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 | d1gzga_ | 5-aminolaevulinate dehydratase, ALAD (porphobilinogen synthase) | Aldolase | 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 <-- 2.285 --> HitDALI alignment (Z-score: 13.9 Raw score:1385.20) d1tqja_ 1 ---------------------------knIVVAPSIL----------------SADFS-- 15 :::::::: ::::: d1gzga_ 1 nraypytrlrrnrrddfsrrlvrenvltvDDLILPVFvldgvnqresipsmpgVERLSid 60 d1tqja_ 16 RLGEEIKAVDEAGADWIHVDV---------mdgrfvpnitIGPLIVDAIRPLT-KKTLDV 65 ::::::::::::::::::::: ::::::::::::: :::::: d1gzga_ 61 QLLIEAEEWVALGIPALALFPvtpvekksldaaeaynpegIAQRATRALRERFpELGIIT 120 d1tqja_ 66 HLMIV------------------------EPEKYVEDFAKAGADIISVHVEhnaSPHL-H 100 ::::: :::::::::::::::::::::: :::: : d1gzga_ 121 DVALDpftthgqngildddgyvlndvsidVLVRQALSHAEAGAQVVAPSDM---MDGRiG 177 d1tqja_ 101 RTLCQIR---ELGKKAGAV-LNPS---------------------------------tPL 123 ::::::: ::::::::: :::: :: d1gzga_ 178 AIREALEsagHTNVRVMAYsAKYAsayygpfrdavgsasnlgkgnkatyqmdpansdeAL 237 d1tqja_ 124 DFLEYVLP-VCDLILIMSvnpqsfiPEVLPKIRALRQMCDergldPWIEVDGG------- 175 :::::::: ::::::::: ::::::::::::::: :::::::: d1gzga_ 238 HEVAADLAeGADMVMVKP------gMPYLDIVRRVKDEFR-----APTFVYQVsgeyamh 286 d1tqja_ 176 ------------lKPNNTWQVLEAGANAIVAGsAVFNapnyaeAIAGvrnskr 216 ::::::::::::::::::: :::: :::: d1gzga_ 287 mgaiqngwlaesvILESLTAFKRAGADGILTY-FAKQ------AAEQ---lrr 329 FAST alignment (Normalized score: 9.14 Raw score:2438.00) d1tqja_ 1 KNI------------------------------VVAPSIL-------------------- 10 ::::: d1gzga_ 1 ---NRAYPYTRLRRNRRDDFSRRLVRENVLTVDDLILP--VFVLDGVNQRESIPSMPGVE 55 d1tqja_ 11 SADFSRLGEEIKAVDEAGADWIHVDVMDGRFVPNITI------------------GPLIV 52 :::::::::::::::::::::::::::: ::::: d1gzga_ 56 RLSIDQLLIEAEEWVALGIPALALFPVT---------PVEKKSLDAAEAYNPEGIAQRAT 106 d1tqja_ 53 DAIRPLT-KKTLDVHLMIV---------------------------EPEKYVEDFAKAGA 84 ::::::: :::::::: :::::::::::::: d1gzga_ 107 RALRERFPELGIITDV---ALDPFTTHGQNGILDDDGYVLNDVSIDVLVRQALSHAEAGA 163 d1tqja_ 85 DIISVHVEHNASP------HLHRTLCQIREL---GKKAGAVL------------------ 117 ::::: :::::::::::: ::::::: d1gzga_ 164 QVVAP--------SDMMDGRIGAIREALESAGHTNVRVMAY-SAKYASAYYGPFRDAVGS 214 d1tqja_ 118 --------------NPST---PLDFLEYVLP-VCDLILIMSVNPQSF--IPEVLPKIRAL 157 :::: :::::::::: ::::::: ::::::::::: d1gzga_ 215 ASNLGKGNKATYQMDPANSDEALHEVAADLAEGADMVMV--------KPGMPYLDIVRRV 266 d1tqja_ 158 RQMCDERGLDPWIEVDGGL-----------------------KPNNTWQVLEAGANAIVA 194 :: :::::::: :::::::::::::::::: d1gzga_ 267 KD-----EFRAPTFV----YQVSGEYAMHMGAIQNGWLAESVILESLTAFKRAGADGILT 317 d1tqja_ 195 GSAVFNAPNYAEAIAGVRNSKR-------- 216 :::: d1gzga_ 318 -YFAK-----------------QAAEQLRR 329 TMalign alignment (TM-score: 0.62 Raw score:134.78) d1tqja_ 1 --------------------------KNIVVAPSILSADFSRLGEEIKAVDEAG-ADWIH 33 ::: ::::: d1gzga_ 1 NRAYPYTRLRRNRRDDFSRRLVRENV-------------------------LTVDDLILP 35 d1tqja_ 34 VDVMD---------GRFVPNI---TIGPL-IVDAIRPLTK---K-TLDVHLMI----V-- 70 ::::: :: ::::: :::::::::: : :::::::: : d1gzga_ 36 VFVLDGVNQRESIP-----SMPGVERLSIDQLLIEAEEWVALGIPALALFPVTPVEKKSL 90 d1tqja_ 71 ---EPE---KYVEDFAKAG-------ADIISVHV--------EHNA----------S-PH 98 ::: :::::::::: :::::::: :::: : :: d1gzga_ 91 DAAEAYNPEGIAQRATRALRERFPELGIITDVALDPFTTHGQNGILDDDGYVLNDVSIDV 150 d1tqja_ 99 LHRTLCQIRELGK-KAGAVLNPSTPLDFLEYVLP-V--------CDLILI-MSVNPQS-- 145 ::::::::::::: :::::: ::::::::::: : :::::: ::::::: d1gzga_ 151 LVRQALSHAEAGAQVVAPSD---MMDGRIGAIREALESAGHTNVRVMAYSAKYASAYYGP 207 d1tqja_ 146 --------------------FIPEVLPKIRALRQMCDERGLDPWIEVDGGLKPNNTWQVL 185 ::::::::::::::::::: ::::::::: :: ::::::: d1gzga_ 208 FRDAVGSASNLGKGNKATYQMDPANSDEALHEVAADLAE-GADMVMVKP-GM-PYLDIVR 264 d1tqja_ 186 EAG-----ANAIVA---GS-AVF--N-----APN-YAEAIAGVRNSK------------- 215 ::: :::::: :: ::: : ::: :::::::::::: d1gzga_ 265 RVKDEFRAPTFVYQVSGEYAMHMGAIQNGWLAESVILESLTAFKRAGADGILTYFAKQAA 324 d1tqja_ 216 -----R 216 d1gzga_ 325 EQLRR- 329 HHsearch alignment (Probability: 0.04 E-value:0.80) d1tqja_ 7 PSILSADFSRLGEEIKAVDEAGADWIHVD-VMD-------GRFVPN-ITIGPLIVDAIRP 57 ::::::::::::::::::::::::::::: ::: :::::: ::::::::::::: d1gzga_ 52 PGVERLSIDQLLIEAEEWVALGIPALALFPVTPVEKKSLDAAEAYNPEGIAQRATRALRE 111 d1tqja_ 58 L-TKKTL-------------DVHLMIVE----PEKYV-------EDFAKAGADIISVHVE 92 : ::::: :::::::: ::::: :::::::::::::: : d1gzga_ 112 RFPELGIITDVALDPFTTHGQNGILDDDGYVLNDVSIDVLVRQALSHAEAGAQVVAPS-D 170 d1tqja_ 93 HNASPHLHRTLCQIRELG----------------------------------KKAGAVLN 118 : :::::::::::::::: :::::::: d1gzga_ 171 M-MDGRIGAIREALESAGHTNVRVMAYSAKYASAYYGPFRDAVGSASNLGKGNKATYQMD 229 d1tqja_ 119 PSTPLDFLEYVLPV-CDLILIMSVNPQSFIPEVLPKIRALRQMCDERGLDPWIEVD---- 173 :::::::::::::: ::::::::::::::: :::::::::::: ::::::::: d1gzga_ 230 PANSDEALHEVAADLAEGADMVMVKPGMPY---LDIVRRVKDEFR--APTFVYQVSGEYA 284 d1tqja_ 174 ------------GGLKPNNTWQVLEAGANAIVAG 195 :::::::::::::::::::::: d1gzga_ 285 MHMGAIQNGWLAESVILESLTAFKRAGADGILTY 318