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 | d1tq8a_ | Hypothetical protein Rv1636 | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1dnpa2 | DNA photolyase | Cryptochrome/photolyase, N-terminal domain | Cryptochrome/photolyase, N-terminal domain | α/β |
Query <-- 1.545 --> IntermediateDALI alignment (Z-score: 6.9 Raw score:470.90) query 1 dadeevysalvvglrayvaKNGFRSVLIGLSGGIDSALVAAIACDALG-aQNVYGVSMPS 59 ::::::::::::::::::::::::::::: :::::::::: d1tq8a_ 1 ------------------sLSAYKTVVVGTDGSDSSMRAVDRAAQIAGadAKLIIASAYL 42 query 60 KysSDHSKGDAAELARRTG------LNFRTVSIepmfdaymaslgltglaeenlqsrLRG 113 : :::::::::::::::: :::::::: ::: d1tq8a_ 43 P--TAPIYEILHDAKERAHnagaknVEERPIVG------------------------APV 76 query 114 TTLMAISNQEGH-IVLAPGNksELAVgystlygdsvgaygpikdvyktsifrlaewrnra 172 :::::::::::: ::::::: :::: d1tq8a_ 77 DALVNLADEEKAdLLVVGNV--GLST---------------------------------- 100 query 173 aaergqtppipeasitkpdypvldailelyvdrdtgadaivaagydrelvvktlrmvdta 232 d1tq8a_ 101 ------------------------------------------------------------ 101 query 233 eykrrqyppgtkisakgfgkdrrlpitnrwregh 266 d1tq8a_ 101 -------iagrllgsvpanvsrrakvdvlivhtt 127 FAST alignment (Normalized score: 4.47 Raw score:821.20) query 1 DADEEVYSALVVGLRAYVAKN---GFRSVLIGLSGGIDSALVAAIACDALGAQ-----NV 52 ::::::::::::::::::::::::: :: d1tq8a_ 1 ---------------------SLSAYKTVVVGTDGSDSSMRAVDRAAQI----AGADAKL 35 query 53 YGVSMPSKYS----SDHSKGDAAELARRTG-LNFRTVSIEPMFDAYMASLGLTGLAEENL 107 ::::::: :::::::::::::::: ::::::::: d1tq8a_ 36 IIASAYL---PTAPIYEILHDAKERAHNAGAKNVEERPIV-------------------- 72 query 108 QSR-LRGTTLMAISNQEG-HIVLAPGNKSELAVGYSTLYGDSVGAYGPIKDVYKTSIFRL 165 :::::::::::::: :::::::: d1tq8a_ 73 ---GAPVDALVNLADEEKADLLVVGNV--------------------------------- 96 query 166 AEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVKT 225 d1tq8a_ 97 ------------------------------------------------------------ 97 query 226 LRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH------------------- 266 d1tq8a_ 97 -----------------------------------------GLSTIAGRLLGSVPANVSR 115 query 267 ------------ 267 d1tq8a_ 116 RAKVDVLIVHTT 127 TMalign alignment (TM-score: 0.34 Raw score:89.30) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGA-QNVYGVSMPS 59 ::::::::::::::::::::::::::::::: :::::::::: d1tq8a_ 1 ------------------SLSAYKTVVVGTDGSDSSMRAVDRAAQIAGADAKLIIASAYL 42 query 60 K-YSSDHSKGDAAELARRTG------LNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLR 112 : :: ::::::::::::: :::::: : : :: d1tq8a_ 43 PT--AP-IYEILHDAKERAHNAGAKNVEERPI-V--G---------------------AP 75 query 113 GTTLMAISNQEGH-IVLAPGNKSELAVGYSTLYGDSVGAYGPIKDVYKTSIFRLAEWRNR 171 ::::::::::::: ::::::: : : d1tq8a_ 76 VDALVNLADEEKADLLVVGNV--G----L------------------------------- 98 query 172 AAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDT 231 : ::: : d1tq8a_ 99 -----------------------------------------------------S-TIA-G 103 query 232 AEYKRRQYPPGTKISAKG-FG------KDRRLPITNRWREGH 266 :::::: ::::::::: : : d1tq8a_ 104 RLLGSV-PANVSRRAK-VD-VLIVHTT--------------- 127 HHsearch alignment (Probability: 0.11 E-value:0.02) query 23 FRSVLIGLSGGIDSALVAAIACDAL---GAQNVYGVSMPSKYSSDHSKGDAAELARRTGL 79 ::::::::::::::::::::::::: ::: :::::::::::::::::::::::::::: d1tq8a_ 5 YKTVVVGTDGSDSSMRAVDRAAQIAGADAKL-IIASAYLPTAPIYEILHDAKERAHNAGA 63 query 80 NFRTVSI 86 ::::::: d1tq8a_ 64 KNVEERP 70
Intermediate <-- 1.484 --> HitDALI alignment (Z-score: 6.3 Raw score:432.60) d1tq8a_ 1 slsayKTVVVGTDGS--dssMRAVDRAAQiaGADAKLIIASAYLP--------------- 43 :::::::::: ::::::::: :::::::::::::: d1dnpa2 1 -----TTHLVWFRQDlrlhdNLALAAACR--NSSARVLALYIATPrqwathnmsprqael 53 d1tq8a_ 44 -TAPIYEILHDAKErahnagaknVEERPIVG----APVDALVNLADEEKADLLVVGNVGL 98 ::::::::::::: :::::::: ::::::::::::::::::::::::: d1dnpa2 54 iNAQLNGLQIALAE-------kgIPLLFREVddfvASVEIVKQVCAENSVTHLFYNYQYE 106 d1tq8a_ 99 S---------tiagrllgsvpanvSRRAK------------------------------- 118 : ::::: d1dnpa2 107 VnerardveveralrnvvcegfddSVILPpgavmtgnhemykvftpfknawlkrlregmp 166 d1tq8a_ 119 -------------------------vdvlivhtt 127 d1dnpa2 167 ecvaapkvrssgsiepspsitlnyprqsfdtahf 200 FAST alignment (Normalized score: 5.57 Raw score:887.30) d1tq8a_ 1 SLSAYKTVVVGTDGSDSS--------MRAVDRAAQIAGADAKLIIASAYLPT-------- 44 ::::::: ::::::::: :::::::::::: d1dnpa2 1 -----TTHLVWF------RQDLRLHDNLALAAACR--NSSARVLALYIA---TPRQWATH 44 d1tq8a_ 45 -------APIYEILHDAKERAHNAGAKNVEERPIVG------APVDALVNLADEEKADLL 91 :::::::::::::::: :::::::: :::::::::::::::::: d1dnpa2 45 NMSPRQAELINAQLNGLQIALAE---KGIPLLFR--EVDDFVASVEIVKQVCAENSVTHL 99 d1tq8a_ 92 VVGNVGLSTIAGRLLGSVPANVSRRAKVDVLIVHTT------------------------ 127 ::::: d1dnpa2 100 FYNYQ-------------------------------YEVNERARDVEVERALRNVVCEGF 128 d1tq8a_ 128 ------------------------------------------------------------ 128 d1dnpa2 129 DDSVILPPGAVMTGNHEMYKVFTPFKNAWLKRLREGMPECVAAPKVRSSGSIEPSPSITL 188 d1tq8a_ 128 ------------ 128 d1dnpa2 189 NYPRQSFDTAHF 200 TMalign alignment (TM-score: 0.57 Raw score:72.54) d1tq8a_ 1 SLSAYKTVVVGTDGSDSS--MRAVDRAAQIAGADAKLIIASAYLP--------------- 43 ::::::::::::: :::::::::: : :::::::::::: d1dnpa2 1 -----TTHLVWFRQDLRLHDNLALAAACRN-S-SARVLALYIATPRQWATHNMSPRQAEL 53 d1tq8a_ 44 TAP--IYEILHDAKERAHNAGAKNVEERPIVG----APVDALVNLADEEKADLLVVGNVG 97 :: ::::::: ::: : ::::::::: :::::::::::::::::::::::: d1dnpa2 54 -INAQLNGLQIA-LAE-K-----GIPLLFREVDDFVASVEIVKQVCAENSVTHLFYNYQY 105 d1tq8a_ 98 LSTIAGR-LLG--S--VP---------A-NV-----SRRAK------------------- 118 : :: :: : : : : ::::: d1dnpa2 106 E----VNE-RARDVEV-ERALRNVVCEGF-DDSVILPPGAVMTGNHEMYKVFTPFKNAWL 158 d1tq8a_ 119 ------------------------------------------VDVLIVHTT 127 d1dnpa2 159 KRLREGMPECVAAPKVRSSGSIEPSPSITLNYPRQSFDTAHF--------- 200 HHsearch alignment (Probability: 0.61 E-value:0.00) d1tq8a_ 15 SDSSMRAVDRAAQIAGADAKLIIASAYLPTAPIY------E----ILHDAKERAHNAGAK 64 ::::::::::::::: :::::::::::::::: : ::::::::::::::: d1dnpa2 12 RLHDNLALAAACRNS---SARVLALYIATPRQWATHNMSPRQAELINAQLNGLQIALAEK 68 d1tq8a_ 65 NVEERPIVGA----PVDALVNLADEEKADLLVVGNVGLSTIA 102 :::::::::: :::::::::::::::::::::: ::::: d1dnpa2 69 GIPLLFREVDDFVASVEIVKQVCAENSVTHLFYNYQ-YEVNE 109