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: T0582_Ad1.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1vj2a_ | Hypothetical protein TM1459 | RmlC-like cupins | Double-stranded beta-helix | All β |
| Hit | d1cx4a1 | Regulatory subunit of Protein kinase A | cAMP-binding domain-like | Double-stranded beta-helix | All β |
Query <-- 0.969 --> IntermediateDALI alignment (Z-score: 11.8 Raw score:636.30) query 1 meinadftkPVVIDTDQLEWRPSP---MKGVERRMLDRIGgevaRATSIVRYAPGSRFSA 57 ::::::::::::::: ::::::::::::: :::::::::::::::: d1vj2a_ 1 ---------MILKRAYDVTPQKIStdkVRGVRKRVLIGLKdapnFVMRLFTVEPGGLIDR 51 query 58 HTHDGGEEFIVLDGVFQDE----HGDYPAGTYVRNPPTTSHVPGSAE--GCTIFVKLWQF 111 ::::::::::::::::::: :::::::::::::::::::::::: ::::::::::: d1vj2a_ 52 HSHPWEHEIFVLKGKLTVLkeqgEETVEEGFYIFVEPNEIHGFRNDTdsEVEFLCLIPKE 111 query 112 dpadrtqfsknm 123 d1vj2a_ 112 ---------gge 114 FAST alignment (Normalized score: 9.80 Raw score:1161.00) query 1 MEINADFTKPVVIDTDQLEWRPS----PMKGVERRMLDRIGGEVA-------RATSIVRY 49 ::::::::::::: ::::::::::: :::::::: d1vj2a_ 1 ---------MILKRAYDVTPQK-ISTDKVRGVRKRVLI-------GLKDAPNFVMRLFTV 43 query 50 APGSRFSAHTHDGGEEFIVLDGVFQDE-----HGDYPAGTYVRNPPTTSHVPGS--AEGC 102 :::::::::::::::::::::::::: :::::::::::::::::::::: :::: d1vj2a_ 44 EPGGLIDRHSHPWEHEIFVLKGKLTV-LKEQGEETVEEGFYIFVEPNEIHGFRNDTDSEV 102 query 103 TIFVKLWQFDPADRTQFSKNM----- 123 ::::::: d1vj2a_ 103 EFLCLIP--------------KEGGE 114 TMalign alignment (TM-score: 0.68 Raw score:83.64) query 1 MEINADFTKPVVIDTDQLEWRPSP---MKGVERRMLDRIG----GEVARATSIVRYAPGS 53 ::::::::::::::: ::::::::::::: :::::::::::: d1vj2a_ 1 ---------MILKRAYDVTPQKISTDKVRGVRKRVLIGLKDAPN----FVMRLFTVEPGG 47 query 54 RFSAHTHDGGEEFIVLDGVFQD----EHGDYPAGTYVRNPPTTSHVPGSAE--GCTIFVK 107 :::::::::::::::::::::: ::::::::::::::::::::::::: ::::::: d1vj2a_ 48 LIDRHSHPWEHEIFVLKGKLTVLKEQGEETVEEGFYIFVEPNEIHGFRNDTDSEVEFLCL 107 query 108 LWQF---DPADRTQFSKNM 123 :::: d1vj2a_ 108 IPKEGGE------------ 114 HHsearch alignment (Probability: 0.97 E-value:0.00) query 13 IDTDQLEWRPSPMKGVERRMLDRIGGEVARATSIVRYAPGSRFSAHTHDGGEEFIVLDGV 72 :::::::::: :::::::::::::::::::::::::::::::::::::::::::::::: d1vj2a_ 9 VTPQKISTDK--VRGVRKRVLIGLKDAPNFVMRLFTVEPGGLIDRHSHPWEHEIFVLKGK 66 query 73 ----FQDEHGDYPAGTYVRNPPTTSHVPGS--AEGCTIFV 106 :::::::::::::::::::::::::: :::::::: d1vj2a_ 67 LTVLKEQGEETVEEGFYIFVEPNEIHGFRNDTDSEVEFLC 106
Intermediate <-- 0.913 --> HitDALI alignment (Z-score: 5.0 Raw score:339.10) d1vj2a_ 1 ----miLKRAYDVtpqkistdkvrgvrkrvligLKDApnfVMRLFTVEPGGL-IDRHSHp 55 ::::::: :::: :::::::::::: :::::: d1cx4a1 1 riihpkTDDQRNR---lqeackdillfknldpeQMSQvldAMFEKLVKEGEHvIDQGDD- 56 d1vj2a_ 56 WEHEIFVLKGKLTVLKEQ-----GEETVEEGFYIFVEP-----NEIHGFRNDTdsEVEFL 105 :::::::::::::::::: ::::::::::::::: :::::::::: ::::: d1cx4a1 57 GDNFYVIDRGTFDIYVKCdgvgrCVGNYDNRGSFGELAlmyntPRAATITATS--PGALW 114 d1vj2a_ 106 CLIPKEGG-------------e 114 :::::::: d1cx4a1 115 GLDRVTFRriivknnakkrkmy 136 FAST alignment (Normalized score: 3.98 Raw score:495.80) d1vj2a_ 1 MILKRAYDVTPQKISTDKVRGVRKRVLIGLKDAPNF------------------------ 36 d1cx4a1 1 ------------------------------------RIIHPKTDDQRNRLQEACKDILLF 24 d1vj2a_ 37 -------------VMRLFTVEPGG-LIDRHSHPWEHEIFVLKGKLTVLKEQG-------- 74 ::::::::::: ::: :::::::::::::::::::: d1cx4a1 25 KNLDPEQMSQVLDAMFEKLVKEGEHVID-QGDDGDNFYVIDRGTFDIYV---KCDGVGRC 80 d1vj2a_ 75 EETVEEGFYIFVE---------PNEIHGFRNDTDSEVEFLCLIPKEGGE----------- 114 ::::::::: :::::::::: ::::::::: d1cx4a1 81 VGNYDNRGS----FGELALMYNTPRAATITAT--SPGALWGLD------RVTFRRIIVKN 128 d1vj2a_ 115 -------- 115 d1cx4a1 129 NAKKRKMY 136 TMalign alignment (TM-score: 0.49 Raw score:56.35) d1vj2a_ 1 --MILKRAYD-----------------------VTPQKISTDKVRGVRKRVLIGLKDA-- 33 :::::::: : d1cx4a1 1 RIIHPKTDDQRNRLQEACKDILLFKNLDPEQMS------------------------QVL 36 d1vj2a_ 34 PNFVMRLFTVEPGGLI-DRHSHPWEHEIFVLKGKLTVLKEQ----GE-ETVEEGFYIFVE 87 :::::::::::::: ::::: :::::::::::::::::: :: :::::::::::: d1cx4a1 37 --DAMFEKLVKEGEHVIDQGDD-GDNFYVIDRGTFDIYVKCDGVGRCVGNYDNRGSFGEL 93 d1vj2a_ 88 P----N-EIHGFRNDTDSEVEFLCLIPKEG---------------GE 114 : : ::::::::: :::::::::::: d1cx4a1 94 ALMYNTPRAATITATS--PGALWGLDRVTFRRIIVKNNAKKRKMY-- 136 HHsearch alignment (Probability: 0.92 E-value:0.00) d1vj2a_ 37 VMRLFTVEPGGLIDRHSHPWEHEIFVLKGKLTVLKEQ-----GEETVEEGFYI---FVEP 88 ::::::::::::::::::::::::::::::::::::: ::::::::::: :::: d1cx4a1 38 AMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVKCDGVGRCVGNYDNRGSFGELALMY 97 d1vj2a_ 89 NEIHGFRNDTDSEVEFLCL 107 ::::::::::::::::::: d1cx4a1 98 NTPRAATITATSPGALWGL 116