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_Ad1.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1ii7a_ | Mre11 | Metallo-dependent phosphatases | Metallo-dependent phosphatases | α+β |
| Hit | d1nrza_ | Sorbose permease subunit IIb , EIIb-sor | PTS IIb component | PTS IIb component | α/β |
Query <-- 1.019 --> IntermediateDALI alignment (Z-score: 7.3 Raw score:827.30) query 1 slqLRLALNQIDSTVGD-------IAGNAEAILRWTRHSAEQGAHLVAFPEMAlTGYPVe 53 :::::::::::::: ::::::::::::::::::::::::::::: ::::: d1ii7a_ 1 ---MKFAHLADIHLGYEqfhkpqrEEEFAEAFKNALEIAVQENVDFILIAGDL-FHSSR- 55 query 54 dlalrssFVEASRTALRELAARLAeegFGELPVLvgyldrsesaqpkygqpagAPRNAAa 113 ::::::::::::::::: ::::::: :::::: d1ii7a_ 56 -------PSPGTLKKAIALLQIPK---EHSIPVF---------aiegnhdrtqRGPSVLn 96 query 114 vlhrgRVALTfakhhlpnygvfdefryfvPGDT-----------------MPIVRLHGVD 156 ::::: :::: :::::::::: d1ii7a_ 97 lledfGLVYV-----------------igMRKEkveneyltserlgngeyLVKGVYKDLE 139 query 157 IALAICE----dlwQDGGRVPAARsagaGLLLSV---naspyERDKDDTRleLVRKRAqE 209 ::::::: :::::::::: :::::: :::::::: :::::: : d1ii7a_ 140 IHGMKYMssawfeaNKEILKRLFRptdnAILMLHqgvrevseARGEDYFE--IGLGDL-P 196 query 210 AGC-TTAYLAmiggqdelvFDGDsivvdrDGEVVARA----------------------- 245 ::: :::::: :::: :::::::: d1ii7a_ 197 EGYlYYALGH--------iHKRY---etsYSGSPVVYpgslerwdfgdyevryewdgikf 245 query 246 ---pqFSEGCVVLDLDlpaaeaepptgvvddglridrlviseeplpayeaeLAGG----- 297 ::::::::::: :::: d1ii7a_ 246 kerygVNKGFYIVEDF-----------------------------------KPRFveikv 270 query 298 ----------------------------------------------------------ya 299 d1ii7a_ 271 rpfidvkikgseeeirkaikrliplipknayvrlnigwrkpfdlteikellnveylkidt 330 query 300 drl 302 d1ii7a_ 331 wri 333 FAST alignment (Normalized score: 3.97 Raw score:1260.00) query 1 SLQLRLALNQIDSTVG--------------DIAGNAEAILRWTRHSAEQGAHLVAFPEMA 46 :::::: :::::::::::::::::::::::::::::: d1ii7a_ 1 ---MKFAHL-------ADIHLGYEQFHKPQREEEFAEAFKNALEIAVQENVDFILIAGDL 50 query 47 LTGYPVEDLALRSSF------VEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPK 100 ::::::::::::::::: ::::::: d1ii7a_ 51 ---------------FHSSRPSPGTLKKAIALLQIPKE---HSIPVFA------------ 80 query 101 YGQPAGAPRNAAAVLHRGRVALTFAKHHLPNYGVFDEFRYFVPG---------------- 144 d1ii7a_ 81 --------------------------------------------IEGNHDRTQRGPSVLN 96 query 145 -------------------------------DTMPIVRLHGVDIALAICEDLW------- 166 ::::::::::::::::: d1ii7a_ 97 LLEDFGLVYVIGMRKEKVENEYLTSERLGNGEYLVKGVYKDLEIHGMK-----YMSSAWF 151 query 167 --QDGGRVPAARSAGA------GLLLSVNASPYERDKDDT--------------RLELVR 204 :::::::: ::::::::: :::: d1ii7a_ 152 EANKEILKRL------FRPTDNAILMLHQGV---------REVSEARGEDYFEIGLGD-- 194 query 205 KRAQEA----GCTTAYLAMIGGQDELVFD---GDSIVVDRDGEVVARAPQ---------- 247 :::::: :::::: d1ii7a_ 195 ------LPEGYLYYAL-------------GHIHKRYET------------SYSGSPVVYP 223 query 248 ---------------------------FSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRL 280 :::::::: d1ii7a_ 224 GSLERWDFGDYEVRYEWDGIKFKERYGVNKGFYIV------------------------- 258 query 281 VISEEPLPAYEAELAGGYADRL-------------------------------------- 302 d1ii7a_ 259 ----------------------EDFKPRFVEIKVRPFIDVKIKGSEEEIRKAIKRLIPLI 296 query 303 ------------------------------------- 303 d1ii7a_ 297 PKNAYVRLNIGWRKPFDLTEIKELLNVEYLKIDTWRI 333 TMalign alignment (TM-score: 0.49 Raw score:148.88) query 1 SLQLRLALNQIDSTVGD-------IAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVE 53 :::::::::::::: ::::::::::::::::::::::::::::: :: : d1ii7a_ 1 ---MKFAHLADIHLGYEQFHKPQREEEFAEAFKNALEIAVQENVDFILIAGDL-FH--S- 53 query 54 DLALRSSFVEASRTALRELAARLAEEGFGELPVLVGY---LDRSESAQPKYGQPAGAPRN 110 : :::::::::::::::::: :: :::::::: ::: ::::: d1ii7a_ 54 --S---RPSPGTLKKAIALLQIPK--EH-SIPVFAIEGNHDRT------------QRGPS 93 query 111 AAAVLHRGRVALTFAKH---------------HLPNYGVFDEFRYFVPGDTMPIVRLHGV 155 ::::::::::::::::: ::::::::::::: d1ii7a_ 94 VLNLLEDFGLVYVIGMRKEKVENEYLTSERLG---------------NGEYLVKGVYKDL 138 query 156 DIALAICEDL--W--QDGGRVPAARSAGAGLLLSVNASP--YERDKDDT-R-LELVRKRA 207 :::::::::: : ::::::::::: :::::::::::: :::::::: : ::::::: d1ii7a_ 139 EIHGMKYMSSAWFEANKEILKRLFRP-TDNAILMLHQGVREVSEARGEDYFE-IGLGDLP 196 query 208 QEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGEVVARAPQ--------F----------- 248 : :::::::::: :::::::: ::::::::: : d1ii7a_ 197 E--GYLYYALGHI-------HKRYETSY---SGSPVVYPGSLERWDFGDYEVRYEWDGIK 244 query 249 ------S-EGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYA-- 299 : ::::::::: ::::: d1ii7a_ 245 FKERYGVNKGFYIVEDF------------------------------------KPRFVEI 268 query 300 ------------------------------------------------------------ 300 d1ii7a_ 269 KVRPFIDVKIKGSEEEIRKAIKRLIPLIPKNAYVRLNIGWRKPFDLTEIKELLNVEYLKI 328 query 300 -----DRL 302 d1ii7a_ 329 DTWRI--- 333 HHsearch alignment (Probability: 0.10 E-value:0.03) query 19 AGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSSFVEASRTALRELAARLAE 78 :::::::::::::::::::::::::: ::::::::::::::::::::::::: d1ii7a_ 23 EEFAEAFKNALEIAVQENVDFILIAG---------DLFHSSRPSPGTLKKAIALLQIPKE 73 query 79 EGFGELPVLVG 89 ::: ::::::: d1ii7a_ 74 HSI-PVFAIEG 83
Intermediate <-- 0.674 --> HitDALI alignment (Z-score: 1.3 Raw score:232.20) d1ii7a_ 1 --MKFAHLAD-------------------------------------------------- 8 :::::::: d1nrza_ 1 mqITLARIDDrlihgqvttvwskvanaqriiicnddvfndevrrtllrqaappgmkvnvv 60 d1ii7a_ 9 -----ihlgyeqfhkpqreeefaeaFKNALEIAVQ-ENVDFILIAGdLFHSSRPS----- 57 :::::::::: :::::::::: :::::::: d1nrza_ 61 slekavavyhnpqyqdetvfylftnPHDVLTMVRQgVQIATLNIGG-MAWRPGKKqltka 119 d1ii7a_ 58 pgTLKKAIALLQIPKEHSIPVFAIEgnhdrtqrgpsvlnlLEDFGlvyvigmrkekvene 117 ::::::::::::::::::::::: ::::: d1nrza_ 120 vsLDPQDIQAFRELDKLGVKLDLRV------vasdpsvniLDKIN--------------- 158 d1ii7a_ 118 yltserlgngeylvkgvykdleihgmkymssawfeankeilkrlfrptdnailmlhqgvr 177 d1nrza_ 159 ------------------------------------------------------------ 159 d1ii7a_ 178 evseargedyfeiglgdlpegylyyalghihkryetsysgspvvypgslerwdfgdyevr 237 d1nrza_ 159 ------------------------------------------------------------ 159 d1ii7a_ 238 yewdgikfkerygvnkgfyivedfkprfveikvrpfidvkikgseeeirkaikrliplip 297 d1nrza_ 159 ------------------------------------------------------------ 159 d1ii7a_ 298 knayvrlnigwrkpfdlteikellnveylkidtwri 333 d1nrza_ 159 -------------------------------etafc 163 FAST alignment (Normalized score: 1.05 Raw score:244.20) d1ii7a_ 1 MK---FAHLADIHLGYEQFHKPQREEE------FAEAFKNALEIAVQENVDFILIAGDLF 51 :::: ::::::::::: d1nrza_ 1 --MQITLAR------------------IDDRLIHGQVTTVWSKV---------------- 24 d1ii7a_ 52 HSSRPSPGTLKKAIALLQIPKEHS---IPVFAIEGNHDRTQRGP----SVLNLLEDFG-- 102 ::::: ::::: :::::::: d1nrza_ 25 ------------------------ANAQRIII-CNDDV------FNDEVRRTLLRQ--AA 51 d1ii7a_ 103 ----LVYVIGMRKEKVENEYLTSERLGNGEYLVKGVYKDLEIHGMKYMSSAWFEANKEIL 158 :::: d1nrza_ 52 PPGMKVNV---------------------------------------------------- 59 d1ii7a_ 159 KRLFRPTDNAILMLHQGVREVSEARGEDYFEIGLGDLP---------------------- 196 d1nrza_ 60 --------------------------------------VSLEKAVAVYHNPQYQDETVFY 81 d1ii7a_ 197 ---------------EGYLYYALGHIHKRYETSY-------------------------- 215 :::::::: d1nrza_ 82 LFTNPHDVLTMVRQGVQIATLNI-----------GGMAWRPGKKQLTKAVSLDPQDIQAF 130 d1ii7a_ 216 -----SGSPVVYPGSLERWDFGDYEVRYEWDGIKFKERYGVNKGFYIVEDFKPRFVEIKV 270 :::::::: d1nrza_ 131 RELDKLGVKLDLR----------------------------------------------- 143 d1ii7a_ 271 RPFIDVKIKGSEEEIRKAIKRLIPLIPKNAYVRLNIGWRKPFDLTEIKELLNVEYLKIDT 330 d1nrza_ 144 ------------------------------------------------------------ 144 d1ii7a_ 331 WRI-------------------- 333 d1nrza_ 144 ---VVASDPSVNILDKINETAFC 163 TMalign alignment (TM-score: 0.26 Raw score:87.25) d1ii7a_ 1 MKFAHLADIHLGYEQFHKPQREEEFAEAFKNALEIAVQENVDFILIAGDLFHSSRPSPGT 60 ::::::::::: :: d1nrza_ 1 MQITLARIDDR--------------------------------------LI--------- 13 d1ii7a_ 61 LKKAIALLQIPKEHSIPVFAIE-GNHDRTQRG-PSVLNLLEDFGLVYVIGMRKEKVENEY 118 ::::::::::::::::::: ::::::::: :::::::: ::::::: d1nrza_ 14 ---HGQVTTVWSKVANAQRIIICNDDVFNDEVRRTLLRQAA-PPGMKVN----------- 58 d1ii7a_ 119 LTSERLGNGEYLVKGVYKDLEIHGMKYMSSAWF--EANKEILK-RLFRPTDNAILM-LHQ 174 :::: : : :: :::::::::: d1nrza_ 59 ------------------------VVSL-E--KAV------AVY--HNPQYQDETVF--- 80 d1ii7a_ 175 GVREVSEARGEDYFEIGLGDLPEGYLYYALGHIHK-RY--ETSYSGSPVVY-PGSL---- 226 ::::::: :: ::: :::: :::: d1nrza_ 81 ----------------------------YLFTNPHDVLTMVRQ----GVQIATLNIGGMA 108 d1ii7a_ 227 -----------ERWDFGDYE-VRYEWDGIKFKERYGVNK--GFYIVEDFKPRFVEI---- 268 ::::::::: ::::: :::::: d1nrza_ 109 WRPGKKQLTKAVSLDPQDIQA-------------FRELDKL---------GVKLDLRVVA 146 d1ii7a_ 269 ----K-VR-PFIDVKIKGSEEEIRKAIKRLIPLIPKNAYV-RLNIGWRKPFDLTEIKELL 321 : :: ::: :: : : d1nrza_ 147 SDPSVNILDKIN---------------------ET--A-FC------------------- 163 d1ii7a_ 322 NVEYLKIDTWRI 333 d1nrza_ 164 ------------ 164 HHsearch alignment (Probability: 0.01 E-value:0.16) d1ii7a_ 302 VRLNIGWRKPFDLTEIKELLN 322 ::::::::::::::::::::: d1nrza_ 138 VKLDLRVVASDPSVNILDKIN 158