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 | d1a53a_ | Indole-3-glycerophosphate synthase, IPGS | Ribulose-phoshate binding barrel | 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 <-- 2.303 --> HitDALI alignment (Z-score: 18.6 Raw score:1663.90) d1tqja_ 1 ------------------------------------------KNIVVAPSIL------sa 12 :::::::::: d1a53a_ 1 prylkgwlkdvvqlslrrpsfrasrqrpiislnerilefnkrNITAIIAEYKrkspsgld 60 d1tqja_ 13 DFSRLGEEIKAVDEaGADWIHVDVMDGrfvpNITIGPLIVDAIRPLTKKTLDVHLMIvEP 72 :::::::::::::: :::::::::::: :::::::::::::::::::::::::: :: d1a53a_ 61 VERDPIEYSKFMER-YAVGLSILTEEK----YFNGSYETLRKIASSVSIPILMKDFI-VK 114 d1tqja_ 73 EKYVEDFAKAGADIISVHVEhnASPH--LHRTLCQIRELGKKAGAVLnPSTP-LDFLEYV 129 :::::::::::::::::::: :::: ::::::::::::::::::: :::: ::::::: d1a53a_ 115 ESQIDDAYNLGADTVLLIVK--ILTEreLESLLEYARSYGMEPLIEI-NDENdLDIALRI 171 d1tqja_ 130 LpvCDLILIMSVNP--QSFIPE-VLPKIRALRQmcderglDPWIEVDGGLKPN-NTWQVL 185 : ::::::::::: :::::: :::::::::: ::::::::::::: :::::: d1a53a_ 172 G--ARFIGINSRDLetLEINKEnQRKLISMIPS-------NVVKVAESGISERnEIEELR 222 d1tqja_ 186 EAGANAIVAGSAVFNApnyAEAIAGVRNskr 216 :::::::::::::::: ::::::::: d1a53a_ 223 KLGVNAFLIGSSLMRN---PEKIKEFIL--- 247 FAST alignment (Normalized score: 13.56 Raw score:3132.00) d1tqja_ 1 ------------------------------------------KNIVVAPSILSADF---- 14 ::::::::: d1a53a_ 1 PRYLKGWLKDVVQLSLRRPSFRASRQRPIISLNERILEFNKRNITAIIAEY-----KRKS 55 d1tqja_ 15 -------SRLGEEIKAVDEAGADWIHVDVMDGRFVPNI----TIGPLIVDAIRPLTKKTL 63 ::::::::::: ::::::::::: :::::::::::::::::: d1a53a_ 56 PSGLDVERDPIEYSKFME-RYAVGLSILTE--------EKYFNGSYETLRKIASSVSIPI 106 d1tqja_ 64 DVHLMIVEPEKYVEDFAKAGADIISVHVEHNASP------HLHRTLCQIRELGKKAGAVL 117 ::::::: :::::::::::::::::::: :::::::::::::::::::: d1a53a_ 107 LMKDFIV-KESQIDDAYNLGADTVLLIV------KILTERELESLLEYARSYGMEPLIEI 159 d1tqja_ 118 NPSTPLDFLEYVLP-VCDLILIMSVNPQSF--------IPEVLPKIRALRQMCDERGL-- 166 ::::::::::: :::::::::: :::::::::: d1a53a_ 160 ---NDENDLDIALRIGARFIGINSR-----DLETLEINKENQRKLISM----------IP 201 d1tqja_ 167 -DPWIEVDGGL-KPNNTWQVLEAGANAIVAGSAVFNAPN-YAEAIAGVRNSKR- 216 :::::::::: ::::::::::::::::::::::: ::::::::: d1a53a_ 202 SNVVKVAESGISERNEIEELRKLGVNAFLIGSSLM----RNPEKIKEFI----L 247 TMalign alignment (TM-score: 0.78 Raw score:167.90) d1tqja_ 1 ------------------------------------K--N----IVVAPSILSA------ 12 : : :::::::::: d1a53a_ 1 PRYLKGWLKDVVQLSLRRPSFRASRQRPIISLNERILEFNKRNITAIIAEYKRKSPSGLD 60 d1tqja_ 13 DFSRLGEEIKAVDEAGADWIHVDVMDGRFVPNITIGPLIVDAIRPLTKKTLDVHLMIVEP 72 :::::::::::::: :::::::::::: :::::::::::::::::::::::: :::: d1a53a_ 61 VERDPIEYSKFMER-YAVGLSILTEEK----YFNGSYETLRKIASSVSIPILMKD-FIVK 114 d1tqja_ 73 EKYVEDFAKAGADIISVHVEHNASP-HLHRTLCQIRELGKKAGAVLNPSTPLDFLEYVLP 131 :::::::::::::::::::: :::: ::::::::::::::::::::::::::::::::: d1a53a_ 115 ESQIDDAYNLGADTVLLIVK-ILTERELESLLEYARSYGMEPLIEINDENDLDIALRIG- 172 d1tqja_ 132 VCDLILIMSVNP---QSFIPEVLPKIRALRQMCDERGLDPWIEVDGGLK-PNNTWQVLEA 187 ::::::::::: :::::::::::::: :: ::::::::::: :::::::::: d1a53a_ 173 -ARFIGINSRDLETLEINKENQRKLISMI---PS----NVVKVAESGISERNEIEELRKL 224 d1tqja_ 188 GANAIVAGSAVFNAPNYAEAIAGVRNSKR 216 ::::::::::::::::::::::: d1a53a_ 225 GVNAFLIGSSLMRNPEKIKEFIL------ 247 HHsearch alignment (Probability: 0.99 E-value:0.00) d1tqja_ 6 APS--ILSADFSRLGEEIKAVDEAGADWIHVDVMDGRFVPNITIGPLIVDAIRPLTKKTL 63 ::: ::::::::::: :::::::::::: :::: :::::::::::::::::::: d1a53a_ 55 SPSGLDVERDPIEYSK----FMERYAVGLSIL-TEEK---YFNGSYETLRKIASSVSIPI 106 d1tqja_ 64 DVHLMIVEPEKYVEDFAKAGADIISVHVEHNASPHLHRTLCQIRELGKKAGAVLNPSTPL 123 ::::::::::::: :::::::::::::::::::::::::::::::::::::::::::::: d1a53a_ 107 LMKDFIVKESQID-DAYNLGADTVLLIVKILTERELESLLEYARSYGMEPLIEINDENDL 165 d1tqja_ 124 DFLEYVLPVCDLILIMSVNPQSFIPEVLPKIRALRQMCDERGLDPWIEVDGGL-KPNNTW 182 :::::: :::::::::::::::::: ::::::::::: :::::::::::: :::::: d1a53a_ 166 DIALRI--GARFIGINSRDLETLEIN-KENQRKLISMI---PSNVVKVAESGISERNEIE 219 d1tqja_ 183 QVLEAGANAIVAGSAVFNAPNYAEAI 208 :::::::::::::::::::::::::: d1a53a_ 220 ELRKLGVNAFLIGSSLMRNPEKIKEF 245