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 | d1n5da_ | Carbonyl reductase/20beta-hydroxysteroid dehydrogenase | 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 <-- 0.653 --> HitDALI alignment (Z-score: 4.9 Raw score:408.90) d1jmva_ 1 --myKHILVAVdlseeSPILLKKAVGIAKRHDAKLSIIHvdvnfsdlytglidvnmssmq 58 ::::::: ::::::::::::::::::::::: d1n5da_ 1 ssntRVALVTG---anKGIGFAIVRDLCRQFAGDVVLTA--------------------- 36 d1jmva_ 59 dristeTQKALLDLAESVD---YPISeKLSG---SGDLGQVLSDAIEQYD--VDLLVTGH 110 ::::::::::::: :::: :::: :::::::::::::::: :::::::: d1n5da_ 37 -----rDVARGQAAVKQLQaegLSPR-FHQLdiiDLQSIRALCDFLRKEYggLDVLVNNA 90 d1jmva_ 111 H---------------qdfwsklmsstrqvmnTIKI------DMLVV------------- 136 : :::: ::::: d1n5da_ 91 AiafqldnptpfhiqaeltmktnfmgtrnvctELLPlikpqgRVVNVsstegvralnecs 150 d1jmva_ 137 ------------------------------------------------------------ 137 d1n5da_ 151 pelqqkfksetiteeelvglmnkfvedtkngvhrkegwsdstygvtkigvsvlsriyark 210 d1jmva_ 137 ---------------PLRD----------------------------------------- 140 :::: d1n5da_ 211 lreqragdkillnacCPGWvrtdmggpkapkspevgaetpvylallpsdaegphgqfvtd 270 d1jmva_ 141 ------------------ 141 d1n5da_ 271 kkvvewgvppesypwvna 288 FAST alignment (Normalized score: 2.67 Raw score:537.20) d1jmva_ 1 M----------------------------YKHILVAVDLSE-ESPILLKKAVGIAKRHDA 31 :::::::: :::::::::::::: ::: d1n5da_ 1 -SSNTRVALVTGANKGIGFAIVRDLCRQFAGDVVLTA----RDVARGQAAVKQLQA-EGL 54 d1jmva_ 32 KLSIIHVDVNFSDLYTGLIDVNMSSMQDRISTETQKALLDLAESVDYPISEKLSGSG--- 88 ::::::: d1n5da_ 55 SPRFHQL--------------------------------------------------DII 64 d1jmva_ 89 --DLGQVLSDAIEQY---DVDLLVTGHHQD--------------------FWSK-LMSST 122 :::::::::::: :::::: :::: ::::: d1n5da_ 65 DLQSIRALCDFLRK-EYGGLDVLV------NNAAIAFQLDNPTPFHIQAELTMKTNFMGT 117 d1jmva_ 123 RQVMNTIK--------IDMLVVPLRD---------------------------------- 140 :::::: ::::: d1n5da_ 118 RNVCTE--LLPLIKPQGRVVN-----VSSTEGVRALNECSPELQQKFKSETITEEELVGL 170 d1jmva_ 141 ------------------------------------------------------------ 141 d1n5da_ 171 MNKFVEDTKNGVHRKEGWSDSTYGVTKIGVSVLSRIYARKLREQRAGDKILLNACCPGWV 230 d1jmva_ 141 ---------------------------------------------------------- 141 d1n5da_ 231 RTDMGGPKAPKSPEVGAETPVYLALLPSDAEGPHGQFVTDKKVVEWGVPPESYPWVNA 288 TMalign alignment (TM-score: 0.36 Raw score:50.13) d1jmva_ 1 --MYKHILVAV-------------------------D----------------------- 10 ::::::::: : d1n5da_ 1 SSNTRVALVTGANKGIGFAIVRDLCRQFAGDVVLTARDVARGQAAVKQLQAEGLSPRFHQ 60 d1jmva_ 11 -LSEESPILLKKAVGIAKRHD-AKLSIIHVDVN---------------FSDLYTGLIDVN 53 :::::::::::::::::::: ::::::::::: d1n5da_ 61 LDIIDLQSIRALCDFLRKEYGGLDVLVNNAAIAFQLDNPTPFHIQAEL------------ 108 d1jmva_ 54 MSSMQDRISTE--TQKALLDLAESVDYPI---S-EKLSGS-------------------- 87 :: :::::::::::::::: : :::::: d1n5da_ 109 ---------TMKTNFMGTRNVCTELLPLIKPQGRVVNVSSTEGVRALNECSPELQQKFKS 159 d1jmva_ 88 ------------------------------------------------------------ 88 d1n5da_ 160 ETITEEELVGLMNKFVEDTKNGVHRKEGWSDSTYGVTKIGVSVLSRIYARKLREQRAGDK 219 d1jmva_ 88 ----------GDL----------GQ-VLSDAIEQYDV----------------------- 103 ::: :: ::::::::::: d1n5da_ 220 ILLNACCPGWVRTDMGGPKAPKSPEVGAETPVYLALLPSDAEGPHGQFVTDKKVVEWGVP 279 d1jmva_ 104 ---------DLLVTGHHQDFWSKLMSSTRQVMNTIKIDMLVVPLRD 140 d1n5da_ 280 PESYPWVNA------------------------------------- 288 HHsearch alignment (Probability: 0.03 E-value:0.17) d1jmva_ 22 AVGIAKRHDAKLSI 35 :::::::::::::: d1n5da_ 21 VRDLCRQFAGDVVL 34