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 | d1jmva_ | Universal stress protein A, UspA | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1j1ua_ | Tyrosyl-tRNA synthetase (TyrRS) | Nucleotidylyl transferase | Adenine nucleotide alpha hydrolase-like | α/β |
Query <-- 0.827 --> IntermediateDALI alignment (Z-score: 7.9 Raw score:512.80) query 1 slqlrlalnqidstvgdiagnaeailrwtrhsaeqgahlvafpemaltgypvedlalrss 60 d1jmva_ 1 ------------------------------------------------------------ 1 query 61 fveasrtalrelaarlaeegfgelpvlvgyldrsesaqpkygqpagaprnaaavlhrgrv 120 d1jmva_ 1 ------------------------------------------------------------ 1 query 121 altfakhhlpnygvfdefryfvpgdtmpivrlhgvdialaicedlwqdggrvpaarsaga 180 d1jmva_ 1 ------------------------------------------------------------ 1 query 181 glllsvnaspyerdkddtrlelvrkraqeagcttaylamiggqdelvfdgdsivvdrdge 240 d1jmva_ 1 ------------------------------------------------------------ 1 query 241 vvarapqfsegcvvldldlpaaeaepptgvvddglridrlviseeplpayeaelaggyad 300 d1jmva_ 1 ------------------------------------------------------------ 1 query 301 rldadeevysalvvglrayvaknGFRSVLIGLSGGIDSALVAAIACDALG--aqNVYGVS 358 ::::::::::::::::::::::::::: :::::: d1jmva_ 1 -----------------------MYKHILVAVDLSEESPILLKKAVGIAKrhdaKLSIIH 37 query 359 MPS------------------kysSDHSKGDAAELARRTG---lNFRTVSIepmfdayma 397 ::: :::::::::::::::: ::::::: d1jmva_ 38 VDVnfsdlytglidvnmssmqdriSTETQKALLDLAESVDypisEKLSGSG--------- 88 query 398 slgltglaeenlqsrLRGTTLMAISNQEGH-IVLAPGNKseLAVGYS------tlygdsv 450 ::::::::::::::: :::::::: :::::: d1jmva_ 89 ---------------DLGQVLSDAIEQYDVdLLVTGHHQ--DFWSKLmsstrqvmntiki 131 query 451 gAYGPiKDVYktsifrlaewrnraaaergqtppipeasitkpdypvldailelyvdrdtg 510 :::: :::: d1jmva_ 132 dMLVV-PLRD-------------------------------------------------- 140 query 511 adaivaagydrelvvktlrmvdtaeykrrqyppgtkisakgfgkdrrlpitnrwregh 568 d1jmva_ 141 ---------------------------------------------------------- 141 FAST alignment (Normalized score: 3.30 Raw score:930.50) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1jmva_ 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1jmva_ 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1jmva_ 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1jmva_ 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1jmva_ 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQ------NV 354 ::::::::::::::::::::::::: :: d1jmva_ 1 -----------------------MYKHILVAVDLSEESPILLKKAVGI----AKRHDAKL 33 query 355 YGVSMPSKYSS-----------------------DHSKGDAAELAR--RTGL-NFRTVSI 388 :::::: :::::::::::: :::: ::::: d1jmva_ 34 SIIHVD-----VNFSDLYTGLIDVNMSSMQDRISTETQKALLDLAESVDYPISEKLSG-- 86 query 389 EPMFDAYMASLGLTGLAEENLQSR--LRGTTLMAISNQEG-HIVLAPGNKSELAVGYSTL 445 :::::::::::::: :::::::: d1jmva_ 87 ------------------------SGDLGQVLSDAIEQYDVDLLVTGHH----------- 111 query 446 Y-------------GDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKP 492 :::::: d1jmva_ 112 -QDFWSKLMSSTRQVMNTIK---------------------------------------- 130 query 493 DYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGF 552 d1jmva_ 131 ------------------------------------------------------------ 131 query 553 GKDRRLPITNRWREGH---------- 568 d1jmva_ 131 ----------------IDMLVVPLRD 140 TMalign alignment (TM-score: 0.17 Raw score:95.23) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1jmva_ 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1jmva_ 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1jmva_ 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1jmva_ 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1jmva_ 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALG--AQNVYGVS 358 ::::::::::::::::::::::::::: :::::::: d1jmva_ 1 -----------------------MYKHILVAVDLSEESPILLKKAVGIAKRHDAKLSIIH 37 query 359 MPSK---------------------YSSDHSKGDAAELARRT--GLNFRTVSIEPMFDAY 395 :::: :: :::::::::::: ::::::::: d1jmva_ 38 VDVNFSDLYTGLIDVNMSSMQDRIS--TE-TQKALLDLAESVDYPISEKLSGS------- 87 query 396 MASLGLTGLAEENLQSRLRGTTLMAISNQEGH-IVLAPGNKSELAVGYSTLYGDS-VG-- 451 : ::::::::::::::: ::::::: ::::::::: ::: :: d1jmva_ 88 --------------G--DLGQVLSDAIEQYDVDLLVTGHH-QDFWSKLMS--STRQVMNT 128 query 452 ----AYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDR 507 ::: :: : :: d1jmva_ 129 IKIDMLV-VP-L-RD--------------------------------------------- 140 query 508 DTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREG 567 d1jmva_ 141 ------------------------------------------------------------ 141 query 568 H 568 d1jmva_ 141 - 141 HHsearch alignment (Probability: 0.04 E-value:0.35) query 19 AGNAEAILRWTRHSAEQGAHLVAF------PEMALTGYPVEDLALRSSFVEASRTALREL 72 :::::::::::::::::::::::: :::::::::::::::::::::::::::::: d1jmva_ 13 EESPILLKKAVGIAKRHDAKLSIIHVDVNFSDLYTGLIDVNMSSMQDRISTETQKALLDL 72 query 73 AAR 75 ::: d1jmva_ 73 AES 75
Intermediate <-- 1.006 --> HitDALI alignment (Z-score: 6.9 Raw score:571.10) d1jmva_ 1 --------------------------MYKHILVAV----dLSEESPILLKKAVGIAKRHd 30 ::::::::: ::::::::::::::::::: d1j1ua_ 1 mdefemikrntseiiseeelrevlkkDEKSAYIGFepsgkIHLGHYLQIKKMIDLQNAG- 59 d1jmva_ 31 AKLSIIHVD--VNFSdlytglidvnmssmqdRIST-ETQKALLDLAESVDYPIsEKLSGS 87 ::::::::: :::: :::: ::::::::::::::::: :::::: d1j1ua_ 60 FDIIILLADlhAYLN------------qkgeLDEIrKIGDYNKKVFEAMGLKA-KYVYGS 106 d1jmva_ 88 ------------------------------------------gdlgqvLSDAIEQYDVDL 105 :::::::::::: d1j1ua_ 107 efqldkdytlnvyrlalkttlkrarrsmeliaredenpkvaeviypimQVNDIHYLGVDV 166 d1jmva_ 106 LVTGHhqdfwsklmssTRQVMNTI-----KIDMLVVPLRD-------------------- 140 ::::: :::::::: ::::::::::: d1j1ua_ 167 AVGGM---------eqRKIHMLARellpkKVVCIHNPVLTgldgegnfiavddspeeira 217 d1jmva_ 141 ------------------------------------------------------------ 141 d1j1ua_ 218 kikkaycpagvvegnpimeiakyfleypltikrpekfggdltvnsyeeleslfknkelhp 277 d1jmva_ 141 ---------------------- 141 d1j1ua_ 278 mdlknavaeelikilepirkrl 299 FAST alignment (Normalized score: 5.88 Raw score:1204.00) d1jmva_ 1 MY----------------------------KHILVAVDL----SEESPILLKKAVGIAKR 28 ::::::::: :::::::::::::::: d1j1ua_ 1 --MDEFEMIKRNTSEIISEEELREVLKKDEKSAYIGFEPSGKIHLGHYLQIKKMIDLQN- 57 d1jmva_ 29 HDAKLSIIHVDVNFSDLYTGLIDVNMSSMQDRIS------------TETQKALLDLAES- 75 :::::::::: ::::::::::::: d1j1ua_ 58 AGFDIIILLA------------------------DLHAYLNQKGELDEIRKIGDYNKKVF 93 d1jmva_ 76 --VDYPISEKLSGSG--------------------------------------------- 88 :::: ::::: d1j1ua_ 94 EAMGLK-AKYVY---GSEFQLDKDYTLNVYRLALKTTLKRARRSMELIAREDENPKVAEV 149 d1jmva_ 89 DLGQVLSDAIEQYDVDLLVTGHHQDFWSK---LMSSTRQVMNTI--KIDMLVVPLRD--- 140 :::::::::::::::::::: :::::::::::: ::::::::: d1j1ua_ 150 IYPIMQVNDIHYLGVDVAVG---------GMEQRKIHMLARELLPKKVVCIHNPV--LTG 198 d1jmva_ 141 ------------------------------------------------------------ 141 d1j1ua_ 199 LDGEGNFIAVDDSPEEIRAKIKKAYCPAGVVEGNPIMEIAKYFLEYPLTIKRPEKFGGDL 258 d1jmva_ 141 ----------------------------------------- 141 d1j1ua_ 259 TVNSYEELESLFKNKELHPMDLKNAVAEELIKILEPIRKRL 299 TMalign alignment (TM-score: 0.62 Raw score:86.49) d1jmva_ 1 -----------------------M---YKHILVAVD-L--SE-ESPILLKKAVGIAKRHD 30 : ::::::::: : :: ::::::::::::::: : d1j1ua_ 1 MDEFEMIKRNTSEIISEEELREVLKKDEKSAYIGFEPSGKIHLGHYLQIKKMIDLQNA-G 59 d1jmva_ 31 AKLSII-H--VDVNF----SDLYTGLIDVNMSSMQDRISTETQKALLDLAE-SV--DYPI 80 :::::: : ::::: ::: :::::::::: :: :::: d1j1ua_ 60 FDIIILLADLHAYLNQKGE------------------LDE-IRKIGDYNKKVFEAMGLKA 100 d1jmva_ 81 SEKLSG----------------------------------------S--GDLGQVLSDAI 98 :::::: : ::: ::::::: d1j1ua_ 101 KYVYGSEFQLDKDYTLNVYRLALKTTLKRARRSMELIAREDENPKVAEVIYP-IMQVNDI 159 d1jmva_ 99 EQYDVDLLVTGHHQDFWSKLMSSTRQVMNTI-----KIDMLVVPLR-D------------ 140 :::::::::::: : ::::::::: :::::::::: : d1j1ua_ 160 HYLGVDVAVGGM-------E--QRKIHMLARELLPKKVVCIHNPVLTGLDGEGNFIAVDD 210 d1jmva_ 141 ------------------------------------------------------------ 141 d1j1ua_ 211 SPEEIRAKIKKAYCPAGVVEGNPIMEIAKYFLEYPLTIKRPEKFGGDLTVNSYEELESLF 270 d1jmva_ 141 ----------------------------- 141 d1j1ua_ 271 KNKELHPMDLKNAVAEELIKILEPIRKRL 299 HHsearch alignment (Probability: 0.02 E-value:1.10) d1jmva_ 101 YDVDLLVTGHHQDFWSKL 118 :::::::::::::::::: d1j1ua_ 162 LGVDVAVGGMEQRKIHML 179