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 | d1jrla_ | Thioesterase I, TAP | SGNH hydrolase | Flavodoxin-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 <-- 0.774 --> HitDALI alignment (Z-score: 3.8 Raw score:343.10) d1jmva_ 1 myKHILVAVDLS---eespillkkAVGIAKRH-DAKLSIIHVdvnfsdlytglidvnmss 56 :::::::::: :::::::: ::::::::: d1jrla_ 1 -aDTLLILGDSLsagyrmsasaawPALLNDKWsKTSVVNASI------------------ 41 d1jmva_ 57 mqdristetqkalldlaesvdypiseklsgsgdLGQVLSDAIEQYDVDLLVTG-HHQD-- 113 :::::::::::::::::::: :::: d1jrla_ 42 --------------------------sgdtsqqGLARLPALLKQHQPRWVLVElGGNDgl 75 d1jmva_ 114 ---FWSKLMSSTRQVMNTIK---IDMLVVPLRD--------------------------- 140 ::::::::::::::::: :::::::::: d1jrla_ 76 rgfQPQQTEQTLRQILQDVKaanAEPLLMQIRPpanygrryneafsaiypklakefdvpl 135 d1jmva_ 141 ------------------------------------------- 141 d1jrla_ 136 lpffmeevylkpqwmqddgihpnrdaqpfiadwmakqlqplvn 178 FAST alignment (Normalized score: 3.58 Raw score:565.50) d1jmva_ 1 MY-KHILVAVDLSEESPILLKKAVGIAKRHDAKLSIIHVDVNFSDLYTGLIDVNMSSMQD 59 ::::::: d1jrla_ 1 --ADTLLILG-------------------------------------------------- 8 d1jmva_ 60 RISTETQ-------------KALLDLAESVDYPISEKLSGSG----------------DL 90 :::::::::: :: d1jrla_ 9 -------DSLSAGYRMSASAAWPALLNDKW------------SKTSVVNASISGDTSQQG 49 d1jmva_ 91 GQVLSDAIEQYDVDLLVTGHHQ---------DFWSKLMSSTRQVMNT---IKIDMLVVPL 138 ::::::::::::::::::: :::::::::::::::: :::::::::: d1jrla_ 50 LARLPALLKQHQPRWVLVE---LGGNDGLRGFQPQQTEQTLRQILQDVKAANAEPLLMQI 106 d1jmva_ 139 RD---------------------------------------------------------- 140 d1jrla_ 107 --RPPANYGRRYNEAFSAIYPKLAKEFDVPLLPFFMEEVYLKPQWMQDDGIHPNRDAQPF 164 d1jmva_ 141 -------------- 141 d1jrla_ 165 IADWMAKQLQPLVN 178 TMalign alignment (TM-score: 0.42 Raw score:59.19) d1jmva_ 1 -MYKHILVAVDLSEESPIL---L--KKAVGIAKRH--DAKLSII---H-VDV-NFSDLYT 47 :::::::: : ::::: : :::::::::: ::::::: : ::: : d1jrla_ 1 A-DTLLILGD--S-LSAGYRMSASAAWPALLNDKWSKTSVVNASISGDTSQQG-----L- 50 d1jmva_ 48 GLIDVNMSSMQDRISTETQKALLDLAESVDYPISEK-------------------LSGSG 88 :::::::: :::: :: d1jrla_ 51 ARLPALLK------------------------QHQPRWVLVELGGNDGLRGFQPQ---QT 83 d1jmva_ 89 -DLGQVLSDAIEQY-DVDLLVTGHHQDFW--S--KLMSSTRQVMNTI----KIDMLVVP- 137 ::::::::::::: ::::::::: :::: : : ::::::::::: :::::::: d1jrla_ 84 EQTLRQILQDVKAANAEPLLMQIR-PPANYGRRYN-EAFSAIYPKLAKEFDVPLLPFFME 141 d1jmva_ 138 -------------LRD--------------------- 140 ::: d1jrla_ 142 EVYLKPQWMQDDGIHPNRDAQPFIADWMAKQLQPLVN 178 HHsearch alignment (Probability: 0.04 E-value:0.27) d1jmva_ 99 EQYD 102 :::: d1jrla_ 129 KEFD 132