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 | d1mrza2 | FMN adenylyltransferase domain of bifunctional FAD synthetase | Nucleotidylyl transferase | Adenine nucleotide alpha hydrolase-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 <-- 1.135 --> HitDALI alignment (Z-score: 6.7 Raw score:505.80) d1jmva_ 1 mykhILVAVDL---SEESPILLKKAVGIAKRHDAKLSIIHV-DVNFsdlytglidvnmss 56 ::::::: ::::::::::::::::::::::::::: :::: d1mrza2 1 ----VVSIGVFdgvHIGHQKVLRTMKEIAFFRKDDSLIYTIsYPPE----------yflp 46 d1jmva_ 57 mqdrisTETQKALLDLAESVdypisEKLSGSG------dlgqvlsDAIEqyDVDLLVTGH 110 :::::::::::::: ::::::: :::: ::::::::: d1mrza2 47 dfpgllMTVESRVEMLSRYA-----RTVVLDFfrikdltpegfveRYLS--GVSAVVVGR 99 d1jmva_ 111 hqdfwsklMSSTrqVMNT--IKIDMLVVPLRD---------------------------- 140 :::: :::: :::::::::::: d1mrza2 100 -dfrfgknASGN--ASFLrkKGVEVYEIEDVVvqgkrvssslirnlvqegrveeipaylg 156 d1jmva_ 141 - 141 d1mrza2 157 r 157 FAST alignment (Normalized score: 5.99 Raw score:888.30) d1jmva_ 1 MYKHILVAVD----LSEESPILLKKAVGIAKRHDAKLSIIHVDVNFSDLYTGLIDVNMSS 56 ::::: :::::::::::::::::::::::::::: d1mrza2 1 ----VVSIG-VFDGVHIGHQKVLRTMKEIAFFRKDDSLIYTI------------------ 37 d1jmva_ 57 MQDRIS------------------TETQKALLDLAESVDYPISEKLSGS-------GDLG 91 ::::::::: ::::::: :::: d1mrza2 38 ------SYPPEYFLPDFPGLLMTVESRVEMLSR--------YARTVVL-DFFRIKDLTPE 82 d1jmva_ 92 QVLSDAIEQYDVDLLVTGHHQDFWSKLMS------------STRQVMNTIKIDMLVVPLR 139 ::::::: :::::::: ::::::: ::::::::: d1mrza2 83 GFVERYL--SGVSAVVV------------GRDFRFGKNASGNASFLRK-KGVEVYEIE-- 125 d1jmva_ 140 D-------------------------------- 140 d1mrza2 126 -DVVVQGKRVSSSLIRNLVQEGRVEEIPAYLGR 157 TMalign alignment (TM-score: 0.57 Raw score:79.73) d1jmva_ 1 MYKHILVAVDLS--E-ESPILLKKAVGIAKRHDAKLSIIHV-DVNF----------SDLY 46 :::::::: : ::::::::::::::::::::::::: :::: d1mrza2 1 ----VVSIGVFDGVHIGHQKVLRTMKEIAFFRKDDSLIYTISYPPEYFLPDFPGLL---- 52 d1jmva_ 47 TGLIDVNMSSMQDRISTETQKALLDLAESVDYPISEKLSGS---GDLGQ-VLS-DAIEQY 101 :::::::::::: : :::::::: ::::: ::: :::: d1mrza2 53 ----------------MTVESRVEMLSR-Y---ARTVVLDFFRIKDLTPEGFVERYLS-- 90 d1jmva_ 102 DVDLLVTGHHQDFWSKLMSST----RQV-MNT-IK-IDMLVVPLRD-------------- 140 ::::::::: :: :: ::: ::: :: :::::::::: d1mrza2 91 GVSAVVVGR-------DF-RFGKNASGNASFLRKKGVEVYEIEDVVVQGKRVSSSLIRNL 142 d1jmva_ 141 --------------- 141 d1mrza2 143 VQEGRVEEIPAYLGR 157 HHsearch alignment (Probability: 0.36 E-value:0.01) d1jmva_ 13 EESPILLKKAVGIAKRHDAKLSIIHVDVNFSDLYTGLIDVNMSSMQDRISTETQKALLDL 72 :::::::::::::::::::::::::::::::::::::: :::::::: :::::::: d1mrza2 12 IGHQKVLRTMKEIAFFRKDDSLIYTISYPPEYFLPDFP-GLLMTVES-----RVEMLSRY 65 d1jmva_ 73 AESVDYPISEKLSGSGDLGQVLSDAIEQYDVDLLVTGHHQDFWSKLMSSTRQVMNTIKID 132 ::::::::: ::::::::::::::: ::::::::::::::::::::::: :::::::: d1mrza2 66 ARTVVLDFF--RIKDLTPEGFVERYL--SGVSAVVVGRDFRFGKNASGNAS-FLRKKGVE 120 d1jmva_ 133 MLVVP 137 ::::: d1mrza2 121 VYEIE 125