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 | d1su1a_ | Phosphodiesterase yfcE | Metallo-dependent phosphatases | Metallo-dependent phosphatases | α+β |
| Hit | d1vjga_ | Hypothetical protein alr1529 | SGNH hydrolase | Flavodoxin-like | α/β |
Query <-- 0.820 --> IntermediateDALI alignment (Z-score: 4.6 Raw score:536.00) query 1 slQLRLALNQidstvgdiagNAEAILRWTRHSAEQGAHLVAFPEMALTGyPVEDLalrss 60 :::::::: ::::::::::::::::::::::::::::: ::::: d1su1a_ 1 --MMKLMFAS------dihgSLPATERVLELFAQSGAQWLVILGDVLNH-GPRNA----l 47 query 61 fveasrTALRELAARLaeegfGELPVL--vgYLDRsesaqpkygqpagaprnaaavlhrg 118 :::::::::: :::::: :::: d1su1a_ 48 pegyapAKVVERLNEV-----AHKVIAvrgnCDSE-------------------vdqmll 83 query 119 RVALTFAkhhlpnygvfdefryfvpgdtmPIVRLHGVDIALAICE-DLWQdgGRVPAars 177 ::::::: :::::::::::::::: :::: ::::: d1su1a_ 84 HFPITAP---------------------wQQVLLEKQRLFLTHGHlFGPE--NLPAL--- 117 query 178 agaGLLLSVNASpyerdkddtrlelvrkrAQEAgCTTAYLAM---IGGQdelvfdgdsiv 234 ::::::::: :::: :::::::: :::: d1su1a_ 118 nqnDVLVYGHTH------------lpvaeQRGE-IFHFNPGSvsiPKGG----------- 153 query 235 vdrdgevvarapqfSEGCVVLDLDlpaaeaepptgvvddglridrlviseeplpayeael 294 :::::::::: d1su1a_ 154 -------------nPASYGMLDND----------------------------vlsvialn 172 query 295 aGGYAdrldadeevysalvvglrayvakngfrsvliglsggidsalvaaiacdalgaqnv 354 :::: d1su1a_ 173 dQSII------------------------------------------------------- 177 query 355 ygvsmpskyssdhskgdaaelarrtglnfrtvsiepmfdaymaslgltglaeenlqsrlr 414 d1su1a_ 178 ------------------------------------------------------------ 178 query 415 gttlmaisnqeghivlapgnkselavgystlygdsvgaygpikdvyktsifrlaewrnra 474 d1su1a_ 178 ------------------------------------------------------------ 178 query 475 aaergqtppipeasitkpdypvldailelyvdrdtgadaivaagydrelvvktlrmvdta 534 d1su1a_ 178 ------------------------------------------------------------ 178 query 535 eykrrqyppgtkisakgfgkdrrlpitnrwregh 568 d1su1a_ 178 ---------------------------aqvainp 184 FAST alignment (Normalized score: 2.56 Raw score:827.10) query 1 SLQLRLALNQIDSTVGD-----IAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDL 55 ::::::: :::::::::::::: ::::::::::::::: d1su1a_ 1 --MMKLMFA--------SDIHGSLPATERVLELFAQ---SGAQWLVILGDVLNH------ 41 query 56 ALRSS----------FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPA 105 :::::::::: :::: :::: d1su1a_ 42 -----GPRNALPEGYAPAKVVERLN---------EVAH-KVIA----------------- 69 query 106 GAPRNAAAVLHRGRVALTFAKHHLPNYGVFDEFRYFVPGD-------------------- 145 d1su1a_ 70 ----------------------------------------VRGNCDSEVDQMLLHFPITA 89 query 146 TMPIVRLHGVDIALAICEDLWQD----GGRVPAARSAGA-----GLLLSVNASPYERDKD 196 :::::::::::::::::: :::: ::::: d1su1a_ 90 PWQQVLLEKQRLFLTHGH-----LFGPENLP--------ALNQNDVLVY----------- 125 query 197 DTRLELVRKRAQE-----------AGCTTAYLAMIGGQDELVFDGDSIVVDRDGEVVARA 245 ::::::::: d1su1a_ 126 -------------GHTHLPVAEQRGEIFHFNPG--------------------------- 145 query 246 PQ--------FSEGCVVL-----------------DLDLPAAEAEPPTGVVDDGLRIDRL 280 :::::::: ::::: d1su1a_ 146 --SVSIPKGGNPASYGMLDNDVLSVIALNDQSIIAQVAIN-------------------- 183 query 281 VISEEPLPAYEAELAGGYADRLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSAL 340 d1su1a_ 184 ------------------------------------------------------------ 184 query 341 VAAIACDALGAQNVYGVSMPSKYSSDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLG 400 d1su1a_ 184 ------------------------------------------------------------ 184 query 401 LTGLAEENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLYGDSVGAYGPIKDVY 460 d1su1a_ 184 ------------------------------------------------------------ 184 query 461 KTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYD 520 d1su1a_ 184 ------------------------------------------------------------ 184 query 521 RELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH- 568 d1su1a_ 184 ------------------------------------------------P 184 TMalign alignment (TM-score: 0.23 Raw score:127.82) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDL----- 55 ::::::::: :: : ::::::::::::::::::::::::::::: ::::: d1su1a_ 1 --MMKLMFASD-IH---G--SLPATERVLELFAQSGAQWLVILGDVLNH-GPRNALPEGY 51 query 56 ALRSSFVEASRTALRELAARLAEEGFGELPVLV-G-YLDRSESAQPKYGQPAGAPRNAAA 113 :: ::::::::::: : ::::: : :::: : : : d1su1a_ 52 --------AP-AKVVERLNEVA----H-KVIAVRGNCDSE-V---------------D-Q 80 query 114 --VLHRGRVALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHG-VDIALAICE-DLWQDG 169 :::::::: ::::::: ::::::::: ::::: d1su1a_ 81 ML----LHFPITAP----------------------WQQVLLEKQRLFLTHGHLFGPEN- 113 query 170 GRVPAARS-AGAGLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVF 228 : :: :: :::::::::::: ::: ::: :: :::::::::: :: d1su1a_ 114 L-PA--LNQ--NDVLVYGHTHLP-------VAE-QRG--EI---FHFNPGSVSI----PK 151 query 229 DGDSIVVDRDGEVVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLP 288 : :::::::::::: d1su1a_ 152 G-----------------GNPASYGMLDND------------------------------ 164 query 289 AYEAELAG-------GYAD------RLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGG 335 ::: :::: d1su1a_ 165 -----VLSVIALNDQSIIAQVAINP----------------------------------- 184 query 336 IDSALVAAIACDALGAQNVYGVSMPSKYSSDHSKGDAAELARRTGLNFRTVSIEPMFDAY 395 d1su1a_ 185 ------------------------------------------------------------ 185 query 396 MASLGLTGLAEENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLYGDSVGAYGP 455 d1su1a_ 185 ------------------------------------------------------------ 185 query 456 IKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIV 515 d1su1a_ 185 ------------------------------------------------------------ 185 query 516 AAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 568 d1su1a_ 185 ----------------------------------------------------- 185 HHsearch alignment (Probability: 0.25 E-value:0.00) query 4 LRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAF 42 :::::: ::::::::::::::::::::::::::: d1su1a_ 2 MKLMFA------SDIHGSLPATERVLELFAQSGAQWLVI 34
Intermediate <-- 1.017 --> HitDALI alignment (Z-score: 3.5 Raw score:370.10) d1su1a_ 1 ---MMKLMFASD--------------------------------------IHGSlPATER 19 ::::::::: :::: ::::: d1vjga_ 1 sktQIRICFVGDsfvngtgdpeclgwtgrvcvnankkgydvtyynlgirrDTSS-DIAKR 59 d1su1a_ 20 VLELFAQSG----aQWLVILGDvlNHGPR---NALPegyAPAKV-VERLNEVAH--KVIA 69 ::::::::: :::::::: ::::: :::: ::::: ::::::::: :::: d1vjga_ 60 WLQEVSLRLhkeynSLVVFSFG-lNDTTLengKPRVsiaETIKNtREILTQAKKlyPVLM 118 d1su1a_ 70 VRGN---------------cdSEVDQMLL---HFPITAP---wqqvllekqrlflthghL 108 :::: :::::::: ::::::: : d1vjga_ 119 ISPApyieqqdpgrrrrtidlSQQLALVCqdlDVPYLDVfpllekpsvwlheakandgvH 178 d1su1a_ 109 FGPENLPalnqndvlvyghthlpvaeqrgeifhfnpgsvsipkggnpasygmldndvlsv 168 ::::::: d1vjga_ 179 PQAGGYT----------------------------------------------------- 185 d1su1a_ 169 ialndqsiiaqvainp 184 d1vjga_ 186 efarivenwdawlnwf 201 FAST alignment (Normalized score: 1.55 Raw score:298.60) d1su1a_ 1 -MMKLMFASDIHG----------------------------------------------- 12 ::::::: d1vjga_ 1 SKTQIRIC-----FVGDSFVNGTGDPECLGWTGRVCVNANKKGYDVTYYNLGIRRDTSSD 55 d1su1a_ 13 SLPATE-RVLELFAQSGA----QWLVILGDVLNHGPRNALPEGY---------------- 51 :::::: ::::: :::::: d1vjga_ 56 IAKRWLQEVSLR------LHKEYNSLVV----------------FSFGLNDTTLENGKPR 93 d1su1a_ 52 --------APAKVVERLNEVAHKVIAVRGNCD---------------------SEVDQML 82 ::::::::::: :::::: ::::::: d1vjga_ 94 VSIAETIKNTREILTQAKK---LYPVLM----ISPAPYIEQQDPGRRRRTIDLSQQLALV 146 d1su1a_ 83 ---LHFPITAPWQQVLLEKQRLFLTHGHLFGPENLPALNQNDVLVYGHTHLPVAEQRGEI 139 :::: d1vjga_ 147 CQDLDVP----------------------------------------------------- 153 d1su1a_ 140 FHFNPGSVSIPKGGNPASYGMLDNDVLSVIALNDQSIIAQVAINP--------------- 184 d1vjga_ 154 ---------------------------------------------YLDVFPLLEKPSVWL 168 d1su1a_ 185 --------------------------------- 185 d1vjga_ 169 HEAKANDGVHPQAGGYTEFARIVENWDAWLNWF 201 TMalign alignment (TM-score: 0.41 Raw score:75.65) d1su1a_ 1 ---MMKLMFASD--------------------------------------IHGSLPATER 19 ::::::::: :::: ::::: d1vjga_ 1 SKTQIRICFVGDSFVNGTGDPECLGWTGRVCVNANKKGYDVTYYNLGIRRDTSS-DIAKR 59 d1su1a_ 20 VLELFAQSGA----QWLVILGDVLNHGPRNA---LPEGY-AP-AKVVERLNEVA--HKVI 68 :::::::::: ::::::::: ::: ::: ::::: :: ::::::::::: :::: d1vjga_ 60 WLQEVSLRLHKEYNSLVVFSFGL-NDT-TLENGKPRVSIAETIKNTREILTQAKKLYPVL 117 d1su1a_ 69 AVRGN-------------C--DSEVDQMLL--H-FPITAPWQQVLLEKQRLFLTHGHL-- 108 ::::: : ::::::::: : :::::: ::::: d1vjga_ 118 MISPAPYIEQQDPGRRRRTIDLSQQLALVCQDLDVPYLDV-------------FPLLEKP 164 d1su1a_ 109 FGPENL-----PALNQNDVLVYGHTHLPVAEQRGEIFH-FN--------------PGSVS 148 :::::: :: ::: :: ::: : d1vjga_ 165 SVWLHEAKAND------------GV-HPQ---AG-GYTE-FARIVENWDAWLNWF----- 201 d1su1a_ 149 IPKGGNPASYGMLDNDVLSVIALNDQSIIAQVAINP 184 d1vjga_ 202 ------------------------------------ 202 HHsearch alignment (Probability: 0.04 E-value:0.09) d1su1a_ 2 MKLMFASDIHGSL----P---ATERVLELFAQSGAQWLVILGDVLNHGPRNALPEGYAPA 54 ::::::::::::: : ::::::::::::::::::::::::::::::: :::::: d1vjga_ 5 IRICFVGDSFVNGTGDPECLGWTGRVCVNANKKGYDVTYYNLGIRRDTSSDI--AKRWLQ 62 d1su1a_ 55 KVVERLNEVAHKV-IAVRGNCDSE 77 ::::::::::::: :::::::::: d1vjga_ 63 EVSLRLHKEYNSLVVFSFGLNDTT 86