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 | d1h1da_ | Catechol O-methyltransferase, COMT | S-adenosyl-L-methionine-dependent methyltransferases | S-adenosyl-L-methionine-dependent methyltransferases | α/β |
Query <-- 2.152 --> 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 <-- 1.108 --> HitDALI alignment (Z-score: 4.3 Raw score:388.90) d1gpma1 1 --------------------------------------wtpAKIIDDAVARIREQvGDDK 22 :::::::::::::: :::: d1h1da_ 1 dtkeqrilryvqqnakpgdpqsvleaidtyctqkewamnvgDAKGQIMDAVIREY-SPSL 59 d1gpma1 23 VILGLSGgvdsSVTAMLLHRAI--gKNLTCVFVdngllrlneAEQVLDMFGDHFG----- 75 ::::::: ::::::::::: :::::::: ::::::::::::: d1h1da_ 60 VLELGAY---cGYSAVRMARLLqpgARLLTMEM---------NPDYAAITQQMLNfaglq 107 d1gpma1 76 --LNIVHVpaedrflsalagendpeakrkiigrvfVEVFdEEAL---KLEDVKWLAQG-- 128 :::::: :::: :::: ::::::::::: d1h1da_ 108 dkVTILNG-------------------------asQDLI-PQLKkkyDVDTLDMVFLDhw 141 d1gpma1 129 --------tiypdviesaakMGLVE----------------------plKELFkdEVRKi 158 ::::: :::: :::: d1h1da_ 142 kdrylpdtlllekcgllrkgTVLLAdnvivpgtpdflayvrgsssfectHYSS--YLEY- 198 d1gpma1 159 glelglpydmlyrhpfp 175 d1h1da_ 199 --mkvvdglekaiyqgp 213 FAST alignment (Normalized score: 2.17 Raw score:419.50) d1gpma1 1 WTPAKIIDDAVARIREQVGDDKVILGLS-------------------------------- 28 d1h1da_ 1 ----------------------------DTKEQRILRYVQQNAKPGDPQSVLEAIDTYCT 32 d1gpma1 29 -------GGVDSSVTAMLLHRAIGKN--LTCVFVDNGLLRLNEA-----EQVLDMFGDH- 73 :::::::::::::::: ::::: :::::::: d1h1da_ 33 QKEWAMNVGDAKGQIMDAVIREY---SPSLVLE-----------LGAYCGYSAVRMA--R 76 d1gpma1 74 ---FGLNIVHVPAEDRFLSALAGENDPEAKRKI--------------------------- 103 :::::::::: d1h1da_ 77 LLQPGARLLTMEM--------------------NPDYAAITQQMLNFAGLQDKVTILNGA 116 d1gpma1 104 ------------------------IGRVFVEVFDEEALKLEDV-------KWLAQGTIYP 132 :::::::::::::: ::::: d1h1da_ 117 SQDLIPQLKKKYDVDTLDMVFLDHWKDRYLPDTLLLEK-----CGLLRKGTVLLA----- 166 d1gpma1 133 DVIESA------------------AKMGLVEPLKELFKDEVRKIGLELGLPYDMLYRHPF 174 ::::::: :::: d1h1da_ 167 ------DNVIVPGTPDFLAYVRGSSSFECTH--YSSY----------------------- 195 d1gpma1 175 P------------------ 175 d1h1da_ 196 -LEYMKVVDGLEKAIYQGP 213 TMalign alignment (TM-score: 0.46 Raw score:80.75) d1gpma1 1 ----------------------------------------WTPAKIIDDAVARIREQVGD 20 :::::::::::::: ::: d1h1da_ 1 DTKEQRILRYVQQNAKPGDPQSVLEAIDTYCTQKEWAMNV--GDAKGQIMDAVIRE-YSP 57 d1gpma1 21 DKVILGLSGGVDSSVTAMLLHRAIGK-NLTCVFVDNGLLRLNEAEQVLDMFGDHF-GL-N 77 :::::::::: ::::::::::::: ::::::: : ::: ::::::::: ::: :: : d1h1da_ 58 SLVLELGAYC---GYSAVRMARLLQPGARLLTME-M-NPD--YAAITQQML-NFAGLQDK 109 d1gpma1 78 IVHVPAEDRFLSALAGENDPEAKRKIIGRVFVEVFDEEAL--KLEDVKWLAQG------- 128 :::::: ::::::::::: ::::::::::: d1h1da_ 110 VTILNG-----------------------ASQDLIPQLKKKYDVDTLDMVFLDHWKDRYL 146 d1gpma1 129 --------------------TIYPDVIES--AA-------KMGLVEPLKELFKDEV---- 155 ::::::::: :: :::::::::::::: d1h1da_ 147 PDTLLLEKCGLLRKGTVLLADNVIVPGTPDFLAYVRGSSS--FECTHYSSYLEYMKVVDG 204 d1gpma1 156 ---------RKIGLELGLPYDMLYRHPFP 175 d1h1da_ 205 LEKAIYQGP-------------------- 213 HHsearch alignment (Probability: 0.02 E-value:0.28) d1gpma1 43 AIGKNLTCVFVDN 55 ::::::::::::: d1h1da_ 77 LLQPGARLLTMEM 89