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
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1m6ia2 | Apoptosis-inducing factor (AIF) | FAD/NAD(P)-binding domain | FAD/NAD(P)-binding domain | α/β |
| Hit | d1d4oa_ | Transhydrogenase domain III (dIII) | DHS-like NAD/FAD-binding domain | DHS-like NAD/FAD-binding domain | α/β |
Query <-- 1.321 --> IntermediateDALI alignment (Z-score: 3.4 Raw score:307.80) query 1 -------------------------------GMEN--KKMNLLLfsgdydkALASLIIAN 27 :::: ::::::: ::::::::: d1m6ia2 1 prslsaidragaevksrttlfrkigdfrsleKISRevKSITIIG------gGFLGSELAC 54 query 28 AAREME----IEVTIFCafwGLLLlrdpekasqedkslyeqafssltpreAEELPlskmn 83 :::::: ::::::: :::: ::::: d1m6ia2 55 ALGRKAralgTEVIQLF---PEKG------------------------nmGKILP----- 82 query 84 lggigkkmllemmkeekapKLSDLLSGARKKEVKFY--AXQLsveimgfkkeelfpevqi 141 ::::::::::::::::: :::: d1m6ia2 83 -----------------eyLSNWTMEKVRREGVKVMpnAIVQ-----svgvssgkllikl 120 query 142 mDVKEYlknalESDLQLF---i 160 ::::: ::::::: d1m6ia2 121 kDGRKV-----ETDHIVAavgl 137 FAST alignment (Normalized score: 3.45 Raw score:510.50) query 1 GME------------------------------------NKKMNLLLFSGDYDKALASLI 24 :::::: ::::::::::::: d1m6ia2 1 ---PRSLSAIDRAGAEVKSRTTLFRKIGDFRSLEKISREVKSITI--IGGGFLGSELACA 55 query 25 IANAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNL 84 :::::::::::::::: d1m6ia2 56 LGRKARALGTEVIQLF-------------------------------------------- 71 query 85 GGIGKKMLLEMMKEEKAP-------------KLSDLLSGARKKEVKFYAXQLSVEIMGFK 131 ::::::::::::::::: d1m6ia2 72 ------------------PEKGNMGKILPEYLSNWTMEKVRREGVKVM------------ 101 query 132 KEELFPEVQIMDVKEYLKNA-------------------LESDLQLFI----- 160 ::::: ::::::: d1m6ia2 102 --------PNAIV-------QSVGVSSGKLLIKLKDGRKVETDHIV--AAVGL 137 TMalign alignment (TM-score: 0.37 Raw score:59.83) query 1 -------------GMENK-KMNLLLFSGDYDKALASLIIANAAREMEIEVTIFCAFWGLL 46 : :::::: ::::::::::::::::::::::::::::: d1m6ia2 1 PRSLSAIDRAGAE----VKSRTTLF------RKIGDFRSLEKISREVKSITIIGGGFLGS 50 query 47 LLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNLGGIGKKMLLEMMKEEKAPKLSD 106 ::: : : d1m6ia2 51 ELA------------------------C------------------------------A- 55 query 107 LLSGARKK-EVKFYAXQLSV--EI-M-G--FK--KEELFP--EVQIM-DVKEYLKNALE- 153 :::::::: ::::::::::: :: : : :: :::::: ::::: ::: :: ::: d1m6ia2 56 LGRKARALGTEVIQLFPEKGNMGKILPEYLSNWTMEKVRREGVKVMPNAIV--QS-VGVS 112 query 154 ---S------------DLQLFI--- 160 : :::::: d1m6ia2 113 SGKLLIKLKDGRKVETDHIVAAVGL 137 HHsearch alignment (Probability: 0.03 E-value:0.11) query 4 NKKMNLLLFSGDYDKALASLIIANAAREMEIEVTIF 39 :::::::::::::::::::::::::::::::::::: d1m6ia2 35 REVKSITIIGGGFLGSELACALGRKARALGTEVIQL 70
Intermediate <-- 0.686 --> HitDALI alignment (Z-score: 3.2 Raw score:319.30) d1m6ia2 1 prslsaidragaevksrttlfrKIGDfRSLEKISREVKSITIIGGGFL----gSELACAL 56 :::: ::::::::::::::::::::: ::::::: d1d4oa_ 1 ------------------gthtEINL-DNAIDMIREANSIIITPGYGLcaakaQYPIADL 41 d1m6ia2 57 GRKARALGTEVIQLFPEKgnMGKILpeylsNWTME-KVRRegvKVMPnaivqsvgvssgk 115 :::::::::::::::::: ::::: ::::: :::: :::: d1d4oa_ 42 VKMLSEQGKKVRFGIHPV--AGRMP--gqlNVLLAeAGVP-ydIVLE------------- 83 d1m6ia2 116 lliklkdgRKVE--TDHIVAAV-------------------------------------- 135 :::: :::::::: d1d4oa_ 84 ----mdeiNHDFpdTDLVLVIGandtvnsaaqedpnsiiagmpvlevwkskqvivmkrsl 139 d1m6ia2 136 ------------------------------------gl 137 d1d4oa_ 140 gvgyaavdnpifykpntamllgdakktcdalqakvres 177 FAST alignment (Normalized score: 3.05 Raw score:475.30) d1m6ia2 1 PRSLSAIDRAGAEVKSRTTLFRKIG------DFRSLEKISREVKSITIIGGGFL-----G 49 ::::::::::::::::: ::::: : d1d4oa_ 1 -------------------------GTHTEINLDNAIDMIREANSIII-TPGYGLCAAKA 34 d1m6ia2 50 SELACALGRKARALGTEVIQLFPEKGNMG----KILPEYLSNWTMEKVRREGVKVMPNAI 105 :::::::::::::::::::::: :::: ::::::::: d1d4oa_ 35 QYPIADLVKMLSEQGKKVRFGI-------HPVAGRMP-GQLNVLLAE------------- 73 d1m6ia2 106 VQSVGVSSGKLLIKLKDGRK------------------VETDHIVAAVGL---------- 137 :::::::: d1d4oa_ 74 --------------------AGVPYDIVLEMDEINHDFPDTDLVLV----IGANDTVNSA 109 d1m6ia2 138 ------------------------------------------------------------ 138 d1d4oa_ 110 AQEDPNSIIAGMPVLEVWKSKQVIVMKRSLGVGYAAVDNPIFYKPNTAMLLGDAKKTCDA 169 d1m6ia2 138 -------- 138 d1d4oa_ 170 LQAKVRES 177 TMalign alignment (TM-score: 0.47 Raw score:64.88) d1m6ia2 1 --PRSLSAIDRAGAEVKSRTTLFRKIGDFRSLEKISREVKSITIIGGGFLG---SE-LAC 54 : : ::: ::::::::::::::::::::::: :: ::: d1d4oa_ 1 GT--------------H----T--EIN-LDNAIDMIREANSIIITPGYGLCAAKAQYPIA 39 d1m6ia2 55 ALGRKARALGTEVIQLFPEKGNMGKILPEYLSNWTME--KVRREGVKVMPNAIVQSVGVS 112 :::::::::::::::::::: :::: :: ::::::: :::: ::::: : d1d4oa_ 40 DLVKMLSEQGKKVRFGIHPV--AGRM-PG-QLNVLLAEAGVPY--DIVLE-M-------- 84 d1m6ia2 113 SGKLLIKLKDGRKV--ETDHIVAA-VG--------------------------------- 136 : ::::: :::::::: :: d1d4oa_ 85 -------D-EINHDFPDTDLVLVIGANDTVNSAAQEDPNSIIAGMPVLEVWKSKQVIVMK 136 d1m6ia2 137 ---L------------------------------------- 137 : d1d4oa_ 137 RSLGVGYAAVDNPIFYKPNTAMLLGDAKKTCDALQAKVRES 177 HHsearch alignment (Probability: 0.05 E-value:0.08) d1m6ia2 23 KIGDFRSLEKISREVKSITIIGGGFLGSEL----ACALGRKARALGTEVIQL 70 ::::: :::::::::::::::::::::: :::::::::::::::::: d1d4oa_ 7 NLDNA---IDMIREANSIIITPGYGLCAAKAQYPIADLVKMLSEQGKKVRFG 55