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 | d1t3ea3 | Gephyrin, domain 5 | Molybdenum cofactor biosynthesis proteins | Molybdenum cofactor biosynthesis proteins | 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 <-- 1.576 --> HitDALI alignment (Z-score: 4.2 Raw score:332.30) d1jfla2 1 fKKAGLLA-----------------tTGTIvsGVYEKEFSKYGVEIMTPtedeqkdVMRG 43 ::::::: :::: ::::::::::::::::: :::: d1t3ea3 1 -PVVAVMStgnellnpeddllpgkirDSNR--STLLATIQEHGYPTINL-----giVGDN 52 d1jfla2 44 iyegvkagnlklgRELLLKTAKILEErGAECIIAGCT--EVSVVL---KQDD-------- 90 ::::::::::::: :::::::::: :::::: :::: d1t3ea3 53 -------------PDDLLNALNEGIS-RADVIITSGGvdYLKQVLdidLHAQihfgrvfm 98 d1jfla2 91 ---------------lKVPLIDPM--------------dviaevavkvalek 113 :::::::: d1t3ea3 99 kpglpttfatldidgvRKIIFALPgnpvsavvtcnlfvvpalrkmqgildpr 150 FAST alignment (Normalized score: 4.20 Raw score:546.40) d1jfla2 1 FKKAGLLAT--------------------TGTIVSGVYEKEFSKYGVEIMTPTEDEQKDV 40 ::::: :::: :::::::::::::::::: d1t3ea3 1 -PVVAV---MSTGNELLNPEDDLLPGKIRDSNR--STLLATIQEHGYPTINLG------- 47 d1jfla2 41 MRGIYEGVKAGNLKL----GRELLLKTAKILEERGAECIIAG--CTEVSVVLKQDDL--- 91 :::::::::::::: :::::::: ::::::: d1t3ea3 48 ---------------IVGDNPDDLLNALNEGIS-RADVIITSGGVDYLKQV------LDI 85 d1jfla2 92 -----------------------------KVPLIDPMDVIAEVAVKVALEK--------- 113 :::::: d1t3ea3 86 DLHAQIHFGRVFMKPGLPTTFATLDIDGVRKIIFA----------------LPGNPVSAV 129 d1jfla2 114 --------------------- 114 d1t3ea3 130 VTCNLFVVPALRKMQGILDPR 150 TMalign alignment (TM-score: 0.55 Raw score:61.98) d1jfla2 1 FKKAGLLA----T-T-----------GT-IVSGVYEKEFSKYGVEIMTPTEDEQKDVMRG 43 ::::::: : : :: : ::::::::::::::::: :: : : d1t3ea3 1 -PVVAVMSTGNELLNPEDDLLPGKIRDSNR--STLLATIQEHGYPTINL----GI-V--G 50 d1jfla2 44 IYEGVKAGNLKLGRELLLKTAKILEERGAECIIAGCTE-VSVVLKQ---DD--------- 90 : ::::::::::::::: :::::::::: ::::::: :: d1t3ea3 51 D-----------NPDDLLNALNEGISR-ADVIITSGGVDYLKQVLDIDLHAQIHFGRVFM 98 d1jfla2 91 ----------LK-----VPLIDPM----D--VI--AEV----------------AVKVAL 111 :: ::::::: : :: : d1t3ea3 99 KPGLPTTFATLDIDGVRKIIFALPGNPVSAVVTCN--LFVVPALRKMQGILDPR------ 150 d1jfla2 112 EK 113 d1t3ea3 151 -- 151 HHsearch alignment (Probability: 0.05 E-value:0.06) d1jfla2 3 KAGLLATTGT---------------IVSGVYEKEFSKYGVEIM 30 :::::::::: :::::::::::::::::: d1t3ea3 2 VVAVMSTGNELLNPEDDLLPGKIRDSNRSTLLATIQEHGYPTI 44