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: T0542_Ad2+3.pdb
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 | d1elua_ | Cystine C-S lyase C-des | PLP-dependent transferases | PLP-dependent transferases | α/β |
Query <-- 1.476 --> IntermediateDALI alignment (Z-score: 6.4 Raw score:517.70) query 1 dadeevysalvvglrayvaknGFRSVLIGLSGGIDSALVAAIACDALG--aqNVYGVSMP 58 ::::::::::::::::::::::::::: :::::::: d1jmva_ 1 ---------------------MYKHILVAVDLSEESPILLKKAVGIAKrhdaKLSIIHVD 39 query 59 S------------------kysSDHSKGDAAELARRTG---lNFRTVSIepmfdaymasl 97 : :::::::::::::::: ::::::: d1jmva_ 40 VnfsdlytglidvnmssmqdriSTETQKALLDLAESVDypisEKLSGSG----------- 88 query 98 gltglaeenlqsrLRGTTLMAISNQEGH-IVLAPGNKseLAVG--YSTL----ygdsvgA 150 ::::::::::::::: :::::::: :::: :::: : d1jmva_ 89 -------------DLGQVLSDAIEQYDVdLLVTGHHQ--DFWSklMSSTrqvmntikidM 133 query 151 YGPiKDVYktsifrlaewrnraaaergqtppipeasitkpdypvldailelyvdrdtgad 210 ::: :::: d1jmva_ 134 LVV-PLRD---------------------------------------------------- 140 query 211 aivaagydrelvvktlrmvdtaeykrrqyppgtkisakgfgkdrrlpitnrwregh 266 d1jmva_ 141 -------------------------------------------------------- 141 FAST alignment (Normalized score: 4.82 Raw score:930.50) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQ------NVYG 54 ::::::::::::::::::::::::: :::: d1jmva_ 1 ---------------------MYKHILVAVDLSEESPILLKKAVGI----AKRHDAKLSI 35 query 55 VSMPSKYSS-----------------------DHSKGDAAELAR--RTGL-NFRTVSIEP 88 :::: :::::::::::: :::: ::::: d1jmva_ 36 IHVD-----VNFSDLYTGLIDVNMSSMQDRISTETQKALLDLAESVDYPISEKLSG---- 86 query 89 MFDAYMASLGLTGLAEENLQSR--LRGTTLMAISNQEG-HIVLAPGNKSELAVGYSTLY- 144 :::::::::::::: :::::::: d1jmva_ 87 ----------------------SGDLGQVLSDAIEQYDVDLLVTGHH------------Q 112 query 145 ------------GDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDY 192 :::::: d1jmva_ 113 DFWSKLMSSTRQVMNTIK------------------------------------------ 130 query 193 PVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGK 252 d1jmva_ 131 ------------------------------------------------------------ 131 query 253 DRRLPITNRWREGH---------- 266 d1jmva_ 131 --------------IDMLVVPLRD 140 TMalign alignment (TM-score: 0.33 Raw score:88.21) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALG--AQNVYGVSMP 58 ::::::::::::::::::::::::::: :::::::::: d1jmva_ 1 ---------------------MYKHILVAVDLSEESPILLKKAVGIAKRHDAKLSIIHVD 39 query 59 SK---------------------YSSDHSKGDAAELARRT--GLNFRTVSIEPMFDAYMA 95 :: :: :::::::::::: ::::::::: d1jmva_ 40 VNFSDLYTGLIDVNMSSMQDRIS--TE-TQKALLDLAESVDYPISEKLSGS--------- 87 query 96 SLGLTGLAEENLQSRLRGTTLMAISNQEGH-IVLAPGNKSELAVGYSTLYGDS-VG---- 149 : ::::::::::::::: ::::::: ::::::::: ::: :: d1jmva_ 88 ------------G--DLGQVLSDAIEQYDVDLLVTGHH-QDFWSKLMS--STRQVMNTIK 130 query 150 --AYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDT 207 ::: :: : :: d1jmva_ 131 IDMLV-VP-L-RD----------------------------------------------- 140 query 208 GADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 266 d1jmva_ 141 ----------------------------------------------------------- 141 HHsearch alignment (Probability: 0.05 E-value:0.16) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSK 60 :::::::::::::::::::::::::::::::::::::::::::::: ::::: :::::: d1jmva_ 56 SMQDRISTETQKALLDLAESVDYPISEKLSGSGDLGQVLSDAIEQY-DVDLL--VTGHHQ 112 query 61 YSSDHSKGDAAELARRTGLNFRTVSIEP 88 :::::::::::::::::::::::::::: d1jmva_ 113 DFWSKLMSSTRQVMNTIKIDMLVVPLRD 140
Intermediate <-- 0.826 --> HitDALI alignment (Z-score: 3.1 Raw score:410.80) d1jmva_ 1 ------------------------------------------------------------ 1 d1elua_ 1 qfpglanktyfnfggqgilptvaleaitamygylqengpfsiaanqhiqqliaqlrqala 60 d1jmva_ 1 ------------------------------MYKHILVAVDlseeSPILLKKAVGIAKRHD 30 :::::::::: :::::::::::::::: d1elua_ 61 etfnvdpntititdnvttgcdivlwgldwhQGDEILLTDC---eHPGIIAIVQAIAARFG 117 d1jmva_ 31 AKLSIIHV-DVNFSdlytglidvnmssmqdristetqkalldlaesvdypiseklsgsGD 89 :::::::: ::::: :: d1elua_ 118 ITYRFFPVaATLNQ--------------------------------------------GD 133 d1jmva_ 90 LGQVLSDAIEqYDVDLLVTGHHqdfwsklmsSTRQVMNTIK-------IDMLVVPLR--- 139 :::::::::: ::::::::::: :::::::::: ::::::::: d1elua_ 134 AAAVLANHLG-PKTRLVILSHL-lwntgqvlPLAEIMAVCRrhqgnypVRVLVDGAQsag 191 d1jmva_ 140 ------------------------------------------------------------ 140 d1elua_ 192 slpldfsrlevdyyaftghkwfagpagvgglyihgdclgeinptyvgwrsitygakgept 251 d1jmva_ 140 ------------------------------------------------------------ 140 d1elua_ 252 gwaeggkrfevatsaypqyagllaalqlhqrqgtaeeryqaicqrseflwrglnqlphvh 311 d1jmva_ 140 ------------------------------------------------------------ 140 d1elua_ 312 clatsapqaglvsftvdsplghraivqkleeqriylrtiadpdciracchyitdeeeinh 371 d1jmva_ 140 ---------d 140 d1elua_ 372 llarladfgp 381 FAST alignment (Normalized score: 0.88 Raw score:204.30) d1jmva_ 1 MYKHILVAVDL---------------------------------------------SEES 15 :::: d1elua_ 1 -----------QFPGLANKTYFNFGGQGILPTVALEAITAMYGYLQENGPFSIAANQHIQ 49 d1jmva_ 16 PILLKKAVGIAKRHDAKLSIIHVDVNFSDLYTGLIDVNMSSMQDRISTETQKALLDLAES 75 ::::::::::::::::: d1elua_ 50 QLIAQLRQALAETFNVD------------------------------------------- 66 d1jmva_ 76 VDYPISEKLSGSGDLGQVLSDAIEQYDVDL--LVTGHHQDFWSK-LMSSTRQVMNTIKID 132 ::::: ::::::::::: d1elua_ 67 ------------------------------PNTITIT-------DNVTTGCDIVLW---- 85 d1jmva_ 133 MLVVPLRD---------------------------------------------------- 140 d1elua_ 86 --------GLDWHQGDEILLTDCEHPGIIAIVQAIAARFGITYRFFPVAATLNQGDAAAV 137 d1jmva_ 141 ------------------------------------------------------------ 141 d1elua_ 138 LANHLGPKTRLVILSHLLWNTGQVLPLAEIMAVCRRHQGNYPVRVLVDGAQSAGSLPLDF 197 d1jmva_ 141 ------------------------------------------------------------ 141 d1elua_ 198 SRLEVDYYAFTGHKWFAGPAGVGGLYIHGDCLGEINPTYVGWRSITYGAKGEPTGWAEGG 257 d1jmva_ 141 ------------------------------------------------------------ 141 d1elua_ 258 KRFEVATSAYPQYAGLLAALQLHQRQGTAEERYQAICQRSEFLWRGLNQLPHVHCLATSA 317 d1jmva_ 141 ------------------------------------------------------------ 141 d1elua_ 318 PQAGLVSFTVDSPLGHRAIVQKLEEQRIYLRTIADPDCIRACCHYITDEEEINHLLARLA 377 d1jmva_ 141 ---- 141 d1elua_ 378 DFGP 381 TMalign alignment (TM-score: 0.40 Raw score:56.55) d1jmva_ 1 ------------------------------------------------------------ 1 d1elua_ 1 QFPGLANKTYFNFGGQGILPTVALEAITAMYGYLQENGPFSIAANQHIQQLIAQLRQALA 60 d1jmva_ 1 ---------------------------MY---KHILVAVDLSEESPILLKKAVGIAKRHD 30 :: ::::::: : ::::::::::::::::: d1elua_ 61 ETFNVDPNTITITDNVTTGCDIVLWGLDWHQGDEILLTD-C--EHPGIIAIVQAIAARFG 117 d1jmva_ 31 AKLSIIHV--DVN-FSDLY-TGLI-DV-------------------NMSSMQDRISTETQ 66 :::::::: ::: :: :::: :: d1elua_ 118 ITYRFFPVAATLNQ---GDAAAVLANHLGPKTRLVILSHLLWNTGQ-------------- 160 d1jmva_ 67 KALLDLAESVDYPISEKLSGSGDLGQVLSDAI-EQYDV-DLLVTGHHQ-DFWSKLMSSTR 123 :::::::::::: ::::: ::::::::: :: :::::::: d1elua_ 161 --------------------VLPLAEIMAVCRRHQGNYPVRVLVDGAQSAG-SLPLDFSR 199 d1jmva_ 124 QVMNTIKIDMLVVP-LR------------------------------------------- 139 ::: :::::: :: d1elua_ 200 LEV-----DYYAFTGHKWFAGPAGVGGLYIHGDCLGEINPTYVGWRSITYGAKGEPTGWA 254 d1jmva_ 140 ------------------------------------------------------------ 140 d1elua_ 255 EGGKRFEVATSAYPQYAGLLAALQLHQRQGTAEERYQAICQRSEFLWRGLNQLPHVHCLA 314 d1jmva_ 140 ---------------------------------D-------------------------- 140 : d1elua_ 315 TSAPQAGLVSFTVDSPLGHRAIVQKLEEQRIYLRTIADPDCIRACCHYITDEEEINHLLA 374 d1jmva_ 141 ------- 141 d1elua_ 375 RLADFGP 381 HHsearch alignment (Probability: 0.03 E-value:0.27) d1jmva_ 90 LGQVLSDAIEQYD----VDLLVTGHHQ 112 ::::::::::::: :::::::::: d1elua_ 163 PLAEIMAVCRRHQGNYPVRVLVDGAQS 189