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 <-- 1.314 --> Hit

SVM
score
SVM
score

The query (T515_B.pdb B) is transitively linked to the hit (d1hkka1) 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 d1hkka1 Chitotriosidase(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 <-- 1.314 --> Hit
DALI alignment (Z-score: 13.3 Raw score:1318.60) d1q6oa_ 1 lPMLQVALDNQTM------DSAYETTrlIAEEVDIIEVGT-------ilCVGE-GVRAVR 46 :::::::::::: ::::::: :::::::::::: :::: :::::: d1hkka1 1 -AKLVCYFTNWAQyrqgeaRFLPKDL--DPSLCTHLIYAFagmtnhqlsTTEWnDETLYQ 57 d1q6oa_ 47 DLKALY---PHKIVLADAK------------------iadAGKILSRMCFEANADWVTVI 85 :::::: :::::::::: :::::::::::::::::::: d1hkka1 58 EFNGLKkmnPKLKTLLAIGgwnfgtqkftdmvatannrqtFVNSAIRFLRKYSFDGLDLD 117 d1q6oa_ 86 CC-------------aDINTAKGALDVAKE-------FNGDVQIELT---gYWTWEQ-AQ 121 :: :::::::::::::: :::::::::: :::::: :: d1hkka1 118 WEypgsqgspavdkerFTTLVQDLANAFQQeaqtsgkERLLLSAAVPagqtYVDAGYeVD 177 d1q6oa_ 122 QWRdAGIGQVVYHRSrdAQAA-------GVAWGE------------ADITAIKRLSDMGF 162 ::: ::::::::::: :::: :::::: :::::::::::::: d1hkka1 178 KIA-QNLDFVNLMAY--DFHGswekvtgHNSPLYkrqeqsgaaaslNVDAAVQQWLQKGT 234 d1q6oa_ 163 ---KVTVTGG-----lALEDLPLFKGIPIHVFIAGRsIRDAA--------SPVEAARQFK 206 ::::::: :::::::::::::::::::: ::::: :::::::::: d1hkka1 235 pasKLILGMPtddvesFKTKVSYLKQKGLGGAMVWA-LDLDDfagfscnqGRYPLIQTLR 293 d1q6oa_ 207 RSIaelw 213 ::: d1hkka1 294 QEL---- 296 FAST alignment (Normalized score: 8.00 Raw score:2010.00) d1q6oa_ 1 LPMLQVALDN----------QTMDSAYETTRL-IAEEVDIIEVGTILC------------ 37 ::::::::: ::::: :::::::::: d1hkka1 1 -AKLVCYFTNWAQYRQGEARFLPKD-------LDPSLCTHLIY-----AFAGMTNHQLST 47 d1q6oa_ 38 -VGEGVRAVRDLK---ALYPHKIVLADAKIAD-------------------AGKILSRMC 74 :::::::::::: ::::::::::: ::::::::: d1hkka1 48 TEWNDETLYQEFNGLKKMNPKLKTLLA-----IGGWNFGTQKFTDMVATANNRQTFVNSA 102 d1q6oa_ 75 F----EANADWVTVICCA-----------------DINTAKGALDVAKEF--------NG 105 : ::::::::: :::::::::::::: :: d1hkka1 103 IRFLRKYSFDGLDL----DWEYPGSQGSPAVDKERFTTLVQDLANAFQQ-EAQTSGKERL 157 d1q6oa_ 106 DVQIELTGYWTWE------------QAQQWRDAGIGQVVYHRSRDAQAAGVAWGE----- 148 ::::: ::::::: ::::::::: d1hkka1 158 LLSAA--------VPAGQTYVDAGYEVDKIAQ-NLDFVNLMA-------------YDFHG 195 d1q6oa_ 149 -------------------------ADITAIKRLSDMGF---KVTVTGGLAL-------- 172 :::::::::::::: :::: d1hkka1 196 SWEKVTGHNSPLYKRQEQSGAAASLNVDAAVQQWLQKGTPASKLIL------GMPTDDVE 249 d1q6oa_ 173 ---EDLPLFKGIPIHVFIAGR--SIRDAASP-----------VEAARQFKRSIAELW-- 213 ::::::::::::::: ::::: ::::::::: d1hkka1 250 SFKTKVSYLKQKGLGGAM---VWALDLD---DFAGFSCNQGRYPLIQTLRQ------EL 296 TMalign alignment (TM-score: 0.75 Raw score:159.18) d1q6oa_ 1 LPMLQVALDNQ-TM-----DSAYETTRLIAEEVDIIEVGTIL-------CVGEGVR-AVR 46 :::::::::: :: ::::::: :::::::::::::: ::::::: ::: d1hkka1 1 -AKLVCYFTNWAQYRQGEARFLPKDL--DPSLCTHLIYAFAGMTNHQLSTTEWNDETLYQ 57 d1q6oa_ 47 DLKALYP--H-KIVLADAK-------IA--D------A--GKILSR-MCFEANADWVTV- 84 ::::::: : :::::::: :: : : :::::: :::::::::::: d1hkka1 58 EFNGLKKMNPKLKTLLAIGGWNFGTQKFTDMVATANNRQTFVNSAIRFLRKYSFDGLDLD 117 d1q6oa_ 85 I-CC--------A--D-INTAKGALDVAK-EF------NGDVQIELT-G--YWT-WEQAQ 121 : :: : : :::::::::::: :: ::::::::: : ::: ::::: d1hkka1 118 WEYPGSQGSPAVDKERFTTLVQDLANAFQQEAQTSGKERLLLSAAVPAGQTYVDAGYEVD 177 d1q6oa_ 122 QWRDAGIGQVVYHRSRDAQAA-----G-VAW--------------G-EADITAIKRLSDM 160 :::: ::::::::::: :::: : ::: : ::::::::::::: d1hkka1 178 KIAQ-NLDFVNLMAYD-FHGSWEKVTGHNSPLYKRQEQSGAAASLNVDAAVQQWLQKGTP 235 d1q6oa_ 161 GFKVTVTGGLA-L-ED--L-PLFKGIPIHVFIAGRSIRDA--A-----SPVEAARQFKRS 208 ::::::::::: : :: : :::::::::::::::::::: : :::::::::::: d1hkka1 236 ASKLILGMPTDDVESFKTKVSYLKQKGLGGAMVWALDLDDFAGFSCNQGRYPLIQTLRQE 295 d1q6oa_ 209 IAELW 213 : d1hkka1 296 L---- 296 HHsearch alignment (Probability: 0.01 E-value:0.71) d1q6oa_ 42 VRAVRDLKALYPHKIVLADA--------KIADAG----------KILSRMCFEANADWVT 83 :::::::::::::::::::: :::::: :::::::::::::::: d1hkka1 56 YQEFNGLKKMNPKLKTLLAIGGWNFGTQKFTDMVATANNRQTFVNSAIRFLRKYSFDGLD 115 d1q6oa_ 84 VICC 87 :::: d1hkka1 116 LDWE 119