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 | d1id1a_ | Rck domain from putative potassium channel Kch | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | 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 <-- 1.604 --> HitDALI alignment (Z-score: 5.4 Raw score:362.40) d1q1ra2 1 rplpvasgavgkannfrylrtledaecirrqliadNRLVVIGGGYIGLEVAATAIKANMH 60 ::::::::::::::::::::::::: d1id1a_ 1 --------------------------------hrkDHFIVCGHSILAINTILQLNQRGQN 28 d1q1ra2 61 VTLLDTAArvlervtaPPVSAFYEHLHREaGVDIRTgTQVCgfemstdqqkvtavlCEDG 120 :::::::: ::::::::::::: :::::: :::: :::: d1id1a_ 29 VTVISNLP--------EDDIKQLEQRLGD-NADVIP-GDSN---------------DSSV 63 d1q1ra2 121 -TRLP---ADLVIAGIG------------------------------------------- 133 :::: ::::::::: d1id1a_ 64 lKKAGidrCRAILALSDndadnafvvlsakdmssdvktvlavsdsknlnkikmvhpdiil 123 d1q1ra2 134 ------------------------------ 134 d1id1a_ 124 spqlfgseilarvlngeeinndmlvsmlln 153 FAST alignment (Normalized score: 4.73 Raw score:674.70) d1q1ra2 1 RPLPVASGAVGKANNFRYLRTLEDAECIRRQLIA--DNRLVVIGGGYIGLEVAATAIKAN 58 :::::::::::::::::::::::: d1id1a_ 1 ----------------------------------HRKDHFIVCGHSILAINTILQLNQRG 26 d1q1ra2 59 MHVTLLDTAARVLERVTAPPVSAFYEHLHREAGVDIRTGTQVCGFEMSTDQQKVTAVLCE 118 :::::::: :::::::::::::: :::::: :::::: d1id1a_ 27 QNVTVISN--------LPEDDIKQLEQRLG-DNADVI-PGDSND---------------- 60 d1q1ra2 119 DGTR---------LPADLVIAGIG------------------------------------ 133 ::::::::: d1id1a_ 61 ----SSVLKKAGIDRCRAILAL--SDNDADNAFVVLSAKDMSSDVKTVLAVSDSKNLNKI 114 d1q1ra2 134 --------------------------------------- 134 d1id1a_ 115 KMVHPDIILSPQLFGSEILARVLNGEEINNDMLVSMLLN 153 TMalign alignment (TM-score: 0.47 Raw score:61.98) d1q1ra2 1 --RPLPVASGAVGKANNFRYLRTLEDAECIRRQLIADNRLVVIGGGYIGLEVAATAIKAN 58 :::::::::::::::::::::::: d1id1a_ 1 HR----------------------------------KDHFIVCGHSILAINTILQLNQRG 26 d1q1ra2 59 MHVTLLDTAARVLERVTAPPVSAFYEHLHREAGVDIRTGTQV-CGFEMSTDQQKVTAVLC 117 ::::::::::: :: :::::::::: :::::: ::: :: :: d1id1a_ 27 QNVTVISNLPE-------DD-IKQLEQRLGD-NADVIP-GDSNDS-------------SV 63 d1q1ra2 118 EDGTRL--PADLVIAGIG------------------------------------------ 133 : :::: :::::::::: d1id1a_ 64 L-KKAGIDRCRAILALSDNDADNAFVVLSAKDMSSDVKTVLAVSDSKNLNKIKMVHPDII 122 d1q1ra2 134 ------------------------------- 134 d1id1a_ 123 LSPQLFGSEILARVLNGEEINNDMLVSMLLN 153 HHsearch alignment (Probability: 0.93 E-value:0.00) d1q1ra2 35 DNRLVVIGGGYIGLEVAATAIKANMHVTLLDTAARVLERVTAPPVSAFYEHLHREAGVDI 94 :::::::::::::::::::::::::::::::::::::::: ::::::::::: d1id1a_ 3 KDHFIVCGHSILAINTILQLNQRGQNVTVISNLPEDDIKQ---------LEQRLGDNADV 53 d1q1ra2 95 RTG 97 ::: d1id1a_ 54 IPG 56