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 | d1f3la_ | Arginine methyltransferase, HMT1 | S-adenosyl-L-methionine-dependent methyltransferases | S-adenosyl-L-methionine-dependent methyltransferases | α/β |
Query <-- 2.423 --> 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 <-- 0.852 --> HitDALI alignment (Z-score: 2.9 Raw score:401.10) d1gpma1 1 ---------------------------wtpakiIDDAVARiREQVGDDKVIL-GLSGgvd 32 ::::::: ::::::::::: :::: d1f3la_ 1 dlqededgvyfssyghygiheemlkdkvrtesyRDFIYQN-PHIFKDKVVLDvGCGT--- 56 d1gpma1 33 sSVTAMLLHRAIGKNLTCVFVDNgllrlneaEQVLDMFgDHFG----LNIVHVpaedrfl 88 :::::::::::::::::::::: ::::::: :::: :::::: d1f3la_ 57 -GILSMFAAKAGAKKVIAVDQSE------ilYQAMDII-RLNKledtIVLIKG------- 101 d1gpma1 89 salagendpeakrkiigrvfveVFDEEaLKLEDVKWLAQGTiypDVIESA---------- 138 ::::: ::::::::::::: :::::: d1f3la_ 102 ----------------------KIEEVsLPVEKVDVIISEW---MGYFLLfesmldsvly 136 d1gpma1 139 -------aKMGLVE---------------------------------------------- 145 :::::: d1f3la_ 137 akskylakGGSVYPdictislvavsdvskhadriafwddvygfnmscmkkavipeavvev 196 d1gpma1 146 ----------------------------------------------------------pl 147 d1f3la_ 197 vdhktlisdpcdikhidchttsisdlefssdftlrttktamctavagyfdiyfeknchnr 256 d1gpma1 148 kELFK-------------------------------------devrkiglelglpydmly 170 :::: d1f3la_ 257 vVFSTgpqstkthwkqtifllekpfpvkagealkgkitvhknkkdprslivtltlnsstq 316 d1gpma1 171 rhpfp 175 d1f3la_ 317 tyslq 321 FAST alignment (Normalized score: 2.31 Raw score:546.90) d1gpma1 1 WT-------------------------PAKIIDDAVARIRE---QVGDDKVILGLSGGVD 32 :::::::::::::: ::::::::: d1f3la_ 1 --DLQEDEDGVYFSSYGHYGIHEEMLKDKVRTESYRDFIYQNPHIFKDKVVLD------- 51 d1gpma1 33 S-----SVTAMLLHRAIGK--NLTCVFVDNGLLR-LNEAEQVLDMFGDHFG----LNIVH 80 ::::::::::: :::::: :::::::::: ::::: :::: d1f3la_ 52 -VGCGTGILSMFAAKAG--AKKVIAVD-------QSEILYQAMDI-IRLNKLEDTIVLI- 99 d1gpma1 81 VPAEDRFLSALAGENDPEAKRKIIG----------------------------RVFVEVF 112 ::::::: d1f3la_ 100 -------------------------KGKIEEVSLPVEKVDVIISEWMGYFLLFESMLDSV 134 d1gpma1 113 DEEALKLEDVKWLAQGTIYPDVIESAAKMGLVEPLKELFKDEVRKIGLELGLPYDMLYRH 172 ::::::: d1f3la_ 135 LYAKSKY----------------------------------------------------- 141 d1gpma1 173 PFP--------------------------------------------------------- 175 d1f3la_ 142 ---LAKGGSVYPDICTISLVAVSDVSKHADRIAFWDDVYGFNMSCMKKAVIPEAVVEVVD 198 d1gpma1 176 ------------------------------------------------------------ 176 d1f3la_ 199 HKTLISDPCDIKHIDCHTTSISDLEFSSDFTLRTTKTAMCTAVAGYFDIYFEKNCHNRVV 258 d1gpma1 176 ------------------------------------------------------------ 176 d1f3la_ 259 FSTGPQSTKTHWKQTIFLLEKPFPVKAGEALKGKITVHKNKKDPRSLIVTLTLNSSTQTY 318 d1gpma1 176 --- 176 d1f3la_ 319 SLQ 321 TMalign alignment (TM-score: 0.44 Raw score:76.99) d1gpma1 1 ---------------------------WT-PAKIIDDAVARIREQVGDDKVILGLSGGVD 32 : ::::::::::: :::::::::::::::: d1f3la_ 1 DLQEDEDGVYFSSYGHYGIHEEMLKDK-VRTESYRDFIYQN-PHIFKDKVVLDVGCGT-- 56 d1gpma1 33 SSVTAMLLHRAIGKNLTCVFVDNGLLRLNEAEQVLDMFGDHF-GL--NIVHVPAEDRFLS 89 :::::::::::: ::::::: : :: ::::::::: ::: :: ::::: : d1f3la_ 57 -GILSMFAAKAGA-KKVIAVD-Q-SE---ILYQAMDII-RLNKLEDTIVLIK-G------ 101 d1gpma1 90 ALAGENDPEAKRKIIGRVFVEVFDEEALKLEDVKWLAQGTIYPDVIES------------ 137 ::::: :: ::::::::::::: :: ::: d1f3la_ 102 -----------------KIEEV--SL--PVEKVDVIISEWM-GY-FLLFESMLDSVLYAK 138 d1gpma1 138 ----AAK--MGLVEP--------------------------------------------- 146 : :::::: d1f3la_ 139 SKYL--AKGGSVYPDICTISLVAVSDVSKHADRIAFWDDVYGFNMSCMKKAVIPEAVVEV 196 d1gpma1 147 --------------------------------------------------LK-------- 148 :: d1f3la_ 197 VDHKTLISDPCDIKHIDCHTTSISDLEFSSDFTLRTTKTAMCTAVAGYFDIYFEKNCHNR 256 d1gpma1 149 -ELFK----DEVR----------------------------------------------- 156 :::: :::: d1f3la_ 257 VVFSTGPQSTKTHWKQTIFLLEKPFPVKAGEALKGKITVHKNKKDPRSLIVTLTLNSSTQ 316 d1gpma1 157 -----KIGLELGLPYDMLYRHPFP 175 d1f3la_ 317 TYSLQ------------------- 321 HHsearch alignment (Probability: 0.06 E-value:0.32) d1gpma1 18 VGDDKVILGLSGGVDSSVTAMLLHRAIGKNLTCVFVDNGLLRLNEAEQVLDMFGDHFGLN 77 ::::::::::::: ::::::::::::::::::::: ::::::::::::::::: d1f3la_ 43 IFKDKVVLDVGCG--TGILSMFAAKAGAKKVIAVDQ-------SEILYQAMDIIRLNKLE 93