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 | d1lvla2 | Dihydrolipoamide dehydrogenase | FAD/NAD(P)-binding domain | FAD/NAD(P)-binding domain | 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 <-- 0.874 --> HitDALI alignment (Z-score: 3.3 Raw score:275.80) d1jmva_ 1 -------------------MYKHILVAVdlseeSPILLKKAVGIAKRhDAKLSIIHVdvn 41 ::::::::: :::::::::::::: ::::::::: d1lvla2 1 mlplggpvisstealapkaLPQHLVVVG----gGYIGLELGIAYRKL-GAQVSVVEA--- 52 d1jmva_ 42 fsdlytglidvnmssmqdristetQKAL---------ldLAESV-DYPIsEKLSGsgdlg 91 :::: ::::: :::: ::::: d1lvla2 53 ------------------------RERIlptydseltapVAESLkKLGI-ALHLG----- 82 d1jmva_ 92 qVLSD-------------aiEQYDVDLLVTGhhqdfwsklmsstrqvmntikidmlvvpl 138 :::: ::::::::::: d1lvla2 83 hSVEGyengcllandgkggqLRLEADRVLVA----------------------------- 113 d1jmva_ 139 rd 140 d1lvla2 114 vg 115 FAST alignment (Normalized score: 3.60 Raw score:456.60) d1jmva_ 1 -------------------MYKHILVAVDLSEE---SPILLKKAVGIAKRHDAKLSIIHV 38 ::::::: ::::::::::::: ::::::::: d1lvla2 1 MLPLGGPVISSTEALAPKALPQHLVV-------VGGGYIGLELGIAYRK-LGAQVSVVE- 51 d1jmva_ 39 DVNFSDLYTGLIDVNMSSMQDRISTE---------TQKALLDLAES--VDYPISEKLSGS 87 :::::::::: :::: :::: d1lvla2 52 --------------------------ARERILPTYDSELTAPVAE-SLKKLG-IALH--- 80 d1jmva_ 88 GDLGQVLSDAI----------------------EQYDVDLLVTGHHQDFWSKLMSSTRQV 125 :::::::::::: d1lvla2 81 -----------LGHSVEGYENGCLLANDGKGGQLRLEADRVLVAV--------------- 114 d1jmva_ 126 MNTIKIDMLVVPLRD- 140 d1lvla2 115 ---------------G 115 TMalign alignment (TM-score: 0.40 Raw score:55.83) d1jmva_ 1 -------------------MYKHILVAVDLSEESPILLKKAVGIAKRHDAKLSIIHVDVN 41 ::::::::: : :::::::::::::: ::::::::: d1lvla2 1 MLPLGGPVISSTEALAPKALPQHLVVVG-G---GYIGLELGIAYRKL-GAQVSVVEA--- 52 d1jmva_ 42 FSDLYTGLIDVNMSSMQDRISTETQKAL--------LD-LAESV-DYPISEKLSGSGDLG 91 :: :: :: ::::: ::::::::::: : d1lvla2 53 -----------------------RE-RILPTYDSELTAPVAESLKKLGIALHLGHS--V- 85 d1jmva_ 92 QVL----SDA-------IEQYDVDLLVTGHHQDFWSKLMSSTRQVMNTIKIDMLVVPLRD 140 ::: ::: ::::::::::::: d1lvla2 86 EGYENGCLLANDGKGGQ-LRLEADRVLVAVG----------------------------- 115 HHsearch alignment (Probability: 0.23 E-value:0.00) d1jmva_ 17 ILLKKAVGIAKRHDAKLSIIHVDVNFSDLYTGLIDVNMSSMQDRISTETQKALLDLAESV 76 ::::::::::: :::::::::::::: ::::::::::::::::::: d1lvla2 32 IGLELGIAYRK-LGAQVSVVEARERI---------------LPTYDSELTAPVAESLKKL 75 d1jmva_ 77 DYPISEKLSGSGDLGQVLS-----DAIEQYDVDLLVTGH 110 ::::::::::::::::::: ::::::::::::::: d1lvla2 76 GIALHLGHSVEGYENGCLLANDGKGGQLRLEADRVLVAV 114