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 | d1q7za2 | Cobalamin-dependent methionine synthase MetH, N-terminal domain | Homocysteine S-methyltransferase | TIM beta/alpha-barrel | α/β |
| Hit | d1bf6a_ | Phosphotriesterase homology protein | Metallo-dependent hydrolases | TIM beta/alpha-barrel | α/β |
Query <-- 1.075 --> IntermediateDALI alignment (Z-score: 8.8 Raw score:947.40) query 1 mietpyylidkakltrnmeriahvreksGAKALLAlKCFA-------------------- 40 ::::::: :::: d1q7za2 1 ---------------mrnrrevskllseRVLLLDGaYGTEfmkygyddlpeelnikapdv 45 query 41 TWSVFDLMRD-YMDGTTSSS---------------------LFEVRLGRERFG-KETHAY 77 :::::::::: ::::::::: :::::::::::: :::::: d1q7za2 46 VLKVHRSYIEsGSDVILTNTfgatrmklrkhgledkldpivRNAVRIARRAAGeKLVFGD 105 query 78 SV-------------------AYGDnEIDEVVS-HADKIIFN-------SISQLERFADK 110 :: :::: ::::::: :::::::: ::::::::::: d1q7za2 106 IGptgelpyplgstlfeefyeNFRE-TVEIMVEeGVDGIIFEtfsdileLKAAVLAAREV 164 query 111 AAGIARGLRLNPQ--------rlgeWDVPKVERVmdRINGFMIHNNcenkdfglFDRMLG 162 ::::::::::::: ::::::::: :::::::::: :::::: d1q7za2 165 SRDVFLIAHMTFDekgrsltgtdpaNFAITFDEL--DIDALGINCS------lgPEEILP 216 query 163 EIEeRFGALiARVDwVSLGGGI-------------HFTGddYPVDaFSARLRAFSdrygv 209 ::: ::::: :::: ::::::: :::: :::: ::::::::: d1q7za2 217 IFQ-ELSQY-TDKF-LVVEPNAgkpivengktvypLKPH--DFAV-HIDSYYELG----- 265 query 210 QIYLEP-gEASITksttlevtvldtlynknlaivdssieahmldlliyretakvlpnegs 268 :::::: ::::: d1q7za2 266 VNIFGGccGTTPE----------------------------------------------- 278 query 269 hsymicgksclagdvfgefrfaeelkvgdrisfqdaagytmvkknwfngvkmpaiairel 328 d1q7za2 279 ----------------------------------------------------------hv 280 query 329 dgsvrtvreftyadyeqsls 348 d1q7za2 281 klfrkvlgnrkplqrkkkri 300 FAST alignment (Normalized score: 4.75 Raw score:1537.00) query 1 MIETPYYLIDKAKLTRNMERIAHVREKS-------------GAKA-LLALKCFA------ 40 :::: :::::: d1q7za2 1 ----------------------------MRNRREVSKLLSERVLLLDGAYGT--EFMKYG 30 query 41 ---------------TWSVFDLMRD-YMDGTTSS-----------------------SLF 61 :::::::::: :::::: ::: d1q7za2 31 YDDLPEELNIKAPDVVLKVHRSYIESGSDVIL--TNTFGATRMKLRKHGLEDKLDPIVRN 88 query 62 EVRLGRERFG-KETHAYSVAY---------------------GDNEIDEVVS-HADKIIF 98 :::::::::: ::::::: :::::::::: :::::: d1q7za2 89 AVRIARRAAGEKLVFGDI---GPTGELPYPLGSTLFEEFYENFRETVEIMVEEGVDGII- 144 query 99 N---------SISQLERFADKAAGIARGLRLNPQRLGEW---------------DVPKVE 134 :::::::::::::::::::::: :::::: d1q7za2 145 -FETFSDILELKAAVLAAREVSRDVFLIAHMT-------FDEKGRSLTGTDPANFAITFD 196 query 135 RVMDRINGFMIHNNCENKDFGLFDRMLGEIEERFGALIARV--DWVSLGGGIHFTGDDYP 192 : :::::::: :::: ::::::::::::::: ::::::: d1q7za2 197 E--LDIDALGI--NCSL-GPEEILPIFQELSQY--------TDKFLVVEP---------- 233 query 193 --------------------VDAFSARLRAFSDRYGVQ---IYLEPGEASITKSTTLEVT 229 :::::::::: :::::::: d1q7za2 234 NAGKPIVENGKTVYPLKPHDFAVHIDSYYE--------LGVNIFGGCCG----------- 274 query 230 VLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCLAGDVFGEFRF 289 d1q7za2 275 ------------------------------------------------------------ 275 query 290 AEELKVGDRISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS- 348 d1q7za2 275 -----------------------------------------------------------T 275 query 349 ------------------------- 349 d1q7za2 276 TPEHVKLFRKVLGNRKPLQRKKKRI 300 TMalign alignment (TM-score: 0.30 Raw score:104.26) query 1 ---MIETPYYLIDKAKLTRNMERIAHVREKSG-AK---ALLALKCFATWSVFDLMRDYMD 53 :: : : d1q7za2 1 MRN---------------------------RRE-VSKL---------------------L 11 query 54 ---GTTSSSLFEVRLGRERFGKETHAYS-VAYG------------------DNEIDEVVS 91 ::::::: :::: d1q7za2 12 SER------------------VLLLDGAYGTEFMKYGYDDLPEELNIKAPD--------- 44 query 92 HADKIIFNSISQLERFADKAAGIARGLRL-NP----Q--R-----LG-EWDVPKVERVMD 138 :::::::::::::: ::::::: :: : : : :::::::::::: d1q7za2 45 -------VVLKVHRSYIESGS-DVILTNTFGATRMKLRKHGLEDK-LDPIVRNAVRIARR 95 query 139 RI----NGFMIHNNCENK------DFGLFDRMLGEIEERFGALIARVDWVSLGGGIHFTG 188 :: :::::::::::: ::::::::::::::::::: ::::::::::::: d1q7za2 96 AAGEKLVFGDIGPTGELPYPLGSTLFEEFYENFRETVEIMVEE--GVDGIIFETFSDI-- 151 query 189 DDYPVDAFSARLRAFSDRYGVQIYLEPGEA--SIT--KST-------------------- 224 ::::::::::::::: ::::::::::: ::: ::: d1q7za2 152 --LELKAAVLAAREVSR--DVFLIAHMTFDEKGRSLTGTDPANFAITFDELDIDALGINC 207 query 225 --------------------------TLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRE 258 d1q7za2 208 SLGPEEILPIFQELSQYTDKFLVVEP---------------------------------- 233 query 259 TAKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGY-TMVKKN---- 313 : ::::: d1q7za2 234 ------------------------------------------------NA-GKPIVENGK 244 query 314 --------------------------------------------------------WFNG 317 d1q7za2 245 TVYPLKPHDFAVHIDSYYELGVNIFGGCCGTTPEHVKLFRKVLGNRKPLQRKKKRI---- 300 query 318 VKMPAIAIRELDGSVRTVREFTYADYEQSLS 348 d1q7za2 301 ------------------------------- 301 HHsearch alignment (Probability: 0.01 E-value:0.30) query 5 PYYLIDKAKLTRNMERIAHVREKSGAKALL 34 :::::::::::::::::::::::::::::: d1q7za2 115 PLGSTLFEEFYENFRETVEIMVEEGVDGII 144
Intermediate <-- 1.184 --> HitDALI alignment (Z-score: 8.9 Raw score:1080.40) d1q7za2 1 mrnrrevskllservllldgaygtefmkyGYDDLPeelniKAPDVVLKVHRSYIESGSDV 60 :::::: :::::::::::::::::::: d1bf6a_ 1 ------sfdptgytlahehlhidlsgfknNVDCRL-----DQYAFICQEMNDLMTRGVRN 49 d1q7za2 61 ILTntFGATrmklrkhgledkldpIVRNAVRIARRAAgeKLVFGDIGPT----GELPYpl 116 ::: :::: ::::::::::::: :::::::::: ::::: d1bf6a_ 50 VIE-mTNRY------------mgrNAQFMLDVMRETG--INVVACTGYYqdafFPEHV-- 92 d1q7za2 117 GSTLFEEFYENFRETVEIM--vEEGVdgIIFETFS---------DILELKAAVLAAREVS 165 ::::::::::::::::::: :::: ::::::: :::::::::::::::: d1bf6a_ 93 ATRSVQELAQEMVDEIEQGidgTELK-aGIIAEIGtsegkitplEEKVFIAAALAHNQTG 151 d1q7za2 166 rdvfLIAHMTFDEKGrsltgtDPANFAITFDELDID--ALGINCsLGPEEiLPIFQELSQ 223 ::::::::::: ::::::::::::::: :::::: ::::: ::::::::: d1bf6a_ 152 ----RPISTHTSFST------MGLEQLALLQAHGVDlsRVTVGHcDLKDN-LDNILKMID 200 d1q7za2 224 YTdkFLVVEPNAGKPIvengktvYPLKpHDFAVHIDSYY---ELGVNiFGGCC------- 273 :: :::::::::::: :::: ::::::::::: ::::: ::::: d1bf6a_ 201 LG--AYVQFDTIGKNS-------YYPD-EKRIAMLHALRdrgLLNRV-MLSMDitrrshl 249 d1q7za2 274 -----gtTPEHVKLFRK---------vLGNR-kplqrkkkri 300 :::::::::: :::: d1bf6a_ 250 kanggygYDYLLTTFIPqlrqsgfsqaDVDVmlrenpsqffq 291 FAST alignment (Normalized score: 6.04 Raw score:1783.00) d1q7za2 1 MRNRREVSKLLSERVLLLDGAYGTEFMKYGYDDLPEELNI-------------------- 40 d1bf6a_ 1 ----------------------------------------SFDPTGYTLAHEHLHIDLSG 20 d1q7za2 41 ---------KAPDVVLKVHRSYIESGSDVILTNTF-GATRMKLRKHGLEDKLDP---IVR 87 :::::::::::::::::::::: ::::: ::: d1bf6a_ 21 FKNNVDCRLDQYAFICQEMNDLMTRGVRNVI----EMTNRY-------------MGRNAQ 63 d1q7za2 88 NAVRIARRAAGEKLVFGDIGPTGELPYPL------------GSTLFEEFYENFRETVEIM 135 :::::::: ::::::::: ::::::::::::::::: d1bf6a_ 64 FMLDVMRE--TGINVVACT----------GYYQDAFFPEHVATRSVQELAQEMVDEIE-- 109 d1q7za2 136 VEEGVDG----------IIFETFS----------DILELKAAVLAAREVSRDVF--LIAH 173 :::::: :::::::::::::: :::: d1bf6a_ 110 -------QGIDGTELKAGIIAEI-GTSEGKITPLEEKVFIAAALAHNQ------TGRPIS 155 d1q7za2 174 MTFDEKGRSLTGT----DPANFAITFDELDID---ALGINCSLGPE-----EILPIFQEL 221 ::: :::::::::::::: ::::: ::::::::: d1bf6a_ 156 THT----------SFSTMGLEQLALLQAHGV-DLSRVTVG------HCDLKDNLDNILKM 198 d1q7za2 222 SQYTDKFLVVEPNAGKPIVENGKTVY-------PLKPHDFAVHIDSYYELGV-----NIF 269 :: ::::::: ::::::::::::::::: ::: d1bf6a_ 199 ID-LGAYVQF----------------DTIGKNSYYPDEKRIAMLHALRDR--GLLNRVML 239 d1q7za2 270 GGCCGT---------------TPEHVKLFRKVLGNRKPLQRKKKRI-------------- 300 :: ::::::::::: d1bf6a_ 240 SM----DITRRSHLKANGGYGYDYLLTTFIPQ--------------LRQSGFSQADVDVM 281 d1q7za2 301 ---------- 301 d1bf6a_ 282 LRENPSQFFQ 291 TMalign alignment (TM-score: 0.58 Raw score:175.37) d1q7za2 1 MRNRREVSKLLSERVLLLDGAYGTEF------MKYGYDDLPEELNIKAPDVVLKVHRSYI 54 :: : : ::::::::::::: :::::: : ::::::::::::: d1bf6a_ 1 SF----D--P---TGYTLAHEHLHIDLSGFKN---NVDCRL--D---QYAFICQEMNDLM 43 d1q7za2 55 ESGSDVILTNTFGATRMKLRKHGLEDKLDPIVRNAVRIARRAAGEKLVFGDIGPT---GE 111 ::::::::: ::: : :: : : :::::::::::::: ::::::::: :: d1bf6a_ 44 TRGVRNVIE-MTN-R--YM----G---R--NAQFMLDVMRETGI--NVVACTGYYQDAFF 88 d1q7za2 112 LPYPLGSTLFEEFYENFRETV-EIM--VEEGVDGIIFETFS--------DILELKAAVLA 160 ::: ::::::::::::::::: ::: ::::: :::::::: ::::::::::: d1bf6a_ 89 PEH-VATRSVQELAQEMVDEIEQGIDGTELKA-GIIAEIGTSEGKITPLEEKVFIAAALA 146 d1q7za2 161 AREVSRDVFLIAHMTFDEKGRSLTGTDPANFAITFDELDIDALGINCSLGPEEILPIFQE 220 ::: :: :::::::::: ::: :::::::::: ::::::::::: :::::::::::: d1bf6a_ 147 HNQ-TG--RPISTHTSFS-TMG---LEQLALLQAH-GVDLSRVTVGH-CDLKDNLDNILK 197 d1q7za2 221 LSQYTDKFLVVEPNAGKPIVENGKTVYPLKPHDFAVHIDSYY--EL-GVNIFGGCC---- 273 ::::: : :::::::::: ::::: ::::::::::: :: ::::::::: d1bf6a_ 198 MIDLG-A-YVQFDTIGKN-------SYYPD-EKRIAMLHALRDRGLLNRVMLSMDITRRS 247 d1q7za2 274 G------TT-PEHVKLFRK--V---L-GNR--KP--LQ------RKKKRI 300 : :: ::::::::: : : ::: :: :: d1bf6a_ 248 HLKANGGYGYDYLLTTFIPQLRQSGFSQADVDVMLRENPSQFFQ------ 291 HHsearch alignment (Probability: 0.89 E-value:0.00) d1q7za2 40 IKAPDVVLKVHRSYIESGSDVILTNTFGATRMKLRKHGLEDKLDPIVRNAVRIARRAAGE 99 ::::::::::::::::::::::::::::: : ::::::::::::::::: d1bf6a_ 29 LDQYAFICQEMNDLMTRGVRNVIEMTNRY----M---------GRNAQFMLDVMRETGIN 75 d1q7za2 100 KLVFGDIGPTGELPYPLGSTLFEEFYENFRETV-EIMVEEGVDGII-FETF--------S 149 ::::::::::::::::::::::::::::::::: :::::::::::: :::: : d1bf6a_ 76 VVACTGYYQDAFFPEHVATRSVQELAQEMVDEIEQGIDGTELKAGIIAEIGTSEGKITPL 135 d1q7za2 150 DILELKAAVLAAREVSRDVFLIAHMT 175 ::::::::::::::::::: ::::: d1bf6a_ 136 EEKVFIAAALAHNQTGRPI--STHTS 159