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 | d1k75a_ | L-histidinol dehydrogenase HisD | ALDH-like | ALDH-like | α/β |
| Hit | d1hv8a1 | Putative DEAD box RNA helicase | P-loop containing nucleoside triphosphate hydrolases | P-loop containing nucleoside triphosphate hydrolases | α/β |
Query <-- 0.681 --> IntermediateDALI alignment (Z-score: 3.6 Raw score:473.90) query 1 ------------------------------------------------------------ 1 d1k75a_ 1 ntiidwnsctaeqqrqllmrpaisasesitrtvndildnvkargdealreysakfdkttv 60 query 1 -----------------------------dadeEVYSA---------lvvglrayvakng 22 ::::: d1k75a_ 61 talkvsaeeiaaaserlsdelkqamavavknieTFHTAqklppvdvetqpgvrcqqvtrp 120 query 23 FRSVLIGLS-----GGIDSALVAAIACDALGaQNVYGVSMPSkyssdhsKGDAAELARRT 77 ::::::::: ::::::::::::::::: :::::::::: ::::::::::: d1k75a_ 121 VASVGLYIPggsapLFSTVLMLATPASIAGC-KKVVLCSPPP------iADEILYAAQLC 173 query 78 GL-NFRTVsiepmfdaymaslgltglaeenlqsrlRGTTLMAISNQ----EGHI-VLAPg 131 :: ::::: ::::::::::: :::: :::: d1k75a_ 174 GVqDVFNV--------------------------gGAQAIAALAFGtesvPKVDkIFGP- 206 query 132 nkselavgysTLYGDSVG----------AYGPikdvyktsifrlaewrnraaaergqtpp 181 :::::::: :::: d1k75a_ 207 ---------gNAFVTEAKrqvsqrldgaAIDM-----------------pagpsevlvia 240 query 182 ipeasitkpdyPVLD-------aiLELYvdrdtgADAIVAaGYDREL--------vvKTL 226 :::: :::: :::::: :::::: ::: d1k75a_ 241 dsgatpdfvasDLLSqaehgpdsqVILLtpaadmARRVAE-AVERQLaelpraetarQAL 299 query 227 RMvdtaeykrrqyppgtkisAKGF------------------------------------ 250 :: :::: d1k75a_ 300 NAsrlivtkdlaqcveisnqYGPEhliiqtrnarelvdsitsagsvflgdwspesagdya 359 query 251 ----------GKDR---------------------------------------------- 254 :::: d1k75a_ 360 sgtnhvlptyGYTAtcsslgladfqkrmtvqelskegfsalastietlaaaerltahkna 419 query 255 rlpitnrwregh 266 d1k75a_ 420 vtlrvnalkeqa 431 FAST alignment (Normalized score: 1.61 Raw score:543.70) query 1 DADEEVYSALVVGLRAYVAKNG-------------------------------------- 22 d1k75a_ 1 ----------------------NTIIDWNSCTAEQQRQLLMRPAISASESITRTVNDILD 38 query 23 ------------------------------------------------------------ 23 d1k75a_ 39 NVKARGDEALREYSAKFDKTTVTALKVSAEEIAAASERLSDELKQAMAVAVKNIETFHTA 98 query 23 ----------------------FRSVLIGLSG--------GIDSALVAAIACDALGAQNV 52 ::::::: ::::::::::::: :::::: d1k75a_ 99 QKLPPVDVETQPGVRCQQVTRPVASVGLY---IPGGSAPLFSTVLMLATPASI-AGCKKV 154 query 53 YGVSMPSKYSSDHSKGDAAELARRTGLN---FRTVSIEPMFDAYMASLGLTGLAEENLQ- 108 :: :::::::::::::::: :::: d1k75a_ 155 VL--CSPPPIADEILYAAQL--------CGVQDVF------------------------N 180 query 109 ---------------------------SRLRGTTLMAISNQE---GHIVLAPGNKSELAV 138 ::::::::::::: :::: d1k75a_ 181 VGGAQAIAALAFGTESVPKVDKIFGPGNAFVTEAKRQVSQ--RLDGAAI----------- 227 query 139 GYSTLYGDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAI 198 d1k75a_ 228 ------------------------------------------------------------ 228 query 199 LELYVDRDTGADAI------------VAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKIS 246 ::::::::::::::::::: d1k75a_ 228 --------------DMPAGPSEVLVIADSGATPDFVASDLLSQAE--------------- 258 query 247 AKGFGKDRRLPITNRWREGH---------------------------------------- 266 d1k75a_ 259 --------------------HGPDSQVILLTPAADMARRVAEAVERQLAELPRAETARQA 298 query 267 ------------------------------------------------------------ 267 d1k75a_ 299 LNASRLIVTKDLAQCVEISNQYGPEHLIIQTRNARELVDSITSAGSVFLGDWSPESAGDY 358 query 267 ------------------------------------------------------------ 267 d1k75a_ 359 ASGTNHVLPTYGYTATCSSLGLADFQKRMTVQELSKEGFSALASTIETLAAAERLTAHKN 418 query 267 ------------- 267 d1k75a_ 419 AVTLRVNALKEQA 431 TMalign alignment (TM-score: 0.41 Raw score:108.12) query 1 ------------------------------------------------------------ 1 d1k75a_ 1 NTIIDWNSCTAEQQRQLLMRPAISASESITRTVNDILDNVKARGDEALREYSAKFDKTTV 60 query 1 -----------------------------DADEEVYSALVVGL---------------RA 16 :::::::::::: d1k75a_ 61 TALKVSAEEIAAASERLSDELKQAMAVAV--KNIETFHTAQKLPPVDVETQPGVRCQQ-- 116 query 17 YVAKNGFRSVLIGLS----GGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHSKGDAAE 72 ::::::::::::: ::::::::::::::::::::::::::: : ::::::: d1k75a_ 117 --VTRPVASVGLYIPGGSAPLFSTVLMLATPASIAGCKKVVLCSPP-----P-IADEILY 168 query 73 LARRTGLNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGTTLMAIS--NQEGHIVLAP 130 :::::::::::::: :::::::::::: :::::::::: d1k75a_ 169 AAQLCGVQDVFNVG----------------------GAQAIAALAFGTESVPKVDKIFGP 206 query 131 GNKSELAVGYSTLYGDS-V----------GAYGPIK-DVYK-------------TSIFRL 165 : :::::: : ::::::: ::: d1k75a_ 207 G----------NAFVTEAKRQVSQRLDGAAIDMPAGP-SEVLVIADSGATPDFV------ 249 query 166 AEWRNRAAAERGQTPPIPEASITKPDYPVLDAI-----LELYVDRDTGADAIVAAGYD-R 219 :::::::: :::: :::::::::::::: : d1k75a_ 250 -------------------------ASDLLSQAEHGPDSQVI--LLTPAADMARRVAEAV 282 query 220 E------------L-VVKTLR----------------MVDTAE--YKR------------ 236 : : :::::: : : d1k75a_ 283 ERQLAELPRAETARQALNASRLIVTKDLAQCVEISNQ-----YGP--EHLIIQTRNAREL 335 query 237 ------RQYPPGTKISA--------------------KG-F-GKD--------------- 253 ::::: :: : ::: d1k75a_ 336 VDSITS------AGSVFLGDWSPESAGDYASGTNHVLPTYGYTATCSSLGLADFQKRMTV 389 query 254 ------------------------------------------RRLPITNRWREGH 266 d1k75a_ 390 QELSKEGFSALASTIETLAAAERLTAHKNAVTLRVNALKEQA------------- 431 HHsearch alignment (Probability: 0.01 E-value:0.21) query 65 HSKGDAAELARRTGLNFRTVSIEPMFDAYMAS 96 :::::::::::::::::::::::::::::::: d1k75a_ 308 KDLAQCVEISNQYGPEHLIIQTRNARELVDSI 339
Intermediate <-- 0.888 --> HitDALI alignment (Z-score: 3.6 Raw score:391.40) d1k75a_ 1 ntiidwnsctaeqqrqllmrpaisasesitrtvndildnvkargdealreysakfdkttv 60 d1hv8a1 1 ------------------------------------------------------------ 1 d1k75a_ 61 talkvsaeeiaaaserlsdelkqamavavknietfhtaqklppvdvetqpgvrcqqvtrp 120 d1hv8a1 1 ------------------------------------------------------------ 1 d1k75a_ 121 vasvglyipggsaplfstvlmlatpasiagckkvvlcspppiadeilyaaqlcgvqdvfn 180 d1hv8a1 1 ------------------------------------------------------------ 1 d1k75a_ 181 vggaqaiaalafgtesvpkvdkifgpgnafvteakrqvsqrldgaaidmpagpsevlvia 240 d1hv8a1 1 ----------veymnfnelnlsdnilnairnkgfekptdiqmkviplflndeynivaqar 50 d1k75a_ 241 dsgaTPDFVASDLLSQAeHGPDS-QVILLTPAADMARRVAEAVERQLAelprAETAR--- 296 ::::::::::::: ::::: :::::::::::::::::::::::: ::::: d1hv8a1 51 tgsgKTASFAIPLIELV-NENNGiEAIILTPTRELAIQVADEIESLKG----NKNLKiak 105 d1k75a_ 297 -------------qalNASRLIVTK-------------------------------DLAQ 312 ::::::::: :::: d1hv8a1 106 iyggkaiypqikalknANIVVGTPGrildhinrgtlnlknvkyfildeademlnmgFIKD 165 d1k75a_ 313 CVEISNQYG-pEHLIIQTRN----ARELVDSItsagsvflgdwspesagdyasgtnhvlp 367 ::::::::: ::::::::: :::::::: d1hv8a1 166 VEKILNACNkdKRILLFSATmpreILNLAKKY---------------------------- 197 d1k75a_ 368 tygytatcsslgladfqkrmtvqelskegfsalastietlaaaerltahknavtlrvnal 427 d1hv8a1 198 -----------------------------------------------------mgdysfi 204 d1k75a_ 428 keqa 431 d1hv8a1 205 kaki 208 FAST alignment (Normalized score: 1.94 Raw score:579.90) d1k75a_ 1 NTIIDWNSCTAEQQRQLLMRPAISASESITRTVNDILDNVKARGDEALREYSAKFDKTTV 60 d1hv8a1 1 ------------------------------------------------------------ 1 d1k75a_ 61 TALKVSAEEIAAASERLSDELKQAMAVAVKNIETFHTAQKLPPVDVETQPGVRCQQVTRP 120 d1hv8a1 1 ------------------------------------------------------------ 1 d1k75a_ 121 VASVGLYIPGGSAPLFSTVLMLATPASIAGCKKVVLCSPPPIADEILYAAQLCGVQDVFN 180 d1hv8a1 1 ------------------------------------------------------------ 1 d1k75a_ 181 VGGAQAIAALAFGTESVPKVDKIFGPGNAFVTEAKRQVSQRLDGAAIDMPAGPSEVLVIA 240 d1hv8a1 1 ------------------------------------------------------------ 1 d1k75a_ 241 DSGA------------------------------------------------------TP 246 :: d1hv8a1 1 ----VEYMNFNELNLSDNILNAIRNKGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKT 56 d1k75a_ 247 DFVASDLLSQAEHGPDS--QVILLTPAADMARRVAEAVERQLAELPRAETARQAL----- 299 :::::::::: ::::: :::::::::::::::::::::: :::: d1hv8a1 57 ASFAIPLIEL--VNENNGIEAIILTPTRELAIQVADEIESL---KGNK-------NLKIA 104 d1k75a_ 300 -----------------NASRLIVTKDLAQCVEISNQYG--------PEHLIIQT----- 329 :::::: :::::::::: :::::: d1hv8a1 105 KIYGGKAIYPQIKALKNANIVVG---TPGRILDHIN---RGTLNLKNVKYFIL--DEADE 156 d1k75a_ 330 ---RNARELVDS-----ITSA---GSVFLGDWSPESAGDYASGTNHVLPTYGYTATCSSL 378 ::::: :::: :::: d1hv8a1 157 MLNMGFIK----DVEKILNACNKDKRIL-------------------------------- 180 d1k75a_ 379 GLADFQKRMTVQELSKEGFSALASTIETLAAAERLTAHKNAVTLRVNALKEQA------- 431 d1hv8a1 181 -----------------------------------------------------LFSATMP 187 d1k75a_ 432 --------------------- 432 d1hv8a1 188 REILNLAKKYMGDYSFIKAKI 208 TMalign alignment (TM-score: 0.24 Raw score:103.53) d1k75a_ 1 ----------------NTIIDWNSCTAEQQRQLLMRPAISASESITRTVNDILDNVKARG 44 d1hv8a1 1 VEYMNFNELNLSDNIL-------------------------------------------- 16 d1k75a_ 45 DEALREYSAKFDKTTVTALKVSAEEIAAASERLSDELKQAMAVAVKNIETFHTA------ 98 :: :::::::::::::::::::::::: : d1hv8a1 17 -------------------------NA-IRNKGFEKPTDIQMKVIPLFLNDE-YNIVAQA 49 d1k75a_ 99 -QKLPPVDVETQPGVRCQQVTRPVASVGLYIPGGSA--PLFSTVLMLATPASIAGCKKVV 155 :: :::::::::::::: ::::::: d1hv8a1 50 R---------------------------------TGSGKTASFAIPLIELVN-ENNGIEA 75 d1k75a_ 156 LC-------SPPPIADEILYAAQLCGVQDVFNVGGAQAIAALAFGTESVPKVDKIFGPGN 208 :: :::::: :::::::: :::::: ::::::::::::: ::::::::: : d1hv8a1 76 IILTPTRELAIQVAD-EIESLKGN-KNLKIA-KIYGGKAIYPQIK---ALKNANIVV-G- 127 d1k75a_ 209 AFVTEAKRQVSQRLDGAAI--DM-PA-GPSEVLVIADSGATPDFVASDLLSQAEHGPDS- 263 :::::::::::: :::: :: : : :::::::: d1hv8a1 128 --TPGRILDHINRG-TLNLKNVKY-FI--L---------------------DEADEMLNM 160 d1k75a_ 264 Q----------------------VILLTPAADMARRVAEAVERQLAELPRAETARQALNA 301 : :: :: d1hv8a1 161 GFIKDVEKILNACNKDKRILLFS-----------------------------AT--MP-- 187 d1k75a_ 302 SRLIVTKDLAQCVEISNQYGPEHLIIQTRNARELVDSITSAGSVFLGDWSPESA--GDYA 359 :: :::::: :::::: ::::: d1hv8a1 188 RE----------------ILNLAK---------------KYMGDY----SFIKAKI---- 208 d1k75a_ 360 SGTNHVLPTYGYTATCSSLGLADFQKRMTVQELSKEGFSALASTIETLAAAERLTAHKNA 419 d1hv8a1 209 ------------------------------------------------------------ 209 d1k75a_ 420 VTLRVNALKEQA 431 d1hv8a1 209 ------------ 209 HHsearch alignment (Probability: 0.25 E-value:0.01) d1k75a_ 231 AGPSEVLVIADSGATPDF-VASDLLSQAEHGPDSQVILLTPAADMARRVAEAVERQLA 287 :::::::::::::::::: ::::::::::::::::::::::::::::::::::::::: d1hv8a1 40 NDEYNIVAQARTGSGKTASFAIPLIELVNENNGIEAIILTPTRELAIQVADEIESLKG 97