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 | d1q77a_ | Hypothetical protein Aq 178 | Adenine nucleotide alpha hydrolases-like | 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 <-- 1.543 --> HitDALI alignment (Z-score: 11.1 Raw score:696.40) d1jmva_ 1 -MYKHILVAVDL-SEESPILLKKAVGIAKRHDAKLSIIHVDV--NFSDLytglidvnmss 56 ::::::::::: ::::::::::::::::::::::::::::: ::::: d1q77a_ 1 sNAMKVLLVLTDaYSDCEKAITYAVNFSEKLGAELDILAVLEdvYNLER---anvtfglp 57 d1jmva_ 57 mqdriSTETQKALLDLAESVD------yPISEKLSGSGDLGQVLSDAIEQYDVDLLVTGH 110 :::::::::::::::: :::::::::::::::::::::::::::::::: d1q77a_ 58 fppeiKEESKKRIERRLREVWekltgstEIPGVEYRIGPLSEEVKKFVEGKGYELVVWAC 117 d1jmva_ 111 hqdfwskLMSSTRQVMNTIKIDMLVVPlrd 140 :::::::::::::::::::: d1q77a_ 118 ------yPSAYLCKVIDGLNLASLIVK--- 138 FAST alignment (Normalized score: 9.67 Raw score:1344.00) d1jmva_ 1 MY---KHILVAVDLSE----ESPILLKKAVGIAKRHDAKLSIIHVDVNFSDLYTGLIDVN 53 :::::::: :::::::::::::::::::::::::: d1q77a_ 1 --SNAMKVLLVLT---DAYSDCEKAITYAVNFSEKLGAELDILAVL-------------- 41 d1jmva_ 54 MSSMQDRIS----------------------TETQKALLDLAESVD--------YPISEK 83 ::::::::::::: :::::: d1q77a_ 42 ---------EDVYNLERANVTFGLPFPPEIKEESKKRIERRLRE--VWEKLTGSTEIPGV 90 d1jmva_ 84 LSGSGDLGQVLSDAIEQYDVDLLVTGHHQDFWSK---LMSSTRQVMNTIKIDMLVVPLRD 140 ::::::::::::::::::::::::: :::::::::::::::::: d1q77a_ 91 EYRIGPLSEEVKKFVEGKGYELVVW---------ACYPSAYLCKVIDGLNLASLI----- 136 d1jmva_ 141 -- 141 d1q77a_ 137 VK 138 TMalign alignment (TM-score: 0.63 Raw score:87.56) d1jmva_ 1 -MYKHILVAVDL-SEESPILLKKAVGIAKRHDAKLSIIHVDV--NF--SDL--------- 45 ::::::::::: ::::::::::::::::::::::::::::: :: : d1q77a_ 1 SNAMKVLLVLTDAYSDCEKAITYAVNFSEKLGAELDILAVLEDVYNLE--RANVTFGLPF 58 d1jmva_ 46 --YTGLIDVNMSSMQDRISTETQKALLDLAES-V---D-Y-PISEKLSGSGDLGQVLSDA 97 :::::::::::::::: : : : ::::::::::::::::::: d1q77a_ 59 PP--------------EIKEESKKRIERRLREVWEKLTGSTEIPGVEYRIGPLSEEVKKF 104 d1jmva_ 98 IEQYDVDLLVTGHHQDFWSKLMSSTRQVMNTIKIDMLVVPLRD 140 :::::::::::::: : :: ::::::::::::::::: d1q77a_ 105 VEGKGYELVVWACY-P----SA-YLCKVIDGLNLASLIVK--- 138 HHsearch alignment (Probability: 1.00 E-value:0.00) d1jmva_ 2 YKHILVAVDLSEESPILLKKAVGIAKRHDAKLSIIHVDVNFSDLYTGLID---VNMSSMQ 58 :::::::::::::::::::::::::::::::::::::::::::::::::: ::::::: d1q77a_ 4 MKVLLVLTDAYSDCEKAITYAVNFSEKLGAELDILAVLEDVYNLERANVTFGLPFPPEIK 63 d1jmva_ 59 DRISTETQKALLDLAESV--DYPISEKLSGSGDLGQVLSDAIEQYDVDLLVTGHHQDFWS 116 :::::::::::::::::: :::::::::::::::::::::::::::::::::::::::: d1q77a_ 64 EESKKRIERRLREVWEKLTGSTEIPGVEYRIGPLSEEVKKFVEGKGYELVVWACYPSAYL 123 d1jmva_ 117 ---KLMSSTRQVMNT 128 :::::::::::: d1q77a_ 124 CKVIDGLNLASLIVK 138