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: T517_A.pdb A
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1jzta_ | Hypothetical protein YNL200c (YNU0 YEAST) | YjeF N-terminal domain-like | YjeF N-terminal domain-like | α/β |
| Hit | d1k68a_ | Response regulator for cyanobacterial phytochrome | CheY-like | Flavodoxin-like | α/β |
Query <-- 1.058 --> IntermediateDALI alignment (Z-score: 3.6 Raw score:420.50) query 1 ---------------------------------------------------gmENKKMNL 9 ::::::: d1jzta_ 1 lkvvssklaaeidkelmgpqigftlqqlmelagfsvaqavcrqfplrgkteteKGKHVFV 60 query 10 LLfSGDYdKALASLIIANAAREMEIEVTIFCafwGLLLlrdpekasqedkslyeqafssl 69 :: :::: ::::::::::::::::::::::: :::: d1jzta_ 61 IA-GPGN-NGGDGLVCARHLKLFGYNPVVFY---PKRS---------------------- 93 query 70 tpREAEelplskmnlggigkkmllemmkeekapKLSDLLSGARKKEVKFYAXqlsveimg 129 :::: ::::::::::::::::::: d1jzta_ 94 --ERTE---------------------------FYKQLVHQLNFFKVPVLSQ-------- 116 query 130 fkkeelfpevQIMDvkeYLKNAL--ESDLQLFI--------------------------- 160 :::: :::::: :::::::: d1jzta_ 117 ----------DEGN---WLEYLKpeKTLCIVDAifgfsfkppmrepfkgiveelckvqni 163 query 161 ------------------------------------------------------------ 161 d1jzta_ 164 ipivsvdvptgwdvdkgpisqpsinpavlvsltvpkpcsshirenqtthyvggrfiprdf 223 query 161 -------------------- 161 d1jzta_ 224 ankfgfepfgyestdqilkl 243 FAST alignment (Normalized score: 4.04 Raw score:797.30) query 1 G----------------------------------------------------MENKKMN 8 ::::::: d1jzta_ 1 -LKVVSSKLAAEIDKELMGPQIGFTLQQLMELAGFSVAQAVCRQFPLRGKTETEKGKHVF 59 query 9 LLLFSGDYDKALASLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSS 68 :::: ::::::::::::::::::::::::::: d1jzta_ 60 VIAG--PGNNGGDGLVCARHLKLFGYNPVVFYP--------------------------- 90 query 69 LTPREAEELPLSKMNLGGIGKKMLLEMMKEEKAP-------KLSDLLSGARKKEVKFYAX 121 :::::::::::::::::: d1jzta_ 91 ----------------------------------KRSERTEFYKQLVHQLNFFKVPVLS- 115 query 122 QLSVEIMGFKKEELFPEVQIMDVK----EYLKNAL---ESDLQLFI-------------- 160 :::::: :::::: d1jzta_ 116 ------------------------QDEGNWLEYL-KPEKTLCIV--DAIFGFSFKPPMRE 148 query 161 ------------------------------------------------------------ 161 d1jzta_ 149 PFKGIVEELCKVQNIIPIVSVDVPTGWDVDKGPISQPSINPAVLVSLTVPKPCSSHIREN 208 query 161 ----------------------------------- 161 d1jzta_ 209 QTTHYVGGRFIPRDFANKFGFEPFGYESTDQILKL 243 TMalign alignment (TM-score: 0.44 Raw score:70.86) query 1 --------------------------------------------GME------N-KKMNL 9 ::: : ::::: d1jzta_ 1 LKVVSSKLAAEIDKELMGPQIGFTLQQLMELAGFSVAQAVCRQFPLRGKTETEKGKHVFV 60 query 10 LLFSGDYDKALASLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSL 69 :: ::: ::::::::::::::::::::::::: : : d1jzta_ 61 IA-GPG-NNGGDGLVCARHLKLFGYNPVVFYP-K--R----------------------- 92 query 70 TPREAEELPLSKMNLGGIGKKMLLEMMKEEKAPKLSDLLSGARKKEVKFYAXQLSVEIMG 129 ::::: :::::::::::::::::::: d1jzta_ 93 -SERTE---------------------------FYKQLVHQLNFFKVPVLSQD------- 117 query 130 FKKEELFPEVQIMDVKEYLKNALESDLQLFI----------------------------- 160 ::::::::: :::::::::: d1jzta_ 118 -----------EGNWLEYLK-PEKTLCIVDAIFGFSFKPPMREPFKGIVEELCKVQNIIP 165 query 161 ------------------------------------------------------------ 161 d1jzta_ 166 IVSVDVPTGWDVDKGPISQPSINPAVLVSLTVPKPCSSHIRENQTTHYVGGRFIPRDFAN 225 query 161 ------------------ 161 d1jzta_ 226 KFGFEPFGYESTDQILKL 243 HHsearch alignment (Probability: 0.06 E-value:0.03) query 4 NKKMNLLLFSGDYDKALASLIIANAAREMEIEVTIFCAF 42 ::::::::::::::::::::::::::::::::::::::: d1jzta_ 53 EKGKHVFVIAGPGNNGGDGLVCARHLKLFGYNPVVFYPK 91
Intermediate <-- 0.711 --> HitDALI alignment (Z-score: 3.3 Raw score:378.90) d1jzta_ 1 lkvvssklaaeidkelmgpqigftlqqlmelagfsvaqavcrqfplrgkteteKGKHVFV 60 ::::::: d1k68a_ 1 -----------------------------------------------------AHKKIFL 7 d1jzta_ 61 IAGpgnNGGDGLVCARHLKLF--GYNPVVFYPkrsertefykqlvhqlnffkvpvlsqde 118 ::: ::::::::::::::: ::::::::: d1k68a_ 8 VED---NKADIRLIQEALANStvPHEVVTVRD------------------------gmea 40 d1jzta_ 119 gNWLE----ylkpEKTLCIVDAifgfsfkppmrEPFKgIVEELCKVQ-----NIIPIVSV 169 :::: ::::::::: :::: ::::::::: :::::::: d1k68a_ 41 mAYLRqegeyanaSRPDLILLX--------lnlPKKD-GREVLAEIKsdptlKRIPVVVL 91 d1jzta_ 170 DVptgwdVDKGP-isqpSINPAVLVSltvpkpcsshirenqtthyVGGRfiprdfankfg 228 :: ::::: ::::::::: :::: d1k68a_ 92 ST----sINEDDifhsyDLHVNCYIT-------------------KSAN----------- 117 d1jzta_ 229 fepfgyestdQILK-----------------l 243 :::: d1k68a_ 118 ---------lSQLFqivkgieefwlstatlps 140 FAST alignment (Normalized score: 3.17 Raw score:585.60) d1jzta_ 1 LKVVSSKLAAEIDKELMGPQIGFTLQQLMELAGFSVAQAVCRQFPLRGKTETEK-GKHVF 59 ::::: d1k68a_ 1 ------------------------------------------------------AHKKIF 6 d1jzta_ 60 VIAGPGN--NGGDGLVCARHLK--LFGYNPVVFYPKRSERTEFYKQLVHQLNFFKVPVLS 115 :: ::::::::::::: ::::::::: d1k68a_ 7 LV-----EDNKADIRLIQEALANSTVPHEVVTV--------------------------- 34 d1jzta_ 116 QDEG----NWLEYLKP----------EKTLCIVDAIFGFSFKPPMRE------PFKGIVE 155 ::::: ::::::::: ::::::: d1k68a_ 35 ----RDGMEAMAY---LRQEGEYANASRPDLILLA------------LNLPKKDGREVLA 75 d1jzta_ 156 ELCKVQ-----NIIPIVSVDVPTGWDVDKGPISQP--------------SINPAVLVSLT 196 ::: ::::::: ::::::::: d1k68a_ 76 EIK---SDPTLKRIPVVV-----------------LSTSINEDDIFHSYDLHVNCYIT-- 113 d1jzta_ 197 VPKPCSSHIRENQTTHYVGGRFIPRDFANKFGFEPFGYESTDQILKL------------- 243 d1k68a_ 114 -----------------------------------------------KSANLSQLFQIVK 126 d1jzta_ 244 -------------- 244 d1k68a_ 127 GIEEFWLSTATLPS 140 TMalign alignment (TM-score: 0.32 Raw score:77.55) d1jzta_ 1 LKVVSSKLAAEIDKELMGPQIGFTLQQLMELAGFSVAQAVCRQFPLRGKTETEKGKHVFV 60 : :::::: d1k68a_ 1 ---------------------------------------------------A--HKKIFL 7 d1jzta_ 61 IAGPGNNGGDGLVCARHLKLF-GYNPVVFYPK------RSERTEFYKQLVHQLNFFKVPV 113 ::: : :::::::::::::: :::::::::: d1k68a_ 8 VED--N-KADIRLIQEALANSTVPHEVVTVRDGMEAMA---------------------- 42 d1jzta_ 114 L---SQDEGNWLEYLKPEKTLCIVDAIFGFSFKPPMREPFK--GIVEELC--K-VQNIIP 165 : :::::::: : ::::::: :: : :: :: :::::: : :::::: d1k68a_ 43 YLRQ--EGEYANAS-R---PDLILLA-LN--L---PK--KDGR-EVLAEIKSDPTLKRIP 87 d1jzta_ 166 IVSVDVPTGWDVDKGPISQPSINPAVLVSLTVPKP-CSSH-IR-ENQTTHYVGGRF--IP 220 ::::: : :::: :::: :: ::::::::::: d1k68a_ 88 VVVLS------------------------T-SINEDDIFHSYDL-HVNCYITKSANLS-- 119 d1jzta_ 221 RDFANKFGFEPFGY--ESTDQI-L-------------KL 243 : ::: : d1k68a_ 120 -------------QLF---QIVKGIEEFWLSTATLPS-- 140 HHsearch alignment (Probability: 0.06 E-value:0.02) d1jzta_ 58 VFVIAGPGNNGGDGLVCARHLKLFG 82 ::::::::::::::::::::::::: d1k68a_ 57 DLILLXLNLPKKDGREVLAEIKSDP 81