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 | d1u3da2 | Cryptochrome | Cryptochrome/photolyase, N-terminal domain | Cryptochrome/photolyase, N-terminal domain | α/β |
Query <-- 0.937 --> 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 <-- 0.907 --> HitDALI alignment (Z-score: 9.0 Raw score:647.40) d1ru8a_ 1 glaDVAVLYSGG--kdsNYALYWAIKnRFSVkFLVTMVSEN---eesYMYT--INAN-LT 52 ::::::::: ::::::::: :::: ::::::::: :::: :::: :: d1u3da2 1 ---CSIVWFRRDlrvedNPALAAAVR-AGPV-IALFVWAPEeeghyhPGRVsrWWLKnSL 55 d1ru8a_ 53 DLQARALG---IPLVKGFTQgekeKEVEDLKRVLSGLKIQGIVAGA-----SKYQRKRIE 104 :::::::: ::::::::: :::::::::::::::::::::: ::::::::: d1u3da2 56 AQLDSSLRslgTCLITKRST----DSVASLLDVVKSTGASQIFFNHlydplSLVRDHRAK 111 d1ru8a_ 105 KVAKELGLEVYTPAwgRDAKEymrellnlgfkimvvgvsayGLDESWlgrildeSALEEL 164 :::::::::::::: ::::: :::::: :::::: d1u3da2 112 DVLTAQGIAVRSFN-aDLLYE----------------pwevTDELGR-----pfSMFAAF 149 d1ru8a_ 165 ITLNEKYkvhvageggefetfvldMPLFkykivvdkakkvwepctssgkliieeahlesk 224 ::::::: :::: d1u3da2 150 WERCLSM---------pydpesplLPPK------------------kiisgdvskcvadp 182 d1ru8a_ 225 leh 227 d1u3da2 183 lvf 185 FAST alignment (Normalized score: 4.66 Raw score:955.00) d1ru8a_ 1 GLADVAVLYSGGKDS--------NYALYWAIKNRFSV--KFLVTMVSENEESYMYTINA- 49 :::::: :::::::::: :::::::: d1u3da2 1 ---CSIVWF------RRDLRVEDNPALAAAVRA----GPVIALFVWA------------P 35 d1ru8a_ 50 -----------------NLTDLQARA---LGIPLVKGFTQGEKE-KEVEDLKRVLSGLKI 88 ::::::::: :::::::::: ::::::::::::::: d1u3da2 36 EEEGHYHPGRVSRWWLKNSLAQLDSSLRSLGTCLITKRS-----TDSVASLLDVVKSTGA 90 d1ru8a_ 89 QGIVAGA-----SKYQRKRIEKVAKELGLEVYTPAWGRDAKEYMRELLNLGFKIMVVGVS 143 ::::::: ::::::::::::::::::::: d1u3da2 91 SQIFFNHLYDPLSLVRDHRAKDVLTAQGIAVRS--------------------------- 123 d1ru8a_ 144 AYGLDESWLGRILDESALEELITLNEKYKVHVAGEGGEFETFVLDMPLFKYKIVVDKAKK 203 d1u3da2 124 ------------------------------------------------------------ 124 d1ru8a_ 204 VWEPCTSSGKLIIEEAHLESKLEH------------------------------------ 227 d1u3da2 124 ------------------------FNADLLYEPWEVTDELGRPFSMFAAFWERCLSMPYD 159 d1ru8a_ 228 -------------------------- 228 d1u3da2 160 PESPLLPPKKIISGDVSKCVADPLVF 185 TMalign alignment (TM-score: 0.43 Raw score:98.10) d1ru8a_ 1 GLADVAVLYS--GGKDSNYALYWAIKNRFSVKFLVTMVSE------NE-E--SY-MYTIN 48 ::::::: :::::::::::::: :::::::::::: :: : :: :::: d1u3da2 1 ---CSIVWFRRDLRVEDNPALAAAVR--AGPVIALFVWAPEEEGHYHPGRVSRWW-LKNS 54 d1ru8a_ 49 ANLTDLQARALGIPLVKGFTQGEKEKEVEDLKRVLSGLKIQGIVAGA-S----KYQRKRI 103 ::::::::::::::::::::: :::::::::::::::::::::: : ::::::: d1u3da2 55 LAQLDSSLRSLGTCLITKRST----DSVASLLDVVKSTGASQIFFNHLYDPLSLVRDHRA 110 d1ru8a_ 104 EKVAKELGLEVYTPAW-GRDAK-------------EYMRELLNLGFKIMVVGVSAYGLDE 149 :::::::::::::::: :::: d1u3da2 111 KDVLTAQGIAVRSFNAD-LLYEPWEVTDELGRPFS------------------------- 144 d1ru8a_ 150 SWLGRILDESALEELITLNEKYKV-HV---------AGEGGEFETFVLDMPLFK------ 193 :::::: :: : :::::: d1u3da2 145 ------------------MFAAFWERCLSMPYDPES----------P-LLPPKKIISGDV 175 d1ru8a_ 194 ----------YKIVVDKAKKVWEPCTSSGKLIIEEAHLESKLEH 227 d1u3da2 176 SKCVADPLVF---------------------------------- 185 HHsearch alignment (Probability: 0.91 E-value:0.00) d1ru8a_ 17 YALYWAIKNRFSVKFLVTMVSENEESYMYTI--------NANLTDLQARALGIPLVKGFT 68 :::::::::: :::::::::::::::::::: ::::::::::::::::::::: d1u3da2 16 PALAAAVRAG-PVIALFVWAPEEEGHYHPGRVSRWWLKNSLAQLDSSLRSLGTCLITKRS 74 d1ru8a_ 69 QGEKEKEVEDLKRVLSGLKIQGIVAG--ASKYQRK---RIEKVAKELGLEVYT 116 :::::::::::::::::::::: ::::::: ::::::::::::::: d1u3da2 75 ----TDSVASLLDVVKSTGASQIFFNHLYDPLSLVRDHRAKDVLTAQGIAVRS 123