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 | d1gpma1 | GMP synthetase, central domain | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1ct9a1 | Asparagine synthetase B, C-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:1263.90) query 1 slqlrlalnqidstvgdiagnaeailrwtrhsaeqgahlvafpemaltgypvedlalrss 60 d1gpma1 1 ------------------------------------------------------------ 1 query 61 fveasrtalrelaarlaeegfgelpvlvgyldrsesaqpkygqpagaprnaaavlhrgrv 120 d1gpma1 1 ------------------------------------------------------------ 1 query 121 altfakhhlpnygvfdefryfvpgdtmpivrlhgvdialaicedlwqdggrvpaarsaga 180 d1gpma1 1 ------------------------------------------------------------ 1 query 181 glllsvnaspyerdkddtrlelvrkraqeagcttaylamiggqdelvfdgdsivvdrdge 240 d1gpma1 1 ------------------------------------------------------------ 1 query 241 vvarapqfsegcvvldldlpaaeaepptgvvddglridrlviseeplpayeaelaggyad 300 d1gpma1 1 ------------------------------------------------------------ 1 query 301 rlDADEEVYSALVVGLRAYVAkngFRSVLIGLSGGIDSALVAAIACDALGaQNVYGVSMP 360 ::::::::::::::::::: :::::::::::::::::::::::::: ::::::::: d1gpma1 1 --WTPAKIIDDAVARIREQVG---DDKVILGLSGGVDSSVTAMLLHRAIG-KNLTCVFVD 54 query 361 SKYSS-DHSKGDAAELARRTGLNFRTVSIEPMFDAYMAsLGLTGLAEENLQSRLRGTTLM 419 ::::: :::::::::::::::::::::::::::::::: ::::::::::::::::::::: d1gpma1 55 NGLLRlNEAEQVLDMFGDHFGLNIVHVPAEDRFLSALA-GENDPEAKRKIIGRVFVEVFD 113 query 420 AISNQE--GHIVLAPGNKSELAVGystlygdsvgAYGPIKDVYKTSIFRLAEWRNraaae 477 :::::: :::::::::::::::: ::::::::::::::::::::: d1gpma1 114 EEALKLedVKWLAQGTIYPDVIES-----aakmgLVEPLKELFKDEVRKIGLELG----- 163 query 478 rgqtppIPEASITKpdypvldailelyvdrdtgadaivaagydrelvvktlrmvdtaeyk 537 :::::::: d1gpma1 164 ------LPYDMLYR---------------------------------------------- 171 query 538 rrqyppgtkisakgfgkdrrlpitnrwregh 568 d1gpma1 172 ---------------------------hpfp 175 FAST alignment (Normalized score: 8.89 Raw score:2802.00) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1gpma1 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1gpma1 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1gpma1 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1gpma1 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1gpma1 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSALVVGLRAYVAKNGF---RSVLIGLSGGIDSALVAAIACDALGAQNVYGV 357 ::::::::::::::::: ::::::::::::::::::::::: :::::::: d1gpma1 1 --WTPAKIIDDAVARIREQ------VGDDKVILGLSGGVDSSVTAMLLHRA-IGKNLTCV 51 query 358 SMPSKYSSDHSKGDAA-ELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGT 416 :::::::::::::::: :::::::::::::::::::::::::: :::::::::::::::: d1gpma1 52 FVDNGLLRLNEAEQVLDMFGDHFGLNIVHVPAEDRFLSALAGE-NDPEAKRKIIGRVFVE 110 query 417 TLMAISNQEG----HIVLAPGNKSELAVGYSTLYGDSVG-------AYGPIKDVYKTSIF 465 :::::::: ::::::::::::: :::::::::::::: d1gpma1 111 VFDEEALK--LEDVKWLAQGTIYPDVI------------ESAAKMGLVEPLKELFKDEVR 156 query 466 RLAEWRNRAAAERGQTP-PIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELV 524 ::::: :::::::: d1gpma1 157 KIGLE------------LGLPYDMLY---------------------------------- 170 query 525 VKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH----- 568 d1gpma1 171 --------------------------------------------RHPFP 175 TMalign alignment (TM-score: 0.27 Raw score:151.12) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1gpma1 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1gpma1 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1gpma1 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 : d1gpma1 1 --------------W--------------------------------------------- 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1gpma1 2 ------------------------------------------------------------ 2 query 301 RLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMP 360 :::::::::::::::::: :: :::::::::::::::::::::::: ::::::::: d1gpma1 2 ---TPAKIIDDAVARIREQVG--DD-KVILGLSGGVDSSVTAMLLHRAIG-KNLTCVFVD 54 query 361 SKYSSDHSKGDAA-ELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGTTLM 419 ::::::::::::: :::::::::::::::::::::::: ::::::::::::::::::::: d1gpma1 55 NGLLRLNEAEQVLDMFGDHFGLNIVHVPAEDRFLSALA-GENDPEAKRKIIGRVFVEVFD 113 query 420 AISNQEG-H-IVLAPGNKSELAVG---YSTLYGDSVGAYGPIKDVYKTSIFRLAEWRNRA 474 ::::::: : :::::::::::::: ::::::::::::::::::::::: d1gpma1 114 EEALKLEDVKWLAQGTIYPDVIESAAK--------MGLVEPLKELFKDEVRKIGLELG-- 163 query 475 AAERGQTPPIPEASITKPDY--PVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVD 532 :::::::: :: d1gpma1 164 ---------LPYDMLYR-HPFP-------------------------------------- 175 query 533 TAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 568 d1gpma1 176 ------------------------------------ 176 HHsearch alignment (Probability: 1.00 E-value:0.00) query 306 EEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSS 365 ::::::::::::::::: :::::::::::::::::::::::::::::::::::::::: d1gpma1 4 AKIIDDAVARIREQVGD---DKVILGLSGGVDSSVTAMLLHRAIGKNLTCVFVDNGLLRL 60 query 366 DHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGTTLMAISNQE 425 ::::::::::::::::::::::::::::::::::: :::::::::::::::::::::::: d1gpma1 61 NEAEQVLDMFGDHFGLNIVHVPAEDRFLSALAGEN-DPEAKRKIIGRVFVEVFDEEALKL 119 query 426 GHI-VLAPGNKSELAVGYSTLYGDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPI 484 ::: :::::::::::::::::::: ::::::::::::::::::: :::::::::::: d1gpma1 120 EDVKWLAQGTIYPDVIESAAKMGL----VEPLKELFKDEVRKIGLEL-GLPYDMLYRHPF 174 query 485 P 485 : d1gpma1 175 P 175
Intermediate <-- 0.993 --> HitDALI alignment (Z-score: 9.7 Raw score:943.60) d1gpma1 1 -------------WTPAKIIDDAVARIREQVGD-DKVILGLSGGVDSSVTAMLLHRAIgk 46 :::::::::::::::::::: :::::::::::::::::::::::: d1ct9a1 1 rdwfdydavkdnvTDKNELRQALEDSVKSHLMSdVPYGVLLSGGLDSSIISAITKKYA-- 58 d1gpma1 47 nLTCVFVDNGLLRlnEAEQVLDMFGdHFGLNIVHVPAED-RFLSALA---gendPEAKRK 102 :::::::::::: :::::::::: ::::::::::::: ::::::: :::::: d1ct9a1 59 -LHSFAVGLPGSP--DLKAAQEVAN-HLGTVHHEIHFTVqEGLDAIRdviyhieTYDVTT 114 d1gpma1 103 IIGRVFVEVFDEEALKLEdVKWLAQGT-IYPD--------------------vIESAA-- 139 :::::::::::::::::: :::::::: :::: ::::: d1ct9a1 115 IRASTPMYLMSRKIKAMG-IKMVLSGEgSDEVfggylyfhkapnakelheetvRKLLAlh 173 d1gpma1 140 --------------KMGLVEPLK------------------elfKDEVRKIGLELgLPYD 167 ::::::::: ::::::::::: :::: d1ct9a1 174 mydcarankamsawGVEARVPFLdkkfldvamrinpqdkmckmeKHILRECFEAY-LPAS 232 d1gpma1 168 MLYRHPFP---------------------------------------------------- 175 :::::::: d1ct9a1 233 VAWRQKEQfsdgvgyswidtlkevaaqqvsdqqletarfrfpyntptskeaylyreifee 292 d1gpma1 176 ------------- 176 d1ct9a1 293 lfplpsaaecvpg 305 FAST alignment (Normalized score: 7.67 Raw score:1773.00) d1gpma1 1 -------------WTPAKIIDDAVARIREQV-GDDKVILGLSGGVDSSVTAMLLHRAIGK 46 :::::::::::::::::: :::::::::::::::::::::::::: d1ct9a1 1 RDWFDYDAVKDNVTDKNELRQALEDSVKSHLMSDVPYGVLLSGGLDSSIISAITKKYA-- 58 d1gpma1 47 NLTCVFVDNGLLR----LNEAEQVLDMFGDHFGLNIVHVP-AEDRFLSALAGEN------ 95 :::::: :::::::: :::::::::::::: :::::::: d1ct9a1 59 -LHSFAV------GLPGSPDLKAAQ-EVANHLGTVHHEIHFTVQEGLDA-----IRDVIY 105 d1gpma1 96 ------DPEAKRKIIGRVFVEVFDEEALKLEDVKWLAQGTIYPDVIESAA---------- 139 ::::::::::::::::::: ::::::::: d1ct9a1 106 HIETYDVTTIRASTPMYLMSRKIKA-----MGIKMVLSG-----------EGSDEVFGGY 149 d1gpma1 140 --------------------------------------KMGLVEPLKELF---------- 151 :::::::: d1ct9a1 150 LYFHKAPNAKELHEETVRKLLALHMYDCARANKAMSAWGVEARVPF----LDKKFLDVAM 205 d1gpma1 152 ------------KDEVRKIGLELGLPYDMLYRHPFP------------------------ 175 :::::::::: :::::::::::: d1ct9a1 206 RINPQDKMCKMEKHILRECFEA-YLPASVAWRQKE-QFSDGVGYSWIDTLKEVAAQQVSD 263 d1gpma1 176 ------------------------------------------ 176 d1ct9a1 264 QQLETARFRFPYNTPTSKEAYLYREIFEELFPLPSAAECVPG 305 TMalign alignment (TM-score: 0.67 Raw score:116.75) d1gpma1 1 --------------WTPAKIIDDAVARIREQVGDD-KVILGLSGGVDSSVTAMLLHRAIG 45 ::: ::::::::::::::::: ::::::::::::::::::::::: d1ct9a1 1 RDWFDYDAVKDNVTDKN-ELRQALEDSVKSHLMSDVPYGVLLSGGLDSSIISAITKKYA- 58 d1gpma1 46 KNLTCVFVDNGLLRLNEAEQVLDMFGDHFGLNIVHVPAEDRFLSALA-----------GE 94 : ::::::::::: :::::: ::::::::::::::: ::::::: d1ct9a1 59 L--HSFAVGLPGSP--DLKAAQ-EVANHLGTVHHEIHF--TVQEGLDAIRDVIYHIET-- 109 d1gpma1 95 NDPEAKRKIIGRVFVEVFDEEALKLEDVKWLAQG-TI--YPD-----------------V 134 ::::::::::::::::::::::::: ::::: :: ::: : d1ct9a1 110 ---YDVTTIRASTPMYLMSRKIKAMGIK-MVLSGEGSDEVFGGYLYFHKAPNAKELHEET 165 d1gpma1 135 I-ESAA----------------KMGLVEPLK----E--L-------F-----KDEVRKIG 159 : :::: ::::::::: : : : :::::::: d1ct9a1 166 VRKLLALHMYDCARANKAMSAWGVEARVPFLDKKFLDVAMRINPQDKMCKMEKHILRECF 225 d1gpma1 160 LELGLPYDMLYRHPF--P------------------------------------------ 175 ::::::::::::::: : d1ct9a1 226 EAYLPASVAWRQKEQFSDGVGYSWIDTLKEVAAQQVSDQQLETARFRFPYNTPTSKEAYL 285 d1gpma1 176 -------------------- 176 d1ct9a1 286 YREIFEELFPLPSAAECVPG 305 HHsearch alignment (Probability: 0.99 E-value:0.00) d1gpma1 4 AKIIDDAVARIREQ-VGDDKVILGLSGGVDSSVTAMLLHRAIGKNLTCVFVDNGLLRLNE 62 :::::::::::::: ::::::::::::::::::::::::: :: :::::::::: :: d1ct9a1 17 NELRQALEDSVKSHLMSDVPYGVLLSGGLDSSIISAITKK-YA--LHSFAVGLPG---SP 70 d1gpma1 63 AEQVLDMFGDHFGLNIVHVPAED-RFLSALAGENDPE---AKRKIIGRVFVEVFDEEALK 118 ::::::::::::::::::::::: ::::::::::::: :::::::::::::::::::: d1ct9a1 71 DLKAAQEVANHLGTVHHEIHFTVQEGLDAIRDVIYHIETYDVTTIRASTPMYLMSRKIKA 130 d1gpma1 119 LEDVKWLAQGTIYPDVIESAAKMGLVEPLKELFKDEVRKI 158 ::::::::::::::::::::::::::::::::::::::: d1ct9a1 131 -MGIKMVLSGEGSDEVFGGYLYFHKAPNAKELHEETVRKL 169