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 | d1jfla1 | Aspartate racemase | Aspartate/glutamate racemase | ATC-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 <-- 1.552 --> HitDALI alignment (Z-score: 4.9 Raw score:339.20) d1jmva_ 1 mYKHILVAV-DLSEESPILLKKAVG----iakRHDAKLSIIHV-DVNFsdlytglidvnm 54 :::::::: ::::::::::::::: ::::::::::: :::: d1jfla1 1 -MKTIGILGgMGPLATAELFRRIVIktpakrdQEHPKVIIFNNpQIPD------------ 47 d1jmva_ 55 ssmqdristetqkalldlaesvdypiseklsgsGDLGQVLSDAIEqYDVDLLVTGHHqdf 114 :::::::::::: ::::::::::: d1jfla1 48 --------------------rtayilgkgedprPQLIWTAKRLEE-CGADFIIMPCN--- 83 d1jmva_ 115 wsklmSSTRQVMNTIKIDMLVVP--------lrd 140 :::::::::::::::::: d1jfla1 84 --tahAFVEDIRKAIKIPIISMIeetakkvkelg 115 FAST alignment (Normalized score: 4.74 Raw score:601.30) d1jmva_ 1 MY-KHILVAVDLSE---ESPILLKKAVGIAKRH---------DAKLSIIHVDVNFSDLYT 47 :::::: :::::::::::::: ::::::::: d1jfla1 1 --MKTIGIL-----GGMGPLATAELFRRIVI--KTPAKRDQEHPKVIIFNN--------- 42 d1jmva_ 48 GLIDVNMSSMQDRISTETQKALLDLAESVDYPISEKLSGSG------------------- 88 d1jfla1 43 -----------------------------------------PQIPDRTAYILGKGEDPRP 61 d1jmva_ 89 DLGQVLSDAIEQYDVDLLVTGHHQDFW-SKLMSSTRQVMNTIKIDMLVVPLRD------- 140 :::::::::: :::::::::: :::::::::::::::::::: d1jfla1 62 QLIWTAKRLE-ECGADFIIMP------CNTAHAFVEDIRKAIKIPIIS-----MIEETAK 109 d1jmva_ 141 ------ 141 d1jfla1 110 KVKELG 115 TMalign alignment (TM-score: 0.46 Raw score:64.12) d1jmva_ 1 MYKHILVAV-DLSEES-PILLKKAV-GIAK----RHDAKLSIIHV-DVN----------- 41 :: :::::: :::::: : :::::: :::: :::::::::: ::: d1jfla1 1 MK-TIGILGGMGPLATAE-LFRRIVIKTPAKRDQ-EHPKVIIFNNPQIPDRTAYILGKGE 57 d1jmva_ 42 ---FSDLYTGLIDVNMSSMQDRISTETQKALLDLAESVDYPISEKLSGSGDLGQVLSDAI 98 ::::::::::: d1jfla1 58 DPR----------------------------------------------PQLIWTAKRLE 71 d1jmva_ 99 EQYDVDLLVTGHHQDFWSKLMSSTRQVMNTIKIDMLVVP--L--------RD 140 : ::::::::::: : ::: ::::::::::::::::: : d1jfla1 72 E-CGADFIIMPCN-T---AHA-FVEDIRKAIKIPIISMIEETAKKVKELG-- 115 HHsearch alignment (Probability: 0.01 E-value:0.20) d1jmva_ 97 AIEQYDVDLLVTGHHQDFWSKLMSSTRQVMNTIKIDMLV 135 ::::::::::::::::: ::::::::::::::::: d1jfla1 69 RLEECGADFIIMPCNTA-----HAFVEDIRKAIKIPIIS 102