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 | d1gpma1 | GMP synthetase, central domain | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1ru8a_ | Putative N-type ATP pyrophosphatase PF0828 | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
Query <-- 0.999 --> IntermediateDALI alignment (Z-score: 17.0 Raw score:1273.10) query 1 DADEEVYSALVVGLRAYVAkngFRSVLIGLSGGIDSALVAAIACDALGaQNVYGVSMPSK 60 ::::::::::::::::::: :::::::::::::::::::::::::: ::::::::::: d1gpma1 1 WTPAKIIDDAVARIREQVG---DDKVILGLSGGVDSSVTAMLLHRAIG-KNLTCVFVDNG 56 query 61 YSSDHSKGDAA-ELARRTGLNFRTVSIEPMFDAYMAsLGLTGLAEENLQSRLRGTTLMAI 119 ::::::::::: :::::::::::::::::::::::: ::::::::::::::::::::::: d1gpma1 57 LLRLNEAEQVLdMFGDHFGLNIVHVPAEDRFLSALA-GENDPEAKRKIIGRVFVEVFDEE 115 query 120 SNQE--GHIVLAPGNKSELAVGystlygdsvgAYGPIKDVYKTSIFRLAEWRNraaaerg 177 :::: :::::::::::::::: ::::::::::::::::::::: d1gpma1 116 ALKLedVKWLAQGTIYPDVIES-----aakmgLVEPLKELFKDEVRKIGLELG------- 163 query 178 qtppIPEASITKpdypvldailelyvdrdtgadaivaagydrelvvktlrmvdtaeykrr 237 :::::::: d1gpma1 164 ----LPYDMLYR------------------------------------------------ 171 query 238 qyppgtkisakgfgkdrrlpitnrwregh 266 d1gpma1 172 -------------------------hpfp 175 FAST alignment (Normalized score: 13.11 Raw score:2830.00) query 1 DADEEVYSALVVGLRAYVAKNGF---RSVLIGLSGGIDSALVAAIACDALGAQNVYGVSM 57 ::::::::::::::::: ::::::::::::::::::::::: :::::::::: d1gpma1 1 WTPAKIIDDAVARIREQ------VGDDKVILGLSGGVDSSVTAMLLHRA-IGKNLTCVFV 53 query 58 PSKYSSDHSKGDAA-ELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGTTL 116 :::::::::::::: :::::::::::::::::::::::::: :::::::::::::::::: d1gpma1 54 DNGLLRLNEAEQVLDMFGDHFGLNIVHVPAEDRFLSALAGE-NDPEAKRKIIGRVFVEVF 112 query 117 MAISNQEG----HIVLAPGNKSELAVGYSTLYGDSVG-------AYGPIKDVYKTSIFRL 165 :::::: ::::::::::::: :::::::::::::::: d1gpma1 113 DEEALK--LEDVKWLAQGTIYPDVI------------ESAAKMGLVEPLKELFKDEVRKI 158 query 166 AEWRNRAAAERGQTP-PIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVK 224 ::: :::::::: d1gpma1 159 GLE------------LGLPYDMLY------------------------------------ 170 query 225 TLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH----- 266 d1gpma1 171 ------------------------------------------RHPFP 175 TMalign alignment (TM-score: 0.53 Raw score:140.98) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSK 60 ::::::::::::::::::: :: :::::::::::::::::::::::: ::::::::::: d1gpma1 1 WTPAKIIDDAVARIREQVG--DD-KVILGLSGGVDSSVTAMLLHRAIG-KNLTCVFVDNG 56 query 61 YSSDHSKGDAA-ELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGTTLMAI 119 ::::::::::: :::::::::::::::::::::::: ::::::::::::::::::::::: d1gpma1 57 LLRLNEAEQVLDMFGDHFGLNIVHVPAEDRFLSALA-GENDPEAKRKIIGRVFVEVFDEE 115 query 120 SNQEG-H-IVLAPGNKSELAVG---YSTLYGDSVGAYGPIKDVYKTSIFRLAEWRNRAAA 174 ::::: : :::::::::::::: ::::::::::::::::::::::: d1gpma1 116 ALKLEDVKWLAQGTIYPDVIESAAK--------MGLVEPLKELFKDEVRKIGLELG---- 163 query 175 ERGQTPPIPEASITKPDY--PVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTA 232 :::::::: :: d1gpma1 164 -------LPYDMLYR-HPFP---------------------------------------- 175 query 233 EYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 266 d1gpma1 176 ---------------------------------- 176 HHsearch alignment (Probability: 1.00 E-value:0.00) query 4 EEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSS 63 ::::::::::::::::: ::::::::::::::::::::::::::: :::::::::::: d1gpma1 4 AKIIDDAVARIREQVGD---DKVILGLSGGVDSSVTAMLLHRAIGKN-LTCVFVDNGLLR 59 query 64 DHSKGD-AAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGTTLMAISNQ 122 :::::: ::::::::::::::::::::::::::::::::: ::::::::::::::::::: d1gpma1 60 LNEAEQVLDMFGDHFGLNIVHVPAEDRFLSALAGENDPEA-KRKIIGRVFVEVFDEEALK 118 query 123 EGHI-VLAPGNKSELAVGYSTLYGDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPP 181 :::: :::::::::::::::::::: :::::::::::::::::::: d1gpma1 119 LEDVKWLAQGTIYPDVIESAAKMGL----VEPLKELFKDEVRKIGLELG----------- 163 query 182 IPEASITKPDYP 193 :::::::::::: d1gpma1 164 LPYDMLYRHPFP 175
Intermediate <-- 0.986 --> HitDALI alignment (Z-score: 8.3 Raw score:568.80) d1gpma1 1 wtpakiiddavarireqvGDDKVILGLSGGVDSSVTAMLLHRAIGKNLTCVFVDNGLLRL 60 :::::::::::::::::::::::::::::::::::::::::: d1ru8a_ 1 ------------------GLADVAVLYSGGKDSNYALYWAIKNRFSVKFLVTMVSENEES 42 d1gpma1 61 ----NEAEQVLDMFgDHFGLNIVHVPAEdrflsalagendpeakrkiIGRVFVEVFDEEA 116 :::::::::: ::::::::::::: ::::::::::::: d1ru8a_ 43 ymytINANLTDLQA-RALGIPLVKGFTQ------------------gEKEKEVEDLKRVL 83 d1gpma1 117 LKLEdVKWLAQGtIYPD------viesaaKMGLVEPLKE--------------------- 149 :::: ::::::: :::: :::::::::: d1ru8a_ 84 SGLK-IQGIVAG-ASKYqrkriekvakelGLEVYTPAWGrdakeymrellnlgfkimvvg 141 d1gpma1 150 ------------------------------------------------------------ 150 d1ru8a_ 142 vsaygldeswlgrildesaleelitlnekykvhvageggefetfvldmplfkykivvdka 201 d1gpma1 150 lfkdevrkiglelglpydmlyrhpfp 175 d1ru8a_ 202 kkvwepctssgkliieeahleskleh 227 FAST alignment (Normalized score: 7.05 Raw score:1406.00) d1gpma1 1 WTPAKIIDDAVARIREQVGD--DKVILGLSGGVDSSVTAMLLHRAIGKN-----LTCVFV 53 :::::::::::::::::::::: :::::: d1ru8a_ 1 --------------------GLADVAVLYSGGKDSNYALYWAIK-----NRFSVKFLVTM 35 d1gpma1 54 DNGLL-----RLNEAEQVLDMFGDHFGLNIVHVPAEDRFLSALAGENDPEAKRKI---IG 105 :::: :::::::::: ::::::::::::: :: d1ru8a_ 36 VSEN-EESYMYTINANLTDL-QARALGIPLVKGF---------------------TQGEK 72 d1gpma1 106 RVFVEVFDEEALKLEDVKWLAQGTIYPDVIESA----------------AKMGLVEPLKE 149 ::::::::::::: :::::::: ::::::::::: d1ru8a_ 73 EKEVEDLKRVLSG-LKIQGIVA-----------GASKYQRKRIEKVAKELGLEVYTPAWG 120 d1gpma1 150 LFKDEVRKIGLELGLPYDMLYRHPFP---------------------------------- 175 ::::::::::::::: ::::: d1ru8a_ 121 RDAKEYMRELLNLGF-----KIMVV-GVSAYGLDESWLGRILDESALEELITLNEKYKVH 174 d1gpma1 176 ----------------------------------------------------- 176 d1ru8a_ 175 VAGEGGEFETFVLDMPLFKYKIVVDKAKKVWEPCTSSGKLIIEEAHLESKLEH 227 TMalign alignment (TM-score: 0.57 Raw score:100.37) d1gpma1 1 WTPAKIIDDAVARIREQVGDDKVILGLSGGVDSSVTAMLLHRAIGKNLTCVFVDNG-LLR 59 :::::::::::::::::::::::::::::::::::::: ::: d1ru8a_ 1 ------------------GLADVAVLYSGGKDSNYALYWAIKNRFSVKFLVTMVSENEES 42 d1gpma1 60 ---LNEAEQVLDMFGDHFGLNIVHVPAEDRFLSALAGENDPEAKRKIIGRVFVEVFDEEA 116 :::::::::: ::::::::::: : :: :::::::::::::: d1ru8a_ 43 YMYTINANLTDLQ-ARALGIPLVKG-F--TQ---------------GEKEKEVEDLKRVL 83 d1gpma1 117 LKLEDVKWLAQGTIYPDV--IES---------AAKMGLVEPLKELFKDEVRKIGLELGLP 165 :::: ::::::::: :: : :::::::::::::::::::::::::: d1ru8a_ 84 SGLK-IQGIVAGAS--KYQR--KRIEKVAKEL--GLEVYTPAWGRDAKEYMRELLNLGFK 136 d1gpma1 166 YDM---------------LY--------------------R---HPF------------- 174 ::: :: : ::: d1ru8a_ 137 IMVVGVSAYGLDESWLGRILDESALEELITLNEKYKVHVAGEGGEFETFVLDMPLFKYKI 196 d1gpma1 175 --------------P---------------- 175 : d1ru8a_ 197 VVDKAKKVWEPCTSSGKLIIEEAHLESKLEH 227 HHsearch alignment (Probability: 0.99 E-value:0.00) d1gpma1 20 DDKVILGLSGGVDSSVTAMLLHRAIGKNLTCVFVDNGL-LR---LNEAEQVLDMFGDHFG 75 :::::::::::::::::::::::: ::::::::::::: :: :::::::::::::::: d1ru8a_ 2 LADVAVLYSGGKDSNYALYWAIKN-RFSVKFLVTMVSENEESYMYTINANLTDLQARALG 60 d1gpma1 76 LNIVHVPAEDRFLSALAGENDPEAKRKIIGRVFVEVFDEEALKLEDVKWLAQGTI----- 130 :::::::::::::: : ::::::: :::::::::::::: d1ru8a_ 61 IPLVKGFTQGEKEK--------E----------VEDLKRV-LSGLKIQGIVAGASKYQRK 101 d1gpma1 131 YPDVIESAAKMGLVEPLKELFKDEVRKIGLEL 162 :::::::::::::::::::::::::::::::: d1ru8a_ 102 RIEKVAKELGLEVYTPAWGRDAKEYMRELLNL 133