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 | d1q8fa_ | Pyrimidine nucleoside hydrolase YeiK | Nucleoside hydrolase | Nucleoside hydrolase | 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 <-- 1.209 --> HitDALI alignment (Z-score: 3.7 Raw score:500.20) d1ni5a1 1 smtltlnrqlltsRQILVAFSGGLDSTVLLHQLVQWrtenPGVA-LRAIHVHhglsaNAD 59 ::::::::::::::::::::::: :::: ::::::: ::: d1q8fa_ 1 ------------kRKIILDCDPGHDDAIAIMMAAKH----PAIDlLGITIVA--gnqTLD 42 d1ni5a1 60 AWVTHCENVCQ--QWQVPLVVER-VQLAqegLGIE---------------------aqar 95 ::::::::::: :::::::::: :::: :::: d1q8fa_ 43 KTLINGLNVCQklEINVPVYAGMpQPIM---RQQIvadnihgdtgldgpvfepltrqaes 99 d1ni5a1 96 qarYQAFART---llPGEVLVTAqhlddqcetfllalkrgsgpaglsamaevseFAGT-- 150 ::::::: :::::::: :::: d1q8fa_ 100 thaVKYIIDTlmasdGDITLVPV----------------gplsniavamrmqpaILPKir 143 d1ni5a1 151 RLIRPL-----------------------------------LART-RGELVQ-------- 166 :::::: :::: :::::: d1q8fa_ 144 EIVLMGgaygtgnftpsaefnifadpeaarvvftsgvplvmMGLDlTNQTVCtpdviarm 203 d1ni5a1 167 ---warqYDLRwiedesnqddsydrnflRLRVVP---------llqqrwphfaeatARSA 214 :::: :::::: :::: d1q8fa_ 204 eraggpaGELF-------sdimnftlktQFENYGlaggpvhdatcigylinpdgikTQEM 256 d1ni5a1 215 ---------------alCAEQeSLLD-------------------------el 227 :::: :::: d1q8fa_ 257 yvevdvnsgpcygrtvcDELG-VLGKpantkvgitidtdwfwglveecvrgyi 308 FAST alignment (Normalized score: 3.15 Raw score:833.80) d1ni5a1 1 SMTLTLNRQLLTSRQILVAFSGGLDSTVLLHQLVQWRTENPGVA-LRAIHVHHGLSA--- 56 :::::::::::::::::::::: :::::: ::::: d1q8fa_ 1 ------------KRKIILDCDPGHDDAIAIMMAA----KHPAIDLLGITI-------VAG 37 d1ni5a1 57 --NADAWVTHCENVCQQ--WQVPLVVERVQLAQEGLGIEAQARQ---------------- 96 ::::::::::::::: ::::::: d1q8fa_ 38 NQTLDKTLINGLNVCQKLEINVPVYA------------------GMPQPIMRQQIVADNI 79 d1ni5a1 97 ---------------------ARYQAFARTLL------PGEVLVTAQHLDDQCETFLLAL 129 :::::::: ::::::: d1q8fa_ 80 HGDTGLDGPVFEPLTRQAESTHAVKYIID---TLMASDGDITLVP--------------- 121 d1ni5a1 130 KRGSGPAGLSAMAEVSEFA--------------------GTRLIRPLL------------ 157 :::::: d1q8fa_ 122 -------------------VGPLSNIAVAMRMQPAILPKIREIVL---MGGAYGTGNFTP 159 d1ni5a1 158 ------------------------ARTRGELVQWARQYDLRWIEDESNQDDSYDRNFLRL 193 :::::::: d1q8fa_ 160 SAEFNIFADPEAARVVFTSGVPLVMMGLDLTN---------------------------- 191 d1ni5a1 194 RVVPLLQQRWPHFAEATARSAALCAEQESLLDEL-------------------------- 227 d1q8fa_ 192 ----------------------------------QTVCTPDVIARMERAGGPAGELFSDI 217 d1ni5a1 228 ------------------------------------------------------------ 228 d1q8fa_ 218 MNFTLKTQFENYGLAGGPVHDATCIGYLINPDGIKTQEMYVEVDVNSGPCYGRTVCDELG 277 d1ni5a1 228 ------------------------------- 228 d1q8fa_ 278 VLGKPANTKVGITIDTDWFWGLVEECVRGYI 308 TMalign alignment (TM-score: 0.32 Raw score:73.28) d1ni5a1 1 -----------SM-TLTLNRQLL---TSRQILVAFSGGLDST-VLLHQLVQWRT-ENPGV 43 :: ::::::::: :::::::::: ::::: ::::::::::: ::::: d1q8fa_ 1 KRKIILDCDPGHDDAIAIMMAAKHPAIDLLGITIVA-GNQTLDKTLINGLNVCQKLEINV 59 d1ni5a1 44 ALRAIH-VHHGLSANA---------DAWVTHCENV--------CQQWQVP-LVVE----- 79 :::::: :::: :::: : :::::: :::: d1q8fa_ 60 PVYAGMPQPIM-RQQIVADNIHGDT---------GLDGPVFEP-LTRQAESTHAVKYIID 108 d1ni5a1 80 -----------------RVQLAQEGLGIEAQARQARYQAFARTL--LP--GEVLVTAQHL 118 ::::::::::::: : :::: : d1q8fa_ 109 TLMASDGDITLVPVGPL--------------SNIAVAMRMQPAILP-KIR--EIVL-M-- 148 d1ni5a1 119 DDQCETFLL-----ALK-----------------RGSGPAGLSAMAEVSEFAGTRLIR-P 155 :: : ::: : :::::::: d1q8fa_ 149 -GG-A-YGTGNFTP--SAEFNIFADPEAARVVFT----------------SGVPLVMMG- 186 d1ni5a1 156 L--LA-RT-------------------------RGELVQW-------------------- 167 : :: :: :::::: d1q8fa_ 187 LDLTNQTVCTPDVIARMERAGGPAGELFSDIMN-FTLKTQFENYGLAGGPVHDATCIGYL 245 d1ni5a1 168 -----------------ARQYDLRWIEDESNQDDSYDRNFL---------------RLRV 195 :::::::::: d1q8fa_ 246 INPDGIKTQEMYVEVDV--------------NSGPCYGRTVCDELGVLGKPANTKV---- 287 d1ni5a1 196 VPLLQQRWPHFAEATARSAALC----------------AEQESLLDEL 227 ::::: d1q8fa_ 288 -----------------GITIDTDWFWGLVEECVRGYI---------- 308 HHsearch alignment (Probability: 0.41 E-value:0.01) d1ni5a1 13 SRQILVAFSGGLDSTVLLHQLVQWRTENPGVALRAIHVHHGLSANADAWVTHCENVCQQW 72 ::::::::::::::::::::::: ::::::::::::::::: ::::::::::::::: d1q8fa_ 1 KRKIILDCDPGHDDAIAIMMAAK----HPAIDLLGITIVAGNQT-LDKTLINGLNVCQKL 55 d1ni5a1 73 QVPLVV--ERVQL-----------------------AQEGLGIEAQARQARYQAFARTLL 107 :::::: ::::: :::::::::::::::::::::::: d1q8fa_ 56 EINVPVYAGMPQPIMRQQIVADNIHGDTGLDGPVFEPLTRQAESTHAVKYIIDTLMASDG 115 d1ni5a1 108 PGEVLVTAQHLDDQCETFLLALKRGSGPAGLSAMAEVSEFAGTRLIRPLLART---RGEL 164 ::::::::: :::::::::::::::::::::::::::::::: :::::::: :::: d1q8fa_ 116 DITLVPVGP-LSNIAVAMRMQPAILPKIREIVLMGGAYGTGN---FTPSAEFNIFADPEA 171 d1ni5a1 165 VQWARQYDLRWIEDESNQDDSYDRNFLRLRVVPLLQQRWPHFAEATARSA 214 :::::::::::::::::::: ::::::::::::::::::::::::::: d1q8fa_ 172 ARVVFTSGVPLVMMGLDLTN---QTVCTPDVIARMERAGGPAGELFSDIM 218