAL 45 query 53 YGVSMPSKYS--SDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAE-----E 105 :::::::::: :::::::::::::::::::::::: :::: : d1ni5a1 46 RAIHVHHGLSANADAWVTHCENVCQQWQVPLVVERV-----QLAQ---------EGLGIE 91 query 106 NLQSRLRGTTLMAISNQ--EGHIVLAPGNKSELAVGYSTLYGDSVG-------------- 149 :::::::::::::: ::::::::::::::: d1ni5a1 92 AQARQARYQAFART---LLPGEVLVTAQHLDDQC------------ETFLLALKRGSGPA 136 query 150 ---------------AYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKP---- 190 ::::::::::::::::::: d1ni5a1 137 GLSAMAEVSEFAGTRLIRPLLARTRGELVQWARQ----------------------YDLR 174 query 191 -------------------------------DYPVLDAILELYVDRDTGADAIVAAGYDR 219 :::::::::::::: d1ni5a1 175 WIEDESNQDDSYDRNFLRLRVVPLLQQRWPHFAEATARSAALCAE--------------- 219 query 220 ELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH-------- 266 d1ni5a1 220 -----------------------------------------------QESLLDEL 227 TMalign alignment (TM-score: 0.55 Raw score:147.16) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALG--A-QNVYGVSM 57 ::::::::::: : :::::::::::::::::::::::::: : :::::::: d1ni5a1 1 --------SMTLTLNRQLL-T-SRQILVAFSGGLDSTVLLHQLVQWRTENPGVALRAIHV 50 query 58 PSKYS--SDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEE-NLQSRLRGT 114 ::::: ::::::::::::::::::::::::: : : ::: ::: ::::::::: d1ni5a1 51 HHGLSANADAWVTHCENVCQQWQVPLVVERVQ--L---A----QEG-LGIEAQARQARYQ 100 query 115 TLMAISNQEGHIVLAPGNKSELAVG-YS-----------------TLYGDS-V---GAYG 152 :::::: :::::::::::::::::: :: : : :::: d1ni5a1 101 AFARTL-LPGEVLVTAQHLDDQCETFLLALKRGSGPAGLSAMAEV-----SEFAGTRLIR 154 query 153 PIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITK-------------PD-YPVLDAI 198 :::::::::::::::::: : :::::: :: ::::::: d1ni5a1 155 PLLARTRGELVQWARQYD-----------L-RWIEDESNQDDSYDRNFLRLRVVPLLQQR 202 query 199 LELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLP- 257 :::::: : : :::::::::: d1ni5a1 203 WPHFAE-A----------------------T------------------ARSAALCAEQE 221 query 258 ------ITNRWREGH 266 d1ni5a1 222 SLLDEL--------- 227 HHsearch alignment (Probability: 0.96 E-value:0.00) query 24 RSVLIGLSGGIDSALVAAIACDALGAQ---NVYGVSMPSKYSS--DHSKGDAAELARRTG 78 ::::::::::::::::::::::::::: ::::::::::::: ::::::::::::::: d1ni5a1 14 RQILVAFSGGLDSTVLLHQLVQWRTENPGVALRAIHVHHGLSANADAWVTHCENVCQQWQ 73 query 79 LNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGTTLMAISNQEGHIVLA--------- 129 :::::::::: :::::::::::::::::::::::::::::::: d1ni5a1 74 VPLVVERVQL---------AQEGLGIEAQARQARYQAFARTLLPGEVLVTAQHLDDQCET 124 query 130 --------PGNKSELAVGYSTLYGDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERG 177 :::::::::::::::::::: ::::::::::::::::::::::::::: d1ni5a1 125 FLLALKRGSGPAGLSAMAEVSEFAGTRL-IRPLLARTRGELVQWARQYDLRWIEDE 179
Intermediate <-- 2.023 --> HitDALI alignment (Z-score: 6.5 Raw score:502.00) d1ni5a1 1 smtltlnrqlltsRQILVAFSGGldsTVLLHQLVQWRTENP-GVAL-RAIHVHhglsana 58 :::::::::: ::::::::::::::: :::: :::::: d1jkxa_ 1 -------------MNIVVLISGN---GSNLQAIIDACKTNKiKGTVrAVFSNK------- 37 d1ni5a1 59 daWVTHCENVCQQWQVPLVVERVQLaqeglgieAQARQArYQAFARTL-LPGE-VLVTAq 116 ::::::::::::::::::::::: :::::: :::::::: :::: ::::: d1jkxa_ 38 --ADAFGLERARQAGIATHTLIASA-------fDSREAY-DRELIHEIdMYAPdVVVLA- 86 d1ni5a1 117 hlddqcetfllalkrgsgpaglsamaevseFAGT--RLIRpLLAR--------------- 159 :::: :::: :::: d1jkxa_ 87 --------------------gfmrilspafVSHYagRLLN-IHPSllpkypglhthrqal 125 d1ni5a1 160 ----------------------------------------TRGELVQWArqydlrwiede 179 ::::::::: d1jkxa_ 126 engdeehgtsvhfvtdeldggpvilqakvpvfagdseddiTARVQTQEH----------- 174 d1ni5a1 180 snqddsydrnflrlrvvpllqqrwphfaeatarsaalcaeqeslldel 227 d1jkxa_ 175 -------------aiyplviswfadgrlkmhenaawldgqrlppqgya 209 FAST alignment (Normalized score: 2.76 Raw score:600.50) d1ni5a1 1 SMTLTLNRQLLTSRQILVAFSGGLDS---TVLLHQLVQWRTENPGVA-------LRAIHV 50 ::::::: ::::::::::::: ::::: d1jkxa_ 1 -------------MNIVVLI------SGNGSNLQAIIDACKT-----NKIKGTVRAVFS- 35 d1ni5a1 51 HHGLSANADAWV----THCENVCQQWQVPLVVERVQLAQEGLGIEAQ-----ARQARYQA 101 :::::::::::::::::: :::::::: d1jkxa_ 36 ------------NKADAFGLERARQAGIATHTLI-------------ASAFDSREAYDRE 70 d1ni5a1 102 FARTLLPG------EVLVTAQHLDDQC--------------------------------- 122 :::: ::::: d1jkxa_ 71 LIHE----IDMYAPDVVVL--------AGFMRILSPAFVSHYAGRLLNIHPSLLPKYPGL 118 d1ni5a1 123 ETFLLALKRGSGPAGLSAMAEVSEFAGTRLIRPLLARTRGELVQWARQYDLRWIEDESNQ 182 :::::::::::: d1jkxa_ 119 HTHRQALENGDE------------------------------------------------ 130 d1ni5a1 183 DDSYDRNFLRLRVVPLLQQRWPHFAEATARSAALCAEQESLLDEL--------------- 227 d1jkxa_ 131 ---------------------------------------------EHGTSVHFVTDELDG 145 d1ni5a1 228 ------------------------------------------------------------ 228 d1jkxa_ 146 GPVILQAKVPVFAGDSEDDITARVQTQEHAIYPLVISWFADGRLKMHENAAWLDGQRLPP 205 d1ni5a1 228 ---- 228 d1jkxa_ 206 QGYA 209 TMalign alignment (TM-score: 0.40 Raw score:91.71) d1ni5a1 1 SMTLTLNRQLLTSRQILVAFSGGLDSTVLLHQLVQWRTEN--PGVALRAIHVHHGLSANA 58 :::::::::: :::::::::::::: ::::::::::: d1jkxa_ 1 -------------MNIVVLISGN---GSNLQAIIDACKTNKIKGTVRAVFSNK------- 37 d1ni5a1 59 DAWVTHCENVCQQWQVPLVVERVQLAQEGLGIEAQARQARYQAFARTLL-PGE-VLVTAQ 116 : :: :::::::::::::::::::::: :: :::::::::::: ::: :::::: d1jkxa_ 38 A-DA-FGLERARQAGIATHTLIASAFD-------SR-EAYDRELIHEIDMYAPDVVVLAG 87 d1ni5a1 117 HLDD------QCETFLLALKRGSGPAGLSAMAEVSEFAGT-RLIRPLLART----RGELV 165 : : :::::: :::: ::::: d1jkxa_ 88 F--MRILSPA------------------------FVSHYAGRLLN-IHPSLLPKY----- 115 d1ni5a1 166 QWARQYDLRWIEDESNQDDSYDRNFLRLRVVPLLQQRWPHFAEATA----------RSAA 215 ::: ::::::::: : ::: ::::: :: d1jkxa_ 116 ---------------------PGL-HTHRQALEN-G-DEE-HGTSVHFVTDELDGG--PV 148 d1ni5a1 216 ----------------------------------------------LC-------AEQ-- 220 : ::: d1jkxa_ 149 ILQAKVPVFAGDSEDDITARVQTQEHAIYPLVISWFADGRLKMHEN-AAWLDGQRLPPQG 207 d1ni5a1 221 --ESLLDEL 227 d1jkxa_ 208 YA------- 209 HHsearch alignment (Probability: 0.54 E-value:0.00) d1ni5a1 15 QILVAFSGGLDSTVLLHQLVQWRTENPGVALRAIHVHHGLSANADAWVTHCENVCQQWQV 74 :::::::::::::: ::::::::::::::::::::::: : :::::::::::: d1jkxa_ 2 NIVVLISGNGSNLQ--AIIDACKTNKIKGTVRAVFSNKA---D-----AFGLERARQAGI 51 d1ni5a1 75 PLVVERVQLA 84 :::::::::: d1jkxa_ 52 ATHTLIASAF 61