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 <-- 1.377 --> Hit

SVM
score
SVM
score

The query (T515_B.pdb B) is transitively linked to the hit (d1gvea_) 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 d1gvea_ Aflatoxin aldehyde reductase (akr7a1)NAD(P)-​linked oxidoreductaseTIM 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 <-- 1.377 --> Hit
DALI alignment (Z-score: 11.6 Raw score:1205.00) d1q6oa_ 1 -LPMLQVAL-DNQT---MDSAYETTRLIAEE-VDIIEVGTilCVGEGvRAVRDLKALYP- 53 :::::::: :::: :::::::::::::: :::::::: ::::: ::::::::::: d1gvea_ 1 aRPATVLGAmEMGRrmdVTSSSRSVRAFLQRgHTEIDTAF--VYANG-QSETILGDLGLg 57 d1q6oa_ 54 ------HKIVLAdAKIA--------dAGKILSRMCFEAN----ADWVTVICCA----DIN 91 :::::: :::: ::::::::::::: :::::::::: ::: d1gvea_ 58 lgrsgcKVKIAT-KAAPmfgktlkpaDVRFQLETSLKRLqcprVDLFYLHFPDhgtpIEE 116 d1q6oa_ 92 TAKGALDVAKEFNG-DVQIELtgyWTWEQAQQWRDAG-------IGQVVYHRsrdaqaag 143 :::::::::::::: :::::: ::::::::::::: :::::::: d1gvea_ 117 TLQACHQLHQEGKFvELGLSN---YVSWEVAEICTLCkkngwimPTVYQGMY-------n 166 d1q6oa_ 144 VAWGeADIT-AIKRLSDMGFKVTVTGGL-------------------------------- 170 :::: :::: :::::::::::::::::: d1gvea_ 167 AITR-QVETeLFPCLRHFGLRFYAFNPLagglltgrykyqdkdgknpesrffgnpfsqly 225 d1q6oa_ 171 ----------------------------------ALEDL--PLFKG-IPIHVFIAGRsiR 193 ::::: ::::: :::::::::: : d1gvea_ 226 mdrywkeehfngialvekalkttygptapsmisaAVRWMyhHSQLKgTQGDAVILGM--S 283 d1q6oa_ 194 DAASPVEAARQFKRS---------------------iaelw 213 ::::::::::::::: d1gvea_ 284 SLEQLEQNLALVEEGplepavvdafdqawnlvahecpnyfr 324 FAST alignment (Normalized score: 7.14 Raw score:1877.00) d1q6oa_ 1 -LPMLQVALDN------QTMDSAYETTRLIAE-EVDIIEVGTILCVG--EGVRAVRDLKA 50 :::::::: ::::::::::::::: ::::::::: :::::::::: d1gvea_ 1 ARPATVLGA--MEMGRRMDVTSSSRSVRAFLQRGHTEIDTAF-----VYANGQSETILG- 52 d1q6oa_ 51 LY----------PHKIVLADAKIAD------------AGKILSRMCFE----ANADWVTV 84 :::::::: ::::::::::: :::::::: d1gvea_ 53 --DLGLGLGRSGCKVKIATK-----AAPMFGKTLKPADVRFQLETSLKRLQCPRVDLFYL 105 d1q6oa_ 85 ICCA-----DINTAKGALDVAKEFN----GDVQIELTG-YWTWEQAQQWRDA-------- 126 ::: ::::::::::::: ::::: :::::::::::: d1gvea_ 106 HFP-DHGTPIEETLQACHQLHQ---EGKFVELGL----SNYVSWEVAEICT-LCKKNGWI 156 d1q6oa_ 127 GIGQVVYHRSRDAQAAGVAW-----GEADI-TAIKRLSDMGFKVTVTGGL---------- 170 ::::::: ::::: :::::::::::::::: d1gvea_ 157 MPTVYQG-------------MYNAITRQVETELFPCLRHFGLRFYAF---NPLAGGLLTG 200 d1q6oa_ 171 --------------------------------------------------------ALED 174 :::: d1gvea_ 201 RYKYQDKDGKNPESRFFGNPFSQLYMDRYWKEEHFNGIALVEKALKTTYGPTAPSMISAA 260 d1q6oa_ 175 LPLF-KGIPI-----HVFIAGRSIRDAAS---PVEAARQFKRSIAELW------------ 213 :::: ::::: ::::: ::::::::::::: d1gvea_ 261 VRWMYHHSQLKGTQGDAVIL---------GMSSLEQLEQNLALVE---EGPLEPAVVDAF 308 d1q6oa_ 214 ---------------- 214 d1gvea_ 309 DQAWNLVAHECPNYFR 324 TMalign alignment (TM-score: 0.60 Raw score:127.21) d1q6oa_ 1 -------------------------------LPMLQVAL--DNQTMDSAYETTRLI-AEE 26 :::::::: :::: ::::::::: ::: d1gvea_ 1 ARPATVLGAMEMGRRMDVTSSSRSVRAFLQRGHTEIDTAFVYANG--QSETILGDLGLGL 58 d1q6oa_ 27 ------VDIIEVGTILCVG-E-----GV-RAVRDLKA--LYPHKIVLADAKIAD--AGKI 69 :::::::: ::: : :: :::::::: ::::::::::::::: :::: d1gvea_ 59 GRSGCKVKIATKAA--PMFGKTLKPADVRFQLETSLKRLQCPRVDLFYLHFPDHGTPIEE 116 d1q6oa_ 70 LSRMCFEAN----A-DWVTVICCADINTAKGALDVAK--EFNGDVQIELTG---Y-WTWE 118 ::::::::: : ::::::: : :::::::::::: :::::::::::: : :::: d1gvea_ 117 TLQACHQLHQEGKFVELGLSNY-V-SWEVAEICTLCKKNGWIMPTVYQGMYNAITRQVET 174 d1q6oa_ 119 Q-AQQWRDAGIGQVVYHRSRDAQ------------------AAG-----------V---- 144 : :::::: :::::::::::::: ::: : d1gvea_ 175 ELFPCLRH-FGLRFYAFNPLAGGLLTGRYKYQDKDGKNPESRFFGNPFSQLYMDRYWKEE 233 d1q6oa_ 145 ----------------------AWGEADITAIK-RLSDMGFKVTVTGGL-----ALEDLP 176 ::::::::::: ::::::::::::::: :::::: d1gvea_ 234 HFNGIALVEKALKTTYGPTAPSMISAAVRWMYHHSQLKGTQGDAVILGMSSLEQLEQNLA 293 d1q6oa_ 177 LFKGI--------------------------PIHVFIAGRSIRDAASPVEAARQFKRSIA 210 ::::: d1gvea_ 294 LVEEGPLEPAVVDAFDQAWNLVAHECPNYFR----------------------------- 324 d1q6oa_ 211 ELW 213 d1gvea_ 325 --- 325 HHsearch alignment (Probability: 0.03 E-value:1.10) d1q6oa_ 11 QTMDSAYETTR-LIAEEVDIIEVGTILCVGEGVRAVRDLKALY--PHKIVLADAKIADA- 66 ::::::::::: ::::::::::::::::::::::::::::::: :::::::::::::: d1gvea_ 16 MDVTSSSRSVRAFLQRGHTEIDTAFVYANGQSETILGDLGLGLGRSGCKVKIATKAAPMF 75 d1q6oa_ 67 ---------GKILSRMCFEANADWV---TVICC---ADINTAKGALDVAKEFNGDVQIEL 111 :::::::::::::::: ::::: :::::::::::::::::::::::: d1gvea_ 76 GKTLKPADVRFQLETSLKRLQCPRVDLFYLHFPDHGTPIEETLQACHQLHQEGKFVELGL 135 d1q6oa_ 112 TGY 114 ::: d1gvea_ 136 SNY 138