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 | d1fw8a_ | Phosphoglycerate kinase | Phosphoglycerate kinase | Phosphoglycerate kinase | α/β |
| Hit | d1g60a_ | Methyltransferase mboII | S-adenosyl-L-methionine-dependent methyltransferases | S-adenosyl-L-methionine-dependent methyltransferases | α/β |
Query <-- 0.733 --> IntermediateDALI alignment (Z-score: 5.0 Raw score:484.70) query 1 ------------------------------------------------------------ 1 d1fw8a_ 1 skyslapvakelqsllgkdvtflndcvgpeveaavkasapgsvillenlryhieeegsrk 60 query 1 ------------------------------------------------------------ 1 d1fw8a_ 61 vdgqkvkaskedvqkfrhelssladvyindafgtahrahssmvgfdlpqraagfllekel 120 query 1 -------gMENKKMNLLLFS-GDYDKaLASLIIANAAremeiEVTIFCAFWGLL-LLRDp 51 :::::::::::: ::::: :::::::::: :::::::::::: :::: d1fw8a_ 121 kyfgkaleNPTRPFLAILGGaKVADK-IQLIDNLLDK-----VDSIIIGGGMAFtFKKV- 173 query 52 ekasqedkslyeqafSSLTPReAEELplskmnlggigkkmllemmkeekapKLSDLLSGA 111 :::::: :::: ::::::::: d1fw8a_ 174 ----------lenteIGDSIF-DKAG-----------------------aeIVPKLMEKA 199 query 112 RKKEVKFYAXQlsVEIM-------------gFKKE----elfpevqimDVKEYLKNALES 154 ::::::::::: :::: :::: :::::::::::: d1fw8a_ 200 KAKGVEVVLPV--DFIIadafsadantktvtDKEGipagwqgldngpeSRKLFAATVAKA 257 query 155 DLQLFI------------------------------------------------------ 160 :::::: d1fw8a_ 258 KTIVWNgppgvfefekfaagtkalldevvkssaagntviigggdtatvakkygvtdkish 317 query 161 ------------------------------------------------------------ 161 d1fw8a_ 318 vstgggaslellegkelpgvaflsekkslssklsvqdldlkdkrvfirvdfnvpldgkki 377 query 161 -------------------------------------- 161 d1fw8a_ 378 tsnqrivaalptikyvlehhpryvvlashlgrpngern 415 FAST alignment (Normalized score: 2.52 Raw score:648.60) query 1 GM---------------------------------------------------------- 2 d1fw8a_ 1 --SKYSLAPVAKELQSLLGKDVTFLNDCVGPEVEAAVKASAPGSVILLENLRYHIEEEGS 58 query 3 ------------------------------------------------------------ 3 d1fw8a_ 59 RKVDGQKVKASKEDVQKFRHELSSLADVYINDAFGTAHRAHSSMVGFDLPQRAAGFLLEK 118 query 3 -----------ENKKMNLLLFSGDYDKALASLIIANAAREMEIE---VTIFCAFWGLLLL 48 ::::::::::::::::::::::::: :::::::::: d1fw8a_ 119 ELKYFGKALENPTRPFLAILGGAKVADKIQLIDNLL--------DKVDSIIIGGGMA--- 167 query 49 RDPEKASQEDKSLYEQAF-----------SSLTPREAEELPLSKMNLGGIGKKMLLEMMK 97 ::::: d1fw8a_ 168 ------------------FTFKKVLENTEIGDSI-------------------------- 183 query 98 EEKAP-------KLSDLLSGARKKEVKFYAXQLSVEIMGFKKEELFPEVQIM-------- 142 :::::::::::::::::::: d1fw8a_ 184 -----FDKAGAEIVPKLMEKAKAKGVEVVLPV--------------------DFIIADAF 218 query 143 ---------------------------DVKEYLKNALESDLQLFI--------------- 160 :::::::::::::::: d1fw8a_ 219 SADANTKTVTDKEGIPAGWQGLDNGPESRKLFAATVAKAKTIV--WNGPPGVFEFEKFAA 276 query 161 ------------------------------------------------------------ 161 d1fw8a_ 277 GTKALLDEVVKSSAAGNTVIIGGGDTATVAKKYGVTDKISHVSTGGGASLELLEGKELPG 336 query 161 ------------------------------------------------------------ 161 d1fw8a_ 337 VAFLSEKKSLSSKLSVQDLDLKDKRVFIRVDFNVPLDGKKITSNQRIVAALPTIKYVLEH 396 query 161 ------------------- 161 d1fw8a_ 397 HPRYVVLASHLGRPNGERN 415 TMalign alignment (TM-score: 0.39 Raw score:62.58) query 1 ------------------------------------------------------------ 1 d1fw8a_ 1 SKYSLAPVAKELQSLLGKDVTFLNDCVGPEVEAAVKASAPGSVILLENLRYHIEEEGSRK 60 query 1 ------------------------------------------------------------ 1 d1fw8a_ 61 VDGQKVKASKEDVQKFRHELSSLADVYINDAFGTAHRAHSSMVGFDLPQRAAGFLLEKEL 120 query 1 ---------GMENKKMNLLL-----------------------FS--------------- 13 :::::::::: :: d1fw8a_ 121 KYFGKALEN-PTRPFLAILGGAKVADKIQLIDNLLDKVDSIIIGGGMAFTFKKVLENTEI 179 query 14 ------------------------------------------------------------ 14 d1fw8a_ 180 GDSIFDKAGAEIVPKLMEKAKAKGVEVVLPVDFIIADAFSADANTKTVTDKEGIPAGWQG 239 query 14 -GD-YDKALASLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTP 71 :: ::::::::::::::: :::::::::: : : : ::: d1fw8a_ 240 LDNGPESRKLFAATVAKAK----TIVWNGPPGV-F----------------E--F--EKF 274 query 72 REAEELPLSKMNLGGIGKKMLLEMMKEEKAPKLSDLLSGARKK-EVKFYAXQLSVEIMGF 130 :::::: ::::::::::: :::::::::::: : d1fw8a_ 275 AAGTKA--------------------------LLDEVVKSSAAGNTVIIGGGDTAT---V 305 query 131 KKEELFPE-V--QI-MDVKEYLKNALE--------------------------------- 153 :::::::: : :: :::::::::::: d1fw8a_ 306 AKKYGVTDKISHVSTGGGASLELLEGKELPGVAFLSEKKSLSSKLSVQDLDLKDKRVFIR 365 query 154 --------------------------------------------------SDLQLFI 160 d1fw8a_ 366 VDFNVPLDGKKITSNQRIVAALPTIKYVLEHHPRYVVLASHLGRPNGERN------- 415 HHsearch alignment (Probability: 0.03 E-value:0.09) query 85 GGIGKKMLLEM---------MKEEKAPKLSDLLSGARKKEVKFY 119 ::::::::::: :::::::::::::::::::::::: d1fw8a_ 164 GGMAFTFKKVLENTEIGDSIFDKAGAEIVPKLMEKAKAKGVEVV 207
Intermediate <-- 0.631 --> HitDALI alignment (Z-score: 4.7 Raw score:524.30) d1fw8a_ 1 skyslapvakelqsllgkdvtflndcvgpeveaavkasapgsvillenlryhieeegsrk 60 d1g60a_ 1 ------------------------------------------------------------ 1 d1fw8a_ 61 vdgqkvkaskedvqkfrhelssladvyindafgtahrahssmvgfdlpqraagfllekEL 120 :: d1g60a_ 1 ----------------------------------------------------------ML 2 d1fw8a_ 121 KY-----------fgkALENPtrpFLAILGGAK----------------vADKIQLIDNL 153 :: ::::: ::::::::: :::::::::: d1g60a_ 3 EInkihqmncfdfldqVENKS--vQLAVIDPPYnlskadwdsfdshneflAFTYRWIDKV 60 d1fw8a_ 154 LDKV---DSIIIGggmAFTFKkvlenteigdsifdkagAEIVPKLME-KAKAkgvevvlp 209 :::: :::::: ::::: ::::::::: :::: d1g60a_ 61 LDKLdkdGSLYIF---NTPFN----------------cAFICQYLVSkGMIF----qnwi 97 d1fw8a_ 210 VDFIIAdafsadantktvtdkeGIPA-----GWQG------------------------- 239 :::::: :::: :::: d1g60a_ 98 TWDKRD----------------GMGSakrrfSTGQetilffsksknhtfnydevrvpyes 141 d1fw8a_ 240 --------------------------------ldngpeSRKLFAATVAKA----KTIVWN 263 :::::::::::: :::::: d1g60a_ 142 tdrikhasekgilkngkrwfpnpngrlcgevwhfstpkPRDLIERIIRASsnpnDLVLDC 201 d1fw8a_ 264 GPpgvfefekfaagTKALLDEVVKSSaagNTVIIGGGDtaTVAKK-YGVTDkishvstgg 322 :: :::::::::::: ::::::::: ::::: ::::: d1g60a_ 202 FM-----------gSGTTAIVAKKLG---RNFIGCDMN-aEYVNQaNFVLN--------- 237 d1fw8a_ 323 gaslellegkelpgvaflsekkslssklsvqdldlkdkrvfirvdfnvpldgkkitsnqr 382 d1g60a_ 238 ------------------------------------------------------------ 238 d1fw8a_ 383 ivaalptikyvlehhpryvvlashlgrpngern 415 d1g60a_ 238 --------------------------------q 238 FAST alignment (Normalized score: 1.91 Raw score:601.70) d1fw8a_ 1 SKYSLAPVAKELQSLLGKDVTFLNDCVGPEVEAAVKASAPGSVILLENLRYHIEEEGSRK 60 d1g60a_ 1 ------------------------------------------------------------ 1 d1fw8a_ 61 VDGQKVKASKEDVQKFRHELSSLADVYINDAFGTAHRAHSSMVGFDLPQRAAGFLLEKEL 120 d1g60a_ 1 ------------------------------------------------------------ 1 d1fw8a_ 121 KYFGK--------------ALENPTRP----FLAILGGA------------------KVA 144 :::::: :::::: ::: d1g60a_ 1 -----MLEINKIHQMNCFDFLDQVE--NKSVQLAVID--PPYNLSKADWDSFDSHNEFLA 51 d1fw8a_ 145 DKIQLIDNLLDKV----DSIIIGGGMAFTFKKVLENTEIGDSIFDKA--GAEIVPKLMEK 198 :::::::::::: ::::: ::::::::::: d1g60a_ 52 FTYRWIDKVLDK-LDKDGSLYI-------------------------FNTPFNCAFICQY 85 d1fw8a_ 199 AKAKGVEVVLP--VDFIIADAFSADANTKTVTDKEGIP----------AGWQGLDNGPES 246 :::::::: :::::: :::: d1g60a_ 86 LVSKGMIF---QNWITWDK-------------------RDGMGSAKRRFSTG-------- 115 d1fw8a_ 247 RKLFAATVAKAKTIVWNGPPGVFEFEK--------------------------------- 273 d1g60a_ 116 ---------------------------QETILFFSKSKNHTFNYDEVRVPYESTDRIKHA 148 d1fw8a_ 274 -------------------------------FAAGTKALLDEVVKSSA---AGNTVIIGG 299 ::::::::::: :::::::: d1g60a_ 149 SEKGILKNGKRWFPNPNGRLCGEVWHFSTPKPRDLIERIIRA------SSNPNDLVLDC- 201 d1fw8a_ 300 ----GDTATVAKKYGVTDKISHVSTGGGASLELLEGKELPGVAFLSEKKSLSSKLSVQDL 355 ::::::::::: d1g60a_ 202 FMGSGTTAIVAKKLG--------------------------------------------- 216 d1fw8a_ 356 DLKDKRVFIRVDFNVPLDGKKITSNQRIVAALPTIKYVLEHHPRYVVLASHLGRPNGERN 415 d1g60a_ 217 ------------------------------------------------------------ 217 d1fw8a_ 416 ---------------------- 416 d1g60a_ 217 RNFIGCDMNAEYVNQANFVLNQ 238 TMalign alignment (TM-score: 0.29 Raw score:119.76) d1fw8a_ 1 -----SKYSLAPVAKELQSLLGKDVTFLNDCVGPEVEAAVKASAPGSVILLENLRYHIEE 55 d1g60a_ 1 MLEIN------------------------------------------------------- 5 d1fw8a_ 56 EGSRKVDGQKVKASKEDVQKFRHELSSLADVYINDAFGTAHR--AHSSMVGFDLPQRAAG 113 :::: ::: d1g60a_ 6 ----------------------------------KIHQ-MNCFD---------------- 14 d1fw8a_ 114 FLLEKELKYFGKALENPTRPFLAILGG-AK--------------VA-DKIQLIDNLLDKV 157 ::: ::: :::: ::::::: :: :: ::::::::::::: d1g60a_ 15 -----FLD-QVE--NKSV--QLAVIDPPYNLSKADWDSFDSHNEFLAFTYRWIDKVLDKL 64 d1fw8a_ 158 ---DSIIIGGGMAFTFKKVLENTEIGDSIFDKAGAEIVPKLMEKAKAKGVEVVLPVDFII 214 :::::::: ::::: : ::: ::::: :::::::::::: d1g60a_ 65 DKDGSLYIFNT-PFNCA-----------------F-ICQ-YLVSK---GMIFQNWITWDK 101 d1fw8a_ 215 ADAFSADANT--KTVTDKEGIPAGWQGLDNGPESRKLFAATV--AKAK------------ 258 : ::::: ::::::::: : :: ::: :::: d1g60a_ 102 R----DGMGSAK---------RRFSTGQET---I--LF-FSKSKNHTFNYDEVRVPYEST 142 d1fw8a_ 259 ------------------------------TIVWNGPPGVFEFEKFAAGTKALLDEVVKS 288 :::::: :: ::::::::::: d1g60a_ 143 DRIKHASEKGILKNGKRWFPNPNGRLCGEV-------WHFSTP--KP--RDLIERIIRAS 191 d1fw8a_ 289 SAAGNTVIIGGGDTATVAKKYGVTDK-ISHVSTGGGASLELLEGKELPGVAFLSEKKSLS 347 ::::::::::::::::::: ::::: ::::: :::: d1g60a_ 192 SNPNDLVLDCFMGSGTTAI--VAKKLGRNFIG-CDMN----------------------- 225 d1fw8a_ 348 SKLSVQDLDLKDKRVFIRVD-FNVPLDGKKITSNQRIVAALPTIKYVLEHHPRYVVLASH 406 :: ::: ::::::: d1g60a_ 226 ------------------AEY-VNQ-------ANFVLNQ--------------------- 238 d1fw8a_ 407 LGRPNGERN 415 d1g60a_ 239 --------- 239 HHsearch alignment (Probability: 0.01 E-value:0.20) d1fw8a_ 29 PEVEAAVKASAPGSVIL 45 ::::::::::::::::: d1g60a_ 10 MNCFDFLDQVENKSVQL 26