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: T542_A.pdb A
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 <-- 1.453 --> IntermediateDALI alignment (Z-score: 13.9 Raw score:1146.20) query 1 slqlrlalnqidstvgdiagnaeailrwtrhsaeqgahlvafpemaltgypvedlalrss 60 d1ni5a1 1 ------------------------------------------------------------ 1 query 61 fveasrtalrelaarlaeegfgelpvlvgyldrsesaqpkygqpagaprnaaavlhrgrv 120 d1ni5a1 1 ------------------------------------------------------------ 1 query 121 altfakhhlpnygvfdefryfvpgdtmpivrlhgvdialaicedlwqdggrvpaarsaga 180 d1ni5a1 1 ------------------------------------------------------------ 1 query 181 glllsvnaspyerdkddtrlelvrkraqeagcttaylamiggqdelvfdgdsivvdrdge 240 d1ni5a1 1 ------------------------------------------------------------ 1 query 241 vvarapqfsegcvvldldlpaaeaepptgvvddglridrlviseeplpayeaelaggyad 300 d1ni5a1 1 ------------------------------------------------------------ 1 query 301 rldadeevysALVVGLRAYVAknGFRSVLIGLSGGIDSALVAAIACDALG---aQNVYGV 357 ::::::::::: ::::::::::::::::::::::::::: :::::: d1ni5a1 1 ----------SMTLTLNRQLL--TSRQILVAFSGGLDSTVLLHQLVQWRTenpgVALRAI 48 query 358 SMPSKYS--SDHSKGDAAELARRTGLNFRTVSIEpmFDAYMaslgltglAEEN-LQSRLR 414 ::::::: ::::::::::::::::::::::::: ::::: :::: :::::: d1ni5a1 49 HVHHGLSanADAWVTHCENVCQQWQVPLVVERVQ--LAQEG--------LGIEaQARQAR 98 query 415 GTTLMAISNqEGHIVLAPGNKSELAVG-----------------ystlygdsvgAYGPIK 457 ::::::::: ::::::::::::::::: :::::: d1ni5a1 99 YQAFARTLL-PGEVLVTAQHLDDQCETfllalkrgsgpaglsamaevsefagtrLIRPLL 157 query 458 DVYKTSIFRLAEWRNraaaergqtppIPEAS------------------------itkPD 493 ::::::::::::::: ::::: :: d1ni5a1 158 ARTRGELVQWARQYD-----------LRWIEdesnqddsydrnflrlrvvpllqqrwpHF 206 query 494 YPVLDAIlELYVdRDTGadaivaagydrelvvktlrmvdtaeykrrqyppgtkisakgfg 553 ::::::: :::: :::: d1ni5a1 207 AEATARSaALCA-EQES------------------------------------------- 222 query 554 kdrrlpitnrwregh 568 d1ni5a1 223 ----------lldel 227 FAST alignment (Normalized score: 6.05 Raw score:2174.00) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1ni5a1 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1ni5a1 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1ni5a1 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1ni5a1 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1ni5a1 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSA-LVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQ------- 352 ::::::::: :::::::::::::::::::::::::: d1ni5a1 1 -----------SMTLTLNRQL--LTSRQILVAFSGGLDSTVLLHQLVQW----RTENPGV 43 query 353 NVYGVSMPSKYS--SDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAE---- 406 :::::::::::: :::::::::::::::::::::::: d1ni5a1 44 ALRAIHVHHGLSANADAWVTHCENVCQQWQVPLVVERV------------------QLAQ 85 query 407 -----ENLQSRLRGTTLMAISNQ--EGHIVLAPGNKSELAVGYSTLYGDSVG-------- 451 ::::::::::::::: ::::::::::::::: d1ni5a1 86 EGLGIEAQARQARYQAFART---LLPGEVLVTAQHLDDQC------------ETFLLALK 130 query 452 ---------------------AYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASIT 490 ::::::::::::::::::: d1ni5a1 131 RGSGPAGLSAMAEVSEFAGTRLIRPLLARTRGELVQWARQ-------------------- 170 query 491 KP-----------------------------------DYPVLDAILELYVDRDTGADAIV 515 :::::::::::::: d1ni5a1 171 --YDLRWIEDESNQDDSYDRNFLRLRVVPLLQQRWPHFAEATARSAALCAE--------- 219 query 516 AAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH------- 568 d1ni5a1 220 -----------------------------------------------------QESLLDE 226 query 569 - 569 d1ni5a1 227 L 227 TMalign alignment (TM-score: 0.28 Raw score:157.99) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1ni5a1 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1ni5a1 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1ni5a1 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1ni5a1 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1ni5a1 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALG--A-QNVYGV 357 ::::::::::: : :::::::::::::::::::::::::: : :::::: d1ni5a1 1 ----------SMTLTLNRQLL-T-SRQILVAFSGGLDSTVLLHQLVQWRTENPGVALRAI 48 query 358 SMPSKYS--SDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEE-NLQSRLR 414 ::::::: ::::::::::::::::::::::::: : : ::: ::: ::::::: d1ni5a1 49 HVHHGLSANADAWVTHCENVCQQWQVPLVVERVQ--L---A----QEG-LGIEAQARQAR 98 query 415 GTTLMAISNQEGHIVLAPGNKSELAVG-YS-----------------TLYGDS-V---GA 452 :::::::: :::::::::::::::::: :: : : :: d1ni5a1 99 YQAFARTL-LPGEVLVTAQHLDDQCETFLLALKRGSGPAGLSAMAEV-----SEFAGTRL 152 query 453 YGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITK-------------PD-YPVLD 498 :::::::::::::::::::: : :::::: :: ::::: d1ni5a1 153 IRPLLARTRGELVQWARQYD-----------L-RWIEDESNQDDSYDRNFLRLRVVPLLQ 200 query 499 AILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRL 558 :::::::: : : ::::::::: d1ni5a1 201 QRWPHFAE-A----------------------T------------------ARSAALCAE 219 query 559 P-------ITNRWREGH 568 : d1ni5a1 220 QESLLDEL--------- 227 HHsearch alignment (Probability: 0.96 E-value:0.00) query 326 RSVLIGLSGGIDSALVAAIACDALGAQ---NVYGVSMPSKYSS--DHSKGDAAELARRTG 380 ::::::::::::::::::::::::::: ::::::::::::: ::::::::::::::: d1ni5a1 14 RQILVAFSGGLDSTVLLHQLVQWRTENPGVALRAIHVHHGLSANADAWVTHCENVCQQWQ 73 query 381 LNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGTTLMAISNQEGHIVLA--------- 431 ::::::::: ::::::::::::::::::::::::::::::::: d1ni5a1 74 VPLVVERVQ---------LAQEGLGIEAQARQARYQAFARTLLPGEVLVTAQHLDDQCET 124 query 432 ------PGNKSELAVGYSTLYGDSVGAYG-PIKDVYKTSIFRLAEWRN 472 ::::::::::::::::::::::: :::::::::::::::::: d1ni5a1 125 FLLALKRGSGPAGLSAMAEVSEFAGTRLIRPLLARTRGELVQWARQYD 172
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