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 | d1shux_ | Capillary morphogenesis protein 2 domain | vWA-like | vWA-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 <-- 0.682 --> HitDALI alignment (Z-score: 5.0 Raw score:440.00) d1jmva_ 1 ---myKHILVAVDL----SEESPILLKKAVGIAKRHD---AKLSIIHVDVNfsdlytgli 50 ::::::::: ::::::::::::::::::: ::::::::::: d1shux_ 1 scrraFDLYFVLDKsgsvANNWIEIYNFVQQLAERFVspeMRLSFIVFSSQ--------- 51 d1jmva_ 51 dvnmssmqdristetqkallDLAESVdypiseklsgsgDLGQVLSDAIEQYD----vDLL 106 :::::: :::::::::::::: ::: d1shux_ 52 -----atiilpltgdrgkisKGLEDLkrvspvgetyihEGLKLANEQIQKAGglktsSII 106 d1jmva_ 107 VTGHHQDFWSKLMSSTRQVMNTIK---IDMLVVPLRD----------------------- 140 :::::::::::::::::::::::: :::::::::: d1shux_ 107 IALTDGKLDGLVPSYAEKEAKISRslgASVYCVGVLDfeqaqleriadskeqvfpvkggf 166 d1jmva_ 141 --------------- 141 d1shux_ 167 qalkgiinsilaqsc 181 FAST alignment (Normalized score: 5.03 Raw score:799.90) d1jmva_ 1 MY-----KHILVAVDL----SEESPILLKKAVGIAKRHD-----AKLSIIHVDVNFSDLY 46 ::::::::: ::::::::::::::::: :::::::: d1shux_ 1 --SCRRAFDLYFVLDKSGSVANNWIEIYNFVQQLAER--FVSPEMRLSFIVF-------- 48 d1jmva_ 47 TGLIDVNMSSMQDRISTETQKALLDLAESVDYPISEKLSGSG------------------ 88 d1shux_ 49 ------------------------------------------SSQATIILPLTGDRGKIS 66 d1jmva_ 89 ------------------DLGQVLSDAIEQYDV------DLLVTGHHQD-----FWSKLM 119 ::::::::::::: ::::::::: :::::: d1shux_ 67 KGLEDLKRVSPVGETYIHEGLKLANEQIQKA--GGLKTSSIIIALTDG-KLDGLVPSYAE 123 d1jmva_ 120 SSTRQVMNTIKIDMLVVPLRD--------------------------------------- 140 :::::::: ::::::::::: d1shux_ 124 KEAKISRS-LGASVYCVGVL-DFEQAQLERIADSKEQVFPVKGGFQALKGIINSILAQSC 181 TMalign alignment (TM-score: 0.50 Raw score:69.99) d1jmva_ 1 --M-YKHILVAVDL---SE-ESPILLKKAVGIA-KRHD--AKLSIIHVDVNFSDLYTGLI 50 : :::::::::: :: ::::::::::::: :::: ::::::::::: :: d1shux_ 1 SCRRAFDLYFVLDKSGSVANNWIEIYNFVQQLAERFVSPEMRLSFIVFSSQ-------AT 53 d1jmva_ 51 DVNM--------SSMQDRISTETQKALLDLAESVD--------YPISEKLSGSGDL-GQV 93 :::: :::::::: :::: ::: d1shux_ 54 IILPLTGDRGKI---------------SKGLEDLKRVSPVGET---------YIHEGLKL 89 d1jmva_ 94 LSDAIEQY----DVDLLVTGHHQDF--WSKLMSSTRQVMNTI---KIDMLVVPLRD---- 140 :::::::: ::::::::::::: ::::::::::::: ::::::::::: d1shux_ 90 ANEQIQKAGGLKTSSIIIALTDGKLDG--LVPSYAEKEAKISRSLGASVYCVGVLDFEQA 147 d1jmva_ 141 ---------------------------------- 141 d1shux_ 148 QLERIADSKEQVFPVKGGFQALKGIINSILAQSC 181 HHsearch alignment (Probability: 0.23 E-value:0.01) d1jmva_ 4 HILVAVDLSEES----PILLKKAVGIAKRHD---AKLSIIHVDVN 41 :::::::::::: ::::::::::::::: ::::::::::: d1shux_ 7 DLYFVLDKSGSVANNWIEIYNFVQQLAERFVSPEMRLSFIVFSSQ 51