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: T517_A.pdb A
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL


Query <-- 0.813 --> Intermediate <-- 0.653 --> Hit

SVM
score
SVM
score

The query (T517_A.pdb A) is transitively linked to the hit (d1q74a_) through the intermediate protein (d1qyca_) by significant SVM score (>0.4).

  SCOP Id Protein SCOP Superfamily SCOP Fold SCOP
Class
Intermediate d1qyca_ Phenylcoumaran benzylic ether reductaseNAD(P)-​binding Rossmann-​fold domainsNAD(P)-​binding Rossmann-​fold domainsα/β
Hit d1q74a_ 1D-​myo-​inosityl 2-​acetamido-​2-​deoxy-​alpha-​D-​glucopyranoside deacetylase MshDLmbE-​likeLmbE-​likeα/β

Supporting Alignments

Query <-- 0.813 --> Intermediate
DALI alignment (Z-score: 4.9 Raw score:359.30) query 1 gMENKKMNLLLfsgdydkALASLIIANAAREMEIEVTIFCAfwglllLRDPekasqedks 60 :::::::::: ::::::::::::::::::::::: :::: d1qyca_ 1 -GSRSRILLIG-----atGYIGRHVAKASLDLGHPTFLLVR-----eSTAS--------- 40 query 61 lyeqafssltpREAEelplskmnlggigkkmllemmkeekapkLSDLLSGARKKEVKFY- 119 :::: :::::::::::::::: d1qyca_ 41 -----------SNSE----------------------------KAQLLESFKASGANIVh 61 query 120 AXQLsveimgfkkeelfpevqimDVKEYLKNALESDLQLFI------------------- 160 :::: :::::::::::::::::: d1qyca_ 62 GSID-------------------DHASLVEAVKNVDVVISTvgslqiesqvniikaikev 102 query 161 ------------------------------------------------------------ 161 d1qyca_ 103 gtvkrffpsefgndvdnvhavepaksvfevkakvrraieaegipytyvssncfagyflrs 162 query 161 ------------------------------------------------------------ 161 d1qyca_ 163 laqagltapprdkvvilgdgnarvvfvkeedigtftikavddprtlnktlylrlpantls 222 query 161 ------------------------------------------------------------ 161 d1qyca_ 223 lnelvalwekkidktlekayvpeeevlkliadtpfpanisiaishsifvkgdqtnfeigp 282 query 161 ------------------------- 161 d1qyca_ 283 agveasqlypdvkyttvdeylsnfv 307 FAST alignment (Normalized score: 3.09 Raw score:685.40) query 1 GMENKKMNLLLFSGDYDK----ALASLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQ 56 :::::::: ::::::::::::::::::::::: d1qyca_ 1 -GSRSRILL---------IGATGYIGRHVAKASLDLGHPTFLLVR--------------- 35 query 57 EDKSLYEQAFSSLTPREAEELPLSKMNLGGIGKKMLLEMMKEEKAP--------KLSDLL 108 :::::: d1qyca_ 36 ----------------------------------------------ESTASSNSEKAQLL 49 query 109 SGARKKEVKFYAXQLSVEIMGFKKEELFPEVQI----MDVKEYLKNALESDLQLFI---- 160 ::::::::::: ::::::::::::::::: d1qyca_ 50 ESFKASGANIV----------------------HGSIDDHASLVEAVKNVDVVI--STVG 85 query 161 ------------------------------------------------------------ 161 d1qyca_ 86 SLQIESQVNIIKAIKEVGTVKRFFPSEFGNDVDNVHAVEPAKSVFEVKAKVRRAIEAEGI 145 query 161 ------------------------------------------------------------ 161 d1qyca_ 146 PYTYVSSNCFAGYFLRSLAQAGLTAPPRDKVVILGDGNARVVFVKEEDIGTFTIKAVDDP 205 query 161 ------------------------------------------------------------ 161 d1qyca_ 206 RTLNKTLYLRLPANTLSLNELVALWEKKIDKTLEKAYVPEEEVLKLIADTPFPANISIAI 265 query 161 ------------------------------------------ 161 d1qyca_ 266 SHSIFVKGDQTNFEIGPAGVEASQLYPDVKYTTVDEYLSNFV 307 TMalign alignment (TM-score: 0.36 Raw score:58.19) query 1 GMENKKMNLLLFSGDYDKALASLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKS 60 :: ::::::::::::::::::::::::: : ::::::: :: d1qyca_ 1 GS--RSRILLIGATGYIGRHVAKASLDLG----H-PTFLLVR--ES-------------- 37 query 61 LYEQAFSSLTPR-EAEELPLSKMNLGGIGKKMLLEMMKEEKAPKLSDLLSGARKKEVKFY 119 ::::::: ::: : :: ::::: :::: d1qyca_ 38 -----TASSNSEKAQL-L--------------------------ES-FKASG----ANIV 60 query 120 AXQLSVE-IMGFKKEELFPEVQIMDVKEYLKNALESDLQLFI------------------ 160 ::::: : :::::::::: : ::::: d1qyca_ 61 HGSID-DH---------------ASLVEAVKNV--D-VVISTVGSLQIESQVNIIKAIKE 101 query 161 ------------------------------------------------------------ 161 d1qyca_ 102 VGTVKRFFPSEFGNDVDNVHAVEPAKSVFEVKAKVRRAIEAEGIPYTYVSSNCFAGYFLR 161 query 161 ------------------------------------------------------------ 161 d1qyca_ 162 SLAQAGLTAPPRDKVVILGDGNARVVFVKEEDIGTFTIKAVDDPRTLNKTLYLRLPANTL 221 query 161 ------------------------------------------------------------ 161 d1qyca_ 222 SLNELVALWEKKIDKTLEKAYVPEEEVLKLIADTPFPANISIAISHSIFVKGDQTNFEIG 281 query 161 -------------------------- 161 d1qyca_ 282 PAGVEASQLYPDVKYTTVDEYLSNFV 307 HHsearch alignment (Probability: 0.02 E-value:0.33) query 89 KKMLLEMMKEEKAPKLSDLLSGARKKEVKFYAXQLSVEIMGFKKEELFPEVQIMDVKEYL 148 ::::::::::::: :::::::::::::::::::::::::::::::::::::::::::::: d1qyca_ 245 EEEVLKLIADTPF-PANISIAISHSIFVKGDQTNFEIGPAGVEASQLYPDVKYTTVDEYL 303 query 149 KN 150 :: d1qyca_ 304 SN 305
Intermediate <-- 0.653 --> Hit
DALI alignment (Z-score: 6.7 Raw score:748.10) d1qyca_ 1 gSRSRILLIG----aTGYIGRHVAKASLDLGHPTFLLVRESTA----------------- 39 ::::::::: :::::::::::::::::::::::::::: d1q74a_ 1 -ETPRLLFVHahpddESLSNGATIAHYTSRGAQVHVVTCTLGEegevigdrwaqltadha 59 d1qyca_ 40 --SSNSEKAQLLESFKASGA-nIVHGS----------------------iDDHASLVEAV 74 :::::::::::::::::: ::::: :::::::::: d1q74a_ 60 dqLGGYRIGELTAALRALGVsaPIYLGgagrwrdsgmarsqrrfvdadprQTVGALVAII 119 d1qyca_ 75 K--NVDVVIS---tVGSL--QIES-QVNIIKAIKEVG-------TVKRFFPSEFGndvdn 119 : ::::::: :::: :::: :::::::::::: ::::::::::: d1q74a_ 120 RelRPHVVVTydpnGGYGhpDHVHtHTVTTAAVAAAGvhpgdpwTVPKFYWTVLG----- 174 d1qyca_ 120 vhavepaksvfevkakvrraieaegipytyvssNCFA-gYFLRSL-----aqAGLT---- 169 :::: :::::: :::: d1q74a_ 175 ---------------------------------LSALisGARALVpddlrpeWVLPrade 201 d1qyca_ 170 ---------------------------------apprdkvvilgdgnarvvfvKEEDI-- 194 ::::: d1q74a_ 202 iafgysddgidavveadeqaraakvaalaahatqvvvgptgraaalsnnlalpILADEhy 261 d1qyca_ 195 -----------gtftiKAVDDPrtlnktlylrlpantlslnelvalwekkidktlekayv 243 :::::: d1q74a_ 262 vlaggsagardergweTDLLAG-------------------------------------- 283 d1qyca_ 244 peeevlkliadtpfpanisiaishsifvkgdqtnfeigpagveasqlypdvkyttvdeyl 303 d1q74a_ 284 ------------------------------------------------------------ 284 d1qyca_ 304 snfv 307 d1q74a_ 284 lgft 287 FAST alignment (Normalized score: 3.09 Raw score:917.10) d1qyca_ 1 GSRSRILLIGAT--------GYIGRHVAKASLDLGHPTFLLVRESTASS----------- 41 ::::::: ::::::::::::::::::::::: d1q74a_ 1 -ETPRLLF----VHAHPDDESLSNGATIAHYTSRGAQVHVVTC------TLGEEGEVIGD 49 d1qyca_ 42 --------------NSEKAQLLESFKASGANIVHGSID---------------------- 65 :::::::::::::::: d1q74a_ 50 RWAQLTADHADQLGGYRIGELTAALRALGV--------SAPIYLGGAGRWRDSGMARSQR 101 d1qyca_ 66 ---------DHASLVEAVK--NVDVVISTVG---------SLQIE-SQVNIIKAIKEV-- 102 :::::::::: :::::: ::::: ::::::::::: d1q74a_ 102 RFVDADPRQTVGALVAIIRELRPHVVV----TYDPNGGYGHPDHVHTHTVTTAAVAA-AG 156 d1qyca_ 103 ------GTVKRFFPSEFGNDVDNVHAVEPAKSVFEVKAKVRRAIEAEGIPYTYVSSNCFA 156 :::::::::::: d1q74a_ 157 VHPGDPWTVPKFYWTVLG------------------------------------------ 174 d1qyca_ 157 GYFLRSLAQAGLTAPPRDKVVILGDGNARVVFVKEEDIGTFTIKAVDDPRTLNKTLYLRL 216 d1q74a_ 175 ------------------------------------------------------------ 175 d1qyca_ 217 PANTLSLNELVALWEKKIDKTLEKAYVPEEEVLKLIADTPFPANISIAISHSIFVKGDQT 276 d1q74a_ 175 ------------------------------------------------------------ 175 d1qyca_ 277 NFEIGPAGVEASQLYPDVKYTTVDEYLSNFV----------------------------- 307 d1q74a_ 175 -------------------------------LSALISGARALVPDDLRPEWVLPRADEIA 203 d1qyca_ 308 ------------------------------------------------------------ 308 d1q74a_ 204 FGYSDDGIDAVVEADEQARAAKVAALAAHATQVVVGPTGRAAALSNNLALPILADEHYVL 263 d1qyca_ 308 ------------------------ 308 d1q74a_ 264 AGGSAGARDERGWETDLLAGLGFT 287 TMalign alignment (TM-score: 0.40 Raw score:122.66) d1qyca_ 1 GSRSRILLIG--ATG--YIGRHVAKASLDLGHPTFLLVRES-T-----------A----- 39 ::::::::: ::: :::::::::::::::::::::::: : : d1q74a_ 1 -ETPRLLFVHAHPDDESLSNGATIAHYTSRGAQVHVVTCTLGEEGEVIGDRWAQLTADHA 59 d1qyca_ 40 -SSN-SEKAQLLESFKA-SGANIVHGS----------------I--D----DHASLVEAV 74 ::: :::::::::::: ::::::::: : : ::::::::: d1q74a_ 60 DQLGGYRIGELTAALRALGVSAPIYLGGAGRWRDSGMARSQRRFVDADPRQTVGALVAII 119 d1qyca_ 75 K-N-VDVVIST---VGS-L-QIES-QVNIIKAIKEVG-------TVKRFFPSEFGND--- 116 : : ::::::: ::: : :::: :::::::::::: ::::::::::::: d1q74a_ 120 RELRPHVVVTYDPNGGYGHPDHVHTHTVTTAAVAAAGVHPGDPWTVPKFYWTVLGLSALI 179 d1qyca_ 117 ------------------VDNVHAVEPAKSVFEVKA--KVRRAIEAEGIPYTYVSS---- 152 :::::::: :: : :::::: d1q74a_ 180 SGARALVPDDLRPEWVLP-------RADEIAFG-YSDD--G---------IDAVVEADEQ 220 d1qyca_ 153 ----NCFA-----------GY--FLRS---LAQAGLTAPPRDKVVILGDGNARVVFVKEE 192 :: :: :::: :::: :::: d1q74a_ 221 ARAA--KVAALAAHATQVVVGPTGRAAALS---NNLA------------------LPIL- 256 d1qyca_ 193 DIGTFT----IKAVDDPRTLNKTLYLRLPANTLSLNELVALWEKKIDKTLEKAYVPEEEV 248 ::: :: :::::: : d1q74a_ 257 ADE-HYVLAG---GSAGAR----D------------------------------------ 272 d1qyca_ 249 LKLIADTPFPANISIAISHSIFVKGDQTNFEIGPAGVEAS--QLY-----PDVKYTTVDE 301 :: ::::: : d1q74a_ 273 ------------------------------ER---GWETDLL--AGLGFT---------- 287 d1qyca_ 302 YLSNFV 307 d1q74a_ 288 ------ 288 HHsearch alignment (Probability: 0.02 E-value:1.00) d1qyca_ 19 VAKASLDLGHPTFLLVR 35 ::::::::::::::::: d1q74a_ 22 TIAHYTSRGAQVHVVTC 38