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 | 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 <-- 0.827 --> IntermediateDALI alignment (Z-score: 7.9 Raw score:512.80) query 1 slqlrlalnqidstvgdiagnaeailrwtrhsaeqgahlvafpemaltgypvedlalrss 60 d1jmva_ 1 ------------------------------------------------------------ 1 query 61 fveasrtalrelaarlaeegfgelpvlvgyldrsesaqpkygqpagaprnaaavlhrgrv 120 d1jmva_ 1 ------------------------------------------------------------ 1 query 121 altfakhhlpnygvfdefryfvpgdtmpivrlhgvdialaicedlwqdggrvpaarsaga 180 d1jmva_ 1 ------------------------------------------------------------ 1 query 181 glllsvnaspyerdkddtrlelvrkraqeagcttaylamiggqdelvfdgdsivvdrdge 240 d1jmva_ 1 ------------------------------------------------------------ 1 query 241 vvarapqfsegcvvldldlpaaeaepptgvvddglridrlviseeplpayeaelaggyad 300 d1jmva_ 1 ------------------------------------------------------------ 1 query 301 rldadeevysalvvglrayvaknGFRSVLIGLSGGIDSALVAAIACDALG--aqNVYGVS 358 ::::::::::::::::::::::::::: :::::: d1jmva_ 1 -----------------------MYKHILVAVDLSEESPILLKKAVGIAKrhdaKLSIIH 37 query 359 MPS------------------kysSDHSKGDAAELARRTG---lNFRTVSIepmfdayma 397 ::: :::::::::::::::: ::::::: d1jmva_ 38 VDVnfsdlytglidvnmssmqdriSTETQKALLDLAESVDypisEKLSGSG--------- 88 query 398 slgltglaeenlqsrLRGTTLMAISNQEGH-IVLAPGNKseLAVGYS------tlygdsv 450 ::::::::::::::: :::::::: :::::: d1jmva_ 89 ---------------DLGQVLSDAIEQYDVdLLVTGHHQ--DFWSKLmsstrqvmntiki 131 query 451 gAYGPiKDVYktsifrlaewrnraaaergqtppipeasitkpdypvldailelyvdrdtg 510 :::: :::: d1jmva_ 132 dMLVV-PLRD-------------------------------------------------- 140 query 511 adaivaagydrelvvktlrmvdtaeykrrqyppgtkisakgfgkdrrlpitnrwregh 568 d1jmva_ 141 ---------------------------------------------------------- 141 FAST alignment (Normalized score: 3.30 Raw score:930.50) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1jmva_ 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1jmva_ 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1jmva_ 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1jmva_ 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1jmva_ 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQ------NV 354 ::::::::::::::::::::::::: :: d1jmva_ 1 -----------------------MYKHILVAVDLSEESPILLKKAVGI----AKRHDAKL 33 query 355 YGVSMPSKYSS-----------------------DHSKGDAAELAR--RTGL-NFRTVSI 388 :::::: :::::::::::: :::: ::::: d1jmva_ 34 SIIHVD-----VNFSDLYTGLIDVNMSSMQDRISTETQKALLDLAESVDYPISEKLSG-- 86 query 389 EPMFDAYMASLGLTGLAEENLQSR--LRGTTLMAISNQEG-HIVLAPGNKSELAVGYSTL 445 :::::::::::::: :::::::: d1jmva_ 87 ------------------------SGDLGQVLSDAIEQYDVDLLVTGHH----------- 111 query 446 Y-------------GDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKP 492 :::::: d1jmva_ 112 -QDFWSKLMSSTRQVMNTIK---------------------------------------- 130 query 493 DYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGF 552 d1jmva_ 131 ------------------------------------------------------------ 131 query 553 GKDRRLPITNRWREGH---------- 568 d1jmva_ 131 ----------------IDMLVVPLRD 140 TMalign alignment (TM-score: 0.17 Raw score:95.23) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1jmva_ 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1jmva_ 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1jmva_ 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1jmva_ 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1jmva_ 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALG--AQNVYGVS 358 ::::::::::::::::::::::::::: :::::::: d1jmva_ 1 -----------------------MYKHILVAVDLSEESPILLKKAVGIAKRHDAKLSIIH 37 query 359 MPSK---------------------YSSDHSKGDAAELARRT--GLNFRTVSIEPMFDAY 395 :::: :: :::::::::::: ::::::::: d1jmva_ 38 VDVNFSDLYTGLIDVNMSSMQDRIS--TE-TQKALLDLAESVDYPISEKLSGS------- 87 query 396 MASLGLTGLAEENLQSRLRGTTLMAISNQEGH-IVLAPGNKSELAVGYSTLYGDS-VG-- 451 : ::::::::::::::: ::::::: ::::::::: ::: :: d1jmva_ 88 --------------G--DLGQVLSDAIEQYDVDLLVTGHH-QDFWSKLMS--STRQVMNT 128 query 452 ----AYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDR 507 ::: :: : :: d1jmva_ 129 IKIDMLV-VP-L-RD--------------------------------------------- 140 query 508 DTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREG 567 d1jmva_ 141 ------------------------------------------------------------ 141 query 568 H 568 d1jmva_ 141 - 141 HHsearch alignment (Probability: 0.04 E-value:0.35) query 19 AGNAEAILRWTRHSAEQGAHLVAF------PEMALTGYPVEDLALRSSFVEASRTALREL 72 :::::::::::::::::::::::: :::::::::::::::::::::::::::::: d1jmva_ 13 EESPILLKKAVGIAKRHDAKLSIIHVDVNFSDLYTGLIDVNMSSMQDRISTETQKALLDL 72 query 73 AAR 75 ::: d1jmva_ 73 AES 75
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