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: T0582_Ad1.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL


Query <-- 0.969 --> Intermediate <-- 0.975 --> Hit

HHsearch
probability
HHsearch
probability

The query (T0582_Ad1.pdb) is transitively linked to the hit (d1e5sa_) through the intermediate protein (d1vj2a_) by significant HHsearch probability (>0.9).

  SCOP Id Protein SCOP Superfamily SCOP Fold SCOP
Class
Intermediate d1vj2a_ Hypothetical protein TM1459RmlC-​like cupinsDouble-​stranded beta-​helixAll β
Hit d1e5sa_ Type II Proline 3-​hydroxylase (proline oxidase)Clavaminate synthase-​likeDouble-​stranded beta-​helixAll β

Supporting Alignments

Query <-- 0.969 --> Intermediate
DALI alignment (Z-score: 11.8 Raw score:636.30) query 1 meinadftkPVVIDTDQLEWRPSP---MKGVERRMLDRIGgevaRATSIVRYAPGSRFSA 57 ::::::::::::::: ::::::::::::: :::::::::::::::: d1vj2a_ 1 ---------MILKRAYDVTPQKIStdkVRGVRKRVLIGLKdapnFVMRLFTVEPGGLIDR 51 query 58 HTHDGGEEFIVLDGVFQDE----HGDYPAGTYVRNPPTTSHVPGSAE--GCTIFVKLWQF 111 ::::::::::::::::::: :::::::::::::::::::::::: ::::::::::: d1vj2a_ 52 HSHPWEHEIFVLKGKLTVLkeqgEETVEEGFYIFVEPNEIHGFRNDTdsEVEFLCLIPKE 111 query 112 dpadrtqfsknm 123 d1vj2a_ 112 ---------gge 114 FAST alignment (Normalized score: 9.80 Raw score:1161.00) query 1 MEINADFTKPVVIDTDQLEWRPS----PMKGVERRMLDRIGGEVA-------RATSIVRY 49 ::::::::::::: ::::::::::: :::::::: d1vj2a_ 1 ---------MILKRAYDVTPQK-ISTDKVRGVRKRVLI-------GLKDAPNFVMRLFTV 43 query 50 APGSRFSAHTHDGGEEFIVLDGVFQDE-----HGDYPAGTYVRNPPTTSHVPGS--AEGC 102 :::::::::::::::::::::::::: :::::::::::::::::::::: :::: d1vj2a_ 44 EPGGLIDRHSHPWEHEIFVLKGKLTV-LKEQGEETVEEGFYIFVEPNEIHGFRNDTDSEV 102 query 103 TIFVKLWQFDPADRTQFSKNM----- 123 ::::::: d1vj2a_ 103 EFLCLIP--------------KEGGE 114 TMalign alignment (TM-score: 0.68 Raw score:83.64) query 1 MEINADFTKPVVIDTDQLEWRPSP---MKGVERRMLDRIG----GEVARATSIVRYAPGS 53 ::::::::::::::: ::::::::::::: :::::::::::: d1vj2a_ 1 ---------MILKRAYDVTPQKISTDKVRGVRKRVLIGLKDAPN----FVMRLFTVEPGG 47 query 54 RFSAHTHDGGEEFIVLDGVFQD----EHGDYPAGTYVRNPPTTSHVPGSAE--GCTIFVK 107 :::::::::::::::::::::: ::::::::::::::::::::::::: ::::::: d1vj2a_ 48 LIDRHSHPWEHEIFVLKGKLTVLKEQGEETVEEGFYIFVEPNEIHGFRNDTDSEVEFLCL 107 query 108 LWQF---DPADRTQFSKNM 123 :::: d1vj2a_ 108 IPKEGGE------------ 114 HHsearch alignment (Probability: 0.97 E-value:0.00) query 13 IDTDQLEWRPSPMKGVERRMLDRIGGEVARATSIVRYAPGSRFSAHTHDGGEEFIVLDGV 72 :::::::::: :::::::::::::::::::::::::::::::::::::::::::::::: d1vj2a_ 9 VTPQKISTDK--VRGVRKRVLIGLKDAPNFVMRLFTVEPGGLIDRHSHPWEHEIFVLKGK 66 query 73 ----FQDEHGDYPAGTYVRNPPTTSHVPGS--AEGCTIFV 106 :::::::::::::::::::::::::: :::::::: d1vj2a_ 67 LTVLKEQGEETVEEGFYIFVEPNEIHGFRNDTDSEVEFLC 106
Intermediate <-- 0.975 --> Hit
DALI alignment (Z-score: 8.2 Raw score:550.70) d1vj2a_ 1 -----------------milkRAYDVTPQkisTDKVRGVRKRVLIGLKD----------- 32 :::::::: ::::::::::::::::: d1e5sa_ 1 mrshilgkieldqtrlapdlaYLAAVPTV--eEFSNGFWKHVPLWNQPTahvehvpylke 58 d1vj2a_ 33 --------aPNFVMRLFTVEpGGLIDRHSHP-WEHEIFVLKGK--LTVLKEQGEETVEEG 81 ::::::::::: :::::::::: ::::::::::: ::::::::::::::: d1e5sa_ 59 ivttvfdgtHLQMARSRNLK-NAIVIPHRDFrYFRTFMVLEDSplAFHSNEDTVIHMRPG 117 d1vj2a_ 82 FYIFVEPNEIHGFRNDTDSEVEFLCLIPKE------------------------------ 111 :::::::::::::::::::::::::::::: d1e5sa_ 118 EIWFLDAATVHSAVNFSEISRQSLCVDFAFdgpfdekeifadatlyapgstpdlperrpf 177 d1vj2a_ 112 ------------------------------------------------------------ 112 d1e5sa_ 178 taehrrrilslgqvierenfrdilfllskvhykydvhpsetydwlieiskqagdekmvvk 237 d1vj2a_ 112 --------------------gge 114 d1e5sa_ 238 aeqirdfavearalserfsltsw 260 FAST alignment (Normalized score: 6.43 Raw score:1106.00) d1vj2a_ 1 MILK---------------------RAYDVTPQKISTDKVR-GVRKRVLIGLKDAPN--- 35 :::::::: ::::: :::::::: d1e5sa_ 1 ----MRSHILGKIELDQTRLAPDLAYLAAVPTV---EEFSNGFWKHVPLW-------NQP 46 d1vj2a_ 36 -----------------------FVMRLFTVEPGGLIDRHS-HPWEHEIFVLK--GKLTV 69 ::::::::: :::::::: ::::::::::: ::::: d1e5sa_ 47 TAHVEHVPYLKEIVTTVFDGTHLQMARSRNLK-NAIVIPHRDFRYFRTFMVLEDSPLAFH 105 d1vj2a_ 70 LKEQGEETVEEGFYIFVEPNEIHGFRNDTDSEVEFLCLIPKEGGE--------------- 114 :::::::::::::::::::::::::::::::::::::::: d1e5sa_ 106 SNEDTVIHMRPGEIWFLDAATVHSAVNFSEISRQSLCVDF-----AFDGPFDEKEIFADA 160 d1vj2a_ 115 ------------------------------------------------------------ 115 d1e5sa_ 161 TLYAPGSTPDLPERRPFTAEHRRRILSLGQVIERENFRDILFLLSKVHYKYDVHPSETYD 220 d1vj2a_ 115 ---------------------------------------- 115 d1e5sa_ 221 WLIEISKQAGDEKMVVKAEQIRDFAVEARALSERFSLTSW 260 TMalign alignment (TM-score: 0.69 Raw score:78.85) d1vj2a_ 1 ------------------MILKR--AY-DVTPQKISTDKVR-GVRKRVLIGLKDA----- 33 : :: :::::: :: :: ::::::::: :: d1e5sa_ 1 MRSHILGKIELDQTRLAP----DLAYLAAVPTVE--EF-SNGFWKHVPLWN--QPTAHVE 51 d1vj2a_ 34 ----------------PNFVMRLFTVEPGGLIDRHSHP-WEHEIFVLKGK--LTVLKEQG 74 ::::::::::: :::::::::: ::::::::::: :::::::: d1e5sa_ 52 HVPYLKEIVTTVFDGTHLQMARSRNLK-NAIVIPHRDFRYFRTFMVLEDSPLAFHSNEDT 110 d1vj2a_ 75 EETVEEGFYIFVEPNEIHGFRNDTDSEVEFLCLIPKE----------------------- 111 ::::::::::::::::::::::::::::::::::::: d1e5sa_ 111 VIHMRPGEIWFLDAATVHSAVNFSEISRQSLCVDFAFDGPFDEKEIFADATLYAPGSTPD 170 d1vj2a_ 112 ------------------------------------------------------------ 112 d1e5sa_ 171 LPERRPFTAEHRRRILSLGQVIERENFRDILFLLSKVHYKYDVHPSETYDWLIEISKQAG 230 d1vj2a_ 112 ------------------------------GGE 114 d1e5sa_ 231 DEKMVVKAEQIRDFAVEARALSERFSLTSW--- 260 HHsearch alignment (Probability: 0.98 E-value:0.00) d1vj2a_ 31 KDAPNFVMRLFTVEPGGLIDRHSH-PWEHEIF--VLKGKLTVLKEQGEETVEEGFYIFVE 87 :::::::::::::::::::::::: ::::::: :::::::::::::::::::::::::: d1e5sa_ 64 FDGTHLQMARSRNLKNAIVIPHRDFRYFRTFMVLEDSPLAFHSNEDTVIHMRPGEIWFLD 123 d1vj2a_ 88 PNEIHGFRNDTDSEVEFLCLI 108 ::::::::::::::::::::: d1e5sa_ 124 AATVHSAVNFSEISRQSLCVD 144