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 | d1mrza2 | FMN adenylyltransferase domain of bifunctional FAD synthetase | 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 <-- 1.135 --> HitDALI alignment (Z-score: 6.7 Raw score:505.80) d1jmva_ 1 mykhILVAVDL---SEESPILLKKAVGIAKRHDAKLSIIHV-DVNFsdlytglidvnmss 56 ::::::: ::::::::::::::::::::::::::: :::: d1mrza2 1 ----VVSIGVFdgvHIGHQKVLRTMKEIAFFRKDDSLIYTIsYPPE----------yflp 46 d1jmva_ 57 mqdrisTETQKALLDLAESVdypisEKLSGSG------dlgqvlsDAIEqyDVDLLVTGH 110 :::::::::::::: ::::::: :::: ::::::::: d1mrza2 47 dfpgllMTVESRVEMLSRYA-----RTVVLDFfrikdltpegfveRYLS--GVSAVVVGR 99 d1jmva_ 111 hqdfwsklMSSTrqVMNT--IKIDMLVVPLRD---------------------------- 140 :::: :::: :::::::::::: d1mrza2 100 -dfrfgknASGN--ASFLrkKGVEVYEIEDVVvqgkrvssslirnlvqegrveeipaylg 156 d1jmva_ 141 - 141 d1mrza2 157 r 157 FAST alignment (Normalized score: 5.99 Raw score:888.30) d1jmva_ 1 MYKHILVAVD----LSEESPILLKKAVGIAKRHDAKLSIIHVDVNFSDLYTGLIDVNMSS 56 ::::: :::::::::::::::::::::::::::: d1mrza2 1 ----VVSIG-VFDGVHIGHQKVLRTMKEIAFFRKDDSLIYTI------------------ 37 d1jmva_ 57 MQDRIS------------------TETQKALLDLAESVDYPISEKLSGS-------GDLG 91 ::::::::: ::::::: :::: d1mrza2 38 ------SYPPEYFLPDFPGLLMTVESRVEMLSR--------YARTVVL-DFFRIKDLTPE 82 d1jmva_ 92 QVLSDAIEQYDVDLLVTGHHQDFWSKLMS------------STRQVMNTIKIDMLVVPLR 139 ::::::: :::::::: ::::::: ::::::::: d1mrza2 83 GFVERYL--SGVSAVVV------------GRDFRFGKNASGNASFLRK-KGVEVYEIE-- 125 d1jmva_ 140 D-------------------------------- 140 d1mrza2 126 -DVVVQGKRVSSSLIRNLVQEGRVEEIPAYLGR 157 TMalign alignment (TM-score: 0.57 Raw score:79.73) d1jmva_ 1 MYKHILVAVDLS--E-ESPILLKKAVGIAKRHDAKLSIIHV-DVNF----------SDLY 46 :::::::: : ::::::::::::::::::::::::: :::: d1mrza2 1 ----VVSIGVFDGVHIGHQKVLRTMKEIAFFRKDDSLIYTISYPPEYFLPDFPGLL---- 52 d1jmva_ 47 TGLIDVNMSSMQDRISTETQKALLDLAESVDYPISEKLSGS---GDLGQ-VLS-DAIEQY 101 :::::::::::: : :::::::: ::::: ::: :::: d1mrza2 53 ----------------MTVESRVEMLSR-Y---ARTVVLDFFRIKDLTPEGFVERYLS-- 90 d1jmva_ 102 DVDLLVTGHHQDFWSKLMSST----RQV-MNT-IK-IDMLVVPLRD-------------- 140 ::::::::: :: :: ::: ::: :: :::::::::: d1mrza2 91 GVSAVVVGR-------DF-RFGKNASGNASFLRKKGVEVYEIEDVVVQGKRVSSSLIRNL 142 d1jmva_ 141 --------------- 141 d1mrza2 143 VQEGRVEEIPAYLGR 157 HHsearch alignment (Probability: 0.36 E-value:0.01) d1jmva_ 13 EESPILLKKAVGIAKRHDAKLSIIHVDVNFSDLYTGLIDVNMSSMQDRISTETQKALLDL 72 :::::::::::::::::::::::::::::::::::::: :::::::: :::::::: d1mrza2 12 IGHQKVLRTMKEIAFFRKDDSLIYTISYPPEYFLPDFP-GLLMTVES-----RVEMLSRY 65 d1jmva_ 73 AESVDYPISEKLSGSGDLGQVLSDAIEQYDVDLLVTGHHQDFWSKLMSSTRQVMNTIKID 132 ::::::::: ::::::::::::::: ::::::::::::::::::::::: :::::::: d1mrza2 66 ARTVVLDFF--RIKDLTPEGFVERYL--SGVSAVVVGRDFRFGKNASGNAS-FLRKKGVE 120 d1jmva_ 133 MLVVP 137 ::::: d1mrza2 121 VYEIE 125