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 | d2tpsa_ | Thiamin phosphate synthase | Thiamin phosphate synthase | 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 <-- 2.376 --> HitDALI alignment (Z-score: 16.2 Raw score:1421.60) d1tqja_ 1 -------------KNIV-VAPSIL--SADFsRLGEEIKAVDEAGADWIHVDVMDgrfvpN 44 :::: :::::: :::: ::::::::::::::::::::::: : d2tpsa_ 1 hgirmtrisremmKELLsVYFIMGsnNTKA-DPVTVVQKALKGGATLYQFREKG-----G 54 d1tqja_ 45 ITI----GPLIVDAIRPLTK---KTLDVHLmivepekYVEDFAKAGADIISVHVehnASP 97 ::: ::::::::::::: ::::::: ::::::::::::::::: ::: d2tpsa_ 55 DALtgeaRIKFAEKAQAACReagVPFIVND-------DVELALNLKADGIHIGQ---EDA 104 d1tqja_ 98 HLHRTLCQIreLGKKAGAVLnpsTPLDFLEYVLP-VCDLILIMS-VNPQ----sfIPEVL 151 ::::::::: ::::::::: ::::::::::: ::::::::: :::: ::::: d2tpsa_ 105 NAKEVRAAI--GDMILGVSA---HTMSEVKQAEEdGADYVGLGPiYPTEtkkdtrAVQGV 159 d1tqja_ 152 PKIRALRQMCDerglDPWIEVDGGLKPNNTWQVLEAGANAIVAGSAVFNAPNYAEAIAGV 211 ::::::::::: ::::::::::::::::::::::::::::::::::::::::::::: d2tpsa_ 160 SLIEAVRRQGI----SIPIVGIGGITIDNAAPVIQAGADGVSMISAISQAEDPESAARKF 215 d1tqja_ 212 R-NSKR----- 216 : :::: d2tpsa_ 216 ReEIQTyktgr 226 FAST alignment (Normalized score: 12.52 Raw score:2766.00) d1tqja_ 1 KNI-----------------VVAPSILSADF-------SRLGEEIKAVDEAGADWIHVDV 36 ::::: :::::::::::::::::::::: d2tpsa_ 1 ---HGIRMTRISREMMKELLSVYFI------MGSNNTKADPVTVVQKALKGGATLYQFRE 51 d1tqja_ 37 MDGRFVP-NITI----GPLIVDAIRP---LTKKTLDVHLMIVEPEK--YVEDFAKAGADI 86 : :::: :::::::::: :::::::: :::::::::::: d2tpsa_ 52 K------GGDALTGEARIKFAEKAQAACREAGVPFIV---------NDDVELALNLKADG 96 d1tqja_ 87 ISVHVEHNASPHLHRTLCQIRE-LGKKAGAVLNPSTPLDFLEYVL-PVCDLIL-IMSVNP 143 :::: ::: ::::::::: ::::::::: :::::::::: ::::::: :::: d2tpsa_ 97 IHIG--QED-ANAKEVRAA---IGDMILGVSA---HTMSEVKQAEEDGADYVGLGPIY-- 145 d1tqja_ 144 QSFIPE------------VLPKIRALRQMCDERGLDPWIEVDGGLKPNNTWQVLEAGANA 191 :::::::::: :::::::::::::::::::::::::::: d2tpsa_ 146 ------PTETKKDTRAVQGVSLIEAVRR----QGISIPIVGIGGITIDNAAPVIQAGADG 195 d1tqja_ 192 IVAGSAVFNAPNYAEAIAGVRNSKR---------- 216 ::::::::::::::::::::: d2tpsa_ 196 VSMISAISQAEDPESAARKFR----EEIQTYKTGR 226 TMalign alignment (TM-score: 0.72 Raw score:155.49) d1tqja_ 1 -------------KN-IVVAPSIL--SADFSRLGEEIKAVDEAGADWIHVDVMDGRFVPN 44 :: :::::::: :::: :::::::::::::::::::::: : : d2tpsa_ 1 HGIRMTRISREMMKELLSVYFIMGSNNTKA-DPVTVVQKALKGGATLYQFREK-G----G 54 d1tqja_ 45 ITIG---PL-IVDAIRPLTK---KTLDVHLMIVEPEKYVEDFAKAGADIISVHVEHNASP 97 :::: :: :::::::::: ::::::: ::::::::::::::::: ::: d2tpsa_ 55 DALTGEARIKFAEKAQAACREAGVPFIVND-------DVELALNLKADGIHIGQ--EDA- 104 d1tqja_ 98 HLHRTLCQIRELGKKAGAVLNPSTPLDFLEYVLP-VCDLILIMS---VN-PQ-SFIPEVL 151 ::::::::: : :::::::: ::::::::::: ::::::::: :: :: ::::::: d2tpsa_ 105 NAKEVRAAI-G-DMILGVSA---HTMSEVKQAEEDGADYVGLGPIYPTETKKDTRAVQGV 159 d1tqja_ 152 PKIRALRQMCDERGLDPWIEVDGGLKPNNTWQVLEAGANAIVAGSAVFNAPNYAEAIAGV 211 ::::::::: :: ::: :::::::::::::::::::::::::::::::::::::::::: d2tpsa_ 160 SLIEAVRRQ-GI--SIP-IVGIGGITIDNAAPVIQAGADGVSMISAISQAEDPESAARKF 215 d1tqja_ 212 R-NS--K----R 216 : :: : d2tpsa_ 216 REEIQTYKTGR- 226 HHsearch alignment (Probability: 0.99 E-value:0.00) d1tqja_ 15 SRLGEEIKAVDEAGADWIHVDVMDGRFVPNITIGPLIVDAIRPLTKKTLDVHLMIVEPEK 74 ::::::::::::::::::::::::::::::::: ::::::::::::: :::::::::::: d2tpsa_ 30 ADPVTVVQKALKGGATLYQFREKGGDALTGEAR-IKFAEKAQAACRE-AGVPFIVNDDVE 87 d1tqja_ 75 YVEDFAKAGADIISVHVEHNASPHLHRTLCQIRELGKKAGAVLNPSTPLDFLEYVLPVCD 134 ::: ::::::: ::::::: :: ::::::::::::::::::::::::::::::: d2tpsa_ 88 LAL---NLKADGI--HIGQEDA-NA----KEVRAAIGDMILGVSAHTMSEVKQAEEDGAD 137 d1tqja_ 135 LILIMSVNPQSFIPEVL--PKIRALRQMCDERGLDPWIEVDGGLKPNNTWQVLEAGANAI 192 ::::::::::::::::: :::::::::: :::::::::::::::::::::::::::::: d2tpsa_ 138 YVGLGPIYPTETKKDTRAVQGVSLIEAVR-RQGISIPIVGIGGITIDNAAPVIQAGADGV 196 d1tqja_ 193 VAGSAVFNAPNYAEAIAGVRNSK 215 ::::::::::::::::::::::: d2tpsa_ 197 SMISAISQAEDPESAARKFREEI 219