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 | d1np7a2 | 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 <-- 0.913 --> HitDALI alignment (Z-score: 8.8 Raw score:668.70) d1ru8a_ 1 ---GLADVAVLY--SGGKdsNYALYWAIKNRFSVkFLVTMVSENEE--------sYMYT- 46 ::::::::: :::: :::::::::::::: ::::::::::: :::: d1np7a2 1 mkhVPPTVLVWFrnDLRLhdHEPLHRALKSGLAI-TAVYCYDPRQFaqthqgfakTGPWr 59 d1ru8a_ 47 -INAN-LTDLQARALG---IPLVKGFTqgekekEVEDLKRVLSGLKIQGIVAGAS----- 96 :::: :::::::::: :::::::: :::::::::::::::::::::: d1np7a2 60 sNFLQqSVQNLAESLQkvgNKLLVTTG-----lPEQVIPQIAKQINAKTIYYHREvtqee 114 d1ru8a_ 97 KYQRKRIEKVAKELGLEVYTPAwgRDAKEymrellnlgfkimvvgvsayGLDESWlgril 156 :::::::::::::::::::::: ::::: :::::: d1np7a2 115 LDVERNLVKQLTILGIEAKGYW-gSTLCH----------------pedlPFSIQD----- 152 d1ru8a_ 157 deSALEELITLNEKYKVhvageggefetfvldMPLFkykivvdkakkvwepctssgklii 216 ::::::::::::::: :::: d1np7a2 153 lpDLFTKFRKDIEKKKI---------sirpcfFAPS----------qllpspniklelta 193 d1ru8a_ 217 eeahleskleh 227 d1np7a2 194 pppeffpqinf 204 FAST alignment (Normalized score: 4.98 Raw score:1072.00) d1ru8a_ 1 GL-----ADVAVLYSGGKDS--------NYALYWAIKNRFSVKFLVTMVSENEESYMYTI 47 ::::::: ::::::::::::: :::::::::: d1np7a2 1 --MKHVPPTVLVWF------RNDLRLHDHEPLHRALKSGLA-ITAVYCYDPR-------- 43 d1ru8a_ 48 NA---------------------NLTDLQARA---LGIPLVKGFTQGEKE--KEVEDLKR 81 ::::::::: :::::::: :::::::: d1np7a2 44 --QFAQTHQGFAKTGPWRSNFLQQSVQNLAESLQKVGNKLLVT-------TGLPEQVIPQ 94 d1ru8a_ 82 VLSGLKIQGIVAGA-----SKYQRKRIEKVAKELGLEVYTPAWGRDAKEYMRELLNLGFK 136 :::::::::::::: ::::::::::::::::::::: d1np7a2 95 IAKQINAKTIYYHREVTQEELDVERNLVKQLTILGIEAKG-------------------- 134 d1ru8a_ 137 IMVVGVSAYGLDESWLGRILDESALEELITLNEKYKVHVAGEGGEFETFVLDMPLFKYKI 196 d1np7a2 135 ------------------------------------------------------------ 135 d1ru8a_ 197 VVDKAKKVWEPCTSSGKLIIEEAHLESKLEH----------------------------- 227 d1np7a2 135 -------------------------------YWGSTLCHPEDLPFSIQDLPDLFTKFRKD 163 d1ru8a_ 228 ----------------------------------------- 228 d1np7a2 164 IEKKKISIRPCFFAPSQLLPSPNIKLELTAPPPEFFPQINF 204 TMalign alignment (TM-score: 0.44 Raw score:100.56) d1ru8a_ 1 ----GLADVAVLYS--GGKDSNYALYWAIKNRFSVKFLVTMVSE--N---------E-E- 41 :: ::::::: :::::::::::::: ::::::::::::: : : : d1np7a2 1 MKHVPP-TVLVWFRNDLRLHDHEPLHRALK-SGLAITAVYCYDPRQFAQTHQGFAKTGPW 58 d1ru8a_ 42 -SY-MYTINANLTDLQARALGIPLVKGFTQGEKEKEVEDLKRVLSGLKIQGIVAGASK-- 97 :: :::::::::::::::::::::::: :::::::::::::::::::::::: d1np7a2 59 RSNF-LQQSVQNLAESLQKVGNKLLVTTG-----LPEQVIPQIAKQINAKTIYYHREVTQ 112 d1ru8a_ 98 --YQ-RKRIEKVAKELGLEVYTPAWGRDAKEYMR----------ELLNLGFKIMVVGVSA 144 :: ::::::::::::::::: ::::::::::: d1np7a2 113 EELDVERNLVKQLTILGIEAKG-YWGSTLCHPEDLPFSIQDLPD---------------- 155 d1ru8a_ 145 YGLDESWLGRILDESALEELITLNEKYKV------------HVAGEGGEFETFVLDMPLF 192 :::::: : ::::: d1np7a2 156 -----------------------LFTKFRKDIEKKKISIRP------------C-FFAPS 179 d1ru8a_ 193 K------------------------YKIVVDKAKKVWEPCTSSGKLIIEEAHLESKLEH 227 : d1np7a2 180 QLLPSPNIKLELTAPPPEFFPQINF---------------------------------- 204 HHsearch alignment (Probability: 0.91 E-value:0.00) d1ru8a_ 16 NYALYWAIKNRFSVKFLVTMVSENEESYMYT-------------INANLTDLQARALGIP 62 ::::::::::::::::::::::::::::::: :::::::::::::::: d1np7a2 21 HEPLHRALKSGLAITAVYCYDPRQFAQTHQGFAKTGPWRSNFLQQSVQNLAESLQKVGNK 80 d1ru8a_ 63 LVKGFTQGEKEKEVEDLKRVLSGLKIQGIVAGAS--KYQ---RKRIEKVAKELGLEVY 115 ::::: :::::::::::::::::::::::: ::: :::::::::::::::: d1np7a2 81 LLVTT-----GLPEQVIPQIAKQINAKTIYYHREVTQEELDVERNLVKQLTILGIEAK 133