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 | d1duvg1 | Ornithine transcarbamoylase | Aspartate/ornithine carbamoyltransferase | ATC-like | 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 <-- 1.046 --> HitDALI alignment (Z-score: 5.9 Raw score:402.20) d1jfla2 1 -------------------------------------------fKKAGLLATTGT-ivsG 16 ::::::::::: : d1duvg1 1 sgfyhkhflklldftpaelnsllqlaaklkadkksgkeeakltgKNIALIFEKDStrtrC 60 d1jfla2 17 VYEKEFSKYGVEIMTP-tEDEQkdVMRGiyegvkagnlklgrELLLKTAKILEErGAECI 75 :::::::::::::::: :::: :::: :::::::::::: ::::: d1duvg1 61 SFEVAAYDQGARVTYLgpSGSQ--IGHK--------------ESIKDTARVLGR-MYDGI 103 d1jfla2 76 IAGCTEvSVVLK--QDDLKVPLIDP-----MDVIAEVAVKVALEK--- 113 :::::: ::::: ::::::::::: ::::::::::::::: d1duvg1 104 QYRGYG-QEIVEtlAEYASVPVWNGltnefHPTQLLADLLTMQEHlpg 150 FAST alignment (Normalized score: 5.42 Raw score:706.10) d1jfla2 1 -------------------------------------------FKKAGLLATTGTIVS-- 15 ::::::: d1duvg1 1 SGFYHKHFLKLLDFTPAELNSLLQLAAKLKADKKSGKEEAKLTGKNIALI--------FE 52 d1jfla2 16 -------GVYEKEFSKYGVEIMTPTEDEQKDVMRGIYEGVKAGNLKLGRE---------- 58 :::::::::::::::::: d1duvg1 53 KDSTRTRCSFEVAAYDQGARVTYLG-------------------------PSGSQIGHKE 87 d1jfla2 59 LLLKTAKILEERGAECIIAG--CTEVSVVLKQDDLKVPLIDP------MDVIAEVAVKVA 110 ::::::::::: :::::::: ::::::: ::::::::::: :::::::::::: d1duvg1 88 SIKDTARVLGR-MYDGIQYRGYGQEIVET-LAEYASVPVWN-GLTNEFHPTQLLADLLTM 144 d1jfla2 111 LEK----- 113 : d1duvg1 145 Q--EHLPG 150 TMalign alignment (TM-score: 0.57 Raw score:64.76) d1jfla2 1 -----------------------------------------F--KKAGLLATTGT---IV 14 : ::::::::::: d1duvg1 1 SGFYHKHFLKLLDFTPAELNSLLQLAAKLKADKKSGKEEAKLTGKNIALIFEKDSTRT-- 58 d1jfla2 15 SGVYEKE-FSKYGVEIMTP--TEDEQKDVMRGIYEGVKAGNLKLGRELLLKTAKILEERG 71 :::::: ::::::::::: ::: :: : : : ::::::::::::: d1duvg1 59 -RCSFEVAAYDQGARVTYLGP--SGS-QI--G--H--------K--ESIKDTARVLGRM- 99 d1jfla2 72 AECIIAGCTEVSVVLK--QDDLKVPLIDP-----MDVIAEVAVKVALE---K- 113 :::::: ::::::::: ::::::::::: :::::::::::: : : d1duvg1 100 YDGIQY-RGYGQEIVETLAEYASVPVWNGLTNEFHPTQLLADLLTM-QEHLPG 150 HHsearch alignment (Probability: 0.02 E-value:0.28) d1jfla2 6 LLATTGTIVSGVYEKEFSKYGVEIMTPTEDEQKDVMRGIYEGVKAGNLKLGRELLLKTAK 65 ::::::::::::::::::::::::::::::: :::::::: :::::: d1duvg1 50 IFEKDSTRTRCSFEVAAYDQGARVTYLGPSG---------SQIGHKES------IKDTAR 94 d1jfla2 66 ILEERGAECIIAGCTEVSVVLK-QDDLKVPLID-------PMDVIAEV 105 :: ::::::::::::::::::: :::::::::: :::::::: d1duvg1 95 VL-GRMYDGIQYRGYGQEIVETLAEYASVPVWNGLTNEFHPTQLLADL 141