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 | d1pfka_ | ATP-dependent phosphofructokinase | Phosphofructokinase | Phosphofructokinase | 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 <-- 1.870 --> HitDALI alignment (Z-score: 4.5 Raw score:401.70) d1jmva_ 1 MYKHILVAV--dlSEESPILLKKAVGIAKRHDAKLSIIHVdvnfsdlytgLIDVnmssmq 58 ::::::::: ::::::::::::::::::::::::::: :::: d1pfka_ 1 MIKKIGVLTsggdAPGMNAAIRGVVRSALTEGLEVMGIYD-----gylglYEDR------ 49 d1jmva_ 59 dristetqkalldlaESVD----------ypiseklsgsgdlGQVLSDAIEQYDVDLLVT 108 :::: :::::::::::::::::: d1pfka_ 50 ---------mvqldrYSVSdminrggtflgsarfpefrdeniRAVAIENLKKRGIDALVV 100 d1jmva_ 109 GHHqdfwsKLMSSTRQVMNTiKIDMLVVPLRD---------------------------- 140 ::: :::::::::::: ::::::::::: d1pfka_ 101 IGG----dGSYMGAMRLTEM-GFPCIGLPGTIdndikgtdytigfftalstvveaidrlr 155 d1jmva_ 141 ------------------------------------------------------------ 141 d1pfka_ 156 dtssshqrisvvevmgrycgdltlaaaiaggcefvvvpevefsredlvneikagiakgkk 215 d1jmva_ 141 ------------------------------------------------------------ 141 d1pfka_ 216 haivaitehmcdvdelahfieketgretratvlghiqrggspvpydrilasrmgayaidl 275 d1jmva_ 141 --------------------------------------------- 141 d1pfka_ 276 llagyggrcvgiqneqlvhhdiidaienmkrpfkgdwldcakkly 320 FAST alignment (Normalized score: 3.88 Raw score:822.00) d1jmva_ 1 MYKHILVAV---DLSEESPILLKKAVGIAKRHDAKLSIIHVDVNFSDLYTGLIDVNMSSM 57 :::::::: ::::::::::::::::::::::::::: d1pfka_ 1 MIKKIGVL-TSGGDAPGMNAAIRGVVRSALTEGLEVMGI--------------------- 38 d1jmva_ 58 QDRISTETQKALLDLAESVDYPISEKLSGSG----------------------------- 88 d1pfka_ 39 -------------------------------YDGYLGLYEDRMVQLDRYSVSDMINRGGT 67 d1jmva_ 89 -------------DLGQVLSDAIEQYDVDLLVTGHHQDFWSKLMSSTRQVMNTIKIDMLV 135 :::::::::::::::::::::: ::::::::::::: ::::::: d1pfka_ 68 FLGSARFPEFRDENIRAVAIENLKKRGIDALVVIG----GDGSYMGAMRLTE-MGFPCIG 122 d1jmva_ 136 VPLRD------------------------------------------------------- 140 ::: d1pfka_ 123 LPG--TIDNDIKGTDYTIGFFTALSTVVEAIDRLRDTSSSHQRISVVEVMGRYCGDLTLA 180 d1jmva_ 141 ------------------------------------------------------------ 141 d1pfka_ 181 AAIAGGCEFVVVPEVEFSREDLVNEIKAGIAKGKKHAIVAITEHMCDVDELAHFIEKETG 240 d1jmva_ 141 ------------------------------------------------------------ 141 d1pfka_ 241 RETRATVLGHIQRGGSPVPYDRILASRMGAYAIDLLLAGYGGRCVGIQNEQLVHHDIIDA 300 d1jmva_ 141 -------------------- 141 d1pfka_ 301 IENMKRPFKGDWLDCAKKLY 320 TMalign alignment (TM-score: 0.53 Raw score:74.83) d1jmva_ 1 MYKHILVAVDL-S-EESPILLKKAVGIAKRHDAKLSIIHVDVN--FSDLYTGLIDVNMSS 56 ::::::::::: : ::::::::::::::::::::::::::::: : :::::: d1pfka_ 1 MIKKIGVLTSGGDAPGMNAAIRGVVRSALTEGLEVMGIYDGYLGL----Y-EDRMVQ--- 52 d1jmva_ 57 MQDRISTETQKALL-DLAESVD---------YPISEK-LSG-S-GDL---GQ-VLSDAIE 99 : ::::: : :: : ::: :: ::::::: d1pfka_ 53 -------------LD--RYSVSDMINRGGTF-----LG-SARFPEFRDENIRAVAIENLK 91 d1jmva_ 100 QYDVDLLVTGHHQDFWSKLMSSTRQVMNTIKIDMLVVPL------------RD------- 140 :::::::::::: : :::::::::::::: ::::::: :: d1pfka_ 92 KRGIDALVVIGG-D---GSYMGAMRLTEMGF-PCIGLPGTIDNDIKGTDYTIGFFTALST 146 d1jmva_ 141 ------------------------------------------------------------ 141 d1pfka_ 147 VVEAIDRLRDTSSSHQRISVVEVMGRYCGDLTLAAAIAGGCEFVVVPEVEFSREDLVNEI 206 d1jmva_ 141 ------------------------------------------------------------ 141 d1pfka_ 207 KAGIAKGKKHAIVAITEHMCDVDELAHFIEKETGRETRATVLGHIQRGGSPVPYDRILAS 266 d1jmva_ 141 ------------------------------------------------------ 141 d1pfka_ 267 RMGAYAIDLLLAGYGGRCVGIQNEQLVHHDIIDAIENMKRPFKGDWLDCAKKLY 320 HHsearch alignment (Probability: 0.83 E-value:0.00) d1jmva_ 1 MYKHILVAVDLSEE--SPILLKKAVGIAKRHDAKLSIIHVDVNFSDLYTGLIDVNMSSMQ 58 :::::::::::::: ::::::::::::::::::::::: ::::::::::::::: d1pfka_ 1 MIKKIGVLTSGGDAPGMNAAIRGVVRSALTEGLEVMGIY------DGYLGLYEDRMVQLD 54 d1jmva_ 59 DRISTETQKALLDLAESVDYPISEK---LSGSGDLGQVLSDAIEQYDVDLL-VTGHHQDF 114 :: :::::::::::::::: ::::::::::::::::::::::: :::::::: d1pfka_ 55 RY-------SVSDMINRGGTFLGSARFPEFRDENIRAVAIENLKKRGIDALVVIGGDGSY 107 d1jmva_ 115 WSKLMSSTRQVMNTIKIDMLVVPL 138 :::::::::::::::::: d1pfka_ 108 ------MGAMRLTEMGFPCIGLPG 125