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 | d1k92a1 | Argininosuccinate synthetase, N-terminal domain | 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 <-- 0.998 --> HitDALI alignment (Z-score: 11.4 Raw score:891.80) d1gpma1 1 wtpakiiddavARIReqvGDDKVILGLSGGVDSSVTAMLLHRAIGkNLTCVFVDNGL-LR 59 :::: ::::::::::::::::::::::::::: ::::::::::: :: d1k92a1 1 -------ttilKHLP---VGQRIGIAFSGGLDTSAALLWMRQKGA-VPYAYTANLGQpDE 49 d1gpma1 60 LNeAEQVLDMFGdHFGL-NIVHVPAEDRFLSALAGEN------------dPEAKRKIIGR 106 :: ::::::::: :::: ::::::::::::::::::: :::::::::: d1k92a1 50 ED-YDAIPRRAM-EYGAeNARLIDCRKQLVAEGIAAIqcgafhnttggltYFNTTPLGRA 107 d1gpma1 107 VFVEVFDEEALKLEdVKWLAQGTiypDVIE------------saaKMGLVEP-----LKE 149 :::::::::::::: :::::::: :::: ::::::: ::: d1k92a1 108 VTGTMLVAAMKEDG-VNIWGDGS---TYKGndierfyryglltnaELQIYKPwldtdFID 163 d1gpma1 150 L--FKDEVRKIGLELGLPYDmlYRHPfp 175 : ::::::::::::::::: :::: d1k92a1 164 ElgGRHEMSEFMIACGFDYK--MSVE-k 188 FAST alignment (Normalized score: 9.74 Raw score:1767.00) d1gpma1 1 WTPAKIIDDAVARIRE------QVGDDKVILGLSGGVDSSVTAMLLHRAIGK---NLTCV 51 :::::::::::::::::::::::::: ::::: d1k92a1 1 ----------------TTILKHLPVGQRIGIAFSGGLDTSAALLWMRQ----KGAVPYAY 40 d1gpma1 52 FVDNGLLRL-----NEAEQVLDMFGDHFGL-NIVHVPAEDRFLSALAGENDP-------- 97 :::: :::::::::: ::::: ::::::::::::::::: d1k92a1 41 TANL-----GQPDEEDYDAIPRRA-MEYGAENARLIDCRKQLVAEGIA----AIQCGAFH 90 d1gpma1 98 --------EAKRKIIGRVFVEVFDEEALKLEDVKWLAQGTIYPDVIESA----------- 138 ::::::::::::::::::::: :::::::::: d1k92a1 91 NTTGGLTYFNTTPLGRAVTGTMLVAAMKE-DGVNIWGDGS---------TYKGNDIERFY 140 d1gpma1 139 -------AKMGLVEPLKE----------LFKDEVRKIGLELGLPYDMLYRHPFP------ 175 :::::::: :::::::::::::: d1k92a1 141 RYGLLTNAELQIYKP---WLDTDFIDELGGRHEMSEFMIACG------------FDYKMS 185 d1gpma1 176 --- 176 d1k92a1 186 VEK 188 TMalign alignment (TM-score: 0.67 Raw score:116.78) d1gpma1 1 -----WTPAKIIDDAVARIREQVGDDKVILGLSGGVDSSVTAMLLHRAIGKNLTCVFVDN 55 : ::::::::::::::::::::::::::::: ::::::::: d1k92a1 1 TTILK-------------H--LPVGQRIGIAFSGGLDTSAALLWMRQKGA-VPYAYTANL 44 d1gpma1 56 GL-LRLNEAEQVLDMFGDHFGL-NIVHVPAEDRFLSALA-GE----N-------DPEAKR 101 :: :::: ::::::::: :::: :::::::::::::::: :: : :::::: d1k92a1 45 GQPDEED-YDAIPRRAM-EYGAENARLIDCRKQLVAEGIAAIQCGAFHNTTGGLTYFNTT 102 d1gpma1 102 KIIGRVFVEVFDEEALKLEDVKWLAQGTIYPDVIES---------------AAK-MGLVE 145 ::::::::::::::::::: :::::::: :: :: : ::::: d1k92a1 103 PLGRAVTGTMLVAAMKEDG-VNIWGDGS---TY-KGNDIERFYRYGLLTNA--ELQIYKP 155 d1gpma1 146 --P--LKE--LFKDEVRKIGLELGLPYDMLYRHPFP 175 : ::: :::::::::::::::::: ::::: d1k92a1 156 WLDTDFIDELGGRHEMSEFMIACGFDYK--MSVEK- 188 HHsearch alignment (Probability: 1.00 E-value:0.00) d1gpma1 15 REQVGDDKVILGLSGGVDSSVTAMLLHRAIGKNLTCVFVDNGLLRLNEAEQVLDMFGDHF 74 :::::::::::::::::::::::::::: ::::::::::::::::::: ::::::::::: d1k92a1 5 KHLPVGQRIGIAFSGGLDTSAALLWMRQ-KGAVPYAYTANLGQPDEED-YDAIPRRAMEY 62 d1gpma1 75 GLN-IVHVPAEDRFLSALAGEN-----------DPEAKRKIIGR-VFVEVFDEEALKLED 121 ::: :::::::::::::::::: ::::::::::: :::::::::::: :: d1k92a1 63 GAENARLIDCRKQLVAEGIAAIQCGAFHNTTGGLTYFNTTPLGRAVTGTMLVAAMKE-DG 121 d1gpma1 122 VKWLAQGTIYPDVI---------ESAAKMGLVEPLKEL-------FKDEVRKIGLELGLP 165 :::::::::::::: ::::::::::::::: ::::::::::::::: d1k92a1 122 VNIWGDGSTYKGNDIERFYRYGLLTNAELQIYKPWLDTDFIDELGGRHEMSEFMIACGFD 181 d1gpma1 166 YDMLYR 171 :::::: d1k92a1 182 YKMSVE 187