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 | d1ig3a2 | Thiamin pyrophosphokinase, catalytic domain | Thiamin pyrophosphokinase, catalytic domain | Thiamin pyrophosphokinase, catalytic 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 <-- 0.650 --> HitDALI alignment (Z-score: 4.8 Raw score:404.80) d1jmva_ 1 -------------------------MYKHILVAVDLSEESPIlLKKAVGIAkrhdakLSI 35 ::::::::::::::::: :::::::: ::: d1ig3a2 1 hssglvprgshmehaftplepllptGNLKYCLVVLNQPLDAR-FRHLWKKA------LLR 53 d1jmva_ 36 IHVDvnfsdlytglidvnmssmqdristetqKALLDL---aESVDypiseKLSGSG---- 88 :::: :::::: :::: :::::: d1ig3a2 54 ACAD------------------------ggaNHLYDLtegeRESF---lpEFVSGDfdsi 86 d1jmva_ 89 ------------------------DLGQVLSDAIEQYD-----vDLLVTGH-HQDFWSKL 118 :::::::::::::: ::::::: :::::::: d1ig3a2 87 rpevkeyytkkgcdlistpdqdhtDFTKCLQVLQRKIEekelqvDVIVTLGgLGGRFDQI 146 d1jmva_ 119 MSSTRQVMNT---IKIDMLVVPLrd 140 :::::::::: :::::::::: d1ig3a2 147 MASVNTLFQAthiTPVPIIIIQK-- 169 FAST alignment (Normalized score: 4.47 Raw score:687.50) d1jmva_ 1 MY---------------------------KHILVAVD---LSEESPILLKKAVGIAKRHD 30 :::::::: :::::::::: d1ig3a2 1 --HSSGLVPRGSHMEHAFTPLEPLLPTGNLKYCLVVLNQPLDARFRHLWK---------- 48 d1jmva_ 31 AK--LSIIHVDVNFSDLYTGLIDVNMSSMQDRIS-TETQKALLDLAESVDYPISEKLSGS 87 ::::: :::::::::: d1ig3a2 49 --KALLRAC-------------------------ADGGANHLYDL--------------- 66 d1jmva_ 88 G-----------------------------------------------DLGQVLSDAIEQ 100 :::::::::::: d1ig3a2 67 -TEGERESFLPEFVSGDFDSIRPEVKEYYTKKGCDLISTPDQDHTDFTKCLQVLQRKIEE 125 d1jmva_ 101 --YDVDLLVTGHHQD---------FWSKLMSSTRQVMNTIKIDMLVVPLRD-- 140 :::::::: ::::::::::::::::::::::: d1ig3a2 126 KELQVDVIVT-----LGGLGGRFDQIMASVNTLFQATHITPVPIIII----QK 169 TMalign alignment (TM-score: 0.50 Raw score:70.24) d1jmva_ 1 --------------------------MYKHILVAVDLSEESPILLKKAVGIAKRHDAKLS 34 ::: :::::::: :::::::::: : :::: d1ig3a2 1 HSSGLVPRGSHMEHAFTPLEPLLPTGNLK-YCLVVLNQ-PLDARFRHLW--K----KALL 52 d1jmva_ 35 IIHVDV-NFSDLYTGLIDVNMSSMQDRISTET-QKALLDL-AESVDYPISEKLSG----- 86 :::::: :: :::::: ::: :::::::: d1ig3a2 53 RACADGG-----------------------ANH-LYDLTEG-ERE--SFLPEFVSGDFDS 85 d1jmva_ 87 -----------------SG---------DLGQVLSDAIEQY-DVD-LLVT-GHHQ--DF- 114 :: ::::::::::::: ::: :::: :::: :: d1ig3a2 86 IRPEVKEYYTKKGCDLISTPDQDHTDFTKCLQVLQRKIEEKELQVDVIVTLGGLGGRFDQ 145 d1jmva_ 115 WSKLMSSTRQVMNTIKIDMLVVPLRD 140 :::::::::::::::::::::: :: d1ig3a2 146 IMASVNTLFQATHITPVPIIII-QK- 169 HHsearch alignment (Probability: 0.25 E-value:0.01) d1jmva_ 71 DLAESVDYPISEKLSGSGDLGQVLSDAIEQYD------V-DLLVTGHHQDFWSKLMSSTR 123 :::::::::::::::::::::::::::::::: : :::::::::::::::::::: d1ig3a2 92 EYYTKKGCDLISTPDQDHTDFTKCLQVLQRKIEEKELQVDVIVTLGGLGGRFDQIMASVN 151 d1jmva_ 124 QVMNT---IKIDMLVVP 137 ::::: ::::::::: d1ig3a2 152 TLFQATHITPVPIIIIQ 168