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 | d1ijba_ | von Willebrand factor A1 domain, vWA1 | vWA-like | vWA-like | 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 <-- 1.025 --> HitDALI alignment (Z-score: 3.3 Raw score:345.80) d1jmva_ 1 -----------MYKHILVAVDLSE-----ESPILLKKAVGIAKRHD-----AKLSIIHVD 39 ::::::::::::: ::::::::::::::::: ::::::::: d1ijba_ 1 sepplhdfycsRLLDLVFLLDGSSrlseaEFEVLKAFVVDMMERLRvsqkwVRVAVVEYH 60 d1jmva_ 40 VNfsdlytglidvnmssmqdristetqkallDLAESVdypiseklsgsgDLGQVLS-DAI 98 :: :::::: ::::::: ::: d1ijba_ 61 DG------------shayiglkdrkrpselrRIASQV-kyagsqvastsEVLKYTLfQIF 107 d1jmva_ 99 EQY----dvDLLVTGHHQDfwsklmssTRQVMNTI---KIDMLVVPLRD----------- 140 ::: :::::::::: :::::::: ::::::::::: d1ijba_ 108 SKIdrpeasRIALLLMASQepqrmsrnFVRYVQGLkkkKVIVIPVGIGPhanlkqirlie 167 d1jmva_ 141 ----------------------------------- 141 d1ijba_ 168 kqapenkafvlssvdeleqqrdeivsylcdlapea 202 FAST alignment (Normalized score: 3.62 Raw score:608.30) d1jmva_ 1 MY-------------KHILVAVDLS-----EESPILLKKAVGIAKRH-----DAKLSIIH 37 :::::::::: ::::::::::::::::: :::::::: d1ijba_ 1 --SEPPLHDFYCSRLLDLVFLLDGSSRLSEAEFEVLKAFVVDMMERLRVSQKWVRVAVVE 58 d1jmva_ 38 VDVNFSDLYTGLIDVNMSSMQDRISTETQKALLDLAESVDYPISEKLSGSGDL------- 90 : d1ijba_ 59 Y----------------------------------------------------HDGSHAY 66 d1jmva_ 91 ----------------------------GQVLSDAIEQYDV------------DLLVTGH 110 :::::::::: ::::::: d1ijba_ 67 IGLKDRKRPSELRRIASQVKYAGSQVASTSEVLKYTLF---QIFSKIDRPEASRIALLLM 123 d1jmva_ 111 -HQDFWS-----KLMSSTRQVMNTIKIDMLVVPLRD------------------------ 140 :::: ::::::::::: :::::::::: d1ijba_ 124 ASQEP--QRMSRNFVRYVQGLKK-KKVIVIPVGI--GPHANLKQIRLIEKQAPENKAFVL 178 d1jmva_ 141 ------------------------ 141 d1ijba_ 179 SSVDELEQQRDEIVSYLCDLAPEA 202 TMalign alignment (TM-score: 0.48 Raw score:66.60) d1jmva_ 1 -----------MYKHILVAVDL---S----E-ESPILLKKAVGIAKR---HDAKLSIIHV 38 ::::::::::: : : ::::::::::::::: ::::::::: d1ijba_ 1 SEPPLHDFYCSRLLDLVFLLDGSSRLSEAEFEVLKAFVVDMMERLRVSQK-WVRVAVVEY 59 d1jmva_ 39 DVNFSDLYTGLIDVNM---------SSMQDRISTETQKALLDLAESV-----------DY 78 ::: :::::: ::::::: d1ijba_ 60 HDG-------SHAYIGLKDRKRPSE---------------LRRIASQVKYAGSQVAST-- 95 d1jmva_ 79 PISEKLSGSGDLGQVLSD-AIEQYD----VDLLVTGHHQDF--WSK--LMS-STRQVMNT 128 ::::::::: :::::: ::::::::: :: : : :::::::: d1ijba_ 96 ---------SEVLKYTLFQIFSKIDRPEASRIALLLMA-SQEP--QRM--SRNFVRYVQG 141 d1jmva_ 129 I--K-IDMLVVPL-------------------------RD-------------------- 140 : : :::::::: :: d1ijba_ 142 LKKKKVIVIPVGIGPHANLKQIRLIEKQAPENKAFVLSSVDELEQQRDEIVSYLCDLAPE 201 d1jmva_ 141 - 141 d1ijba_ 202 A 202 HHsearch alignment (Probability: 0.09 E-value:0.03) d1jmva_ 4 HILVAVDLSEE-S----PILLKKAVGIAKRH-----DAKLSIIHVDVNFSDLYTGLIDVN 53 ::::::::::: : :::::::::::::: :::::::::::::::::::::::: d1ijba_ 15 DLVFLLDGSSRLSEAEFEVLKAFVVDMMERLRVSQKWVRVAVVEYHDGSHAYIGLKDRKR 74 d1jmva_ 54 MSSMQDRI------------STETQKA-LLDL---AESVDYPISEKLSGSGD-------L 90 :::::::: ::::::: :::: ::::::::::::::::: : d1ijba_ 75 PSELRRIASQVKYAGSQVASTSEVLKYTLFQIFSKIDRPEASRIALLLMASQEPQRMSRN 134 d1jmva_ 91 GQVLSDAIEQYDVDLLVTGH 110 :::::::::::::::::::: d1ijba_ 135 FVRYVQGLKKKKVIVIPVGI 154