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 | d1ru8a_ | Putative N-type ATP pyrophosphatase PF0828 | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1lw7a1 | Transcriptional regulator NadR, NMN-adenylyltransferase domain | Nucleotidylyl transferase | Adenine nucleotide alpha hydrolase-like | α/β |
Query <-- 0.947 --> IntermediateDALI alignment (Z-score: 7.4 Raw score:643.70) query 1 slqlrlalnqidstvgdiagnaeailrwtrhsaeqgahlvafpemaltgypvedlalrss 60 d1ru8a_ 1 ------------------------------------------------------------ 1 query 61 fveasrtalrelaarlaeegfgelpvlvgyldrsesaqpkygqpagaprnaaavlhrgrv 120 d1ru8a_ 1 ------------------------------------------------------------ 1 query 121 altfakhhlpnygvfdefryfvpgdtmpivrlhgvdialaicedlwqdggrvpaarsaga 180 d1ru8a_ 1 ------------------------------------------------------------ 1 query 181 glllsvnaspyerdkddtrlelvrkraqeagcttaylamiggqdelvfdgdsivvdrdge 240 d1ru8a_ 1 ------------------------------------------------------------ 1 query 241 vvarapqfsegcvvldldlpaaeaepptgvvddglridrlviseeplpayeaelaggyad 300 d1ru8a_ 1 ------------------------------------------------------------ 1 query 301 rldadeevysalvvglrayvaknGFRSVLIGLSGGIDSALVAAIACDALgaqNVYGVSMP 360 :::::::::::::::::::::::::: :::::::: d1ru8a_ 1 -----------------------GLADVAVLYSGGKDSNYALYWAIKNR-fsVKFLVTMV 36 query 361 SKYS-----sDHSKGdAAELARRTGLNFRTVSIEpmfdaymaslgltglaEENLQSRLRG 415 :::: ::::: :::::::::::::::::: :::::::::: d1ru8a_ 37 SENEesymytINANL-TDLQARALGIPLVKGFTQ---------------gEKEKEVEDLK 80 query 416 TTLMAIsnqEGHIVLAPGnkselavGYSTlyGDSVG------AYGPIKDVYKTSIFRLAE 469 :::::: ::::::::: :::: ::::: :::::::::::::::::: d1ru8a_ 81 RVLSGL---KIQGIVAGA------sKYQRkrIEKVAkelgleVYTPAWGRDAKEYMRELL 131 query 470 WRN------------------------------------raaaergqtppipEASItkpd 493 ::: :::: d1ru8a_ 132 NLGfkimvvgvsaygldeswlgrildesaleelitlnekykvhvageggefeTFVL---- 187 query 494 ypvldailelyvdrdtgadaivaagydrelvvktlrmvdtaeykrrqyppgtkisakgfg 553 d1ru8a_ 188 -----------------------------------dmplfkykivvdkakkvwepctssg 212 query 554 kdrrlpitnrwregh 568 d1ru8a_ 213 kliieeahleskleh 227 FAST alignment (Normalized score: 3.54 Raw score:1270.00) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1ru8a_ 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1ru8a_ 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1ru8a_ 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1ru8a_ 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1ru8a_ 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQN-----VY 355 :::::::::::::::::::::::: :: d1ru8a_ 1 -----------------------GLADVAVLYSGGKDSNYALYWAIK------NRFSVKF 31 query 356 GVSMPSKYS----SDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLA---EEN 408 ::::::::: ::::::::::::::::::::::: ::: d1ru8a_ 32 LVTMVSENEESYMYTINANLTDLQARALGIPLVKGF------------------TQGEKE 73 query 409 LQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLY-----GDSVG-----------A 452 :::::::::::: ::: ::::: :::: : d1ru8a_ 74 KEVEDLKRVLSG--LKI-QGIVA---------------GASKYQRKR-IEKVAKELGLEV 114 query 453 YGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKP-------------------- 492 :::::::::::::::::: d1ru8a_ 115 YTPAWGRDAKEYMRELLN----------------------LGFKIMVVGVSAYGLDESWL 152 query 493 ----------DYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYP 542 :::::::: d1ru8a_ 153 GRILDESALEELITLNEK------------------------------------------ 170 query 543 PGTKISAKGFGKDRRLPITNRWREGH---------------------------------- 568 d1ru8a_ 171 --------------------------YKVHVAGEGGEFETFVLDMPLFKYKIVVDKAKKV 204 query 569 ----------------------- 569 d1ru8a_ 205 WEPCTSSGKLIIEEAHLESKLEH 227 TMalign alignment (TM-score: 0.21 Raw score:120.91) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1ru8a_ 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1ru8a_ 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1ru8a_ 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1ru8a_ 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1ru8a_ 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMP 360 ::::::::::::::::::::::::::: ::::::::: d1ru8a_ 1 -----------------------GLADVAVLYSGGKDSNYALYWAIKNRF-SVKFLVTMV 36 query 361 SKYS-S---DHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGT 416 :::: : :::::::::::::::::::::::: : : ::::::::: d1ru8a_ 37 SENEESYMYTINANLTDLQARALGIPLVKGFTQ--G-------------E-KEKEVEDLK 80 query 417 TLMAISNQEGHIVLAPGNKSELAVGYSTL-YGDSV-G------AYGPIKDVYKTSIFRLA 468 :::::: ::::::::: :: : :: :::: : ::::::::::::::::: d1ru8a_ 81 RVLSGL--KIQGIVAGA---SK--Y--QRK-RIEKVAKELGLEVYTPAWGRDAKEYMREL 130 query 469 EWRNRAAAERGQTPPIPEASITK---P-DY----------------PVLDAILELYVDRD 508 ::: : : : :::: : :: ::::: d1ru8a_ 131 LNL-G----------F-K-IMVVGVSAYGLDESWLGRILDESALEELITLN--------- 168 query 509 TGADAIVAAGYDRELV-------------------------------------------- 524 ::: :: d1ru8a_ 169 ---------EKY--KVHVAGEGGEFETFVLDMPLFKYKIVVDKAKKVWEPCTSSGKLIIE 217 query 525 ----------VKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 568 d1ru8a_ 218 EAHLESKLEH-------------------------------------------- 227 HHsearch alignment (Probability: 0.87 E-value:0.00) query 324 GFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHS---KGDAAELARRTG 380 ::::::::::::::::::::::::::::::::::::::::::::: :::::::::::: d1ru8a_ 1 GLADVAVLYSGGKDSNYALYWAIKNRFSVKFLVTMVSENEESYMYTINANLTDLQARALG 60 query 381 LNFRTVSIEPMFDAYMASL 399 ::::::::::::::::::: d1ru8a_ 61 IPLVKGFTQGEKEKEVEDL 79
Intermediate <-- 1.020 --> HitDALI alignment (Z-score: 8.5 Raw score:558.60) d1ru8a_ 1 GLADVAVLYSG---GKDSNYALYWAIKNrFSVKFLVTMVSENEESYMY-------TINAN 50 ::::::::::: :::::::::::::: ::::::::::::::::::: ::::: d1lw7a1 1 EKKVGVIFGKFypvHTGHINMIYEAFSK-VDELHVIVCSDTVRDLKLFydskmkrMPTVQ 59 d1ru8a_ 51 -LTDLQARALG-----IPLVKGFTQGEK------EKEVEDLKRVLS--GLKIQGIVAgas 96 :::::::::: :::::::::::: :::::::::::: ::::::::: d1lw7a1 60 dRLRWMQQIFKyqknqIFIHHLVEDGIPsypngwQSWSEAVKTLFHekHFEPSIVFS--- 116 d1ru8a_ 97 kyqRKRIEKVAKE-LGLEVYTPAWGrdakeymrellnlgfkimvvgvsaygldeswlgri 155 :::::::::: ::::::::::: d1lw7a1 117 --sEPQDKAPYEKyLGLEVSLVDPD----------------------------------- 139 d1ru8a_ 156 ldesaleelitlnekykvhvageggefetfvldmplfkykivvdkakkvwepctssgkli 215 d1lw7a1 140 ------------------------------------------------rtffnvsatkir 151 d1ru8a_ 216 ieeahleskleh 227 d1lw7a1 152 ttpfqywkfipk 163 FAST alignment (Normalized score: 4.95 Raw score:952.50) d1ru8a_ 1 GLADVAVLYS----GGKDSNYALYWAIKNRFSV----KFLVTMVSENEESYMYTINAN-- 50 ::::::::: :::::::::::::: ::::::::: d1lw7a1 1 EKKVGVIFG-KFYPVHTGHINMIYEAFS-----KVDELHVIVCSDT------------VR 42 d1ru8a_ 51 --------------LTDLQARALG-----------IPLVKGFTQG---------EKEKEV 76 :::::::: ::::::: :::::: d1lw7a1 43 DLKLFYDSKMKRMPTVQDRLRW--MQQIFKYQKNQIFIHHLV---EDGIPSYPNGWQSWS 97 d1ru8a_ 77 EDLKRVLSGL--KIQGIVAGASKYQRKRIEKVAKELGLEVYTPAWGRDAKEYMRELLNLG 134 :::::::::: ::::::: ::::::::::: ::::::::::::: d1lw7a1 98 EAVKTLFHEKHFEPSIVFS-SEPQDKAPYEK---YLGLEVSLVDPDR------------- 140 d1ru8a_ 135 FKIMVVGVSAYGLDESWLGRILDESALEELITLNEKYKVHVAGEGGEFETFVLDMPLFKY 194 d1lw7a1 141 ------------------------------------------------------------ 141 d1ru8a_ 195 KIVVDKAKKVWEPCTSSGKLIIEEAHLESKLEH----------------------- 227 d1lw7a1 141 ---------------------------------TFFNVSATKIRTTPFQYWKFIPK 163 TMalign alignment (TM-score: 0.47 Raw score:107.43) d1ru8a_ 1 GLADVAVLYSG--GK-DSNYALYWAIKNRFSVKFLVTMVSENEESY--------MYTINA 49 ::::::::::: :: :::::::::::: ::::::::::::::::: ::::: d1lw7a1 1 EKKVGVIFGKFYPVHTGHINMIYEAFSK-VDELHVIVCSDTVRDLKLFYDSKMK-RMPTV 58 d1ru8a_ 50 -NLTDLQARALG--I---PLVKGFTQ-GEK---E--KEVEDLKRVLS-GLKIQGIVAGAS 96 ::::::::::: : :::::::: ::: : ::::::::::: :::::::::::: d1lw7a1 59 QDRLRWMQQIFKYQKNQIFIHHLVEDGIPSYPNGWQSWSEAVKTLFHEKHFEPSIVFSSE 118 d1ru8a_ 97 KYQRKRIEKVAKELGLEVYTPAWGRDAKEYMRELLNLGFKIMVVGVSAYGLDESWLG-RI 155 :::::::::::: ::::::: : : :: ::: : :::: ::::: :: d1lw7a1 119 PQDKAPYEKYLG----LEVSLVD-P-D--RT-FFN-----V-SATK------IRTTPFQY 157 d1ru8a_ 156 LDESALEELITLNEKYKVHVAGEGGEFETFVLDMPLFKYKIVVDKAKKVWEPCTSSGKLI 215 :: ::: : d1lw7a1 158 WK----------------------------FIP-------K------------------- 163 d1ru8a_ 216 IEEAHLESKLEH 227 d1lw7a1 164 ------------ 164 HHsearch alignment (Probability: 0.01 E-value:0.36) d1ru8a_ 21 WAIKNRFSVKFLVTMVSE 38 :::::::::::::::::: d1lw7a1 24 EAFSKVDELHVIVCSDTV 41