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 | d1jw9b_ | Molybdenum cofactor biosynthesis protein MoeB | Activating enzymes of the ubiquitin-like proteins | Activating enzymes of the ubiquitin-like proteins | 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 <-- 2.095 --> HitDALI alignment (Z-score: 8.3 Raw score:762.30) d1ps9a3 1 intcigcnqacldqifvgkvtsclvnprachetkmpilPAVQK--KNLAVVGAGPAGLAF 58 ::::: ::::::::::::::: d1jw9b_ 1 ---------------aelsdqemlrynrqiilrgfdfdGQEALkdSRVLIVGLGGLGCAA 45 d1ps9a3 59 AINAAARGH-QVTLFDAHSeiggqFNIAkqipgkeeFYET-----lrYYRRMIEVTG--- 109 ::::::::: ::::::::: :::: :::: :::::::::: d1jw9b_ 46 SQYLASAGVgNLTLLDFDT-----VSLSnlqrqtlhSDATvgqpkveSARDALTRINphi 100 d1ps9a3 110 -VTLKLnHTVT---ADQLQ-AFDETILASGIPN--RALAQPLIDSGKTVHLIGgcdVAME 162 ::::: :::: ::::: ::::::::::::: :::::::::::::::::: :::: d1jw9b_ 101 aITPVN-ALLDdaeLAALIaEHDLVLDCTDNVAvrNQLNAGCFAAKVPLVSGA---AIRM 156 d1ps9a3 163 ---------------------------LDARRAIAQGTRLALEI---------------- 179 ::::::::::::::::: d1jw9b_ 157 egqitvftyqdgepcyrclsrlfgeagVMAPLIGVIGSLQAMEAikmlagygkpasgkiv 216 d1ps9a3 180 ------------------------ 180 d1jw9b_ 217 mydamtcqfremklmrnpgcevcg 240 FAST alignment (Normalized score: 6.65 Raw score:1379.00) d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQ------------------ 42 d1jw9b_ 1 ------------------------------------------AELSDQEMLRYNRQIILR 18 d1ps9a3 43 -----------KKNLAVVGAGPAGLAFAINAAARG-HQVTLFDAHSEIGGQFNIAKQIPG 90 :::::::::::::::::::::::: ::::::::: d1jw9b_ 19 GFDFDGQEALKDSRVLIVGLGGLGCAASQYLASAGVGNLTLLDFD--------------- 63 d1ps9a3 91 K---EEFYETL--------------RYYRRMIEV----TGVTLKLNHTVTADQL-----Q 124 :::::: ::::::::: :::::: :::::::: : d1jw9b_ 64 -TVSLSNLQR-QTLHSDATVGQPKVESARDALTRINPHIAITPV-NALLDDAE-LAALIA 119 d1ps9a3 125 AFDETILASGIPNRALAQPLID----SGKTVHLIGGCDVA-------------------- 160 :::::::::: :::::::::: ::::::: d1jw9b_ 120 EHDLVLDCTD--NVAVRNQLNAGCFAAKVPLVS-------GAAIRMEGQITVFTYQDGEP 170 d1ps9a3 161 -----------MELDARRAIAQGTRLALEI------------------------------ 179 :::::::::::::::::: d1jw9b_ 171 CYRCLSRLFGEAGVMAPLIGVIGSLQAME-AIKMLAGYGKPASGKIVMYDAMTCQFREMK 229 d1ps9a3 180 ----------- 180 d1jw9b_ 230 LMRNPGCEVCG 240 TMalign alignment (TM-score: 0.58 Raw score:103.90) d1ps9a3 1 ------------INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILP----A---V 41 ::: : : d1jw9b_ 1 AELSDQEMLRYN------------------------------------RQIILRGFDFDG 24 d1ps9a3 42 --QK--KNLAVVGAGPAGLAFAINAAARGHQ-VTLFDAHSEIGGQFNIAKQIPGKEEFYE 96 :: ::::::::::::::::::::::::: ::::::: : : :::: :::: d1jw9b_ 25 QEALKDSRVLIVGLGGLGCAASQYLASAGVGNLTLLDFD-T-V---SLSN------LQRQ 73 d1ps9a3 97 T-LRY---------YR-RMIEV-T--GVTLKLNHTV-T--ADQLQ-AFDETILASGIPN- 137 : ::: :: ::::: : :::::::::: : ::::: ::::::::::::: d1jw9b_ 74 TLHSDATVGQPKVESARDALTRINPHIAITPVNALLDDAELAALIAEHDLVLDCTDNVAV 133 d1ps9a3 138 R-ALAQPLIDSGKTVHLIGGCDVAMEL-------------------------D-ARRAIA 170 : :::::::::::::::::: ::::: : :::::: d1jw9b_ 134 RNQLNAGCFAAKVPLVSGAA--IRMEGQITVFTYQDGEPCYRCLSRLFGEAGVMAPLIGV 191 d1ps9a3 171 QGTRLALE-I--------------------------------------- 179 :::::::: : d1jw9b_ 192 IGSLQAMEAIKMLAGYGKPASGKIVMYDAMTCQFREMKLMRNPGCEVCG 240 HHsearch alignment (Probability: 0.97 E-value:0.00) d1ps9a3 36 PILPAVQKKNLAVVGAGPAGLAFAINAAARGH-QVTLFDAH----SEIGGQFNIAKQIPG 90 :::::::::::::::::::::::::::::::: :::::::: ::::::::::::::: d1jw9b_ 23 DGQEALKDSRVLIVGLGGLGCAASQYLASAGVGNLTLLDFDTVSLSNLQRQTLHSDATVG 82 d1ps9a3 91 KEEFYETLRYYRRMIEVTGVTLKL---NHTVTA----DQLQAFDETILASGIPNRALAQ 142 :::::: :::::::::::::: :::::: :::::::::::::::::::::: d1jw9b_ 83 QPKVES----ARDALTRINPHIAITPVNALLDDAELAALIAEHDLVLDCTDNVAVRNQL 137