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 | d1gvha3 | Flavohemoglobin, C-terminal domain | Ferredoxin reductase-like, C-terminal NADP-linked domain | Ferredoxin reductase-like, C-terminal NADP-linked 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 <-- 0.667 --> HitDALI alignment (Z-score: 5.1 Raw score:432.10) d1ps9a3 1 intcigcnqacldqifvgkvtsclvnprachetkmpilpavQKKNLAVVG---aGPAGLA 57 ::::::::: :::::: d1gvha3 1 -------------------------------------mavaDDTPVTLISagvgQTPMLA 23 d1ps9a3 58 FAINAAAR--GHQVTLFDAHseiggqfNIAKqipgkeefyeTLRYYRRMIEVTG-VTLKL 114 :::::::: :::::::::: :::: ::::::::::::: ::::: d1gvha3 24 MLDTLAKAghTAQVNWFHAA------eNGDV--------haFADEVKELGQSLPrFTAHT 69 d1ps9a3 115 N-------------------HTVT-adQLQAF--DETILaSGIPN--RALAQPLIDSGK- 149 : :::: ::::: ::::: ::::: :::::::::::: d1gvha3 70 WyrqpseadrakgqfdseglMDLSkleGAFSDptMQFYL-CGPVGfmQFTAKQLVDLGVk 128 d1ps9a3 150 --TVHLIggcDVAMEldarraiaqgtrlalei 179 ::::: ::::: d1gvha3 129 qeNIHYE---CFGPH--------------kvl 143 FAST alignment (Normalized score: 4.56 Raw score:729.60) d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQ-----KKNLAVVGA---- 51 :::::: d1gvha3 1 ------------------------------------------MAVADDTPVTL---ISAG 15 d1ps9a3 52 --GPAGLAFAINAAAR--GHQVTLFDAHSEIGGQFNIAKQIPGKEEFYE---------TL 98 :::::::::::::: :::::::: :: d1gvha3 16 VGQTPMLAMLDTLAKAGHTAQVNWFH-----------------------AAENGDVHAFA 52 d1ps9a3 99 RYYRRMIEVT-GVTLKLN-------------------HTVTAD---QLQAF--DETILAS 133 :::::::::: ::::: :::::: ::::: :::::: d1gvha3 53 DEVKELGQSLPRFTAH--TWYRQPSEADRAKGQFDSEGLMDLSKLEGAFSDPTMQFYLC- 109 d1ps9a3 134 GIPN------RALAQPLIDSGK---TVHLIGGCDVAMELDARRAIAQGTRLALEI----- 179 :::::::::::: :::: :::: d1gvha3 110 ----GPVGFMQFTAKQLVDLGVKQENIHY----ECFG------------------PHKVL 143 TMalign alignment (TM-score: 0.42 Raw score:75.98) d1ps9a3 1 --INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAVVGA---GPAG 55 :::::::::::: :::: d1gvha3 1 MA---------------------------------------VADDTPVTLISAGVGQTPM 21 d1ps9a3 56 LAFAINAAAR-G-HQVTLFDAH-SEIGGQFNIAKQIPGKEEFYETL-RYYRRMIEVTG-V 110 :::::::::: : ::::::::: :: ::: : : ::::::::::: : d1gvha3 22 LAMLDTLAKAGHTAQVNWFHAAENG----DVH----------A--FADEVKELGQSLPRF 65 d1ps9a3 111 TLKL---------------NH---TVTADQ--LQAF-DETILASGIP-NR-ALAQPLID- 146 :::: :: :::::: :::: :::::::::: :: :::::::: d1gvha3 66 TAHTWYRQPSEADRAKGQFDSEGLMDLSKLEGAFSDPTMQFYLCGPVGFMQFTAKQLVDL 125 d1ps9a3 147 SGK--TVHLIGGCDVAME----LDARRAIAQGTRLALEI 179 ::: :::: ::::: d1gvha3 126 GVKQENIHY----ECFGPHKVL----------------- 143 HHsearch alignment (Probability: 0.07 E-value:0.02) d1ps9a3 41 VQKKNLAVVGAGPAGL----AFAINAAARG--HQVTLFDAH 75 ::::::::::::: :: :::::::::: ::::::::: d1gvha3 4 ADDTPVTLISAGV-GQTPMLAMLDTLAKAGHTAQVNWFHAA 43