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 | d1jfla2 | Aspartate racemase | Aspartate/glutamate racemase | ATC-like | α/β |
| Hit | d1d3va_ | Arginase | Arginase/deacetylase | Arginase/deacetylase | α/β |
Query <-- 0.802 --> IntermediateDALI alignment (Z-score: 1.0 Raw score:191.90) query 1 slqLRLALNQ-------------------------------IDST------VGDIAGNAE 23 ::::::: :::: ::::::::: d1jfla2 1 --fKKAGLLAttgtivsgvyekefskygveimtptedeqkdVMRGiyegvkAGNLKLGRE 58 query 24 AILRWTRHSAEQGAHLVAF-PEMAltgypvedlalrssfveasrtalrelAARLaeegfg 82 ::::::::::::::::::: :::: :::: d1jfla2 59 LLLKTAKILEERGAECIIAgCTEV----------------------svvlKQDD-----l 91 query 83 ELPVLvgyldrsesaqpkygqpagaprnaaavlhrgrvaltfakhhlpnygvfdefryfv 142 ::::: d1jfla2 92 KVPLI------------------------------------------------------- 96 query 143 pgdtmpivrlhgvdialaicedlwqdggrvpaarsagaglllsvnaspyerdkddtrlel 202 d1jfla2 97 ------------------------------------------------------------ 97 query 203 vrkraqeagcttaylamiggqdelvfdgdsivvdrdgevvarapqfsegcvvldldlpaa 262 d1jfla2 97 ------------------------------------------------------------ 97 query 263 eaepptgvvddglridrlviseeplpayeaelaggyadrl 302 d1jfla2 97 -----------------------dpmdviaevavkvalek 113 FAST alignment (Normalized score: 1.26 Raw score:232.10) query 1 SLQLRLALNQIDSTVGDIAGNAEAI---------------LRWTRHSAEQGAHLVAFPEM 45 :::::::::::: d1jfla2 1 -------------------------FKKAGLLATTGTIVSGVYEKEFSKYGV-------- 27 query 46 ALTGYPVEDLALRSSFVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPA 105 d1jfla2 28 ------------------------------------------------------------ 28 query 106 GAPRNAAAVLHRGRVALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDL 165 d1jfla2 28 ------------------------------------------------------------ 28 query 166 WQDG----------------------------------GRVPAARSAGAGLLLSVNASPY 191 :::::::::::::::: d1jfla2 28 ----EIMTPTEDEQKDVMRGIYEGVKAGNLKLGRELLLKTAKILEERGAECIIA------ 77 query 192 ERDKD--DTRLELVRK-RAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGEVVARAPQF 248 :::::: ::::::::::: d1jfla2 78 -----GCTEVSVV---LKQDDLKVPLID-------------------------------- 97 query 249 SEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYADRL------ 302 d1jfla2 98 ------------------------------------------------------PMDVIA 103 query 303 ---------- 303 d1jfla2 104 EVAVKVALEK 113 TMalign alignment (TM-score: 0.20 Raw score:60.72) query 1 -SLQLR-LA-LN-QIDSTV-GDIAGN--AEAI--LRWT-RHSAEQGAHLV-AF-----PE 44 : : : :::: : : :: :: :::::: : d1jfla2 1 F----KK-AG-LL--ATTGT-----IVS---GVY--EKE-FS--KYGVEIM-TPTEDE-- 36 query 45 MA-LTG-YPV---EDLALRSSFVEASRTALRELAARLAEEGFGELPVLVG-Y--LDRSES 96 : ::: ::: :: :::::::::::::::::::: : : ::::: : :: d1jfla2 37 -QKDVMRGIYEGVKA-GNLKLGRELLLKTAKILEER-G----A--ECIIAGCTEVS---- 83 query 97 AQPKYGQPAGAPRNAAA--VLHRGRVALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHG 154 ::::: :::::::: d1jfla2 84 ------------VVLKQDD-----LKVPLIDP---------------------------- 98 query 155 VDIALAICEDLWQDGGRVPAARSAGAGLLLSVNASPYERDKDDTRLELVRKRAQEAGCTT 214 :::: : : : : :::::: d1jfla2 99 ----MDVI--A------E----------V-------------------A--VKVALE--- 112 query 215 AYLAMIGGQDELVFDGDSIVVDRDGEVVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDG 274 : d1jfla2 113 -----------------------K------------------------------------ 113 query 275 LRIDRLVISEEPLPAYEAELAGGYADRL 302 d1jfla2 114 ---------------------------- 114 HHsearch alignment (Probability: 0.06 E-value:0.03) query 16 GDIAGNAEAILRWTRHSAEQGAHLVAF 42 ::::::::::::::::::::::::::: d1jfla2 51 GNLKLGRELLLKTAKILEERGAECIIA 77
Intermediate <-- 1.071 --> HitDALI alignment (Z-score: 2.8 Raw score:314.40) d1jfla2 1 fKKAGLLA---------------TTGTIVSGVYeKEFSKYGVEIMTPtedeqkdVMRG-- 43 ::::::: :::::::::: ::::::::::::: :::: d1d3va_ 1 -KPIEIIGapfskgqprggvekgPAALRKAGLV-EKLKETEYNVRDH------gDLAFvd 52 d1jfla2 44 ------iyegvkAGNLKLGRELLLKTAKILEERGAeCIIAGCTEvSVVLK--QDDL---- 91 ::::::::::::::::::::::: :::::::: ::::: :::: d1d3va_ 53 vpndspfqivknPRSVGKANEQLAAVVAETQKNGT-ISVVLGGD-HSMAIgsISGHarvh 110 d1jfla2 92 ------------------------------------------------------------ 92 d1d3va_ 111 pdlcviwvdahtdintplttssgnlhgqpvafllkelkgkfpdvpgfswvtpcisakdiv 170 d1jfla2 92 ------------------------------------------------------------ 92 d1d3va_ 171 yiglrdvdpgehyiiktlgikyfsmtevdklgigkvmeetfsyllgrkkrpihlsfdvdg 230 d1jfla2 92 ---------------------------------kvPLIDPM------------------- 99 :::::: d1d3va_ 231 ldpvftpatgtpvvgglsyreglyiteeiyktgllSGLDIMevnptlgktpeevtrtvnt 290 d1jfla2 100 ----dviaevavkvalek 113 d1d3va_ 291 avaltlscfgtkregnhk 308 FAST alignment (Normalized score: 3.28 Raw score:612.60) d1jfla2 1 FKKAGLLA-----------------TTGTIVSGVYEKEFSKYGVEIMTPTEDEQKDVMRG 43 ::::: ::::::: ::::::::::::::: d1d3va_ 1 -KPIEI--IGAPFSKGQPRGGVEKGPAALRKA-GLVEKLKETEYNVRD------------ 44 d1jfla2 44 IYEGVKA---------------------GNLKLGRELLLKTAKILEERGAECIIAG--CT 80 ::::::::::::::::::::: :::::: :: d1d3va_ 45 -------HGDLAFVDVPNDSPFQIVKNPRSVGKANEQLAAVVAETQKNG-TISVVLGGDH 96 d1jfla2 81 EVSVVL---KQDDL---------------------------------------------- 91 ::::: :::: d1d3va_ 97 SMAIG-SISGHAR-VHPDLCVIWVDAHTDINTPLTTSSGNLHGQPVAFLLKELKGKFPDV 154 d1jfla2 92 ------------------------------------------------------------ 92 d1d3va_ 155 PGFSWVTPCISAKDIVYIGLRDVDPGEHYIIKTLGIKYFSMTEVDKLGIGKVMEETFSYL 214 d1jfla2 92 -----KVPLIDPMD-VIAEVAVKVALEK-------------------------------- 113 :::::: :::::: d1d3va_ 215 LGRKKRPIHLS---FDVDGLD-------PVFTPATGTPVVGGLSYREGLYITEEIYKTGL 264 d1jfla2 114 -------------------------------------------- 114 d1d3va_ 265 LSGLDIMEVNPTLGKTPEEVTRTVNTAVALTLSCFGTKREGNHK 308 TMalign alignment (TM-score: 0.53 Raw score:59.54) d1jfla2 1 FKKAGLLAT-------------TGTIVSGVYEKEFSKY-GVEIMTPTEDEQKDVMRG--- 43 ::::::::: :::::::::::::::: ::::::: ::::: :: d1d3va_ 1 KPIEIIGAPFSKGQPRGGVEKGPAALRKAGLVEKLKETEYNVRDHG---DLAFV-DVPND 56 d1jfla2 44 ------IYEGVKAGNLKLGRELLLKTAKILEER--GAECIIAGCTEVSVVLK-QDD-L-- 91 :::::::::::::::::::: ::::::::::: ::::: ::: : d1d3va_ 57 SPFQIV-------KNPRSVGKANEQLAAVVAETQKNGTISVVLGGD-HSMAIGSISGHAR 108 d1jfla2 92 KV---------------------------------------------------------- 93 :: d1d3va_ 109 VHPDLCVIWVDAHTDINTPLTTSSGNLHGQPVAFLLKELKGKFPDVPGFSWVTPCISAKD 168 d1jfla2 94 -----------------------------------------------------PLIDPMD 100 ::::::: d1d3va_ 169 IVYIGLRDVDPGEHYIIKTLGIKYFSMTEVDKLGIGKVMEETFSYLLGRKKRPIHLSFDV 228 d1jfla2 101 -VIA---------------EVAVKVAL--------------------------------- 111 :: :::::::: d1d3va_ 229 D-GLDPVFTPATGTPVVGGLSYREGLYITEEIYKTGLLSGLDIMEVNPTLGKTPEEVTRT 287 d1jfla2 112 ---------------------EK 113 d1d3va_ 288 VNTAVALTLSCFGTKREGNHK-- 308 HHsearch alignment (Probability: 0.02 E-value:0.13) d1jfla2 53 LKLGRELLLKTAKILEERGAECIIAGCTEV 82 :::::::::::::::::::::::::::::: d1d3va_ 68 VGKANEQLAAVVAETQKNGTISVVLGGDHS 97