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 | d1q74a_ | 1D-myo-inosityl 2-acetamido-2-deoxy-alpha-D-glucopyranoside deacetylase MshD | LmbE-like | LmbE-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 <-- 0.687 --> HitDALI alignment (Z-score: 4.7 Raw score:490.40) d1jmva_ 1 MYKHILVAVDLSEESP-ILLKKAVGIAKRhDAKLSIIHVD-vnfsdlytglidvnmssmq 58 :::::::::::::::: :::::::::::: :::::::::: d1q74a_ 1 ETPRLLFVHAHPDDESlSNGATIAHYTSR-GAQVHVVTCTlgeegevigdrwaqltadha 59 d1jmva_ 59 DRISTETQKALLDLAESVdyPISEKLSGS----------------------gDLGQVLSD 96 :::::::::::::::::: ::::::::: :::::::: d1q74a_ 60 DQLGGYRIGELTAALRAL--GVSAPIYLGgagrwrdsgmarsqrrfvdadprQTVGALVA 117 d1jmva_ 97 AIEQYDVDLLVTG---HHQD--fwsklmSSTRQVMNTIK---------IDMLVVPLR--- 139 ::::::::::::: :::: ::::::::::: ::::::::: d1q74a_ 118 IIRELRPHVVVTYdpnGGYGhpdhvhthTVTTAAVAAAGvhpgdpwtvPKFYWTVLGlsa 177 d1jmva_ 140 ------------------------------------------------------------ 140 d1q74a_ 178 lisgaralvpddlrpewvlpradeiafgysddgidavveadeqaraakvaalaahatqvv 237 d1jmva_ 140 -------------------------------------------------d 140 d1q74a_ 238 vgptgraaalsnnlalpiladehyvlaggsagardergwetdllaglgft 287 FAST alignment (Normalized score: 4.97 Raw score:997.20) d1jmva_ 1 MY--KHILVAVDL--SEESPI-LLKKAVGIAKRHDAKLSIIHVDVNFSDLYTGLIDVNMS 55 ::::::: :::::: :::::::::: ::::::::: d1q74a_ 1 --ETPRLLFVH--AHPDDESLSNGATIAHYTS-RGAQVHVVT------------------ 37 d1jmva_ 56 SMQDRIS--------------------------TETQKALLDLAESVDYPISEKLSGSG- 88 :::::::::::: ::::::::: d1q74a_ 38 -------CTLGEEGEVIGDRWAQLTADHADQLGGYRIGELTAALR--ALGVSAPIY---L 85 d1jmva_ 89 ------------------------DLGQVLSDAIEQYDVDLLVTGHHQ------DFWSKL 118 :::::::::::::::::::: :::::: d1q74a_ 86 GGAGRWRDSGMARSQRRFVDADPRQTVGALVAIIRELRPHVVVT----YDPNGGYGHPDH 141 d1jmva_ 119 MSSTRQVMNTIK--------------IDMLVVPLRD------------------------ 140 :::::::::: :::::::: d1q74a_ 142 VHTHTVTTAA--VAAAGVHPGDPWTVPKFYWTVL--GLSALISGARALVPDDLRPEWVLP 197 d1jmva_ 141 ------------------------------------------------------------ 141 d1q74a_ 198 RADEIAFGYSDDGIDAVVEADEQARAAKVAALAAHATQVVVGPTGRAAALSNNLALPILA 257 d1jmva_ 141 ------------------------------ 141 d1q74a_ 258 DEHYVLAGGSAGARDERGWETDLLAGLGFT 287 TMalign alignment (TM-score: 0.57 Raw score:80.29) d1jmva_ 1 MYKHILVAVDLSEESPILLKKAVGIAKRHDAKLSIIHVDV-------------------- 40 :::::::::::::::::::::::::::::::::::::::: d1q74a_ 1 ETPRLLFVHAHPDDESLSNGATIAHYTSRGAQVHVVTCTLGEEGEVIGDRWAQLTADHAD 60 d1jmva_ 41 --NFSDLYTGLIDVNMSSMQDRISTETQKALLDLAESVDYPISEKLSGS----------- 87 ::::::::::::::: ::::::::: d1q74a_ 61 QL---------------------GGYRIGELTAALRAL--GVSAPIYLGGAGRWRDSGMA 97 d1jmva_ 88 ------------GDLGQVLSDAIEQYDVDLLVTG---HHQDF---WSKL-MSS-TRQVMN 127 :: ::::::::::::::::::: ::::: :: :: :::::: d1q74a_ 98 RSQRRFVDADPRQT-VGALVAIIRELRPHVVVTYDPNGGYGHPDH--VHT-HTVTTAAVA 153 d1jmva_ 128 TI--------KI-DMLVVPL-------------------------R--D----------- 140 :: :: ::::::: : : d1q74a_ 154 AAGVHPGDPWTVPKFYWTVLGLSALISGARALVPDDLRPEWVLPRADEIAFGYSDDGIDA 213 d1jmva_ 141 ------------------------------------------------------------ 141 d1q74a_ 214 VVEADEQARAAKVAALAAHATQVVVGPTGRAAALSNNLALPILADEHYVLAGGSAGARDE 273 d1jmva_ 141 -------------- 141 d1q74a_ 274 RGWETDLLAGLGFT 287 HHsearch alignment (Probability: 0.63 E-value:0.01) d1jmva_ 3 KHILVAVDLSEESPILLKKAVGIAK--RHDAKLSIIHVDVNFSDLY-----TGLIDVNMS 55 :::::::: ::::::::::::::: ::::::::::::::::::: ::::::::: d1q74a_ 3 PRLLFVHA--HPDDESLSNGATIAHYTSRGAQVHVVTCTLGEEGEVIGDRWAQLTADHAD 60 d1jmva_ 56 SMQDRISTETQKALLDLAESVDYPISEKLS--------------------GSGDLGQVLS 95 ::::::::: ::::::::::::::::: :::::::::: d1q74a_ 61 QLGGYRIGE----LTAALRALGVSAPIYLGGAGRWRDSGMARSQRRFVDADPRQTVGALV 116 d1jmva_ 96 DAIEQYDVDLLVT 108 ::::::::::::: d1q74a_ 117 AIIRELRPHVVVT 129