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: T515_B.pdb B
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1o5ka_ | Dihydrodipicolinate synthase | Aldolase | TIM beta/alpha-barrel | α/β |
| Hit | d1qz5a1 | Actin | Actin-like ATPase domain | Ribonuclease H-like motif | α/β |
Query <-- 0.660 --> IntermediateDALI alignment (Z-score: 6.3 Raw score:820.90) query 1 ----------mietpYYLIDKAKLTRNMERIAHVReksgAKALLALKCF--------aTW 42 :::::::::::::::::::: :::::::::: :: d1o5ka_ 1 hmfrgvgtaivtpfkNGELDLESYERLVRYQLENG---vNALIVLGTTGesptvnedeRE 57 query 43 SVFDLMRDYM-----DGTTSS------SLFEVRLGRERfGKETHAYSVA--------yGD 83 :::::::::: :::::: ::::::::::: :::::::::: :: d1o5ka_ 58 KLVSRTLEIVdgkipVIVGAGtnstekTLKLVKQAEKL-GANGVLVVTPyynkptqegLY 116 query 84 NEIDEVV--SHADKIIFN---------SISQLERFADKAaGIARGLRL-NPQRlgEWDVp 131 ::::::: ::::::::: :::::::::::: :::::::: :::: :::: d1o5ka_ 117 QHYKYISerTDLGIVVYNvpgrtgvnvLPETAARIAADL-KNVVGIXEaNPDI-dQIDRt 174 query 132 kverVMDR-INGFMIHNNcenkdfglfdrMLGEIEERFgaliarvdwvsLGGGIHFTgdd 190 :::: ::::::::: ::::::::: :::::::: d1o5ka_ 175 vsltKQARsDFMVWSGND----------dRTFYLLCAG--------gdgVISVVSNV--- 213 query 191 yPVDAFSARLRAFSDR---------------------ygvqiylepgeasitKSTTLevt 229 ::::::::::::::: ::::: d1o5ka_ 214 -APKQMVELCAEYFSGnleksrevhrklrplmkalfvetnpipvkaalnlmgFIENE--- 269 query 230 vldtlynknlaivdssieaHMLDLliyretAKVLPnegshsymicgksclagdvfgefrf 289 ::::: ::::: d1o5ka_ 270 ------------------lRLPLV------PASEK------------------------- 280 query 290 aeelkvgdrisfqdaagytmvkknwfngvkmpaiaireldgsvrtvreftyadyeqsls 348 d1o5ka_ 281 --------------------------------------------tvellrnvlkesgll 295 FAST alignment (Normalized score: 3.73 Raw score:1195.00) query 1 MIETPY----------------YLIDKAKLTRNMERIAHVREKSGAKALLALKCFATWSV 44 ::::::::::::::::: d1o5ka_ 1 ------HMFRGVGTAIVTPFKNGELDLESYERLVRYQLE--------------------- 33 query 45 FDLMRD-YMDGTTSS---------------SLFEVRLGRERF--GKETHAYSVAY----- 81 :::::: :::::::::::: ::::::: d1o5ka_ 34 ------NGVNALI--VLGTTGESPTVNEDEREKLVSRTLEIVDGKIPVIVG----AGTNS 81 query 82 ---GDNEIDEVVS-HADKIIFN------------SISQLERFADKAAGIARGLRLNPQRL 125 :::::::::: ::::::: ::::::::::: ::::::::::: d1o5ka_ 82 TEKTLKLVKQAEKLGANGVLV-VTPYYNKPTQEGLYQHYKYISER-TDLGIVVYNVP--- 136 query 126 GE------WDVPKVERV---MDRINGFMIHNNCENKDFGLFDRMLGE--IEERFGALIAR 174 ::::::::: :::::::::: ::::::::::: d1o5ka_ 137 --GRTGVNVLPETAARIAADLKNVVGIXEA-----------------NPDIDQIDRTVSL 177 query 175 V-------DWVSLGGGIHFTGDD-----------------------YPVDAFSARLRAFS 204 ::::: :::::::::::::: d1o5ka_ 178 -TKQARSDFMVWS----------GNDDRTFYLLCAGGDGVISVVSNVAPKQMVELCAEYF 226 query 205 DRYGVQIYLEPGEASITKSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLP 264 d1o5ka_ 227 ------------------------------------------------------------ 227 query 265 NEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVKMPAIA 324 d1o5ka_ 227 ------------------------------------------------------------ 227 query 325 IRELDGSVRTVREFTYADYEQSLS------------------------------------ 348 d1o5ka_ 227 ------------------------SGNLEKSREVHRKLRPLMKALFVETNPIPVKAALNL 262 query 349 --------------------------------- 349 d1o5ka_ 263 MGFIENELRLPLVPASEKTVELLRNVLKESGLL 295 TMalign alignment (TM-score: 0.41 Raw score:141.40) query 1 MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKCFATWSVFDLMRDYMDGTTSSSL 60 :::: ::::::::: d1o5ka_ 1 ----------------------------HMFR-------------------GVGTAIVTP 13 query 61 ----------FE-VR-LGRERFGKETHAYS----V--A-Y-G-DNEIDEVVS-H---ADK 95 :: :: :::::::::::::: : : : : ::::::::: : ::: d1o5ka_ 14 FKNGELDLESYERLVRYQLENGVNALIVLGTTGESPTVNEDEREKLVSRTLEIVDGKIPV 73 query 96 II-FN------SISQLERFADKAAGIARGLRLNP--QR---LGEW-DV-PKVERVMDRIN 141 :: :: ::::::::::::: ::::::::: :: :: :: ::::::: ::: d1o5ka_ 74 IVGAGTNSTEKTLKLVKQAEKLGA-NGVLVVTPYYNKPTQE--GLYQHYKYISERT-DLG 129 query 142 GFMIHNNCE--NKDFGLFDRMLGEIEERFGALIARVDWVSLGGGIHFTGDDYPVDAFSAR 199 ::::::::: :: :::::::: ::::: ::::::::::::: : ::::: d1o5ka_ 130 IVVYNVPGRTG-----VN-VLPETAAR-IAADL-KNVVGIXEANPDI-----D--QIDRT 174 query 200 LRAFSDRYG-VQIYLEPGEAS--------------I------------------------ 220 ::::::::: ::::::::::: : d1o5ka_ 175 VSLTKQARSDFMVWSGNDDRTFYLLCAGGDGVISVVSNVAPKQMVELCAEYFSGNLEKSR 234 query 221 ---T-KSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGK 276 : :::: d1o5ka_ 235 EVHRKLRPL--------------------------------------------------- 243 query 277 SCLAGDVFGEFRFAEELKVGDRISFQDAAGYT----MVKK---------N-------WFN 316 ::::::: :::: : ::: d1o5ka_ 244 -------------------------MKALFVETNPIPVKAALNLMGFIENELRLPLVPAS 278 query 317 GVKMP-AIAIRELDGSVRTVREFTYADYEQSLS 348 ::::: :::::: ::::: d1o5ka_ 279 EKTVELLRNVLK----ESGLL------------ 295 HHsearch alignment (Probability: 0.03 E-value:0.15) query 1 MIETPYYLI-DKAKLTRNMERIAHVREKSGAKAL---LALKCFATWSVFDLMRD 50 ::::::::: ::::::::::::::::::: :::: ::::::::::::::::: d1o5ka_ 101 LVVTPYYNKPTQEGLYQHYKYISERTDLG-IVVYNVPGRTGVNVLPETAARIAA 153
Intermediate <-- 0.696 --> HitDALI alignment (Z-score: 1.9 Raw score:278.00) d1o5ka_ 1 hmfrGVGTAIVT---------------------------------------------PFK 15 :::::::: ::: d1qz5a1 1 ----TTALVCDNgsglvkagfagddapravfpsivgrpdsyvgdeaqskrgiltlkyPIE 56 d1o5ka_ 16 NGEL-DLESYERLVRYQL--ENGV----NALIVLgttgESPTVNEDEREKLVSRTLEIVD 68 :::: ::::::::::::: :::: :::::: :::::::::::::::::::::: d1qz5a1 57 XGIItNWDDMEKIWHHTFynELRVapeeHPTLLT----EAPLNPKANREKMTQIMFETFN 112 d1o5ka_ 69 GkIPVIVGAgtnstektlklvkqaeklgangvlVVTPyynkptqeglyqhykyisertdl 128 : ::::::: :::: d1qz5a1 113 V-PAMYVAI----------------------qaVLSL----------------------- 126 d1o5ka_ 129 givvyNVPGrtgvnvlpetaariaadlknvvgixeanpdidqidrtvsltkqarsdfmvw 188 :::: d1qz5a1 127 -----YASG--------------------------------------------------- 130 d1o5ka_ 189 sgnddrtfyllcaggdgvisvvsnvapkqmvelcaeyfsgnleksrevhrklrplmkalf 248 d1qz5a1 131 ------------------------------------------------------------ 131 d1o5ka_ 249 vetnpipvkaalnlmgfienelrlplvpasektvellrnvlkesgll 295 d1qz5a1 131 ----------------------------------------------- 131 FAST alignment (Normalized score: 2.35 Raw score:459.90) d1o5ka_ 1 HMFRGVGTAIVTP----------------------------------------------F 14 :::::::: : d1qz5a1 1 ----TTALVCDN-GSGLVKAGFAGDDAPRAVFPSIVGRPDSYVGDEAQSKRGILTLKYPI 55 d1o5ka_ 15 KNGE-LDLESYERLVRYQLENGV---------NALIVLGTTGE---SPTVNEDEREKLVS 61 :::: ::::::::::::::: :::: :::::::::::::: d1qz5a1 56 EAGIITNWDDMEKIWHHTFY---NELRVAPEEHPTL-------LTEAPLNPKANREKMTQ 105 d1o5ka_ 62 RTLEIVDGK--IPVIVGAGTNSTEKTLKLVKQAEKLGANGVLVVTPYYNKPTQEGLYQHY 119 :::::: :::::: d1qz5a1 106 IMFETF---NVPAMYVA------------------------------------------- 119 d1o5ka_ 120 KYISERTDLGIVVYNVPGRTGVNVLPETAARIAADLKNVVGIAEANPDIDQIDRTVSLTK 179 d1qz5a1 120 ------------------------------------------------------------ 120 d1o5ka_ 180 QARSDFMVWSGNDDRTFYLLCAGGDGVISVVSNVAPKQMVELCAEYFSGNLEKSREVHRK 239 d1qz5a1 120 ------------------------------------------------------------ 120 d1o5ka_ 240 LRPLMKALFVETNPIPVKAALNLMGFIENELRLPLVPASEKTVELLRNVLKESGLL---- 295 d1qz5a1 120 --------------------------------------------------------IQAV 123 d1o5ka_ 296 ------- 296 d1qz5a1 124 LSLYASG 130 TMalign alignment (TM-score: 0.24 Raw score:70.70) d1o5ka_ 1 HMFRGVG-TAIVTPFKNGELDLESYERLVRYQLENGVNALI-VLGT--------TGESPT 50 :::: : : : d1qz5a1 1 TTAL--VC--------------------------------DN---GSGLVKAGF------ 17 d1o5ka_ 51 VNEDEREKLVSRTLEIVDGKIPVIVGAGTNSTEKTLKLVKQAEKLGANGVLVVTPYYNKP 110 :::::: ::::::: d1qz5a1 18 -------------------AGDDAP-----------------------RAVFPSI----- 30 d1o5ka_ 111 TQEGL--YQHYKYI-----------SERTDLGIVVYNVPGRTGVNVLPETAARIAAD-LK 156 ::: ::::::: ::::: :::::::::::::: :: d1qz5a1 31 --VGRPDSYVGDEAQSKRGILTLKY-----------PIEAG--IITNWDDMEKIWHHTFY 75 d1o5ka_ 157 NV----V----G-IAEAN-PDIDQIDRTVSLTKQARSDF-MVWSGNDDRTFYLLCAGGDG 205 :: : : ::::: :::::::::::::::::::: :::::::: d1qz5a1 76 NELRVAPEEHPTLLTEAPLNPKANREKMTQIMFETFNVPAMYVAIQAV------------ 123 d1o5ka_ 206 VISVVSNVAPKQMVELCAEYFSGNLEKSREVHRKLRPLMKALFVETNPIPVKAALNLMGF 265 ::::::: d1qz5a1 124 --LSLYASG--------------------------------------------------- 130 d1o5ka_ 266 IENELRLPLVPASEKTVELLRNVLKESGLL 295 d1qz5a1 131 ------------------------------ 131 HHsearch alignment (Probability: 0.48 E-value:0.00) d1o5ka_ 9 AIVTPFKNGEL-DLESYERLVRYQLEN--G----VNALIVLGTTGESPTVNEDEREKLVS 61 ::::::::::: ::::::::::::::: : :::::: :::::::::::::::: d1qz5a1 50 TLKYPIEXGIITNWDDMEKIWHHTFYNELRVAPEEHPTLL----TEAPLNPKANREKMTQ 105 d1o5ka_ 62 RTLEIVD 68 ::::::: d1qz5a1 106 IMFETFN 112