HorA Server Transitive Detail

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


Query <-- 1.541 --> Intermediate <-- 1.340 --> Hit

SVM
score
SVM
score

The query (T515_B.pdb B) is transitively linked to the hit (d1egza_) through the intermediate protein (d1q6oa_) by significant SVM score (>0.4).

  SCOP Id Protein SCOP Superfamily SCOP Fold SCOP
Class
Intermediate d1q6oa_ 3-​keto-​L-​gulonate 6-​phosphate decarboxylaseRibulose-​phoshate binding barrelTIM beta/​alpha-​barrelα/β
Hit d1egza_ Endoglucanase Cel5a(Trans)glycosidasesTIM beta/​alpha-​barrelα/β

Supporting Alignments

Query <-- 1.541 --> Intermediate
DALI alignment (Z-score: 13.1 Raw score:1148.30) query 1 mietpyylidkakltrnmeriahvreksGAKALLALKC---fATWSVFDLMRDYMDGTTS 57 :::::::::: :::::::::::::::::: d1q6oa_ 1 ----------------------------LPMLQVALDNqtmdSAYETTRLIAEEVDIIEV 32 query 58 S-------SLFEVRLGRERFG-KETHAYS-VAYG-DNEIDEVVS-HADKIIFNS---ISQ 103 : ::::::::::::: ::::::: :::: ::::::::: ::::::::: ::: d1q6oa_ 33 GtilcvgeGVRAVRDLKALYPhKIVLADAkIADAgKILSRMCFEaNADWVTVICcadINT 92 query 104 LERFADKAA--GIARGLRLNPQrlgeWDVPKVERVM-DRINGFMIHNNCE-NKDFgLFDR 159 ::::::::: ::::::::::: :::::::::: ::::::::::::: :::: :::: d1q6oa_ 93 AKGALDVAKefNGDVQIELTGY----WTWEQAQQWRdAGIGQVVYHRSRDaQAAG-VAWG 147 query 160 mlGEIEERFGALIARVDWVSLGGGIHFtgddypvdAFSARLRAFSdrygvQIYLEPGEAS 219 ::::::::::::::::::::::::: :::::::::: :::::::::: d1q6oa_ 148 --EADITAIKRLSDMGFKVTVTGGLAL--------EDLPLFKGIP-----IHVFIAGRSI 192 query 220 -ITKSttlevtvldtlynknlaivdssieahmldlliyretakvlpnegshsymicgksc 278 :::: d1q6oa_ 193 rDAAS------------------------------------------------------- 197 query 279 lagdvfgefrfaeelkvgdrisfqdaagytmvkknwfngvkmpaiaireldgsvrtvref 338 d1q6oa_ 198 ------------------------------------------------------pveaar 203 query 339 tyadyeqsls 348 d1q6oa_ 204 qfkrsiaelw 213 FAST alignment (Normalized score: 5.19 Raw score:1413.00) query 1 MIETPYYL----------IDKAKLTRNMERIAHVREKSGAKALLALKCFA----TWSVFD 46 ::::::::::: :::::: ::::: :::: :::::: d1q6oa_ 1 --------LPMLQVALDNQTMDSAYETTR---LIAEEV-DIIEV-GTIL-CVGEGVRAVR 46 query 47 LMRDYM-----DGTTSS-----SLFEVRLGRERF--GKETHAYSVAYGDNEIDEVVSHA- 93 ::::: ::::: :::::::::: ::::: :::::::::::::::: d1q6oa_ 47 DLKAL-YPHKIVLADA-KIADAGKILSRMCFE--ANADWVT-VICCADINTAKGALDV-A 100 query 94 ----DKIIF-----NSISQLERFADKAAGIARGLRLNPQRLGEW---------------D 129 ::::: ::::::::::: ::: :::::: : d1q6oa_ 101 KEFNGDVQIELTGYWTWEQAQQWRD--AGI-GQVVYH-------RSRDAQAAGVAWGEAD 150 query 130 VPKVERVMDRI--NGFMIHNNCENKDFGL---FDRMLGEIEERFGALIARVDWVSLGGGI 184 ::::::::: :::::: ::::: ::::: ::::::: d1q6oa_ 151 ITAIKRLSD--MGFKVTVT----------GGLALEDL----PLFKG--IPIHVFI----- 187 query 185 HFTGDD--------YPVDAFSARLRAFSDRYGVQIYLEPGEASITKSTTLEVTVLDTLYN 236 ::::::::::::::::: d1q6oa_ 188 ------AGRSIRDAASPVEAARQFKRSIAEL----------------------------- 212 query 237 KNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVG 296 d1q6oa_ 213 ------------------------------------------------------------ 213 query 297 DRISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS- 348 d1q6oa_ 213 ----------------------------------------------------W 213 TMalign alignment (TM-score: 0.43 Raw score:149.47) query 1 MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKCF---ATWSVFDLMRDYMDGTTS 57 ::::::::::: :::::::::::::::::: d1q6oa_ 1 ----------------------------LPMLQVALDNQTMDSAYETTRLIAEEVDIIEV 32 query 58 -S--S----LFEVRLGRERFG-KETHAYSVAY-G-DNEIDEVVS-HADKIIFN--S-ISQ 103 : : :::::::::::: :::::::::: : ::::::::: :::::::: : ::: d1q6oa_ 33 GTILCVGEGVRAVRDLKALYPHKIVLADAKIADAGKILSRMCFEANADWVTVICCADINT 92 query 104 LERFADKAA--GIARGLRLNPQRLGEWDVPKVERVMD-RINGFMIHNNCE-NK--DFGLF 157 ::::::::: ::::::::: : :::::::::::: :::::::::::: :: ::: d1q6oa_ 93 AKGALDVAKEFNGDVQIELT---G-YWTWEQAQQWRDAGIGQVVYHRSRDAQAAG--VAW 146 query 158 DRMLGEIEERFGALIARVDWVSLGGGIHFTGDDYPVDAFSARLRAFSDRYGVQIYLEPGE 217 : ::::::::::::::::::::::::: : ::::::::: :: :::::: d1q6oa_ 147 -G--EADITAIKRLSDMGFKVTVTGGLAL-----E---DLPLFKGIP----IH-VFIAGR 190 query 218 ASITKST----------------TLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAK 261 ::::::: d1q6oa_ 191 SIRDAASPVEAARQFKRSIAELW------------------------------------- 213 query 262 VLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVKMP 321 d1q6oa_ 214 ------------------------------------------------------------ 214 query 322 AIAIRELDGSVRTVREFTYADYEQSLS 348 d1q6oa_ 214 --------------------------- 214 HHsearch alignment (Probability: 0.38 E-value:0.02) query 16 RNMERIAHVREKSGAKALLALKCFATWSV-FDLMRDYMDGTTSSS--------LFEVRLG 66 :::::::::: ::::::::::::::::: ::::::::::::::: ::::::: d1q6oa_ 43 RAVRDLKALY--PHKIVLADAKIADAGKILSRMCFEANADWVTVICCADINTAKGALDVA 100 query 67 RERFGKETHAYSVAYGDNEIDEVVSHADKIIF-------------NSISQLERFADKAAG 113 :::::::::::::::::::::::::::::::: :::::::::::: :: d1q6oa_ 101 KEFNGDVQIELTGYWTWEQAQQWRDAGIGQVVYHRSRDAQAAGVAWGEADITAIKRL-SD 159 query 114 IARGLRLNPQRLGEWDVPKVERVMDRINGFMIHNNCENKDFGLFDRMLGEIEERFGAL 171 :::::::::::::::::::::::::::: ::::::::::::::::::::::::: d1q6oa_ 160 MGFKVTVTGGLALEDLPLFKGIPIHVFI-----AGRSIRDAASPVEAARQFKRSIAEL 212
Intermediate <-- 1.340 --> Hit
DALI alignment (Z-score: 12.0 Raw score:1198.50) d1q6oa_ 1 ------------------LPMLQVALDNQ-----TMDSAY-ETTRLIAE--EVDIIEVGT 34 ::::::::::: :::::: :::::::: ::::::::: d1egza_ 1 sveplsvngnkiyagekaKSFAGNSLFWSnngwgGEKFYTaDTVASLKKdwKSSIVRAAM 60 d1q6oa_ 35 I--------lcvgEGVRAVRDLKALYP--HKIVLADAK---IADA---GKILSRMCFEAN 78 : :::::::::::::: ::::::::: :::: :::::::::::: d1egza_ 61 GvqesggylqdpaGNKAKVERVVDAAIanDMYAIIGWHshsAENNrseAIRFFQEMARKY 120 d1q6oa_ 79 ----aDWVTVI--------ccADINTAKGALDVAKEFN--GDVQIELTGY--wtWEQAQQ 122 :::::: ::::::::::::::::: :::::::::: :::::: d1egza_ 121 gnkpnVIYEIYneplqvswsnTIKPYAEAVISAIRAIDpdNLIIVGTPSWsqnvDEASRD 180 d1q6oa_ 123 wRDAG-IGQVVYHRsrdaqaagVAWGEADITAIKRLSDMGFKVTV-TGGL---------- 170 :::: :::::::: ::::::::::::::::::::::: :::: d1egza_ 181 -PINAkNIAYTLHF------yaGTHGESLRNKARQALNNGIALFVtEWGTvnadgnggvn 233 d1q6oa_ 171 --aLEDLPLF-KGIPIhVFIAGR-------SIRD------AASPVEAARQFKRSIAelw 213 ::::::: ::::: :::::: :::: :::::::::::::::: d1egza_ 234 qteTDAWVTFmRDNNI-SNANWAlndknegASTYypdsknLTESGKKVKSIIQSWPyka 291 FAST alignment (Normalized score: 7.38 Raw score:1838.00) d1q6oa_ 1 ------------------LPMLQVALDN-------------QTMDSAYETTRLIAE-EVD 28 ::::::: :::::::::::: ::: d1egza_ 1 SVEPLSVNGNKIYAGEKAKSFAGNS---LFWSNNGWGGEKFYTADTVASLKKD---WKSS 54 d1q6oa_ 29 IIEVGTI-------LCVG---EGVRAVRDLKALY---PHKIVLADAKIAD-------AGK 68 ::::: :::: :::::::::::: :::::::::::: ::: d1egza_ 55 IVRAA--MGVQESGGYLQDPAGNKAKVERVVDA-AIANDMYAIIGWHSH-SAENNRSEAI 110 d1q6oa_ 69 ILSRMCFEANA-------DWVTVICCA-------------DINTAKGALDVAKE--FNGD 106 :::::::: :::: :::::::::::::: :::: d1egza_ 111 RFFQEMAR---KYGNKPNVIYE-----IYNEPLQVSWSNTIKPYAEAVISAIRAIDPDNL 162 d1q6oa_ 107 VQIELTGYW------TWEQAQQWRDAGI-------GQVVYHRSRDAQAAGV----AWGEA 149 ::::: :::::: :::::: ::::: d1egza_ 163 IIVGT----PSWSQNVDEASR-------DPINAKNIAYTLH----------FYAGTHGES 201 d1q6oa_ 150 DITAIKRLSDMGFKVTVTGGL-----------------ALEDLPLFKGIPIHVFIAGRSI 192 :::::::::::::::::: :::::::::::: :::: d1egza_ 202 LRNKARQALNNGIALFVT---EWGTVNADGNGGVNQTETDAWVTFMRDNN-ISNA----- 252 d1q6oa_ 193 RDAASP---------------------VEAARQFKRSIAELW------ 213 :::::::::::: d1egza_ 253 ------NWALNDKNEGASTYYPDSKNLTESGKKVKSIIQ---SWPYKA 291 TMalign alignment (TM-score: 0.74 Raw score:156.98) d1q6oa_ 1 ------------------LPMLQVALDN----Q-TMDSAY-ETTRLIAE--EVDIIEVGT 34 :::::::::: : :::::: :::::::: ::::::::: d1egza_ 1 SVEPLSVNGNKIYAGEKAKSFAGNSLFWSNNGWGGEKFYTADTVASLKKDWKSSIVRAAM 60 d1q6oa_ 35 IL---CVG-----EGVRAVRDLKALYP--HKIVLADAKI--AD-AGKILSRMCFEA---N 78 :: ::: :::::::::::::: :::::::::: :: :::::::::::: : d1egza_ 61 GVQESGGYLQDPAGNKAKVERVVDAAIANDMYAIIGWHSHSAENNRSEAIRFFQEMARKY 120 d1q6oa_ 79 -----ADWVTV-IC--C----ADINTAKGALDVAK-EF-NGDVQIEL--TGYWTWEQAQQ 122 :::::: :: : :::::::::::::: :: :::::::: ::::::::::: d1egza_ 121 GNKPNVIYEIYNEPLQVSWSNTIKPYAEAVISAIRAIDPDNLIIVGTPSWSQNVDEASRD 180 d1q6oa_ 123 WRDAG-IGQVVYHRSRDAQAAGVAWGEADITAIKRLSDMGFKVTV-TGGL--------AL 172 :::: ::::::::: : ::::::::::::::::::::::: :::: :: d1egza_ 181 -PINAKNIAYTLHFY---A---GTHGESLRNKARQALNNGIALFVTEWGTVNADGNGGVN 233 d1q6oa_ 173 E--DLPLFKG--IPIHVFIAGR-------SIRDA----ASP--VEAARQFKRSIAE--LW 213 : ::::::: :::::::::: ::::: ::: ::::::::::::: d1egza_ 234 QTETDAWVTFMRDNNISNANWALNDKNEGASTYYPDSKNLTESGKKVKSIIQSWPYKA-- 291 HHsearch alignment (Probability: 0.20 E-value:0.01) d1q6oa_ 92 TAKGALDVAKEFNGDVQIELTGYWT 116 ::::::::::::::::::::::::: d1egza_ 78 KVERVVDAAIANDMYAIIGWHSHSA 102