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 | d1ru8a_ | Putative N-type ATP pyrophosphatase PF0828 | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1eo1a_ | Hypothetical protein MTH1175 | Nitrogenase accessory factor-like | Ribonuclease H-like motif | α/β |
Query <-- 1.159 --> IntermediateDALI alignment (Z-score: 6.9 Raw score:641.00) query 1 dadeevysalvvglrayvaknGFRSVLIGLSGGIDSALVAAIACDALgaqNVYGVSMPSK 60 :::::::::::::::::::::::::: :::::::::: d1ru8a_ 1 ---------------------GLADVAVLYSGGKDSNYALYWAIKNR-fsVKFLVTMVSE 38 query 61 YS-----sDHSKGdAAELARRTGLNFRTVSIEpmfdaymaslgltglaEENLQSRLRGTT 115 :: ::::: :::::::::::::::::: :::::::::::: d1ru8a_ 39 NEesymytINANL-TDLQARALGIPLVKGFTQ---------------gEKEKEVEDLKRV 82 query 116 LMAIsnqEGHIVLAPGnkselavGYSTlyGDSVG------AYGPIKDVYKTSIFRLAEWR 169 :::: ::::::::: :::: ::::: :::::::::::::::::::: d1ru8a_ 83 LSGL---KIQGIVAGA------sKYQRkrIEKVAkelgleVYTPAWGRDAKEYMRELLNL 133 query 170 N------------------------------------raaaergqtppipEASItkpdyp 193 : :::: d1ru8a_ 134 GfkimvvgvsaygldeswlgrildesaleelitlnekykvhvageggefeTFVL------ 187 query 194 vldailelyvdrdtgadaivaagydrelvvktlrmvdtaeykrrqyppgtkisakgfgkd 253 d1ru8a_ 188 ---------------------------------dmplfkykivvdkakkvwepctssgkl 214 query 254 rrlpitnrwregh 266 d1ru8a_ 215 iieeahleskleh 227 FAST alignment (Normalized score: 5.12 Raw score:1259.00) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQN-----VYGV 55 :::::::::::::::::::::::: :::: d1ru8a_ 1 ---------------------GLADVAVLYSGGKDSNYALYWAIK------NRFSVKFLV 33 query 56 SMPSKYSSDHS--------KGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLA---E 104 ::::::: ::::::::::::::::::: : d1ru8a_ 34 TMVSENE----ESYMYTINANLTDLQARALGIPLVKGF------------------TQGE 71 query 105 ENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLY-----GDSVG---------- 149 :::::::::::::: ::: ::::: :::: d1ru8a_ 72 KEKEVEDLKRVLSG--LKI-QGIVA---------------GASKYQRKR-IEKVAKELGL 112 query 150 -AYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKP------------------ 190 ::::::::::::::::::: d1ru8a_ 113 EVYTPAWGRDAKEYMRELLN----------------------LGFKIMVVGVSAYGLDES 150 query 191 ------------DYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQ 238 :::::::: d1ru8a_ 151 WLGRILDESALEELITLNEK---------------------------------------- 170 query 239 YPPGTKISAKGFGKDRRLPITNRWREGH-------------------------------- 266 d1ru8a_ 171 ----------------------------YKVHVAGEGGEFETFVLDMPLFKYKIVVDKAK 202 query 267 ------------------------- 267 d1ru8a_ 203 KVWEPCTSSGKLIIEEAHLESKLEH 227 TMalign alignment (TM-score: 0.41 Raw score:109.76) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSK 60 ::::::::::::::::::::::::::: ::::::::::: d1ru8a_ 1 ---------------------GLADVAVLYSGGKDSNYALYWAIKNRF-SVKFLVTMVSE 38 query 61 YS-S---DHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGTTL 116 :: : :::::::::::::::::::::::: : : ::::::::::: d1ru8a_ 39 NEESYMYTINANLTDLQARALGIPLVKGFTQ--G-------------E-KEKEVEDLKRV 82 query 117 MAISNQEGHIVLAPGNKSELAVGYSTL-YGDSV-G------AYGPIKDVYKTSIFRLAEW 168 :::: ::::::::: :: : :: :::: : ::::::::::::::::::: d1ru8a_ 83 LSGL--KIQGIVAGA---SK--Y--QRK-RIEKVAKELGLEVYTPAWGRDAKEYMRELLN 132 query 169 RNRAAAERGQTPPIPEASITK---P-DY----------------PVLDAILELYVDRDTG 208 : : : : :::: : :: ::::: d1ru8a_ 133 L-G----------F-K-IMVVGVSAYGLDESWLGRILDESALEELITLN----------- 168 query 209 ADAIVAAGYDRELV---------------------------------------------- 222 ::: :: d1ru8a_ 169 -------EKY--KVHVAGEGGEFETFVLDMPLFKYKIVVDKAKKVWEPCTSSGKLIIEEA 219 query 223 --------VKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 266 d1ru8a_ 220 HLESKLEH-------------------------------------------- 227 HHsearch alignment (Probability: 0.94 E-value:0.00) query 22 GFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHS----KGDAAELARRT 77 ::::::::::::::::::::::::: ::::::::::::::::::: ::::::::::: d1ru8a_ 1 GLADVAVLYSGGKDSNYALYWAIKN-RFSVKFLVTMVSENEESYMYTINANLTDLQARAL 59 query 78 GLNFRTVSIEPMFDAYMASL 97 :::::::::::::::::::: d1ru8a_ 60 GIPLVKGFTQGEKEKEVEDL 79
Intermediate <-- 0.695 --> HitDALI alignment (Z-score: 3.6 Raw score:264.70) d1ru8a_ 1 glADVAVLYSG---gKDSNYalywaiknrfsvkflvtmvseneesymytinanltdlqar 57 ::::::::: ::::: d1eo1a_ 1 --MKIAIASSGtdlgSEVSR-----------------------ffgrapyfmivemkkgn 35 d1ru8a_ 58 alGIPLVKGF-TQGEKEKEVEdLKRVLSGLKIQGIVAGaskyQRKRIEKVAKELGLEVYT 116 :::::::: :::::::::: :::::::::::::::: :::::::::::::::::: d1eo1a_ 36 ieSSEVIENPsASASGGAGIR-TAQIIANNGVKAVIAS---sPGPNAFEVLNELGIKIYR 91 d1ru8a_ 117 PAWgrdakeymrellnlgfkimvvgvsaygldeswlgrildesaleelitlnekykvhva 176 ::: d1eo1a_ 92 ATG--------------------------------------------------------- 94 d1ru8a_ 177 geggefetfvldmplfkykivvdkakkvwepctssgkliieeahleskleh 227 d1eo1a_ 95 ---------------------tsveenlklftegnleeirspgsgrgrrrr 124 FAST alignment (Normalized score: 1.89 Raw score:317.50) d1ru8a_ 1 GLADVAVLYSGGKDS--------------------------------------------- 15 ::::: d1eo1a_ 1 ---MKIAI-------ASSGTDLGSEVSRFFGRAPYFMIVEMKKGNIESSEVIENPSASAS 50 d1ru8a_ 16 ----NYALYWAIKNRFSVKFLVTMVSENEESYMYTIN--ANLTDLQARALGIPLVKGFTQ 69 ::::::::: ::::::::: :::::::::::::::::: d1eo1a_ 51 GGAGIRTAQIIAN--NGVKAVIAS-------------SPGPNAFEVLNELGIKIYRA--- 92 d1ru8a_ 70 GEKEKEVE---DLKRVLSGLKIQGIVAGASKYQRKRIEKVAKELGLEVYTPAWGRDAKEY 126 :::::::: d1eo1a_ 93 --------TGTSVEENLKL----------------------------------------- 103 d1ru8a_ 127 MRELLNLGFKIMVVGVSAYGLDESWLGRILDESALEELITLNEKYKVHVAGEGGEFETFV 186 d1eo1a_ 104 ------------------------------------------------------------ 104 d1ru8a_ 187 LDMPLFKYKIVVDKAKKVWEPCTSSGKLIIEEAHLESKLEH------------------- 227 d1eo1a_ 104 -----------------------------------------FTEGNLEEIRSPGSGRGRR 122 d1ru8a_ 228 -- 228 d1eo1a_ 123 RR 124 TMalign alignment (TM-score: 0.28 Raw score:62.89) d1ru8a_ 1 GLADVAVLYSG----GKDSNY---ALYWAIKNRFSVKFLVTMVSENEESYMYTINANLTD 53 : :::::::: :: ::: :::: :: d1eo1a_ 1 M--KIAIASSGTDLGSE-VSRFFG---------------RAPY---------------FM 27 d1ru8a_ 54 ----------LQARALGIPLVKGF-T-QGEKEKEVEDLKRVLSGLKIQGIVAGASKYQRK 101 :::::::: : ::: ::::: :::::::::::::::: : ::: d1eo1a_ 28 IVEMKKGNIE------SSEVIENPSASASG-GAGIR-TAQIIANNGVKAVIAS-S--PGP 76 d1ru8a_ 102 RIEKVAKELGLEVYTPAWGRDAKEYMRELLNLGFKIMVVGVSAYGLDESWLGRILDESAL 161 ::::::::::::::::: : : : d1eo1a_ 77 NAFEVLNELGIKIYRAT-------G---T----S-------------------------- 96 d1ru8a_ 162 EELITLNEKYKVHVAGEGGEFETFVLDMPL------------------------FKYKIV 197 : ::: d1eo1a_ 97 ------------------------V--EENLKLFTEGNLEEIRSPGSGRGRRRR------ 124 d1ru8a_ 198 VDKAKKVWEPCTSSGKLIIEEAHLESKLEH 227 d1eo1a_ 125 ------------------------------ 125 HHsearch alignment (Probability: 0.02 E-value:0.10) d1ru8a_ 74 KEVEDLKRVLSGLKIQGIVAGASKYQRKRIEKVAKELGLEVYTPAWGRDAKEYMRELLNL 133 ::::::::::::::::::::::::::: :::::::::::::: ::::::::::::::: d1eo1a_ 52 GAGIRTAQIIANNGVKAVIASSPGPNA---FEVLNELGIKIYRA-TGTSVEENLKLFTEG 107 d1ru8a_ 134 GFKI 137 :::: d1eo1a_ 108 NLEE 111