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 | d1tqja_ | D-ribulose-5-phosphate 3-epimerase | Ribulose-phoshate binding barrel | TIM beta/alpha-barrel | α/β |
| Hit | d1v93a_ | Methylenetetrahydrofolate reductase | FAD-linked oxidoreductase | TIM beta/alpha-barrel | α/β |
Query <-- 2.347 --> IntermediateDALI alignment (Z-score: 13.0 Raw score:1145.60) query 1 mietpyylidkakltrnmeriahvreksGAKALLALKCF---aTWSVFDLMRD-YMDGTT 56 ::::::::::: :::::::::: :::::: d1tqja_ 1 ---------------------------kNIVVAPSILSAdfsrLGEEIKAVDEaGADWIH 33 query 57 SSS------------LFEVRLGRERFGKETHAYSV--AYGDnEIDEVVS-HADKIIFNS- 100 ::: :::::::::::::::::::: :::: ::::::: ::::::::: d1tqja_ 34 VDVmdgrfvpnitigPLIVDAIRPLTKKTLDVHLMivEPEK-YVEDFAKaGADIISVHVe 92 query 101 ---ISQLERFADKAA--GIARGLRLNPQrlgeWDVPKVERVMDRINGFMIHN-NCENkdf 154 :::::::::::: ::::::::::: :::::::::::::::::::: :::: d1tqja_ 93 hnaSPHLHRTLCQIRelGKKAGAVLNPS----TPLDFLEYVLPVCDLILIMSvNPQS--- 145 query 155 glFDRMLGEIEeRFGALIA---RVDWVSLGGGIHFtgddypvdaFSARLRAFSdrygvqI 211 ::::::::: ::::::: ::::::::::::: ::::::::: : d1tqja_ 146 -fIPEVLPKIR-ALRQMCDergLDPWIEVDGGLKP--------nNTWQVLEAG-----aN 190 query 212 YLEPGEASITKsttlevtvldtlynknlaivdssieahmldlliyretakvlpnegshsy 271 ::::::::::: d1tqja_ 191 AIVAGSAVFNA------------------------------------------------- 201 query 272 micgksclagdvfgefrfaeelkvgdrisfqdaagytmvkknwfngvkmpaiaireldgs 331 d1tqja_ 202 ------------------------------------------------------------ 202 query 332 vrtvreftyadyeqsls 348 d1tqja_ 202 --pnyaeaiagvrnskr 216 FAST alignment (Normalized score: 7.32 Raw score:2007.00) query 1 MIETPYYLIDKAKLTRNMERIAHVREKS-GAKALLALK-CFA--TWSVFDLMRD-YMDGT 55 ::::::::: ::: :::::::::: ::::: d1tqja_ 1 ----------------------------KNIVVAPSILSADFSRLGEEIKAVDEAGADWI 32 query 56 TS------------SSLFEVRLGRERFGKETHAYSVAY----GDNEIDEVVS-HADKIIF 98 :: ::::::::::::::::::::: :::::::::: ::::::: d1tqja_ 33 HVDVMDGRFVPNITIGPLIVDAIRPLTKKTLDVHL---MIVEPEKYVEDFAKAGADIISV 89 query 99 N--SISQ---LERFADKA---AGIARGLRLNPQRLGE-WDVPKVERVMDRINGFMIHNNC 149 :::: ::::::: ::::::::::: :::::::::::::::::::: d1tqja_ 90 -HVEHNASPHLHRTLCQ-IRELGKKAGAVLNP-----STPLDFLEYVLPVCDLILIMS-- 140 query 150 ENKD------FGLFDRMLGEIEERFGALIARV----DWVSLGGGIHFTGDDYPVDA---F 196 ::::::::::::::::: ::::::::: : d1tqja_ 141 ----VNPQSFIPEVLPKIRALRQMCDE-----RGLDPWIEVDGGL-----------KPNN 180 query 197 SARLRAFSDRYGVQ---IYLEPGEASITKSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDL 253 :::::: ::::::::: d1tqja_ 181 TWQVLE--------AGANAIVAGSAV---------------------------------- 198 query 254 LIYRETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKN 313 d1tqja_ 199 ------------------------------------------------------------ 199 query 314 WFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS------------------ 348 d1tqja_ 199 -----------------------------------FNAPNYAEAIAGVRNSKR 216 TMalign alignment (TM-score: 0.43 Raw score:149.23) query 1 MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKCF-A--TWSVFDLMRD-YMDGTT 56 :::::::::::: : :::::::::: :::::: d1tqja_ 1 ---------------------------KNIVVAPSILSADFSRLGEEIKAVDEAGADWIH 33 query 57 S-S-----------SLFEVRLGRERFGKETHAYSVA--YGDNEIDEVVS-HADKIIFNS- 100 : : :::::::::::::::::::::: ::: ::::::: ::::::::: d1tqja_ 34 VDVMDGRFVPNITIGPLIVDAIRPLTKKTLDVHLMIVEPEK-YVEDFAKAGADIISVHVE 92 query 101 ---ISQLERFADKAA--GIARGLRLNPQRLGEWDVPKVERVMDRINGFMIHNN--CENKD 153 :::::::::::: ::::::::::: :::: ::::::::::::::::: ::: d1tqja_ 93 HNASPHLHRTLCQIRELGKKAGAVLNPS---TPLD-FLEYVLPVCDLILIMSVNPQSF-- 146 query 154 FGLFDRMLGEIEERFGALIA---RVDWVSLGGGIHFTGDDYPVDAFSARLRAFSDRYGVQ 210 : ::::::::::::::: ::::::::::::: ::: :: :: ::: : d1tqja_ 147 ---I-PEVLPKIRALRQMCDERGLDPWIEVDGGLKP----NNT--WQ-VL-EAG-----A 189 query 211 IYLEPGEASITKST-------------TLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYR 257 :::::::::::::: d1tqja_ 190 NAIVAGSAVFNAPNYAEAIAGVRNSKR--------------------------------- 216 query 258 ETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNG 317 d1tqja_ 217 ------------------------------------------------------------ 217 query 318 VKMPAIAIRELDGSVRTVREFTYADYEQSLS 348 d1tqja_ 217 ------------------------------- 217 HHsearch alignment (Probability: 0.21 E-value:0.01) query 75 HAYSVAYGDNEIDEVVSHADKIIFN--SISQLERFADKAAG--IARGLRLNPQRLGEWDV 130 ::::::::::::::::::::::::: :::::::::::::: :::::::::: ::: d1tqja_ 68 MIVEPEKYVEDFAKAGADIISVHVEHNASPHLHRTLCQIRELGKKAGAVLNPS----TPL 123 query 131 PKVERVMDRINGFMIHNNCENKDFGLFDRMLGEIEERFGALIARVDW-VSLG 181 ::::::::::::::::::::::::::::::::::::::::::::::: :::: d1tqja_ 124 DFLEYVLPVCDLILIMSVNPQSFIPEVLPKIRALRQMCDERGLDPWIEVDGG 175
Intermediate <-- 2.261 --> HitDALI alignment (Z-score: 12.4 Raw score:1234.00) d1tqja_ 1 ----------KNIVVAPSIL----saDFSRLGEEIKAVDEAGADWIHVDVMDGrfvpNIT 46 :::::::::: ::::::::::::::::::::::::::: ::: d1v93a_ 1 mkirdllkarRGPLFSFEFFppkdpeGEEALFRTLEELKAFRPAFVSITYGAM----GST 56 d1tqja_ 47 I--GPLIVDAIRPLTkKTLDVHLMIV-----EPEKYVEDFAKAGADIISVH--------- 90 : :::::::::::: :::::::::: :::::::::::::::::::: d1v93a_ 57 RerSVAWAQRIQSLG-LNPLAHLTVAgqsrkEVAEVLHRFVESGVENLLALrgdpprger 115 d1tqja_ 91 ---vehnaSPHLHRTLCQIR---ELGKKAGAVLNPST---------PLDFLEYVLP-VCD 134 :::::::::::: :::::::::::::: :::::::::: ::: d1v93a_ 116 vfrphpegFRYAAELVALIReryGDRVSVGGAAYPEGhpesesleaDLRHFKAKVEaGLD 175 d1tqja_ 135 LILIMSVnpqsFIPE-VLPKIRALRQMCdergLDPWIEVDGG------------------ 175 ::::::: :::: :::::::::::: :::::::::: d1v93a_ 176 FAITQLF----FNNAhYFGFLERARRAG----IGIPILPGIMpvtsyrqlrrftevcgas 227 d1tqja_ 176 -------------------------lkPNNTWQVLEAGANAIVAGS-aVFNApnYAEAIA 209 ::::::::::::::::::: :::: :::::: d1v93a_ 228 ipgpllaklerhqddpkavleigvehaVRQVAELLEAGVEGVHFYTlnKSPA--TRMVLE 285 d1tqja_ 210 Gvrnskr 216 : d1v93a_ 286 Rlglrpa 292 FAST alignment (Normalized score: 9.17 Raw score:2302.00) d1tqja_ 1 ----------KNIVVAPSILSA--------DFSRLGEEIKAVDEAGADWIHVDVMDGRFV 42 :::::::: :::::::::::::::::::::::: d1v93a_ 1 MKIRDLLKARRGPLFSFE----FFPPKDPEGEEALFRTLEELKAFRPAFVSITY------ 50 d1tqja_ 43 PNITI---------GPLIVDAIRPLTKKTLDVHLMIV-------EPEKYVEDFAKAGADI 86 :::::::::: :::::::::: :::::::::::::::: d1v93a_ 51 -----GAMGSTRERSVAWAQRIQS-LGLNPLAHLT--VAGQSRKEVAEVLHRFVESGVEN 102 d1tqja_ 87 ISVHVEHNAS------------------PHLHRTLCQIREL----GKKAGAVLNPST--- 121 :::: :::::::::::: :::::::::: d1v93a_ 103 LLAL------RGDPPRGERVFRPHPEGFRYAAELVALIRE-RYGDRVSVGGAAYP--EGH 153 d1tqja_ 122 --------PLDFLEYVLP-VCDLILIMSVNPQSFIPE----VLPKIRALRQMCDERGLDP 168 :::::::::: ::::::: ::::::::::::::::::: d1v93a_ 154 PESESLEADLRHFKAKVEAGLDFAIT-----------QLFFNNAHYFGFLERARRAGIGI 202 d1tqja_ 169 WIEVDGGL----------------------------------------------KPNNTW 182 ::::: :::::: d1v93a_ 203 PILPG---IMPVTSYRQLRRFTEVCGASIPGPLLAKLERHQDDPKAVLEIGVEHAVRQVA 259 d1tqja_ 183 QVLEAGANAIVAGSAVFNAPN----YAEAIAGVRNSKR-------- 216 :::::::::::: ::::::::: d1v93a_ 260 ELLEAGVEGVHF---------YTLNKSPATRMVL----ERLGLRPA 292 TMalign alignment (TM-score: 0.68 Raw score:147.88) d1tqja_ 1 ------K----NIVVAPSILSA----DFSRLGEEIKAVDEAGADWIHVDVMDGRFVPNIT 46 : ::::::::::: :::::::::::::::::::::::::: :: ::: d1v93a_ 1 MKIRDLLKARRGPLFSFEFFPPKDPEGEEALFRTLEELKAFRPAFVSITYGA-MG--STR 57 d1tqja_ 47 -IGPLIVDAIRPLTKKTLDVHLMIV-E----PEKYVEDFAKAGADIISVHVE-------- 92 ::::::::::::: :::::::::: : ::::::::::::::::::::: d1v93a_ 58 ERSVAWAQRIQSLG-LNPLAHLTVAGQSRKEVAEVLHRFVESGVENLLALRGDPPRGERV 116 d1tqja_ 93 -------HNASPHLHRTLCQIRELGKKAGAVLN-PST--------PLDFLEYVLP-VCDL 135 :::::::::::::::::::::::::: ::: :::::::::: :::: d1v93a_ 117 FRPHPEGFRYAAELVALIRERYGDRVSVGGAAYPEGHPESESLEADLRHFKAKVEAGLDF 176 d1tqja_ 136 ILIMSVNPQSFIPEVL-PKIRALRQMCDERGLDPWIEVDGGL------------------ 176 :::::: :::::: ::::::::: :: : ::::::::: d1v93a_ 177 AITQLF----FNNAHYFGFLERARRA--GI-G-IPILPGIMPVTSYRQLRRFTEVCGASI 228 d1tqja_ 177 -------------------------KPNNTWQVLEAGANAIVAGSA-VFNAPNYAEAIAG 210 ::::::::::::::::::::: :::: :: ::::: d1v93a_ 229 PGPLLAKLERHQDDPKAVLEIGVEHAVRQVAELLEAGVEGVHFYTLNKSPA-TR-MVLER 286 d1tqja_ 211 VRN---SKR 216 ::: d1v93a_ 287 LGLRPA--- 292 HHsearch alignment (Probability: 0.83 E-value:0.00) d1tqja_ 4 VVAPSILSADFSRLGEEIKAVDEAGADWIHVDVMDGRFVPNITIGPLIVDAIRPLTKKTL 63 :::::::::::::::::::::::::::: ::::::::::::::::::::::::: :::: d1v93a_ 18 EFFPPKDPEGEEALFRTLEELKAFRPAF--VSITYGAMGSTRERSVAWAQRIQSL-GLNP 74 d1tqja_ 64 DVHLMIV-----EPEKYVEDFAKAGADIISVH------------VEHNASPHLHRTLCQI 106 ::::::: :::::::::::::::::::: :::::::::::::::: d1v93a_ 75 LAHLTVAGQSRKEVAEVLHRFVESGVENLLALRGDPPRGERVFRPHPEGFRYAAELVALI 134 d1tqja_ 107 RELG---KKAGAVLNPSTP-----L-DFLEYVLPVCDLILIMSVNPQSFIPEVLPKIRAL 157 :::: :::::::::::: : :::::::::::::::: ::::::::: :::::: d1v93a_ 135 RERYGDRVSVGGAAYPEGHPESESLEADLRHFKAKVEAGLDF-AITQLFFNN--AHYFGF 191 d1tqja_ 158 RQMCDERGLDPWIEVDGGL----KPNNTWQVLE-AGAN 190 :::::::::::: ::::: :::::::::: :::: d1v93a_ 192 LERARRAGIGIP--ILPGIMPVTSYRQLRRFTEVCGAS 227