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 | d1nhpa2 | NADH peroxidase | FAD/NAD(P)-binding domain | FAD/NAD(P)-binding domain | 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 <-- 1.135 --> HitDALI alignment (Z-score: 4.1 Raw score:321.00) d1ni5a1 1 ---------------SMTLTLNRQL--lTSRQILVAFSgGLDSTVLLHQLVQWRtenpgV 43 :::::::::: :::::::::: ::::::::::::::: : d1nhpa2 1 ipgkdldniylmrgrQWAIKLKQKTvdpEVNNVVVIGS-GYIGIEAAEAFAKAG-----K 54 d1ni5a1 44 ALRAIHVHH--glsaNADAWVTHCENVCQQWQVPLVVErvqlaqeglgieaqarqaRYQA 101 ::::::::: ::::::::::::::::::::::: :::: d1nhpa2 55 KVTVIDILDrplgvyLDKEFTDVLTEEMEANNITIATG-----------------eTVER 97 d1ni5a1 102 ------------faRTLLpgEVLVTAQhlddqcetfllalkrgsgpaglsamaevsefag 149 :::: ::::::: d1nhpa2 98 yegdgrvqkvvtdkNAYD-aDLVVVAV--------------------------------- 123 d1ni5a1 150 trlirpllartrgelvqwarqydlrwiedesnqddsydrnflrlrvvpllqqrwphfaea 209 d1nhpa2 124 ------------------------------------------------------------ 124 d1ni5a1 210 tarsaalcaeqeslldel 227 d1nhpa2 124 ------------------ 124 FAST alignment (Normalized score: 3.21 Raw score:535.50) d1ni5a1 1 S----------------MTLTLNRQL--LTSRQILVAFSGGLDSTVLLHQLVQWRTENPG 42 ::::::::: :::::::: :::::::::::::::: :: d1nhpa2 1 -IPGKDLDNIYLMRGRQWAIKLKQKTVDPEVNNVVV-IGSGYIGIEAAEAFAK-----AG 53 d1ni5a1 43 VALRAIHVHHGLSAN----------ADAWVTHCENVCQQWQVPLVVERVQLAQEGLGIEA 92 ::::::: :::::::::::::::::::: d1nhpa2 54 KKVTVID--------ILDRPLGVYLDKEFTDVLTEEMEANNITIA--------------- 90 d1ni5a1 93 QARQARYQAFARTLLPG--------------------------EVLVTAQHLDDQCETFL 126 :::::: d1nhpa2 91 -----------------TGETVERYEGDGRVQKVVTDKNAYDADLVVVA----------- 122 d1ni5a1 127 LALKRGSGPAGLSAMAEVSEFAGTRLIRPLLARTRGELVQWARQYDLRWIEDESNQDDSY 186 d1nhpa2 123 ------------------------------------------------------------ 123 d1ni5a1 187 DRNFLRLRVVPLLQQRWPHFAEATARSAALCAEQESLLDEL- 227 d1nhpa2 123 -----------------------------------------V 123 TMalign alignment (TM-score: 0.29 Raw score:66.92) d1ni5a1 1 --------------S--MTLTLNRQL-L-TSRQILVAFSGGLDSTVLLHQLVQWRTENPG 42 : : ::::::: : :::::::::: ::::::::::::::: d1nhpa2 1 IPGKDLDNIYLMRGRQWA-IKLKQKTVDPEVNNVVVIGS-GYIGIEAAEAFAKAG----- 53 d1ni5a1 43 VALRAIHVHH---GLSANA-DAWVTH--CENVCQQWQVPLVVERVQLAQEGLGIEAQARQ 96 :::::::::: :: :::::: ::::::::::::::: : d1nhpa2 54 KKVTVIDILDRPL----GVYLDKEFTDVLTEEMEANNITIATG-E--------------- 93 d1ni5a1 97 ARYQA---------FAR--TLLPGE-VLVTAQHLDDQCETFLLALKRGSGPAGLSAMAEV 144 :::: ::: :::: : :::::: d1nhpa2 94 -TVERYEGDGRVQKVVTDKNAYD-ADLVVVAV---------------------------- 123 d1ni5a1 145 SEFAGTRLIRPLLARTRGELVQWARQYDLRWIEDESNQDDSYDRNFLRLRVVPLLQQRWP 204 d1nhpa2 124 ------------------------------------------------------------ 124 d1ni5a1 205 HFAEATARSAALCAEQESLLDEL 227 d1nhpa2 124 ----------------------- 124 HHsearch alignment (Probability: 0.15 E-value:0.04) d1ni5a1 15 QILVAFSGGLDSTVLLHQLVQWRTENPGVALRAIHVHHGLSA-N-ADAWVTHCENVCQQW 72 ::::::::::::::::::::: :::::::::::::::: : ::::::::::::::: d1nhpa2 31 NNVVVIGSGYIGIEAAEAFAK-----AGKKVTVIDILDRPLGVYLDKEFTDVLTEEMEAN 85 d1ni5a1 73 QVPLVVER 80 :::::::: d1nhpa2 86 NITIATGE 93