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 | d1ep3a_ | Dihydroorotate dehydrogenase | FMN-linked oxidoreductases | 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 <-- 1.887 --> HitDALI alignment (Z-score: 14.1 Raw score:1417.20) d1tqja_ 1 ---------------kNIVVAPSILSAdfsrLGEEIK-AVDEaGADWIHVDVMD------ 38 ::::::::::: :::::: :::: ::::::::::: d1ep3a_ 1 mtennrlsvklpgldlKNPIIPASGCF--gfGEEYAKyYDLN-KLGSIMVKATTlhprfg 57 d1tqja_ 39 -------------grfvPNITI----GPLI-VDAIRPLT-KKTLDVHLMIV---EPEKYV 76 ::::: :::: :::::::: ::::::::::: :::::: d1ep3a_ 58 nptprvaetasgmlnaiGLQNPglevIMTEkLPWLNENFpELPIIANVAGSeeaDYVAVC 117 d1tqja_ 77 EDFAKA-GADIISVHVEHNA-----------spHLHRTLCQIRE-LGKKAGAVLNPST-- 121 :::::: ::::::::::::: ::::::::::: ::::::::::::: d1ep3a_ 118 AKIGDAaNVKAIELNISCPNvkhggqafgtdpeVAAALVKACKAvSKVPLYVKLSPNVtd 177 d1tqja_ 122 PLDFLEYVLP-VCDLILIMSV--------------------NPQS--FIPEVLPKIRALR 158 :::::::::: :::::::::: :::: ::::::::::::: d1ep3a_ 178 IVPIAKAVEAaGADGLTMINTlmgvrfdlktrqpilanitgGLSGpaIKPVALKLIHQVA 237 d1tqja_ 159 QMCderglDPWIEVDGGLKPNN-TWQVLEAGANAIVAGSAVFNApnyAEAIAGVRNSK-- 215 ::: :::::::::::::: ::::::::::::::::::::: ::::::::::: d1ep3a_ 238 QDV-----DIPIIGMGGVANAQdVLEMYMAGASAVAVGTANFAD---PFVCPKIIDKLpe 289 d1tqja_ 216 ---------------------r 216 d1ep3a_ 290 lmdqyrieslesliqevkegkk 311 FAST alignment (Normalized score: 9.58 Raw score:2483.00) d1tqja_ 1 KNI------------------VVAPSILSADFSRLGEE---IKAVDEA-----GADWIHV 34 :::::::: :::::: ::::::: d1ep3a_ 1 ---MTENNRLSVKLPGLDLKNPIIPASGC---------FGFGEEYAK-YYDLNKLGSIMV 47 d1tqja_ 35 DVMDGRFV---------------------------PNITIG-----PLIVDAIRPL-TKK 61 :::::: :::::::::: ::: d1ep3a_ 48 --------KATTLHPRFGNPTPRVAETASGMLNAIGLQNPGLEVIMTEKLPWLNENFPEL 99 d1tqja_ 62 TLDVHLMIV---EPEKYVEDFAK-AGADIISVHVEHNASP-----------------HLH 100 ::::::::: ::::::::::: :::::::::: ::: d1ep3a_ 100 PIIANVAGSEEADYVAVCAKIGDAANVKAIELNI------SCPNVKHGGQAFGTDPEVAA 153 d1tqja_ 101 RTLCQIRE-LGKKAGAVLNPST--PLDFLEYVLP-VCDLILIMSVNPQSF---------- 146 :::::::: ::::::::::::: :::::::::: :::::: d1ep3a_ 154 ALVKACKAVSKVPLYVKLSPNVTDIVPIAKAVEAAGADGLT---------MINTLMGVRF 204 d1tqja_ 147 ---------------------IPEVLPKIRALRQMCDERGLDPWIEVDGGL-KPNNTWQV 184 :::::::::::::: ::::::::::: :::::::: d1ep3a_ 205 DLKTRQPILANITGGLSGPAIKPVALKLIHQVAQD-----VDIPIIGMGGVANAQDVLEM 259 d1tqja_ 185 LEAGANAIVAGSAVFNAPNYAEAIAGVRNSKR--------------------------- 216 ::::::::::::::: ::: ::::::: d1ep3a_ 260 YMAGASAVAVGTANF--ADP-FVCPKII----DKLPELMDQYRIESLESLIQEVKEGKK 311 TMalign alignment (TM-score: 0.75 Raw score:162.15) d1tqja_ 1 -------KN--------IVVAPSILSADFSRLGEEIKAVDEAGADWIHVDVM----D-GR 40 :: ::::::::::::::::::::::: : ::::::::: : :: d1ep3a_ 1 MTENNRLSVKLPGLDLKNPIIPASGCFGFGEEYAKYYDLN-K-LGSIMVKATTLHPRFGN 58 d1tqja_ 41 --------------FVPNITI-GP--L---IVDAIRPLT-KKTLDVHLMIVE---PEKYV 76 :::::: :: : ::::::::: :::::::::::: ::::: d1ep3a_ 59 PTPRVAETASGMLN-AIGLQNPGLEVIMTEKLPWLNENFPELPIIANVAGSEEADYVAVC 117 d1tqja_ 77 EDFAKAG-ADIISVHVE-HN------AS-----P--HL-HRTLCQIRELGKKAGAVLNPS 120 ::::::: ::::::::: :: :: : :: ::::::: : :::::::::: d1ep3a_ 118 AKIGDAANVKAIELNISCPNVKHGGQAFGTDPEVAAALVKACKAVS--K-VPLYVKLSPN 174 d1tqja_ 121 T--PLDFLEYVLP-VCDLILIMSVN-------------------P-QSF-I-PEVLPKIR 155 : :::::::::: ::::::::::: : ::: : :::::::: d1ep3a_ 175 VTDIVPIAKAVEAAGADGLTMINTLMGVRFDLKTRQPILANITGGLSGPAIKPVALKLIH 234 d1tqja_ 156 ALRQMCDERGLDPWIEVDGGLKP-NNTWQVLEAGANAIVAGSAVF-NAPNYAEAIAGVRN 213 :::::: : ::::::::::: ::::::::::::::::::::: :::::::::::::: d1ep3a_ 235 QVAQDV----D-IPIIGMGGVANAQDVLEMYMAGASAVAVGTANFADPFVCPKIIDKLPE 289 d1tqja_ 214 SK--R----------------- 216 :: : d1ep3a_ 290 LMDQYRIESLESLIQEVKEGKK 311 HHsearch alignment (Probability: 0.98 E-value:0.00) d1tqja_ 18 GEEIKAVDEAGADWIHVDVM----------------DGRFVPNITIGP--------LIVD 53 :::::::::::::::::::: :::::::::::: :::: d1ep3a_ 31 EEYAKYYDLNKLGSIMVKATTLHPRFGNPTPRVAETASGMLNAIGLQNPGLEVIMTEKLP 90 d1tqja_ 54 AIRP-LTKKTLDVHLMIVEPEKYVEDFAK----AGADIISVHVEHNAS-----------P 97 :::: :::::::::::::::::::::::: ::::::::::::::: : d1ep3a_ 91 WLNENFPELPIIANVAGSEEADYVAVCAKIGDAANVKAIELNISCPNVKHGGQAFGTDPE 150 d1tqja_ 98 HLHRTLCQIRELG-KKAGAVLNPS-TPLDFLEYVLPV--CDLILIMSVN----------- 142 ::::::::::::: :::::::::: :::::::::::: :::::::::: d1ep3a_ 151 VAAALVKACKAVSKVPLYVKLSPNVTDIVPIAKAVEAAGADGLTMINTLMGVRFDLKTRQ 210 d1tqja_ 143 -----------PQSFIPEVLPKIRALRQMCDERGLDPWIEVDGGLK-PNNTWQVLEAGAN 190 ::::::::::::::::: ::::::::::::: ::::::::::::: d1ep3a_ 211 PILANITGGLSGPAIKPVALKLIHQVAQ-----DVDIPIIGMGGVANAQDVLEMYMAGAS 265 d1tqja_ 191 AIVAGSAVFNAPNYAEAIAG 210 :::::::::::::::::::: d1ep3a_ 266 AVAVGTANFADPFVCPKIID 285