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 | d1ru8a_ | Putative N-type ATP pyrophosphatase PF0828 | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1odka_ | Purine nucleoside phosphorylase, PNP | Purine and uridine phosphorylases | Phosphorylase/hydrolase-like | α/β |
Query <-- 0.937 --> IntermediateDALI alignment (Z-score: 6.9 Raw score:641.00) query 1 dadeevysalvvglrayvaknGFRSVLIGLSGGIDSALVAAIACDALgaqNVYGVSMPSK 60 :::::::::::::::::::::::::: :::::::::: d1ru8a_ 1 ---------------------GLADVAVLYSGGKDSNYALYWAIKNR-fsVKFLVTMVSE 38 query 61 YS-----sDHSKGdAAELARRTGLNFRTVSIEpmfdaymaslgltglaEENLQSRLRGTT 115 :: ::::: :::::::::::::::::: :::::::::::: d1ru8a_ 39 NEesymytINANL-TDLQARALGIPLVKGFTQ---------------gEKEKEVEDLKRV 82 query 116 LMAIsnqEGHIVLAPGnkselavGYSTlyGDSVG------AYGPIKDVYKTSIFRLAEWR 169 :::: ::::::::: :::: ::::: :::::::::::::::::::: d1ru8a_ 83 LSGL---KIQGIVAGA------sKYQRkrIEKVAkelgleVYTPAWGRDAKEYMRELLNL 133 query 170 N------------------------------------raaaergqtppipEASItkpdyp 193 : :::: d1ru8a_ 134 GfkimvvgvsaygldeswlgrildesaleelitlnekykvhvageggefeTFVL------ 187 query 194 vldailelyvdrdtgadaivaagydrelvvktlrmvdtaeykrrqyppgtkisakgfgkd 253 d1ru8a_ 188 ---------------------------------dmplfkykivvdkakkvwepctssgkl 214 query 254 rrlpitnrwregh 266 d1ru8a_ 215 iieeahleskleh 227 FAST alignment (Normalized score: 5.12 Raw score:1259.00) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQN-----VYGV 55 :::::::::::::::::::::::: :::: d1ru8a_ 1 ---------------------GLADVAVLYSGGKDSNYALYWAIK------NRFSVKFLV 33 query 56 SMPSKYSSDHS--------KGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLA---E 104 ::::::: ::::::::::::::::::: : d1ru8a_ 34 TMVSENE----ESYMYTINANLTDLQARALGIPLVKGF------------------TQGE 71 query 105 ENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLY-----GDSVG---------- 149 :::::::::::::: ::: ::::: :::: d1ru8a_ 72 KEKEVEDLKRVLSG--LKI-QGIVA---------------GASKYQRKR-IEKVAKELGL 112 query 150 -AYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKP------------------ 190 ::::::::::::::::::: d1ru8a_ 113 EVYTPAWGRDAKEYMRELLN----------------------LGFKIMVVGVSAYGLDES 150 query 191 ------------DYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQ 238 :::::::: d1ru8a_ 151 WLGRILDESALEELITLNEK---------------------------------------- 170 query 239 YPPGTKISAKGFGKDRRLPITNRWREGH-------------------------------- 266 d1ru8a_ 171 ----------------------------YKVHVAGEGGEFETFVLDMPLFKYKIVVDKAK 202 query 267 ------------------------- 267 d1ru8a_ 203 KVWEPCTSSGKLIIEEAHLESKLEH 227 TMalign alignment (TM-score: 0.41 Raw score:109.76) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSK 60 ::::::::::::::::::::::::::: ::::::::::: d1ru8a_ 1 ---------------------GLADVAVLYSGGKDSNYALYWAIKNRF-SVKFLVTMVSE 38 query 61 YS-S---DHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGTTL 116 :: : :::::::::::::::::::::::: : : ::::::::::: d1ru8a_ 39 NEESYMYTINANLTDLQARALGIPLVKGFTQ--G-------------E-KEKEVEDLKRV 82 query 117 MAISNQEGHIVLAPGNKSELAVGYSTL-YGDSV-G------AYGPIKDVYKTSIFRLAEW 168 :::: ::::::::: :: : :: :::: : ::::::::::::::::::: d1ru8a_ 83 LSGL--KIQGIVAGA---SK--Y--QRK-RIEKVAKELGLEVYTPAWGRDAKEYMRELLN 132 query 169 RNRAAAERGQTPPIPEASITK---P-DY----------------PVLDAILELYVDRDTG 208 : : : : :::: : :: ::::: d1ru8a_ 133 L-G----------F-K-IMVVGVSAYGLDESWLGRILDESALEELITLN----------- 168 query 209 ADAIVAAGYDRELV---------------------------------------------- 222 ::: :: d1ru8a_ 169 -------EKY--KVHVAGEGGEFETFVLDMPLFKYKIVVDKAKKVWEPCTSSGKLIIEEA 219 query 223 --------VKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 266 d1ru8a_ 220 HLESKLEH-------------------------------------------- 227 HHsearch alignment (Probability: 0.94 E-value:0.00) query 22 GFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHS----KGDAAELARRT 77 ::::::::::::::::::::::::: ::::::::::::::::::: ::::::::::: d1ru8a_ 1 GLADVAVLYSGGKDSNYALYWAIKN-RFSVKFLVTMVSENEESYMYTINANLTDLQARAL 59 query 78 GLNFRTVSIEPMFDAYMASL 97 :::::::::::::::::::: d1ru8a_ 60 GIPLVKGFTQGEKEKEVEDL 79
Intermediate <-- 0.908 --> HitDALI alignment (Z-score: 2.4 Raw score:269.30) d1ru8a_ 1 ---------gLADVA--------------------------------------------- 6 ::::: d1odka_ 1 spihvrahpgDVAERvllpgdpgraewiaktflqnprryndhrglwgytglykgvpvsvq 60 d1ru8a_ 7 vlysgGKDSNYALYWAIKnrFSVKFLVTMVSENEE-----------symyTINA------ 49 ::::::::::::: ::::::::::::::: :::: d1odka_ 61 ttgmgTPSAAIVVEELVR--LGARVLVRVGTAGAAssdlapgelivaqgaVPLDgttrqy 118 d1ru8a_ 50 ------------------------------------------------------------ 50 d1odka_ 119 legrpyapvpdpevfralwrraealgyphrvglvasedafyattpeearawarygvlafe 178 d1ru8a_ 50 ---NLTDLQARALGIPLVKGFTQG-------EKEKEVEDLKRVLSGLKiqgivagaskyq 99 ::::::::::::::::::::: ::::::::::::::::: d1odka_ 179 meaSALFLLGRMRGVRTGAILAVSnrippevLQEGVRRMVEVALEAVL------------ 226 d1ru8a_ 100 rkriekvakelglevytpawgrdakeymrellnlgfkimvvgvsaygldeswlgrildes 159 d1odka_ 227 ------------------------------------------------------------ 227 d1ru8a_ 160 aleelitlnekykvhvageggefetfvldmplfkykivvdkakkvwepctssgkliieea 219 d1odka_ 227 ------------------------------------------------------------ 227 d1ru8a_ 220 hleskleh 227 d1odka_ 227 ------ev 228 FAST alignment (Normalized score: 1.98 Raw score:449.80) d1ru8a_ 1 GLA-------------DVAVLYSGGKDSNYALYWAIKNRFSVKFLVTMVSENEESYMYTI 47 :::::: d1odka_ 1 ---SPIHVRAHPGDVAERVLLP-------------------------------------- 19 d1ru8a_ 48 NA------NLTDLQARA----------------------LGIPLVKGFTQGEKEKEVEDL 79 ::::: ::::::::::::::::::::: d1odka_ 20 --GDPGRAEWIAK----TFLQNPRRYNDHRGLWGYTGLYKGVPVSVQTTGMGTPSAAIVV 73 d1ru8a_ 80 KRVLSGLKIQGIVAGAS------------------------------------------- 96 ::::: :::::::: d1odka_ 74 EELVR-LGARVLVR---VGTAGAASSDLAPGELIVAQGAVPLDGTTRQYLEGRPYAPVPD 129 d1ru8a_ 97 ------------------------------------------------KYQRKRIEKVAK 108 :::::::::::: d1odka_ 130 PEVFRALWRRAEALGYPHRVGLVASEDAFYATTPEEARAWARYGVLAFEMEASALFLLGR 189 d1ru8a_ 109 ELGLEVYTPAWG-------RDAKEYMRELLNLGFKIMVVGVSAYGLDESWLGRILDESAL 161 :::::::: ::::::::::: d1odka_ 190 MRGVRTGA----ILAVSNRIPPEVLQEGVR------------------------------ 215 d1ru8a_ 162 EELITLNEKYKVHVAGEGGEFETFVLDMPLFKYKIVVDKAKKVWEPCTSSGKLIIEEAHL 221 d1odka_ 216 ------------------------------------------------------------ 216 d1ru8a_ 222 ESKLEH------------- 227 d1odka_ 216 ------RMVEVALEAVLEV 228 TMalign alignment (TM-score: 0.31 Raw score:69.68) d1ru8a_ 1 ------------GLADVAVLYSGGKDSNYALYWAIKNRFSVKFLVTMVSENEESYMYTIN 48 ::::::::: :::: : : d1odka_ 1 SPIHVRAHPGDV-----------------------------AERVLLPGD-PGRA-E--W 27 d1ru8a_ 49 AN-LTDL---------------QARALGIPLVKGFTQGEKEKEVEDLKRVLSGLKIQGIV 92 :: :::: :::: ::::::::::::::::::::::::::: : ::: d1odka_ 28 IAKTFLQNPRRYNDHRGLWGYTGLYK-GVPVSVQTTGMGTPSAAIVVEELVRLG-A-RVL 84 d1ru8a_ 93 A------------------GASKYQR---KR--IEKV--------AKELGLEVYTPAWGR 121 : ::::::: :: :: :::::: : d1odka_ 85 VRVGTAGAASSDLAPGELIVAQGAVPLDGTTRQ--YLEGRPYAPV-------PDPEVF-R 134 d1ru8a_ 122 -DAKEYMRELLNLGFKIMVVGV----------------------SAYGLDESWLGRILDE 158 :: :: ::::::: :: d1odka_ 135 A----LW--RR-AEALGYP-HRVGLVASEDAFYATTPEEARAWA---------------- 170 d1ru8a_ 159 SALEELITLNEKYK-VHVAGEGGE--------------------FET-----FVLDMPLF 192 : : :::: ::: d1odka_ 171 -------------RY-G---VLAFEMEASALFLLGRMRGVRTGAILAVSNRI-------- 205 d1ru8a_ 193 KYKIVVDKAKKVWEPCTSSGKL-II---EEA---------HLESKLEH 227 :::: ::: :: : d1odka_ 206 ---------PPEV------LQEGVRRMV--EVALEAVLEV-------- 228 HHsearch alignment (Probability: 0.90 E-value:0.00) d1ru8a_ 3 ADVAVLYSG-GKDSNYALYWAIKNRFSVKFLVTMVSENEESYMYTINANLTDLQARALG- 60 ::::::::: :::::::::::::: :::::::::::::::::::::::::::::::::: d1odka_ 55 VPVSVQTTGMGTPSAAIVVEELVR-LGARVLVRVGTAGAASSDLAPGELIVAQGAVPLDG 113 d1ru8a_ 61 -----IPLVKGFTQGEKEKEVEDLKRVLSGLKIQ----GIVAGASKYQRK-RIEKVAKEL 110 ::::: ::::::::::::::::::::::: :::::::::::: ::::::::: d1odka_ 114 TTRQYLEGRP-YAPVPDPEVFRALWRRAEALGYPHRVGLVASEDAFYATTPEEARAWARY 172 d1ru8a_ 111 GLEVYTPAWGRDAKEYMRELLNLGFKIMVVGVSAYGLDESWLGRILDES 159 ::::: :::::::::::::::::::::::::::::::::::::::: d1odka_ 173 GVLAF----EMEASALFLLGRMRGVRTGAILAVSNRIPPEVLQEGVRRM 217