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: T542_A.pdb A
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 <-- 1.015 --> IntermediateDALI alignment (Z-score: 6.5 Raw score:666.30) query 1 slqLRLALNQIDStvgdiagNAEAILRWTRHSAEQGAHLVAFPEMALtgypvedlalrss 60 :::::::::: ::::::::::::::::::::::::::: d1s3la_ 1 ---MKIGIMSDTH------dHLPNIRKAIEIFNDENVETVIHCGDFV------------- 38 query 61 fveaSRTALrELAARLaeegfgeLPVLV----gYLDRSesaqpkygqpagaprnaaavLH 116 ::::: :::::: ::::: ::::: :: d1s3la_ 39 ----SLFVI-KEFENL------nANIIAtygnnDGERC---------------klkewLK 72 query 117 RGR-vALTFAkhhlpnygvfdefryfvpgdtmPIVRLHGVDIALAICEDLwqdgGRVPAA 175 ::: ::::: :::::::::::::::::: :::::: d1s3la_ 73 DINeeNIIDD---------------------fISVEIDDLKFFITHGHHQ----SVLEMA 107 query 176 R-SAGAGLLLSVNASpyerdkddtrlelvrkRAQEaGCTTAYLAM--IGGQdelvfdgds 232 : ::::::::::::: :::: ::::::::: :::: d1s3la_ 108 IkSGLYDVVIYGHTH------------ervfEEVD-DVLVINPGEccGYLT--------- 145 query 233 ivvdrdgevvarapqFSEGCVVLDLDlpaaeaepptgvvddglridrlviseeplpayeA 292 ::::::::::: : d1s3la_ 146 ---------------GIPTIGILDTE---------------------------------K 157 query 293 ELAGgyadrldadeevysalvvglrayvakngfrsvliglsggidsalvaaiacdalgaq 352 :::: d1s3la_ 158 KEYR-------------------------------------------------------- 161 query 353 nvygvsmpskyssdhskgdaaelarrtglnfrtvsiepmfdaymaslgltglaeenlqsr 412 d1s3la_ 162 ------------------------------------------------------------ 162 query 413 lrgttlmaisnqeghivlapgnkselavgystlygdsvgaygpikdvyktsifrlaewrn 472 d1s3la_ 162 ------------------------------------------------------------ 162 query 473 raaaergqtppipeasitkpdypvldailelyvdrdtgadaivaagydrelvvktlrmvd 532 d1s3la_ 162 ------------------------------------------------------------ 162 query 533 taeykrrqyppgtkisakgfgkdrrlpitnrwregh 568 d1s3la_ 162 --------------------------------eivl 165 FAST alignment (Normalized score: 2.92 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 DRLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSM 359 d1s3la_ 155 ------------------------------------------------------------ 155 query 360 PSKYSSDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGTTLM 419 d1s3la_ 155 ------------------------------------------------------------ 155 query 420 AISNQEGHIVLAPGNKSELAVGYSTLYGDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERG 479 d1s3la_ 155 ------------------------------------------------------------ 155 query 480 QTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRR 539 d1s3la_ 155 ------------------------------------------------------------ 155 query 540 QYPPGTKISAKGFGKDRRLPITNRWREGH----------- 568 d1s3la_ 155 -----------------------------TEKKEYREIVL 165 TMalign alignment (TM-score: 0.14 Raw score:78.14) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1s3la_ 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1s3la_ 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1s3la_ 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1s3la_ 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1s3la_ 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSALVVGLRAYVAKNGFRSVLIGLS-GG-IDSALVAAIACDALGAQNVYGVS 358 ::::::::: :: :::::::::::::: ::::::: d1s3la_ 1 ------------------------MKIGIMSDTHDHLPNIRKAIEIFNDEN--VETVIHC 34 query 359 MPSKYSSDHSKGDAAELARRTGLNFRTVSIE----------------------P------ 390 :: ::: ::: ::::::::::::::::: : d1s3la_ 35 GD---FVS--LFV-IKEFENLNANIIATYGNNDGERCKLKEWLKDINEENIIDDFISVEI 88 query 391 ---------MFDAY------------------MASLGLTGLAEENLQSRLRGTTLMA--- 420 :: :: :::: :: ::: d1s3la_ 89 DDLKFFITHGH-HQSVLEMAIKSGLYDVVIYG--------------HTHE-RV-FEEVDD 131 query 421 ISNQEGHIVLAPGNKSELAVGYSTLYGDSV--------GAYGPIKDVYKTSIFRLAEWRN 472 ::: ::::::: : ::::::::: :::::: d1s3la_ 132 -VLV--INPGECC---G----YLTGIPTIGILDTEKKEYREIVL---------------- 165 query 473 RAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVD 532 d1s3la_ 166 ------------------------------------------------------------ 166 query 533 TAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 568 d1s3la_ 166 ------------------------------------ 166 HHsearch alignment (Probability: 0.34 E-value:0.00) query 4 LRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAF 42 :::::: ::::::::::::::::::::::::::: d1s3la_ 1 MKIGIM------SDTHDHLPNIRKAIEIFNDENVETVIH 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