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 <-- 0.806 --> Intermediate <-- 0.987 --> Hit

SVM
score
SVM
score

The query (T515_B.pdb B) is transitively linked to the hit (d1k1xa3) through the intermediate protein (d1adoa_) by significant SVM score (>0.4).

  SCOP Id Protein SCOP Superfamily SCOP Fold SCOP
Class
Intermediate d1adoa_ Fructose-​1,​6-​bisphosphate aldolaseAldolaseTIM beta/​alpha-​barrelα/β
Hit d1k1xa3 4-​alpha-​glucanotransferase,​ N-​terminal domainGlycoside hydrolase/​deacetylase7-​stranded beta/​alpha barrelα/β

Supporting Alignments

Query <-- 0.806 --> Intermediate
DALI alignment (Z-score: 7.7 Raw score:922.40) query 1 mietpyylidkakltrnmeriahvreksGAKALLALKC---------------------- 38 :::::::::: d1adoa_ 1 ----phshpaltpeqkkelsdiahrivaPGKGILAADEstgsiakrlqsigtenteenrr 56 query 39 ---faTWSVfDLMRDYMDGTTSSSlFEVR-------lgRERFG---KETHAYSV------ 79 :::: :::::::::::::: :::: ::::: :::::::: d1adoa_ 57 fyrqlLLTAdDRVNPCIGGVILFH-ETLYqkaddgrpfPQVIKskgGVVGIKVDkgvvpl 115 query 80 ----------AYGD--NEIDEVVS-HADKIIFN---------------------SISQLE 105 :::: :::::::: :::::::: :::::: d1adoa_ 116 agtngetttqGLDGlsERCAQYKKdGADFAKWRcvlkigehtpsalaimenanvLARYAS 175 query 106 RFADKAagIARGLRLNPQ------------rlgeWDVPKVERVM---DRIN--GFMIHN- 147 :::::: :::::::::: :::::::::: :::: :::::: d1adoa_ 176 ICQQNG--IVPIVEPEILpdgdhdlkrcqyvtekVLAAVYKALSdhhIYLEgtLLKPNMv 233 query 148 -----ncenkDFGLFDRMLGEIEERFgaLIARVDWVSLGGGIHFTGddypvdAFSARLRA 202 :::::::::::::::: :::::::::::::::::: :::::::: d1adoa_ 234 tpghactqkySHEEIAMATVTALRRT--VPPAVTGVTFLSGGQSEE---easINLNAINK 288 query 203 fsdRYGVQIYLEPGEASITKS---TTLE----------vtvldtlynknlaivdssieah 249 :::::::::::::::::: :::: d1adoa_ 289 cplLKPWALTFSYGRALQASAlkaWGGKkenlkaaqeeyvkralanslacqgkytssgqa 348 query 250 mldlliYRETakvlpnegshsymicgksclagdvFGEFRfaeelkvgdrisfqdaagytm 309 :::: ::::: d1adoa_ 349 gaaaseSLFI------------------------SNHAY--------------------- 363 query 310 vkknwfngvkmpaiaireldgsvrtvreftyadyeqsls 348 d1adoa_ 364 --------------------------------------- 364 FAST alignment (Normalized score: 4.16 Raw score:1479.00) query 1 MIETPYYLIDKAKLTRNMERIAHVREKSG-------------------------AKALLA 35 :::::: d1adoa_ 1 -----------------------------PHSHPALTPEQKKELSDIAHRIVAPGKGILA 31 query 36 LKCFATWSV---------------------------------FDLMRDYMDGTTSSSLFE 62 : ::::::::::::: :::: d1adoa_ 32 A--------DESTGSIAKRLQSIGTENTEENRRFYRQLLLTADDRVNPCIGGVIL-FHET 82 query 63 VR--------LGRERFG-----KETHAYSVAY---------------------GDNEIDE 88 : ::::: ::::::: ::::::: d1adoa_ 83 L-YQKADDGRPFPQV--IKSKGGVVGIKV---DKGVVPLAGTNGETTTQGLDGLSERCAQ 136 query 89 VVS-HADKIIFN------------------SISQLERFADKA---AGIARGLRLNPQRLG 126 ::: ::::::: ::::::::::: :::::::::: d1adoa_ 137 YKKDGADFAKW-RCVLKIGEHTPSALAIMENANVLARYASI-CQQNGIVPIVEPE----- 189 query 127 EW----------------------DVPKVER---VMDRINGFMIHNNCEN---------- 151 ::::::: :::: ::::: d1adoa_ 190 --ILPDGDHDLKRCQYVTEKVLAAVYKALSDHHIYLEG-TLLKP------NMVTPGHACT 240 query 152 --KDFGLF-DRMLGEIEERFGAL-IARVDWVSLGGGIHFTGDDY----PVDAFSARLRAF 203 :::::: :::::::::: :::::::::: :::::::::::: d1adoa_ 241 QKYSHEEIAMATVTALRRT----VPPAVTGVTFL----------SGGQSEEEASINLNAI 286 query 204 SD----RYGVQIYLEPGEASITKSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRET 259 : ::::::::::::::::: d1adoa_ 287 N-KCPLLKPWALTFSYGRALQAS------------------------------------- 308 query 260 AKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVK 319 d1adoa_ 309 ------------------------------------------------------------ 309 query 320 MPAIAIRELDGSVRTVREFTYADYEQSLS------------------------------- 348 d1adoa_ 309 -----------------------------ALKAWGGKKENLKAAQEEYVKRALANSLACQ 339 query 349 ------------------------ 349 d1adoa_ 340 GKYTSSGQAGAAASESLFISNHAY 363 TMalign alignment (TM-score: 0.45 Raw score:156.45) query 1 -----------------------MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALK 37 :::::::::: d1adoa_ 1 PHSHPALTPEQKKELSDIAHRIV---------------------------APGKGILAAD 33 query 38 C----F------------------ATWSVFDLMRDY--MDGTTSSSLFEVRL-------G 66 : : :::::::::::: :::::::::::::: : d1adoa_ 34 ESTGSIAKRLQSIGTENTEENRRFYRQLLLTADDRVNPCIGGVILFHETLYQKADDGRPF 93 query 67 RERFG---KETHAYSV----------------AY--GDNEIDEVVS-HADKIIFN----- 99 ::::: :::::::: :: :::::::::: :::::::: d1adoa_ 94 PQVIKSKGGVVGIKVDKGVVPLAGTNGETTTQGLDGLSERCAQYKKDGADFAKWRCVLKI 153 query 100 ----------------SISQLERFADKAAGIARGLRLNP-------------Q---RLGE 127 :::::::::::: ::::::::: : :: d1adoa_ 154 GEHTPSALAIMENANVLARYASICQQNG--IVPIVEPEILPDGDHDLKRCQYVTEK--VL 209 query 128 WD-VPKVERVMDRIN-GFMIHNN-C-EN----KDFGLFDRMLGEIEERFGALIARVDWVS 179 :: :::::::::::: ::::::: : :: ::::::::::::::::::::::::::: d1adoa_ 210 AAVYKALSDHHIYLEGTLLKPNMVTPGHACTQ-KYSHEEIAMATVTALRRTVPPAVTGVT 268 query 180 LGGGIHFTGDDYPVDAFSARLRAFSDRYGVQIYLEPGEASITKS--TTLEV--------- 228 ::::::::: ::::::::::::: ::::::::::::::::::: ::::: d1adoa_ 269 FLSGGQSEE--EASINLNAINKCP-LLKPWALTFSYGRALQASALKAWGGKKENLKAAQE 325 query 229 ----------------------------TVLDTLYNKNLAIVDSSIEAHMLDLLIYRETA 260 :::: d1adoa_ 326 EYVKRALANSLACQGKYTSSGQAGAAAS----------------------------ESLF 357 query 261 KVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVKM 320 :: : ::: d1adoa_ 358 IS--N--------------------HAY-------------------------------- 363 query 321 PAIAIRELDGSVRTVREFTYADYEQSLS 348 d1adoa_ 364 ---------------------------- 364 HHsearch alignment (Probability: 0.02 E-value:0.30) query 148 NCENKDFGLFDRMLGEIEERFGAL--IARVDWVSLGGGIHFTGDDYPVDAFSARLRAFSD 205 :::::::::::::::::::::::: ::::::::::::: ::::::::::::::::: d1adoa_ 236 GHACTQKYSHEEIAMATVTALRRTVPPAVTGVTFLSGGQ----SEEEASINLNAINKCPL 291 query 206 RYGVQIYLEPGEASITKS 223 :::::::::::::::::: d1adoa_ 292 LKPWALTFSYGRALQASA 309
Intermediate <-- 0.987 --> Hit
DALI alignment (Z-score: 7.7 Raw score:947.70) d1adoa_ 1 phshpaltpeqkkelsdiahrivapgKGILAaDESTGsiakrlqsigtENTEENRRF-YR 59 ::::: ::::: ::::::::: :: d1k1xa3 1 --------------------merinfIFGIH-NHQPL--------gnfGWVFEEAYNrSY 31 d1adoa_ 60 QLLLTADDRVNPCIGGVILFHETLYQK--aDDGRPfpQVIKSK----GGVVGIK---VDK 110 ::::::::::::::::::::::::::: ::::: :::::: ::::::: ::: d1k1xa3 32 RPFMEILEEFPEMKVNVHFSGPLLEWIeenKPDYL--DLLRSLikrgQLEIVVAgfyEPV 89 d1adoa_ 111 GvvplagtngetttQGLD--GLSERCAQYKKDG------ADFAKWRCvlkigehtpsala 162 : :::: ::::::::::::: :::::::: d1k1xa3 90 L-------------AAIPkeDRLVQIEMLKDYArklgydAKGVWLTE------------- 123 d1adoa_ 163 imenanVLARYASICQQNGI-VPIVEPEilpdgdhdlkrcqyvtekVLAA--------vy 213 :::::::::::::: ::::::: :::: d1k1xa3 124 ----rvWQPELVKSLREAGIeYVVVDDY-----------------hFMSAglskeelfwp 162 d1adoa_ 214 kaLSDH-HIYLegTLLKPNMvtpghactqkysheeiamatvtalrrtvppavtgvtflSG 272 :::: :::: ::::::: :: d1k1xa3 163 yyTEDGgEVIT--VFPIDEK--------------------------------------LR 182 d1adoa_ 273 GQ----SEEEASINLNAInkCPLLKPWALTFSYG---ralqasALKAwggkkenLKAAqe 325 :: :::::::::::: :::::::::::::: :::: :::: d1k1xa3 183 YLipfrPVKKTIEYLESL--TSDDPSKVAVFHDDgekfgvwpgTYEW------vYEKG-- 232 d1adoa_ 326 EYVKRALANSLacQGKY------------------------------------------t 343 ::::::::::: :::: d1k1xa3 233 WLREFFDAITS--NEKInlmtyseylskftprglvylpiasyfemsewslpakqaklfve 290 d1adoa_ 344 ssgqagaaaseslfisnhay 363 d1k1xa3 291 fveqlkeegkfekyrvfvrg 310 FAST alignment (Normalized score: 2.85 Raw score:956.20) d1adoa_ 1 PHSHPALTPEQKKELSDIAHRIVAPGKGILAADESTGSIAKRLQSIGTENTEENRRFYRQ 60 d1k1xa3 1 ------------------------------------------------------------ 1 d1adoa_ 61 LLLTADDRVNPCIGGVILFHETLYQKADDGRPFPQVIKSKGGVVGIKVDKGVVPLAGTNG 120 d1k1xa3 1 ------------------------------------------------------------ 1 d1adoa_ 121 ETTTQGLDGLSERCAQYKKDGA-----DFAKWRCVLKIGEH-TPSALAIMENAN-VLARY 173 :::::::::: :::::::::::: ::::: d1k1xa3 1 ----------------------MERINFIFGIHNHQP----LGNFGWVFEEAYNRSYRPF 34 d1adoa_ 174 ASICQQ-NGIVPIVEPEILPDGDHDLKRCQYVTEKVLAAVYKALSDHHIYL--------- 223 :::::: ::::::::: :::::::::: d1k1xa3 35 MEILEEFPEMKVNVHF----------------SGPLLEWIEE---------NKPDYLDLL 69 d1adoa_ 224 ------EGTLLKPNMVTPGHACTQ-------KYSHEEIAMAT---VTALRRTVPPAVTG- 266 ::::::::: ::::::::::: :::::: d1k1xa3 70 RSLIKRGQLEIVVAG---------FYEPVLAAIPKEDRLVQIEMLKDYARK--------L 112 d1adoa_ 267 ----VTFLSGGQS-EEEASINLNAINKCPLLKPWA---LTFS-YGRALQASALKAWGGKK 317 ::::::::: :::::::::: :::: :::::::: d1k1xa3 113 GYDAKGVWLTERVWQPELVKSLRE-----------AGIEYVVVDDYHFMSA--------- 152 d1adoa_ 318 ENLKAAQEEYVKRALANSLACQGKYTSSGQAGAAASESLFISNHAY-------------- 363 d1k1xa3 153 ----------------------------------------------GLSKEELFWPYYTE 166 d1adoa_ 364 ------------------------------------------------------------ 364 d1k1xa3 167 DGGEVITVFPIDEKLRYLIPFRPVKKTIEYLESLTSDDPSKVAVFHDDGEKFGVWPGTYE 226 d1adoa_ 364 ------------------------------------------------------------ 364 d1k1xa3 227 WVYEKGWLREFFDAITSNEKINLMTYSEYLSKFTPRGLVYLPIASYFEMSEWSLPAKQAK 286 d1adoa_ 364 ------------------------ 364 d1k1xa3 287 LFVEFVEQLKEEGKFEKYRVFVRG 310 TMalign alignment (TM-score: 0.46 Raw score:167.36) d1adoa_ 1 ---PHSHPALTPEQKKELSDIAHRIVAPGKGILAADESTG-SIAKRLQSIGTENTEENRR 56 ::::::::::::: : ::::::::: d1k1xa3 1 MER------------------------INFIFGIHNHQPLG--N-------FGWVFEEAY 27 d1adoa_ 57 FY-RQLLLTADDRVNPCIGGVILFHETLY-QKADDGRPFPQVIKSK--G-GVVGIKVD-- 109 :: :::::::::::::::::::::::::: :::: ::::::::::: : :::::::: d1k1xa3 28 NRSYRPFMEILEEFPEMKVNVHFSGPLLEWIEEN-KPDYLDLLRSLIKRGQLEIVVAGFY 86 d1adoa_ 110 KGVVPLAGTNGETTTQGLDGLSERCAQYKKDGADFAKWRC--VLKIGEHTPSALAIMENA 167 ::::::: :::::::::::::::::::::::::::: ::: :: ::: d1k1xa3 87 EPVLAAI-----PKEDRLVQIEMLKDYARKLGYDAKGVWLTERVW---------QP-ELV 131 d1adoa_ 168 NVLARYASICQQNGIVPIVEPEILPDGDHDLKRCQYVTEKVLAAVYKALSDHHIYLEGTL 227 :::::: : :::::::::::::::::::::::::::::::::: : d1k1xa3 132 KSLREA-G--------IEYVVVDDYHFMSAGLSKEELFWPYYTEDGGEVI---------T 173 d1adoa_ 228 LKPNMVTPGHACTQKYSHEEIAMATVTALRRTVPPAVTGVTFLSGGQSE--E---EASIN 282 ::::: : : : :::: : ::::: d1k1xa3 174 VFPID-E----------K-------------------------L-RYLIPFRPVKKTIEY 196 d1adoa_ 283 LNAINKCPLLKPWALTFSYGRALQASAL--KAWGGKKENLKAAQEEYVKRALANSLACQG 340 :::: :::::: : ::::::: :::::: :::: ::::: :::::::::::::::: d1k1xa3 197 LESL-TSDDPS-K-VAVFHDD-GEKFGVWPGTYE----WVYEK-GWLREFFDAITSNEKI 247 d1adoa_ 341 KY---------------------------------------------------------- 342 :: d1k1xa3 248 NLMTYSEYLSKFTPRGLVYLPIASYFEMSEWSLPAKQAKLFVEFVEQLKEEGKFEKYRVF 307 d1adoa_ 343 ---TSSGQAGAAASESLFISNHAY 363 d1k1xa3 308 VRG--------------------- 310 HHsearch alignment (Probability: 0.00 E-value:0.39) d1adoa_ 310 LKAWGGKKENLKAAQEEYVKRALANSL 336 ::::::::::::::::::::::::::: d1k1xa3 275 MSEWSLPAKQAKLFVEFVEQLKEEGKF 301