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 | d1jmva_ | Universal stress protein A, UspA | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1j9ja_ | SurE homolog TM1662 | SurE-like | SurE-like | α/β |
Query <-- 1.476 --> IntermediateDALI alignment (Z-score: 6.4 Raw score:517.70) query 1 dadeevysalvvglrayvaknGFRSVLIGLSGGIDSALVAAIACDALG--aqNVYGVSMP 58 ::::::::::::::::::::::::::: :::::::: d1jmva_ 1 ---------------------MYKHILVAVDLSEESPILLKKAVGIAKrhdaKLSIIHVD 39 query 59 S------------------kysSDHSKGDAAELARRTG---lNFRTVSIepmfdaymasl 97 : :::::::::::::::: ::::::: d1jmva_ 40 VnfsdlytglidvnmssmqdriSTETQKALLDLAESVDypisEKLSGSG----------- 88 query 98 gltglaeenlqsrLRGTTLMAISNQEGH-IVLAPGNKseLAVG--YSTL----ygdsvgA 150 ::::::::::::::: :::::::: :::: :::: : d1jmva_ 89 -------------DLGQVLSDAIEQYDVdLLVTGHHQ--DFWSklMSSTrqvmntikidM 133 query 151 YGPiKDVYktsifrlaewrnraaaergqtppipeasitkpdypvldailelyvdrdtgad 210 ::: :::: d1jmva_ 134 LVV-PLRD---------------------------------------------------- 140 query 211 aivaagydrelvvktlrmvdtaeykrrqyppgtkisakgfgkdrrlpitnrwregh 266 d1jmva_ 141 -------------------------------------------------------- 141 FAST alignment (Normalized score: 4.82 Raw score:930.50) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQ------NVYG 54 ::::::::::::::::::::::::: :::: d1jmva_ 1 ---------------------MYKHILVAVDLSEESPILLKKAVGI----AKRHDAKLSI 35 query 55 VSMPSKYSS-----------------------DHSKGDAAELAR--RTGL-NFRTVSIEP 88 :::: :::::::::::: :::: ::::: d1jmva_ 36 IHVD-----VNFSDLYTGLIDVNMSSMQDRISTETQKALLDLAESVDYPISEKLSG---- 86 query 89 MFDAYMASLGLTGLAEENLQSR--LRGTTLMAISNQEG-HIVLAPGNKSELAVGYSTLY- 144 :::::::::::::: :::::::: d1jmva_ 87 ----------------------SGDLGQVLSDAIEQYDVDLLVTGHH------------Q 112 query 145 ------------GDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDY 192 :::::: d1jmva_ 113 DFWSKLMSSTRQVMNTIK------------------------------------------ 130 query 193 PVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGK 252 d1jmva_ 131 ------------------------------------------------------------ 131 query 253 DRRLPITNRWREGH---------- 266 d1jmva_ 131 --------------IDMLVVPLRD 140 TMalign alignment (TM-score: 0.33 Raw score:88.21) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALG--AQNVYGVSMP 58 ::::::::::::::::::::::::::: :::::::::: d1jmva_ 1 ---------------------MYKHILVAVDLSEESPILLKKAVGIAKRHDAKLSIIHVD 39 query 59 SK---------------------YSSDHSKGDAAELARRT--GLNFRTVSIEPMFDAYMA 95 :: :: :::::::::::: ::::::::: d1jmva_ 40 VNFSDLYTGLIDVNMSSMQDRIS--TE-TQKALLDLAESVDYPISEKLSGS--------- 87 query 96 SLGLTGLAEENLQSRLRGTTLMAISNQEGH-IVLAPGNKSELAVGYSTLYGDS-VG---- 149 : ::::::::::::::: ::::::: ::::::::: ::: :: d1jmva_ 88 ------------G--DLGQVLSDAIEQYDVDLLVTGHH-QDFWSKLMS--STRQVMNTIK 130 query 150 --AYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDT 207 ::: :: : :: d1jmva_ 131 IDMLV-VP-L-RD----------------------------------------------- 140 query 208 GADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 266 d1jmva_ 141 ----------------------------------------------------------- 141 HHsearch alignment (Probability: 0.05 E-value:0.16) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSK 60 :::::::::::::::::::::::::::::::::::::::::::::: ::::: :::::: d1jmva_ 56 SMQDRISTETQKALLDLAESVDYPISEKLSGSGDLGQVLSDAIEQY-DVDLL--VTGHHQ 112 query 61 YSSDHSKGDAAELARRTGLNFRTVSIEP 88 :::::::::::::::::::::::::::: d1jmva_ 113 DFWSKLMSSTRQVMNTIKIDMLVVPLRD 140
Intermediate <-- 0.981 --> HitDALI alignment (Z-score: 5.7 Raw score:513.20) d1jmva_ 1 myKHILVAVDLseeSPILLKKAVGIAKrhDAKLSIIHVD-------vNFSD-LYTGLIDV 52 ::::::::: ::::::::::::: :::::::::: :::: :::::::: d1j9ja_ 1 --MRILVTNDDgiqSKGIIVLAELLSE--EHEVFVVAPDkersatghSITIhVPLWMKKV 56 d1jmva_ 53 NmssmqdristetqkalldlaesvDYPIsEKLSGSGDLGQVLSDAIEQY---DVDLLVTG 109 : :::: :::::::::::::::::::: :::::::: d1j9ja_ 57 F----------------------iSERV-VAYSTTGTPADCVKLAYNVVmdkRVDLIVSG 93 d1jmva_ 110 --hHQDFWSKLMSS----trQVMNTIKIDMLVVPLRD----------------------- 140 ::::::::::: ::::::::::::::::: d1j9ja_ 94 vnrGPNMGMDILHSgtvsgaMEGAMMNIPSIAISSANyespdfegaarflidflkefdfs 153 d1jmva_ 141 ------------------------------------------------------------ 141 d1j9ja_ 154 lldpftmlninvpageikgwrftrqsrrrwndyfeervspfgekyywmmgeviedddrdd 213 d1jmva_ 141 ---------------------------------- 141 d1j9ja_ 214 vdykavregyvsitpihpfltneqclkklrevyd 247 FAST alignment (Normalized score: 4.41 Raw score:819.90) d1jmva_ 1 MYKHILVAVDLSEE-----SPILLKKAVGIAKRHDAKLSIIHVDVNFSDLY--------- 46 ::::::: ::::::::::::: ::::::::: d1j9ja_ 1 --MRILVTN-----DDGIQSKGIIVLAELLSE--EHEVFVVAP--------DKERSATGH 43 d1jmva_ 47 -------TGLIDVNMSSMQDRISTETQKALLDLAESVDYPI------SEKLSGSGDLGQV 93 ::::: ::::::::::::: d1j9ja_ 44 SITIHVPLWMKK-----------------------------VFISERVVAYSTTGTPADC 74 d1jmva_ 94 LSDAIEQ---YDVDLLVTGHHQD--------FWSKLM-SSTRQVMN---TIKIDMLVVPL 138 ::::::: ::::::: :::::: :::::::: ::::::::::: d1j9ja_ 75 VKLAYNVVMDKRVDLIV------SGVNRGPNMGMDILHSGTVSGAMEGAMMNIPSIAISS 128 d1jmva_ 139 RD---------------------------------------------------------- 140 d1j9ja_ 129 --ANYESPDFEGAARFLIDFLKEFDFSLLDPFTMLNINVPAGEIKGWRFTRQSRRRWNDY 186 d1jmva_ 141 ------------------------------------------------------------ 141 d1j9ja_ 187 FEERVSPFGEKYYWMMGEVIEDDDRDDVDYKAVREGYVSITPIHPFLTNEQCLKKLREVY 246 d1jmva_ 141 - 141 d1j9ja_ 247 D 247 TMalign alignment (TM-score: 0.58 Raw score:81.07) d1jmva_ 1 MYKHILVAV-DLSEESPILLKKAVGIAKRHDAKLSIIHV--D--V--NFSDLYTGLIDVN 53 :: ::::: :::: ::::::::::::::: :::::::: : : :::::::: :::: d1j9ja_ 1 -MR-ILVTNDDGIQ-SKGIIVLAELLSEEH-EVFVVAPDKERSATGHSITIHVPL-WMKK 55 d1jmva_ 54 MSSMQDRISTETQKALLDLAESVDYP-ISEKLSGSGDLGQVLSDAIEQ-Y--DVDLLVTG 109 : :: :: ::::::::: ::::::::::: : :::::::: d1j9ja_ 56 ----------------V--FI---SERVVAYSTTGT-PADCVKLAYNVVMDKRVDLIVSG 93 d1jmva_ 110 -H-HQDFWSKLMSS--TR--QVMNTIKIDMLVVPL-R--D-------------------- 140 : ::::::::::: :: ::::::::::::::: : : d1j9ja_ 94 VNRGPNMGMDILHSGTVSGAMEGAMMNIPSIAISSANYESPDFEGAARFLIDFLKEFDFS 153 d1jmva_ 141 ------------------------------------------------------------ 141 d1j9ja_ 154 LLDPFTMLNINVPAGEIKGWRFTRQSRRRWNDYFEERVSPFGEKYYWMMGEVIEDDDRDD 213 d1jmva_ 141 ---------------------------------- 141 d1j9ja_ 214 VDYKAVREGYVSITPIHPFLTNEQCLKKLREVYD 247 HHsearch alignment (Probability: 0.01 E-value:0.56) d1jmva_ 82 EKLSGSGDLGQVLSDAI---EQYDVDLLVTGHHQD 113 ::::::::::::::::: ::::::::::::::: d1j9ja_ 63 VAYSTTGTPADCVKLAYNVVMDKRVDLIVSGVNRG 97