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: T0542_Ad1.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1s3la_ | Putative phosphodiesterase MJ0936 | Metallo-dependent phosphatases | Metallo-dependent phosphatases | α+β |
| Hit | d1oi7a2 | Succinyl-CoA synthetase, alpha-chain, C-terminal domain | Succinyl-CoA synthetase domains | Flavodoxin-like | α/β |
Query <-- 1.956 --> IntermediateDALI alignment (Z-score: 6.1 Raw score:664.70) query 1 slqLRLALNqidstvgdiagNAEAILRWTRHSAEQGAHLVAFPEMALTgypvedlalrss 60 :::::: :::::::::::::::::::::::::::: d1s3la_ 1 ---MKIGIM------sdthdHLPNIRKAIEIFNDENVETVIHCGDFVS------------ 39 query 61 fveasrtalRELAARLaeEGFGeLPVLV---gYLDRsesaqpkygqpagaprnaaavlhR 117 ::::::: :::: ::::: :::: : d1s3la_ 40 ---------LFVIKEF--ENLN-ANIIAtygnNDGE-------------rcklkewlkdI 74 query 118 GRVALTFAkhhlpnygvfdefryfvpgdtmPIVRLHGVDIALAICEDLwqdgGRVPAAR- 176 :::::::: :::::::::::::::::: ::::::: d1s3la_ 75 NEENIIDD---------------------fISVEIDDLKFFITHGHHQ----SVLEMAIk 109 query 177 SAGAGLLLSVNASpyerdkddtrlelvrkRAQEaGCTTAYLAM-IGGQdelvfdgdsivv 235 ::::::::::::: :::: ::::::::: :::: d1s3la_ 110 SGLYDVVIYGHTH------------ervfEEVD-DVLVINPGEcCGYL------------ 144 query 236 drdgevvarapQFSEGCVVLDLDLpaaeaepptgvvddglridrlviseeplpayeaela 295 ::::::::::::: d1s3la_ 145 -----------TGIPTIGILDTEK-----------------------------------k 158 query 296 ggyadrl 302 d1s3la_ 159 eyreivl 165 FAST alignment (Normalized score: 4.01 Raw score:894.50) query 1 SLQL-RLALNQIDSTVGDIAG-----NAEAILRWTRHSAEQGAHLVAFPEMALTGYPVED 54 ::::: ::::::::::::::::::::: d1s3la_ 1 ----MKIGIM-----------SDTHDHLPNIRKAIEIFNDENVETVI------------- 32 query 55 LALRSSFVEASRT------------------------------ALRELAARLAEEGFGEL 84 ::::::::::: d1s3la_ 33 -------------HCGDFVSLFVIKEFENLNANIIATYGNNDGERCKLKEWLKD------ 73 query 85 PVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRVALTFAKHHLPNYGVFDEFRYFVPG 144 d1s3la_ 74 ------------------------------------------------------------ 74 query 145 D--------TMPIVRLHGVDIALAICEDLWQDGGRVPAARSA-GAGLLLSVNASPYERDK 195 :::::::::::::::: :::: ::::::::: ::::::::: d1s3la_ 74 -INEENIIDDFISVEIDDLKFFITH---GHHQ-SVLEMAIKSGLYDVVIYGH-------- 120 query 196 DDTRLELVRKRAQE---------AGCTTAYLAMIGGQDELVFDGDSIVVDRDGEVVARAP 246 :::::::: d1s3la_ 121 --------------THERVFEEVDDVLVINP----------------------------- 137 query 247 -------QFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYA 299 :::::::::: d1s3la_ 138 GECCGYLTGIPTIGILD------------------------------------------- 154 query 300 DRL----------- 302 d1s3la_ 155 ---TEKKEYREIVL 165 TMalign alignment (TM-score: 0.40 Raw score:119.85) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 ::::::::::: :: :::::::::::::::::::::::::: d1s3la_ 1 ---MKIGIMSDTHD-----HL-PNIRKAIEIFNDENVETVIHCGDFVS------------ 39 query 61 FVEASRTALRELAARLAEEGFGELPVLVGY--LDRSE-SAQPKYGQPAGAPRNAAA-VLH 116 : :: ::: :: ::: :::::::: ::::: ::: :: d1s3la_ 40 ----L--FV-IKE-FE--NLN-ANIIATYGNNDGERCK---------------LKEW-LK 72 query 117 -RGRVALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAA 175 ::::::::: :::::::::::::::::: :: :::::: d1s3la_ 73 DINEENIIDD---------------------FISVEIDDLKFFITHGHH-QS--VLEMAI 108 query 176 RSAGAGLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAM-IGGQDELVFDGDSIV 234 :::::::::::::: :: ::: ::: ::::::::: ::: :: d1s3la_ 109 KSGLYDVVIYGHTH---------ER-VFE--EVD-DVLVINPGECCGY-----LT----- 145 query 235 VDRDGEVVARAPQFSEGCVVLDL-DLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAE 293 :::::::::: :: d1s3la_ 146 -------------GIPTIGILDTEKK---------------------------------- 158 query 294 LAGGYA-DRL 302 :::::: d1s3la_ 159 EYREIVL--- 165 HHsearch alignment (Probability: 0.38 E-value:0.00) query 4 LRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAF 42 ::::::: :::::::::::::::::::::::::: d1s3la_ 1 MKIGIMS------DTHDHLPNIRKAIEIFNDENVETVIH 33
Intermediate <-- 1.522 --> HitDALI alignment (Z-score: 4.2 Raw score:342.10) d1s3la_ 1 -----------------------MKIGIMSD---------------------------th 10 :::::::: d1oi7a2 1 ncpgiisaeetkigimpghvfkrGRVGIISRsgtltyeaaaalsqaglgttttvgiggdp 60 d1s3la_ 11 dHLPNIRKAIEIFNDE-NVETVIHCGDFVS---LFVIKEFE-NLNANIIATYGNndGERC 65 ::::::::::::::: ::::::::::::: :::::::: :::::::::::: :::: d1oi7a2 61 vIGTTFKDLLPLFNEDpETEAVVLIGEIGGsdeEEAAAWVKdHMKKPVVGFIGGrvGTPE 120 d1s3la_ 66 KLKEWLKDINeeNIIDDFISV------EIDDlkffithghhqsvlemaiksglydvviyg 119 :::::::::: ::::::::: :::: d1oi7a2 121 SKLRAFAEAG--IPVADTIDEivelvkKALG----------------------------- 149 d1s3la_ 120 hthervfeevddvlvinpgeccgyltgiptigildtekkeyreivl 165 d1oi7a2 150 ---------------------------------------------- 150 FAST alignment (Normalized score: 4.08 Raw score:639.90) d1s3la_ 1 -----------------------MKIGIMSDTHDHLP----------------------- 14 :::::: d1oi7a2 1 NCPGIISAEETKIGIMPGHVFKRGRVGII--------SRSGTLTYEAAAALSQAGLGTTT 52 d1s3la_ 15 ------------NIRKAIEIFND-ENVETVIHCGDFV-------SLFVIKEF-ENLNANI 53 ::::::::::: ::::::::: :::::::: ::::::: d1oi7a2 53 TVGIGGDPVIGTTFKDLLPLFNEDPETEAVVLI----GEIGGSDEEEAAAWVKDHMKKPV 108 d1s3la_ 54 IATYGNND---GERCKLKEWLKDINEENIIDDFISVEIDDLKFFITHGHHQSVLEMAIKS 110 ::::: :::::::::::: ::::::::: d1oi7a2 109 VGFIG---GRVGTPESKLRAFAE--AGIPVADTI-------------------------- 137 d1s3la_ 111 GLYDVVIYGHTHERVFEEVDDVLVINPGECCGYLTGIPTIGILDTEKKEYREIVL----- 165 d1oi7a2 138 -------------------------------------------------------DEIVE 142 d1s3la_ 166 ------- 166 d1oi7a2 143 LVKKALG 149 TMalign alignment (TM-score: 0.40 Raw score:66.09) d1s3la_ 1 -----------------------MKIGIMSD------------------------T-H-D 11 :::::::: : : : d1oi7a2 1 NCPGIISAEETKIGIMPGHVFKRGRVGIISRSGTLTYEAAAALSQAGLGTTTTVGIGGDP 60 d1s3la_ 12 -HLPNIRKAIEIFNDEN-VETVIHCGDFV-S--LFVIKEFE-NLNANIIATYGNNDGERC 65 :::::::::::::::: ::::::::::: : :::::::: :::::::::::::::::: d1oi7a2 61 VIGTTFKDLLPLFNEDPETEAVVLIGEIGGSDEEEAAAWVKDHMKKPVVGFIGGRVGTPE 120 d1s3la_ 66 KLKEWLKDINEENIIDDFIS--VE-IDD---LKFFITHGHHQSVLEMAIKSGLYDVVIYG 119 :::::::::: ::::: ::: :: ::: d1oi7a2 121 SKLRAFAEAG-IPVAD-TIDEIVELVKKALG----------------------------- 149 d1s3la_ 120 HTHERVFEEVDDVLVINPGECCGYLTGIPTIGILDTEKKEYREIVL 165 d1oi7a2 150 ---------------------------------------------- 150 HHsearch alignment (Probability: 0.01 E-value:0.48) d1s3la_ 19 AIEIFND--ENVETVIHCGDFVSL 40 ::::::: ::::::::::::::: d1oi7a2 39 AAAALSQAGLGTTTTVGIGGDPVI 62