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 | d1r0ka2 | 1-deoxy-D-xylulose-5-phosphate reductoisomerase | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | 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 <-- 1.223 --> HitDALI alignment (Z-score: 4.4 Raw score:372.30) d1ni5a1 1 smtltlnrqlltsRQILVAFSGGLDSTVLLHQLVQWRTenpGVAL-RAIHvhhglsanad 59 ::::::::::::::::::::::::: :::: :::: d1r0ka2 1 -----------qpRTVTVLGATGSIGHSTLDLIERNLD---RYQViALTA---------n 37 d1ni5a1 60 aWVTHCENVCQQWQV-PLVVERV---qlaqeglgieaqarqaryQAFARTLL-pgEVLVT 114 :::::::::::::: ::::::: :::::::: ::::: d1r0ka2 38 rNVKDLADAAKRTNAkRAVIADPslyndlkealagssveaaagaDALVEAAMmgaDWTMA 97 d1ni5a1 115 AqhlddqcetfllalkrgsgpaglsamaevsEFAGTRLIRPllartrgELVQWarqydlr 174 : :::::::::: ::::: d1r0ka2 98 A-----------------iigcaglkatlaaIRKGKTVALA----nkeDMRTP------- 129 d1ni5a1 175 wiedesnqddsydrnflrlrvvpllqqrwphfaeatarsaalcaeqeslldel 227 d1r0ka2 130 --------------------------------ightlawpkrmetpaesldft 150 FAST alignment (Normalized score: 2.92 Raw score:537.90) d1ni5a1 1 SMTLTLNRQLLTS--RQILVAF--SGGLDSTVLLHQLVQWRTENPGVAL-RAIHVHHGLS 55 ::::: :::::::::::::::: :::::: :::: d1r0ka2 1 -------------QPRTVTV--LGATGSIGHSTLDLIERN---LDRYQVIALTA------ 36 d1ni5a1 56 ANADA--WVTHCENVCQQWQVP----------------------LVVERVQLAQEGLGIE 91 :::::::::::::: :::: d1r0ka2 37 -----NRNVKDLADAAKRTNA-KRAVIADPSLYNDLKEALAGSSVEAA------------ 78 d1ni5a1 92 --AQARQARYQAFARTLLPG---EVLVTAQHLDDQCETFLLALKRGSGPAGLSAMAEVSE 146 ::::::::: ::::::::: d1r0ka2 79 AGADALVEAAM---------MGADWTMAAIIG---------------------------- 101 d1ni5a1 147 -----------FAGTRLIRPLLARTRGELVQWARQYDLRWIEDESNQDDSYDRNFLRLRV 195 :::::::: d1r0ka2 102 CAGLKATLAAIRKGKTVAL----------------------------------------- 120 d1ni5a1 196 VPLLQQRWPHFAEATARSAALCAEQESLLDEL---------------------------- 227 d1r0ka2 121 --------------------------------ANKEDMRTPIGHTLAWPKRMETPAESLD 148 d1ni5a1 228 -- 228 d1r0ka2 149 FT 150 TMalign alignment (TM-score: 0.33 Raw score:73.81) d1ni5a1 1 -SMTLTLNRQLLTSRQILVAFSGGLDSTVLLHQLVQWRTENPGVALRAIHVHHGLSANAD 59 :::::::::::::::::::::::::: : ::::::::: : d1r0ka2 1 Q------------PRTVTVLGATGSIGHSTLDLIERNLD-R--YQVIALTAN------R- 38 d1ni5a1 60 AWVTHCENVCQQWQVPLVVERVQ-------------------LAQEGLGIEAQARQARYQ 100 :::::::::::::::::::::: :: : d1r0ka2 39 -NVKDLADAAKRTNAKRAVIADPSLYNDLKEALAGSSVEAAA--------------GA-D 82 d1ni5a1 101 AFART-LLPGEVLVTAQHLDD----------QCETFLLALKRGSGPAGLSAMAEVSEFAG 149 ::::: ::::::::::: : :::: d1r0ka2 83 ALVEAAMMGADWTMAAI---IGCAGLKATLA-------------------------AIRK 114 d1ni5a1 150 TRLIRPLL--ARTRGELVQ--------------WARQY------DLRWIEDESNQDDSYD 187 :::::::: :::: :: d1r0ka2 115 GKTVALANKE-----DMRTPIGHTLAWPKRMET---PAESLDFT---------------- 150 d1ni5a1 188 RNFLRLRVVPLLQQRWPHFAEATARSAALCAEQESLLDEL 227 d1r0ka2 151 ---------------------------------------- 151 HHsearch alignment (Probability: 0.02 E-value:0.53) d1ni5a1 14 RQILVAFSGGLDSTVLLHQLVQWRTENPGVALRAIHVHHGLSANADAWVTHCENVCQQWQ 73 :::::::::::::::::::::: ::::::::::::::: :::::::::::: d1r0ka2 3 RTVTVLGATGSIGHSTLDLIER---NLDRYQVIALTANRN--------VKDLADAAKRTN 51 d1ni5a1 74 VPLVVE 79 :::::: d1r0ka2 52 AKRAVI 57