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: T517_A.pdb A
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1q1ra2 | Putidaredoxin reductase | FAD/NAD(P)-binding domain | FAD/NAD(P)-binding domain | α/β |
| Hit | d1m6ya2 | TM0872, methyltransferase domain | S-adenosyl-L-methionine-dependent methyltransferases | S-adenosyl-L-methionine-dependent methyltransferases | α/β |
Query <-- 1.466 --> IntermediateDALI alignment (Z-score: 4.6 Raw score:383.50) query 1 -------------------------------gMENKKMNLLLfsgdydkALASLIIANAA 29 :::::::::: ::::::::::: d1q1ra2 1 rplpvasgavgkannfrylrtledaecirrqlIADNRLVVIG------gGYIGLEVAATA 54 query 30 REMEIEVTIFCAfwgLLLLrdpekasqedkslyeqafssltpreAEELPlskmnlggigk 89 :::::::::::: :::: ::::: d1q1ra2 55 IKANMHVTLLDT---AARV------------------------lERVTA----------- 76 query 90 kmllemmkeekapklSDLLSGARKKEVKFY--AXQLsveimgfkkeelfpevqiMDVKey 147 ::::::::::::::: :::: :::: d1q1ra2 77 -----------ppvsAFYEHLHREAGVDIRtgTQVC---gfemstdqqkvtavlCEDG-- 120 query 148 LKNAleSDLQLFI-- 160 :::: ::::::: d1q1ra2 121 TRLP--ADLVIAGig 133 FAST alignment (Normalized score: 4.48 Raw score:653.70) query 1 -------------------------------GMENKKMNLLLFSGDYDK---ALASLIIA 26 ::::::::: :::::::: d1q1ra2 1 RPLPVASGAVGKANNFRYLRTLEDAECIRRQLIADNRLVV---------IGGGYIGLEVA 51 query 27 NAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNLGG 86 :::::::::::::: d1q1ra2 52 ATAIKANMHVTLLD---------------------------------------------- 65 query 87 IGKKMLLEMMKEEKAP-------------KLSDLLSGARKKEVKFYAXQLSVEIMGFKKE 133 ::::::::::::::::: d1q1ra2 66 ----------------TAARVLERVTAPPVSAFYEHLHREAGVDIR-------------- 95 query 134 ELFPEVQIMDVKEYLKNA----------------------LESDLQLFI---- 160 ::::: ::::::: d1q1ra2 96 ------TGTQV-------CGFEMSTDQQKVTAVLCEDGTRLPADLVI--AGIG 133 TMalign alignment (TM-score: 0.32 Raw score:51.98) query 1 --------------------------------GMENKKMNLLLFSGDYDKALASLIIANA 28 :::::::::::: :::::::::::: d1q1ra2 1 RPLPVASGAVGKANNFRYLRTLEDAECIRRQL---IADNRLVVIGGG-YIGLEVAATAIK 56 query 29 AREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNLGGIG 88 :: ::::: ::: :: :::: : : d1q1ra2 57 AN-----MHVTL---LDT-----------------------AA----RVLE---R--V-- 74 query 89 KK--MLL--EMMKEEKAPKLSDLLSGARKKEV-KF--YA----------------XQLSV 125 :: : ::::::::::: : : : ::::: d1q1ra2 75 TAPP--VSA--------FYEHLHREAGV---DI-RTG-TQVCGFEMSTDQQKVTAVLCED 119 query 126 EIMGFKKEELFPEVQIMDVKEYLKNALESDLQLFI--- 160 : ::: :: : :::: d1q1ra2 120 G--------------TRL--PA---D-----LVIAGIG 133 HHsearch alignment (Probability: 0.05 E-value:0.02) query 20 LASLIIANAAREMEIEVTIF 39 :::::::::::::::::::: d1q1ra2 45 YIGLEVAATAIKANMHVTLL 64
Intermediate <-- 1.169 --> HitDALI alignment (Z-score: 4.0 Raw score:370.90) d1q1ra2 1 rplpvasgavgkannfryLRTLEDAECIrrQLIADNRLVVIGGGYigLEVAATAIK--AN 58 :::::::::: ::::::::::::::: ::::::::: :: d1m6ya2 1 ---------rkysqrhipVMVREVIEFL--KPEDEKIILDCTVGE--GGHSRAILEhcPG 47 d1q1ra2 59 MHVTLLDTAARVlervtappvsAFYEHLHREAG--VDIRTgTQVCgfemstdqqkvtavl 116 :::::::::::: ::::::::::: ::::: :::: d1m6ya2 48 CRIIGIDVDSEV---------lRIAEEKLKEFSdrVSLFK-VSYR--------------- 82 d1q1ra2 117 cedGTRL------PADLVIAGIG------------------------------------- 133 :::: :::::::::: d1m6ya2 83 -eaDFLLktlgieKVDGILMDLGvstyqlkgenrelenlkeflkkaedllnpggrivvis 141 d1q1ra2 134 --------------------------------------------------- 134 d1m6ya2 142 fhsledrivketfrnskklriltekpvrpseeeirenprarsgrlraaeri 192 FAST alignment (Normalized score: 4.26 Raw score:680.90) d1q1ra2 1 RPLPVASGAVGKANNFRYLR-----------TLEDAECIRR-QLIADNRLVVIGGGYIG- 47 ::::::: :::::::::::::: d1m6ya2 1 --------------------RKYSQRHIPVMVREVIEF---LKPEDEKIILDCTVG---E 34 d1q1ra2 48 LEVAATAIK--ANMHVTLLDTAARVLERVTAPPVSAFYEHLHRE--AGVDIRTGTQVCGF 103 ::::::::: :::::::::::: :::::::::::: ::::: ::::: d1m6ya2 35 GGHSRAILEHCPGCRIIGIDVDS---------EVLRIAEEKLKEFSDRVSL-FKVSY--- 81 d1q1ra2 104 EMSTDQQKVTAVLCED--------GTRL-PADLVIAGIG--------------------- 133 :::: ::::::::: d1m6ya2 82 ----------------READFLLKTLGIEKVDGILMDL-GVSTYQLKGENRELENLKEFL 124 d1q1ra2 134 ------------------------------------------------------------ 134 d1m6ya2 125 KKAEDLLNPGGRIVVISFHSLEDRIVKETFRNSKKLRILTEKPVRPSEEEIRENPRARSG 184 d1q1ra2 134 -------- 134 d1m6ya2 185 RLRAAERI 192 TMalign alignment (TM-score: 0.51 Raw score:68.46) d1q1ra2 1 ---------RPLPVASGAVGKANNFRYLRTLEDAECIRRQLIADNRLVVIGGGYIGLEVA 51 :::::::::: ::::::::::::::: :::: d1m6ya2 1 RKYSQRHIP------------------VMVREVIEFL--KPEDEKIILDCTVGE--GGHS 38 d1q1ra2 52 ATAIK-AN-MHVTLLDTAARVLERVTAPPVSAFYEHLHREAG--VDIRTGTQVCGFEMST 107 ::::: :: :::::::::::: :::::::::::: ::::: ::::: d1m6ya2 39 RAILEHCPGCRIIGIDVDSEV---------LRIAEEKLKEFSDRVSLFK-VSYRE----- 83 d1q1ra2 108 DQQKVTAVLCEDGTR----L-PADLVIAGIG----------------------------- 133 :: ::: : :::::::::: d1m6ya2 84 -------AD---FLLKTLGIEKVDGILMDLGVSTYQLKGENRELENLKEFLKKAEDLLNP 133 d1q1ra2 134 ----------------------------------------------------------- 134 d1m6ya2 134 GGRIVVISFHSLEDRIVKETFRNSKKLRILTEKPVRPSEEEIRENPRARSGRLRAAERI 192 HHsearch alignment (Probability: 0.01 E-value:0.68) d1q1ra2 33 IADNRLVVIGGGYIGLEVAATAIKANMHVTLLDTAARVL 71 ::::::::::::::::::::::::::::::::::::::: d1m6ya2 22 EDEKIILDCTVGEGGHSRAILEHCPGCRIIGIDVDSEVL 60