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 | d1ps9a3 | 2,4-dienoyl-CoA reductase, middle domain | Nucleotide-binding domain | Nucleotide-binding domain | α/β |
| Hit | d1lqta2 | Ferredoxin:NADP reductase FprA | Nucleotide-binding domain | Nucleotide-binding domain | α/β |
Query <-- 1.613 --> IntermediateDALI alignment (Z-score: 4.1 Raw score:393.70) query 1 ---------------------------------------GMENKKMNLLLfsgdydkALA 21 ::::::::::: ::: d1ps9a3 1 intcigcnqacldqifvgkvtsclvnprachetkmpilpAVQKKNLAVVG------aGPA 54 query 22 SLIIANAAREMEIEVTIFCAfwgLLLLrdpekasqedkslyeqafssltpreaeELPLsk 81 :::::::::::::::::::: :::: :::: d1ps9a3 55 GLAFAINAAARGHQVTLFDA---HSEI------------------------ggqFNIA-- 85 query 82 mnlgGIGKKmllemmkeekaPKLSDLLSGARKKEVKFYAXqlsveimgfkkeelfpevqI 141 ::::: :::::::::::::::::::: : d1ps9a3 86 --kqIPGKE--------efyETLRYYRRMIEVTGVTLKLN------------------hT 117 query 142 MDVKEYlknaLESDLQLFI----------------------------------------- 160 :::::: ::::::::: d1ps9a3 118 VTADQL----QAFDETILAsgipnralaqplidsgktvhliggcdvameldarraiaqgt 173 query 161 ------ 161 d1ps9a3 174 rlalei 179 FAST alignment (Normalized score: 3.87 Raw score:654.60) query 1 GME------------------------------------------NKKMNLLLFSGDYDK 18 :::::: d1ps9a3 1 ---INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAV--------- 48 query 19 ---ALASLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLT-PREA 74 :::::::::::::::::::::: :::: d1ps9a3 49 VGAGPAGLAFAINAAARGHQVTLFD------------------------------AHSEI 78 query 75 EELPLSKMNLGGIGKKMLLEMMKEEKAP------------------KLSDLLSGARKKEV 116 :::::::::::::: d1ps9a3 79 ----------------------------GGQFNIAKQIPGKEEFYETLRYYRRMIEVTGV 110 query 117 KFYAXQLSVEIMGFKKEELFPE-VQIMDVKEYLKNA-LESDLQLFI-------------- 160 ::: :::::::: ::::::: d1ps9a3 111 TLK-------------------LNHTVTADQ-----LQAFDETI--LASGIPNRALAQPL 144 query 161 ----------------------------------- 161 d1ps9a3 145 IDSGKTVHLIGGCDVAMELDARRAIAQGTRLALEI 179 TMalign alignment (TM-score: 0.44 Raw score:70.82) query 1 ---------------------------------------GMENKKMNLLLFSGDYDKALA 21 ::::::::::: :::: d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAVVG------AGPA 54 query 22 SLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREA-EELPLS 80 :::::::::::::::::::: ::::: : :::: d1ps9a3 55 GLAFAINAAARGHQVTLFDA--HSEIG-------------------------GQ-FNIA- 85 query 81 KMNLGGIGKKMLLE-MMKEEKAPKLSDLLSGARKKEVKFYAXQLSVEIMGFKKEELFPEV 139 : :::::: :: ::::::::::::::::::::: : d1ps9a3 86 --K-QIPGKE--EFY-------ETLRYYRRMIEVTGVTLKLNH-T--------------- 117 query 140 QIMDVKEYLKNALESDLQLFI--------------------------------------- 160 :::::: :::::::::: d1ps9a3 118 ----VTADQL-QAFDETILASGIPNRALAQPLIDSGKTVHLIGGCDVAMELDARRAIAQG 172 query 161 ------- 161 d1ps9a3 173 TRLALEI 179 HHsearch alignment (Probability: 0.10 E-value:0.01) query 2 MENKKMNLLLFSGDYDKALASLIIANAAREMEIEVTIF 39 ::::::::::::: :::::::::::::::::::: d1ps9a3 40 AVQKKNLAVVGAG-----PAGLAFAINAAARGHQVTLF 72
Intermediate <-- 2.411 --> HitDALI alignment (Z-score: 12.1 Raw score:1046.40) d1ps9a3 1 intcigcnqacldqifvgkvtsclvnprachetkmpilpavQKKNLAVVGAGPAGLAFAI 60 ::::::::::::::::::: d1lqta2 1 -----------------------------------------RPYYIAIVGSGPSAFFAAA 19 d1ps9a3 61 NAAARG-------HQVTLFDAHSEIGGQFNIAKQIPgKEEFYETLRYYRRMIEVTGVTLK 113 :::::: ::::::::::::::::::::::: ::::::::::::::::::::::: d1lqta2 20 SLLKAAdttedldMAVDMLEMLPTPWGLVRSGVAPD-HPKIKSISKQFEKTAEDPRFRFF 78 d1ps9a3 114 LNHTV----TADQLQ-AFDETILASGI--PNRALaQPLI---------------dSGKTV 151 ::::: :::::: ::::::::::: ::::: :::: ::::: d1lqta2 79 GNVVVgehvQPGELSeRYDAVIYAVGAqsRGVPT-PGLPfddqsgtipnvggrinGSPNE 137 d1ps9a3 152 HLIGGCDVAMELDARRAIAQGTRLALEI-------------------------------- 179 :::::::::::::::::::::::::::: d1lqta2 138 YVVGWIKRGPTGVIGTNKKDAQDTVDTLiknlgnakegaecksfdhadqvadwlaarqpk 197 d1ps9a3 180 ---------------------------------------- 180 d1lqta2 198 lvtsahwqvidaferaagephgrprvklaslaellriglg 237 FAST alignment (Normalized score: 9.51 Raw score:1958.00) d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAVVGAGPAGLAFAI 60 ::::::::::::::::::: d1lqta2 1 -----------------------------------------RPYYIAIVGSGPSAFFAAA 19 d1ps9a3 61 NAAA-------RGHQVTLFDAHSEIGGQFNIAKQIPGKEEFYETLRYYRRMIEV--TGVT 111 :::: ::::::::::::::::::::: ::::::::::::::::::: :::: d1lqta2 20 SLLKAADTTEDLDMAVDMLEMLPTPWGLVRSG-VAPDHPKIKSISKQFEKTA--EDPRFR 76 d1ps9a3 112 LKLNHT----VTADQLQ-AFDETILAS--GIPNRALAQP--------------------L 144 :::::: ::::::: ::::::::: ::::: : d1lqta2 77 FFGNVVVGEHVQPGELSERYDAVIYAVGAQSRGV-----PTPGLPFDDQSGTIPNVGGRI 131 d1ps9a3 145 IDSGKTVHLIGGCDVAME----LDARRAIAQGTRLALEI--------------------- 179 ::: :::::::::: :::::::::::::::: d1lqta2 132 NGS-PNEYVVGWIK----RGPTGVIGTNKKDAQDTVDT-LIKNLGNAKEGAECKSFDHAD 185 d1ps9a3 180 ---------------------------------------------------- 180 d1lqta2 186 QVADWLAARQPKLVTSAHWQVIDAFERAAGEPHGRPRVKLASLAELLRIGLG 237 TMalign alignment (TM-score: 0.64 Raw score:114.40) d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAVVGAGPAGLAFAI 60 ::::::::::::::::::: d1lqta2 1 -----------------------------------------RPYYIAIVGSGPSAFFAAA 19 d1ps9a3 61 NAAARG-------HQVTLFDAHSEIGGQFNIAKQIPGKEEFYETLRYYRRMIEVTGVTLK 113 :::::: ::::::::::::::::::::::: ::::::::::::::::::::::: d1lqta2 20 SLLKAADTTEDLDMAVDMLEMLPTPWGLVRSGVAPD-HPKIKSISKQFEKTAEDPRFRFF 78 d1ps9a3 114 LNHTV----TADQLQ-AFDETILASGI---PNRA-LAQP-------------LIDSGKTV 151 ::::: :::::: ::::::::::: :::: :::: ::: :::: d1lqta2 79 GNVVVGEHVQPGELSERYDAVIYAVGAQSRGVPTPGLPFDDQSGTIPNVGGRING-SPNE 137 d1ps9a3 152 HLIGGCDVAMELDARRAIAQGTRLALE-I------------------------------- 179 ::::::::::::::::::::::::::: : d1lqta2 138 YVVGWIKRGPTGVIGTNKKDAQDTVDTLIKNLGNAKEGAECKSFDHADQVADWLAARQPK 197 d1ps9a3 180 ---------------------------------------- 180 d1lqta2 198 LVTSAHWQVIDAFERAAGEPHGRPRVKLASLAELLRIGLG 237 HHsearch alignment (Probability: 1.00 E-value:0.00) d1ps9a3 42 QKKNLAVVGAGPAGLAFAINAAARGH-------QVTLFDAHSEIGGQFNIAKQIPGKEEF 94 :::::::::::::::::::::::::: :::::::::::::::::: :::::::: d1lqta2 1 RPYYIAIVGSGPSAFFAAASLLKAADTTEDLDMAVDMLEMLPTPWGLVRSG-VAPDHPKI 59 d1ps9a3 95 YETLRYYRRMIEVTGVTLKLNHTVTADQ----L-QAFDETILASGIPNRALAQPLID 146 :::::::::::::::::::::::::::: : ::::::::::::::::::::::: d1lqta2 60 KSISKQFEKTAEDPRFRFFGNVVVGEHVQPGELSERYDAVIYAVGAQSRGVPTPGLP 116