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 | d1pqwa_ | Putative enoyl reductase domain of polyketide synthase | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | 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 <-- 0.972 --> HitDALI alignment (Z-score: 4.3 Raw score:380.30) d1jmva_ 1 ------------------------MYKHILVAVdlseeSPILLKKAVGIAKRHDAKLSII 36 ::::::::: :::::::::::::::::::::: d1pqwa_ 1 neaatfgvayltawhslcevgrlsPGERVLIHS----aTGGVGMAAVSIAKMIGARIYTT 56 d1jmva_ 37 HvdvnfsdlytglidvnmssmqdristeTQKALLDLAESvdyPISEKLSGSgdlgQVLSD 96 : ::::::::::: ::::::::: ::::: d1pqwa_ 57 A--------------------------gSDAKREMLSRL---GVEYVGDSR---sVDFAD 84 d1jmva_ 97 AIEQY----DVDLLVTGhhqdfwsklmssTRQVMNT-IKID-----MLVV---------- 136 ::::: :::::::: ::::::: :::: :::: d1pqwa_ 85 EILELtdgyGVDVVLNS-----------lAGEAIQRgVQILapggrFIELgkkdvyadas 133 d1jmva_ 137 --------------PLRD-------------------------------- 140 :::: d1pqwa_ 134 lglaalaksasfsvVDLDlnlklqparyrqllqhilqhvadgklevlpvt 183 FAST alignment (Normalized score: 3.87 Raw score:619.20) d1jmva_ 1 ----------------------MYKHILVAV--DLSEESPILLKKAVGIAKRHDAKLSII 36 ::::::::: ::::::::::::::: :::::: d1pqwa_ 1 NEAATFGVAYLTAWHSLCEVGRLSPGERVLIHSATGGVGMAAVSIAKM------IGARIY 54 d1jmva_ 37 HVDVNFSDLYTGLIDVNMSSMQDRISTE---TQKALLDLAESVDYPISE---KLSGSG-- 88 : :::::::::: :::: d1pqwa_ 55 T---------------------------TAGSDAKREMLSR--------LGVEYVG--DS 77 d1jmva_ 89 ---DLGQVLSDAIEQYDVDL------LVTGHHQDFWSK--LMSSTRQVMNTIK--IDMLV 135 ::::::::: ::::: ::::::::::: ::::: d1pqwa_ 78 RSVDFADEILEL--------TDGYGVDVVLN-------SLAGEAIQRGVQI--LAPGGRF 120 d1jmva_ 136 VPLRD------------------------------------------------------- 140 :: d1pqwa_ 121 IE---LGKKDVYADASLGLAALAKSASFSVVDLDLNLKLQPARYRQLLQHILQHVADGKL 177 d1jmva_ 141 ------ 141 d1pqwa_ 178 EVLPVT 183 TMalign alignment (TM-score: 0.47 Raw score:66.12) d1jmva_ 1 -----------------------M-YKHILVAVDLSEESPILLKKAVGIAKRHDAKLSII 36 : :::::::::: :::::::::::::: ::::::: d1pqwa_ 1 NEAATFGVAYLTAWHSLCEVGRLSPGERVLIHSAT---GGVGMAAVSIAKMI-GARIYTT 56 d1jmva_ 37 HVDVNFSDLYTGLIDVNMSSMQDRISTETQKALLDLAESVDYPISEKLSGSGDLGQVLSD 96 : : ::::::: :::: :::::::::: : :::: d1pqwa_ 57 A-G-------------------------SDAKREM-LSRL--GVEYVGDSRS-V--DFAD 84 d1jmva_ 97 AIEQYD----VDLLVTGHHQDFWSKLMSSTRQVMNTIKI---DMLVVPL----------- 138 :::::: :::::::: : :::::::::::: ::::::: d1pqwa_ 85 EILELTDGYGVDVVLNSL-------A-GEAIQRGVQILAPGGRFIELGKKDVYADASLGL 136 d1jmva_ 139 -------------R---------------------------------D 140 : d1pqwa_ 137 AALAKSASFSVVDLDLNLKLQPARYRQLLQHILQHVADGKLEVLPVT- 183 HHsearch alignment (Probability: 0.17 E-value:0.01) d1jmva_ 20 KKAVGIAKRHDAKLSIIHVDVNFSDLYTGLIDVNMSSMQDRISTETQKALLDLAESVDYP 79 ::::::::::::::::::::::::::::: :::::::::::::::::::::::::::: d1pqwa_ 40 MAAVSIAKMIGARIYTTAGSDAKREMLSR---LGVEYVGDSRSVDFADEILELTDGYGVD 96 d1jmva_ 80 ISEKLSGSGDLGQVLSDAIEQYDVDLLVTGHHQ 112 ::::: ::::::::::::::::: ::::::::: d1pqwa_ 97 VVLNS-LAGEAIQRGVQILAPGG-RFIELGKKD 127