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 | d1cp2a_ | Nitrogenase iron protein | P-loop containing nucleoside triphosphate hydrolases | P-loop containing nucleoside triphosphate hydrolases | 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 <-- 1.060 --> HitDALI alignment (Z-score: 4.8 Raw score:502.30) d1ni5a1 1 ------------------------------------------------------------ 1 d1cp2a_ 1 mrqvaiygkggigkstttqnltsglhamgktimvvgcdpkadstrlllgglaqksvldtl 60 d1ni5a1 1 ------------------------------------------------------------ 1 d1cp2a_ 61 reegedveldsilkegyggircvesggpepgvgcagrgiitsinmleqlgaytddldyvf 120 d1ni5a1 1 -----sMTLT-LNRQLL--TSRQILVAFSGGLDSTVLLHQLVQWRTENP---GVAL-RAI 48 :::: :::::: :::::::::::::::::::::::::::::: :::: ::: d1cp2a_ 121 ydvlgdVVCGgFAMPIRegKAQEIYIVASGEMMALYAANNISKGIQKYAksgGVRLgGII 180 d1ni5a1 49 HVHhglSANAdaWVTHCENVCQQWQVPLV-VERVQ--LAQE--GLGI-----eaqaRQAR 98 ::: :::: ::::::::::::::::: ::::: :::: :::: :::: d1cp2a_ 181 CNS--rKVAN--EYELLDAFAKELGSQLIhFVPRSpmVTKAeiNKQTvieydptceQAEE 236 d1ni5a1 99 YQAFARTLLPgevlvtaqhlddqcetfllalkrgsgpaglsamaevsefagtrlirplla 158 :::::::::: d1cp2a_ 237 YRELARKVDA-------------------------------------------------- 246 d1ni5a1 159 rtrgelvqwaRQYDLRwiedesnqddsydrnflrlrvvpllqqrwphfaeatarsaalca 218 :::::: d1cp2a_ 247 nelfvipkpmTQERLE-------------------------------------------- 262 d1ni5a1 219 eqeslldel 227 d1cp2a_ 263 --eilmqyg 269 FAST alignment (Normalized score: 2.10 Raw score:519.70) d1ni5a1 1 SMTLTLNRQLLTSRQILVAFSGG--------LDSTVLLHQLVQWRTENPGVALRAIHVHH 52 :::: ::::::::::::::: ::::::::: d1cp2a_ 1 --------------MRQV-----AIYGKGGIGKSTTTQNLTSGLHA--MGKTIMVVG--- 36 d1ni5a1 53 GLSANADAWVT-----HCENVC----------------------------QQWQVPLVVE 79 :::::: :::::::::: d1cp2a_ 37 -----------CDPKADSTRLLLGGLAQKSVLDTLREEGEDVELDSILKEGYGGIRCVES 85 d1ni5a1 80 RVQL---AQEGLGIEAQARQARYQAFA--RTLLPG-EVLVTAQ----------------- 116 ::::::: :::::::::::: :::::: ::::: d1cp2a_ 86 ----GGPEPGVGCA-GRGIITSINMLEQLGAYTDDLDYVFY--DVLGDVVCGGFAMPIRE 138 d1ni5a1 117 ------------HLDDQCETFLLALKRGSGPAGLSAMAEVSEFAGTRLIRPLLARTRGEL 164 :::::::::::::: d1cp2a_ 139 GKAQEIYIVASGEMMALYAANNISKG---------------------------------- 164 d1ni5a1 165 VQWARQYDLRWIEDESNQDDSYDRNFLRLRVVPLLQQRWPHFAEATARSAALCAEQESLL 224 d1cp2a_ 165 ------------------------------------------------------------ 165 d1ni5a1 225 DEL--------------------------------------------------------- 227 d1cp2a_ 165 ---IQKYAKSGGVRLGGIICNSRKVANEYELLDAFAKELGSQLIHFVPRSPMVTKAEINK 221 d1ni5a1 228 ------------------------------------------------ 228 d1cp2a_ 222 QTVIEYDPTCEQAEEYRELARKVDANELFVIPKPMTQERLEEILMQYG 269 TMalign alignment (TM-score: 0.36 Raw score:82.67) d1ni5a1 1 ------------------------------------------------------------ 1 d1cp2a_ 1 MRQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPKADSTRLLLGGLAQKSVLDTL 60 d1ni5a1 1 ------------------------------------------------------------ 1 d1cp2a_ 61 REEGEDVELDSILKEGYGGIRCVESGGPEPGVGCAGRGIITSINMLEQLGAYTDDLDYVF 120 d1ni5a1 1 ------SMTLTLNRQL-L-TSRQILVAFSGGLDSTVLLHQLVQWRTEN-P--GVAL-RAI 48 :::::::::: : ::::::::::::::::::::::::::::: : :::: ::: d1cp2a_ 121 YDVLGDVVCGGFAMPIREGKAQEIYIVASGEMMALYAANNISKGIQKYAKSGGVRLGGII 180 d1ni5a1 49 HVHHGLSANADAWVTHCENVCQQWQVPLVVERVQLAQEGLGIEAQA----RQ-------- 96 ::::: : :: :::::::::::::::::::::::: :::::: :: d1cp2a_ 181 CNSRK-V-AN--EYELLDAFAKELGSQLIHFVPRSP----MVTKAEINKQTVIEYDPTCE 232 d1ni5a1 97 AR-YQA-FARTLLPGE--------VLVTAQHLDDQCETFLLALKRGSGPAGLSAMAEVSE 146 :: ::: ::::::::: d1cp2a_ 233 QAEEYRELARKVDANELFVIPKPM------------------------------------ 256 d1ni5a1 147 FAGTRLIRPLLARTRGELVQWARQYD-LR-WI----EDESNQDDSYDRNFLRLRVVPLLQ 200 ::: :: :: d1cp2a_ 257 -----------------------TQERLEEILMQYG------------------------ 269 d1ni5a1 201 QRWPHFAEATARSAALCAEQESLLDEL 227 d1cp2a_ 270 --------------------------- 270 HHsearch alignment (Probability: 0.51 E-value:0.01) d1ni5a1 14 RQILVAFSGGLDSTVLLHQLVQWRTENPGVALRAIHVHHGL 54 ::::::::::::::::::::::::: ::::::::::::::: d1cp2a_ 2 RQVAIYGKGGIGKSTTTQNLTSGLH-AMGKTIMVVGCDPKA 41