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 | d1kq3a_ | Glycerol dehydrogenase | Dehydroquinate synthase-like | Dehydroquinate synthase-like | multi |
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 <-- 0.615 --> HitDALI alignment (Z-score: 3.7 Raw score:356.60) d1jfla2 1 -----------------------------FKKAGLLATTGTI----VSGVyEKEFskYGV 27 ::::::::::::: :::: :::: ::: d1kq3a_ 1 hmitttifpgryvqgagainileeelsrfGERAFVVIDDFVDknvlGENF-FSSF--TKV 57 d1jfla2 28 EIMTPtedeqkdVMRGiyegvkagnlklGRELLLKTAKILeERGAECIIAGC-TEVSVV- 85 ::::: :::: :::::::::::: ::::::::::: :::::: d1kq3a_ 58 RVNKQ------iFGGE-----------cSDEEIERLSGLV-EEETDVVVGIGgGKTLDTa 99 d1jfla2 86 -LKQDDLKVPLIDPM----------------------------------DVIAE------ 104 :::::::::::::: ::::: d1kq3a_ 100 kAVAYKLKKPVVIVPtiastdapcsalsviytpngefkrylflprnpdvVLVDTeivaka 159 d1jfla2 105 ------------------------------------------------------------ 105 d1kq3a_ 160 parflvagmgdalatwfeaesckqkyapnmtgrlgsmtayalarlcyetlleygvlakrs 219 d1jfla2 105 ------vavKVAL----------------------------------------------- 111 :::: d1kq3a_ 220 veeksvtpaLEKIveantllsglgfesgglaaahaihngltvlenthkylhgekvaigvl 279 d1jfla2 112 ------------------------------------------------------------ 112 d1kq3a_ 280 aslfltdkprkmieevysfceevglpttlaeigldgvsdedlmkvaekacdknetihnep 339 d1jfla2 112 -----------------------ek 113 d1kq3a_ 340 qpvtskdvffalkaadrygrmrknl 364 FAST alignment (Normalized score: 1.01 Raw score:204.10) d1jfla2 1 FKKAGLLATTGTIVSGVYEKEFSKYGVE-------------------------------- 28 d1kq3a_ 1 ----------------------------HMITTTIFPGRYVQGAGAINILEEELSRFGER 32 d1jfla2 29 ------------------------------------------------------------ 29 d1kq3a_ 33 AFVVIDDFVDKNVLGENFFSSFTKVRVNKQIFGGECSDEEIERLSGLVEEETDVVVGIGG 92 d1jfla2 29 ------------------------------------------------------------ 29 d1kq3a_ 93 GKTLDTAKAVAYKLKKPVVIVPTIASTDAPCSALSVIYTPNGEFKRYLFLPRNPDVVLVD 152 d1jfla2 29 --------------------------------------IMTPTEDEQKDVMRGIYEGVKA 50 :::::::::::::::: :::: d1kq3a_ 153 TEIVAKAPARFLVAGMGDALATWFEAESCKQKYAPNMTGRLGSMTAYALARLCY-ETLL- 210 d1jfla2 51 G-----------------NLKLGRELLLKTAKILEERGAECIIAGCTEVSVVLKQDDLKV 93 :::::::::::::: d1kq3a_ 211 -EYGVLAKRSVEEKSVTPALEKIVEANTLLSG---------------------------- 241 d1jfla2 94 PLID--------------------------------PMDVIAEVAVKVALEK-------- 113 ::::::::::: d1kq3a_ 242 ----LGFESGGLAAAHAIHNGLTVLENTHKYLHGEKVAIGVLASLFL-----TDKPRKMI 292 d1jfla2 114 ------------------------------------------------------------ 114 d1kq3a_ 293 EEVYSFCEEVGLPTTLAEIGLDGVSDEDLMKVAEKACDKNETIHNEPQPVTSKDVFFALK 352 d1jfla2 114 ------------ 114 d1kq3a_ 353 AADRYGRMRKNL 364 TMalign alignment (TM-score: 0.33 Raw score:37.39) d1jfla2 1 ------------------------------------------------------------ 1 d1kq3a_ 1 HMITTTIFPGRYVQGAGAINILEEELSRFGERAFVVIDDFVDKNVLGENFFSSFTKVRVN 60 d1jfla2 1 ----------------------------------------------------------FK 2 d1kq3a_ 61 KQIFGGECSDEEIERLSGLVEEETDVVVGIGGGKTLDTAKAVAYKLKKPVVIVPTIAS-- 118 d1jfla2 3 KAG----------------------------------------------LLA--TTGTIV 14 :: ::: : d1kq3a_ 119 -TDAPCSALSVIYTPNGEFKRYLFLPRNPDVVLVDTEIVAKAPARFLVAGMGDA----L- 172 d1jfla2 15 SGVYEKEFSKYGVEIMT-----------------------------PTEDEQ-KDVMRGI 44 ::: ::: :: ::::::: d1kq3a_ 173 --------------ATWFEAESCKQKYAPNMTGRLGSMTAYALARLCYE-TLLEYGVLAK 217 d1jfla2 45 YEGVKAGNLKL-GRELLLKTA-KILEERGA--EC---II-----------AGCTEVSVVL 86 : :::::: :: ::::::::: :::::::: :: : d1kq3a_ 218 R-SVEEKS-VTPALEKIVEANTLLSGLGFESGGLAAA-HAIHNGLTVLEN---------- 264 d1jfla2 87 KQDDLKVPLIDPMDVIAE------------------------------------------ 104 ::::: d1kq3a_ 265 -------------THKYLHGEKVAIGVLASLFLTDKPRKMIEEVYSFCEEVGLPTTLAEI 311 d1jfla2 105 VA----------------------------------------------------VKVALE 112 : d1kq3a_ 312 -GLDGVSDEDLMKVAEKACDKNETIHNEPQPVTSKDVFFALKAADRYGRMRKNL------ 364 d1jfla2 113 K 113 d1kq3a_ 365 - 365 HHsearch alignment (Probability: 0.26 E-value:0.01) d1jfla2 2 KKAGLLATTGTIVSGVYE---KEFSKYGVEIMTPTEDEQKDVMRGI 44 :::::::::::::::::: ::::::::::::::::::::::::: d1kq3a_ 31 ERAFVVIDDFVDKNVLGENFFSSFTKVRVNKQIFGGECSDEEIERL 76