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 | d1uana_ | Hypothetical protein TT1542 | 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 <-- 1.026 --> HitDALI alignment (Z-score: 5.8 Raw score:519.60) d1jmva_ 1 mykHILVAV-DLSEeSPILLKKAVGIAKRhDAKLSIIHVDvnfsdlytglidvnmssmqd 59 :::::: :::: :::::::::::::: :::::::::: d1uana_ 1 -mlDLLVVApHPDDgELGCGGTLARAKAE-GLSTGILDLT-------------rgemgsk 45 d1jmva_ 60 RISTETQKALLDLAESVdyPISEKLSGSG---------DLGQVLSDAIEQYDVDLLVTGH 110 ::::::::::::::::: :::::::::: :::::::::::::::::::::: d1uana_ 46 GTPEEREKEVAEASRIL--GLDFRGNLGFpdggladvpEQRLKLAQALRRLRPRVVFAPL 103 d1jmva_ 111 hQDFWSklMSSTRQVMNTIK----------------IDMLVVPLRD-------------- 140 ::::: :::::::::::: :::::::::: d1uana_ 104 eADRHPdhTAASRLAVAAVHlaglrkaplegepfrvERLFFYPGNHpfapsflvkisafi 163 d1jmva_ 141 --------------------------------------------------------- 141 d1uana_ 164 dqweaavlayrsqftvgpkgvearkamrrywgnylgvdyaepfvsplpvlyvpwsra 220 FAST alignment (Normalized score: 6.18 Raw score:1084.00) d1jmva_ 1 MYK--HILVAVDL--SEESPI-LLKKAVGIAKRHDAKLSIIHVDVNFSDLYTGLIDVNMS 55 :::::: :::::: :::::::::: ::::::::: d1uana_ 1 ---MLDLLVVA--PHPDDGELGCGGTLARAKA-EGLSTGILD------------------ 36 d1jmva_ 56 SMQDRIS------------TETQKALLDLAESVDYPISEKLSGSG-----------DLGQ 92 :::::::::::: :::::::::: :::: d1uana_ 37 -------LTRGEMGSKGTPEEREKEVAEASR--ILGLDFRGNL--GFPDGGLADVPEQRL 85 d1jmva_ 93 VLSDAIEQYDVDLLVTGHHQDF------WSKLMSSTRQVMNTIK---------------- 130 :::::::::::::::: :::::::::::::: d1uana_ 86 KLAQALRRLRPRVVFA------PLEADRHPDHTAASRLAVAA--VHLAGLRKAPLEGEPF 137 d1jmva_ 131 --IDMLVVPLRD------------------------------------------------ 140 ::::::: d1uana_ 138 RVERLFFYP---GNHPFAPSFLVKISAFIDQWEAAVLAYRSQFTVGPKGVEARKAMRRYW 194 d1jmva_ 141 -------------------------- 141 d1uana_ 195 GNYLGVDYAEPFVSPLPVLYVPWSRA 220 TMalign alignment (TM-score: 0.57 Raw score:79.75) d1jmva_ 1 MYKHILVAVDLSEESPILLKKAVGIAKRHDAKLSIIHVDV-------NFSDLYTGLIDVN 53 ::::::::::::::::::::::::::::::::::::::: d1uana_ 1 -MLDLLVVAPHPDDGELGCGGTLARAKAEGLSTGILDLTRGEMGSKG------------- 46 d1jmva_ 54 MSSMQDRISTETQKALLDLAESV-DYPISEKLSGSG---------DLGQVLSDAIEQYDV 103 :: ::::::::::: :::::::::::: ::::::::::::::: d1uana_ 47 ---------TP-EEREKEVAEASRILGLDFRGNLGFPDGGLADVPEQRLKLAQALRRLRP 96 d1jmva_ 104 DLLVTGHHQDF---WSKLM-SS-TRQVMNTI------------KI-DMLVVPLR------ 139 ::::::::::: ::: :: :::::::: :: :::::::: d1uana_ 97 RVVFAPLEADRHPD--HTAASRLAVAAVHLAGLRKAPLEGEPFRVERLFFYPGNHPFAPS 154 d1jmva_ 140 ----------------------------D------------------------------- 140 : d1uana_ 155 FLVKISAFIDQWEAAVLAYRSQFTVGPKGVEARKAMRRYWGNYLGVDYAEPFVSPLPVLY 214 d1jmva_ 141 ------ 141 d1uana_ 215 VPWSRA 220 HHsearch alignment (Probability: 0.78 E-value:0.00) d1jmva_ 3 KHILVAVDLSEESPILLKKAVGIAKRHDAKLSIIHVDVNFSDLYTGLIDVNMSSMQDRIS 62 ::::::::::::::::::::::::::::::::::::::::: ::::::::::::: d1uana_ 2 LDLLVVAPHPDDGELGCGGTLARAKAEGLSTGILDLTRGEM------GSKGTPEEREKEV 55 d1jmva_ 63 TETQKALLD-LAESVDYPISEKLSGSGDLGQVLSDAIEQYDVDLLVTGHHQD---FWSKL 118 ::::::::: :::::::::::: ::::::::::::::::::::::::::::: ::::: d1uana_ 56 AEASRILGLDFRGNLGFPDGGL-ADVPEQRLKLAQALRRLRPRVVFAPLEADRHPDHTAA 114 d1jmva_ 119 MSSTRQVMNTI 129 ::::::::::: d1uana_ 115 SRLAVAAVHLA 125