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 <-- 0.889 --> Hit

SVM
score
SVM
score

The query (T517_A.pdb A) is transitively linked to the hit (d1h6da1) 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 d1h6da1 Glucose-​fructose oxidoreductase,​ N-​terminal domainNAD(P)-​binding Rossmann-​fold domainsNAD(P)-​binding Rossmann-​fold domainsα/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 <-- 0.889 --> Hit
DALI alignment (Z-score: 8.3 Raw score:880.60) d1qyca_ 1 ------------------------------GSRSRILLIGaTGYIGR-HVAKASLDL--g 27 :::::::::: :::::: ::::::::: d1h6da1 1 qaatlpagasqvpttpagrpmpyairpmpeDRRFGYAIVG-LGKYALnQILPGFAGCqhs 59 d1qyca_ 28 HPTFLLVRestassnseKAQLLESFKA-SGAN--IVHGSiddhASLVEAVKN--VDVVIS 82 :::::::: :::::::::: :::: ::::: ::::::::: :::::: d1h6da1 60 RIEALVSG---------NAEKAKIVAAeYGVDprKIYDY----SNFDKIAKDpkIDAVYI 106 d1qyca_ 83 TVGSLQIESQ-VNIIKAIkevgtvkRFFPSEfgndvdnvhavepaksVFEVKAKVRRAIE 141 :::::::::: ::::::: :::::: ::::::::::::: d1h6da1 107 ILPNSLHAEFaIRAFKAG------kHVMCEK------------pmatSVADCQRMIDAAK 148 d1qyca_ 142 AEGIPYTYVSSNcfagyflrslaqagltapprdkvvilgdgnarvvfvkeeDIGTFTIKA 201 :::::::::::: ::::::::: d1h6da1 149 AANKKLMIGYRC-------------------------------------hyNQFSAQLDH 171 d1qyca_ 202 VDDP----RTLNKTlylrlpantlslnelvalwekkidktlekayvpeeevLKLIADTpf 257 :::: :::::: ::::::: d1h6da1 172 LAEAvinnKPVRSP-----------------------geegmqdvrliqaiYEAARTG-- 206 d1qyca_ 258 panisiaishsifVKGDqtNFEIGPAgveasqlypdvkyttvdeylsnfv 307 :::: ::::::: d1h6da1 207 ----------rpvNTDW--GYVRQGG-----------------------y 221 FAST alignment (Normalized score: 5.34 Raw score:1390.00) d1qyca_ 1 ------------------------------GSRSRILLIGATGYIG-RHVAKASL-DLGH 28 :::::::::: ::::: :::::::: :::: d1h6da1 1 QAATLPAGASQVPTTPAGRPMPYAIRPMPEDRRFGYAIVG-LGKYALNQILPGFAGCQHS 59 d1qyca_ 29 P-TFLLVRESTASS--NSEKAQLLESFKASGANI--VHGSIDDHASLVEAV--KNVDVVI 81 : ::::: :::::::::: :::: :::::: :::::: ::::::: d1h6da1 60 RIEALVS-------GNAEKAKIVAAE---YGVD-PRKIYDYS---NFDKIAKDPKIDAVY 105 d1qyca_ 82 STVGSLQIESQVNIIKAIKEVGTVKRFFPSEFGNDVDNVHAVEPAKS------VFEVKAK 135 :::::: ::::::::::::: ::::: ::::::: d1h6da1 106 IILPNS---LHAEFAIRAFKAG--KHVMC------------------EKPMATSVADCQR 142 d1qyca_ 136 VRRAIEAEGIPYTYVSSNCFAGYFLRSLAQAGLTAPPRDKVVILGDGNARVVFVKEE--- 192 :::::::::::::::: d1h6da1 143 MIDAAKAANKKLMIGY-----------------------------------------RCH 161 d1qyca_ 193 -DIGTFTIKAVDDPRTLNKTLYLRLPANTLSLNE-----------------------LVA 228 ::::::::::: ::: d1h6da1 162 YNQFSAQLDHLA----------------------EAVINNKPVRSPGEEGMQDVRLIQAI 199 d1qyca_ 229 LWEKKIDKTLEKAYVPEEEVLKLIADTPFPANISIAISHSIFVKGDQTNFEIGPAGVEAS 288 :::::::::: d1h6da1 200 YEAARTGRPV-------------------------------------------------- 209 d1qyca_ 289 QLYPDVKYTTVDEYLSNFV------------ 307 d1h6da1 210 -------------------NTDWGYVRQGGY 221 TMalign alignment (TM-score: 0.43 Raw score:132.05) d1qyca_ 1 ----------------------------G-SRSRILLIGATGYIGR-HVAKASLDLG-HP 29 : :::::::::::::::: :::::::::: :: d1h6da1 1 QAATLPAGASQVPTTPAGRPMPYAIRPMPEDRRFGYAIVGLGKYALNQILPGFAGCQHSR 60 d1qyca_ 30 TFLLVRESTASSNSEKAQLLESFKASGANI-VHGSIDDHASLVEAVKNVDVVISTVGSLQ 88 :::::::::: : :::::::::::: ::::::::::::: ::::::::::::::: d1h6da1 61 IEALVSGNAE------K-AKIVAAEYGVDPRKIYDYSNFDKIAK-DPKIDAVYIILPNSL 112 d1qyca_ 89 IESQ-VNIIKAIKEVGTVKRFFPSEFGNDVDNVHAVEPAKSVFEVKAKVRRAIEAEGIPY 147 :::: ::::::: : :::::::: : : : :::::::::::::::: : d1h6da1 113 HAEFAIRAFKAG-----K--HVMCEKPM-A--------T-S-VADCQRMIDAAKAANK-K 153 d1qyca_ 148 TYVSSNCFAGYFLRSLAQAGLTAPPRDKVVILGDGNARVVFVKEEDIGTFTIKAVDDPR- 206 :::::: ::::: :::::::::::: d1h6da1 154 LMIGYR-----------------------------------CHYNQ-FSAQLDHLAEAVI 177 d1qyca_ 207 TLNKTLYL-------------RLPANTLSLNELVALWEKKIDKTLEKAYVPEEEVLKL-I 252 :::::::: :::::::: d1h6da1 178 NNKPVRSPGEEGMQDVRLIQA-----------------------------IYEAARTGR- 207 d1qyca_ 253 ADTPFPANISIAISHSIFVK-GDQTNFEIGPAGVEASQLYPDVKYTTVDEYLSNFV 307 :: :: : ::::: ::: d1h6da1 208 --------------PV--NTD-W--GYVRQ--GGY--------------------- 221 HHsearch alignment (Probability: 0.87 E-value:0.00) d1qyca_ 3 RSRILLIGATGYIGR-HVAKASLD-LGHPTFLLVRESTASSNSEKAQLLESFKASGANIV 60 ::::::::: ::::: :::::::: :::::::::::::: ::::::::: ::::: d1h6da1 33 RFGYAIVGL-GKYALNQILPGFAGCQHSRIEALVSGNAE-----KAKIVAAEY--GVDPR 84 d1qyca_ 61 HGSIDDHASLVEAV--KNVDVVISTVGSLQIESQVNIIKAIKEVGTVKRFFPSEFGNDVD 118 :::::::::::: :::::::::::: :::::::::::::: ::::::::: d1h6da1 85 --KIYDYSNFDKIAKDPKIDAVYIILPN---SLHAEFAIRAFKAG-KHVMCEKPM----- 133 d1qyca_ 119 NVHAVEPAKSVFEVKAKVRRAIEAEGIPYTYVSSNCFAGYFLRSLAQAGLTA 170 :::::::::::::::::::::::::::: ::::::::::::::: d1h6da1 134 --------ATSVADCQRMIDAAKAANKKLMIGYRCH-YNQFSAQLDHLAEAV 176