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 | d1saya1 | L-alanine dehydrogenase | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | α/β |
| Hit | d1dgma_ | Adenosine kinase | Ribokinase-like | Ribokinase-like | α/β |
Query <-- 0.833 --> IntermediateDALI alignment (Z-score: 4.0 Raw score:377.80) query 1 ----------------------GMEN------KKMNLLLfsgdydkALASLIIANAAREM 32 :::: ::::::: :::::::::::::: d1saya1 1 agrlsvqfgarflerqqggrgvLLGGvpgvkpGKVVILG------gGVVGTEAAKMAVGL 54 query 33 EIEVTIFCAfwGLLLLRdpekasqedkslyeqafssltpreaeelplskmnlggigkkml 92 ::::::::: :::::: d1saya1 55 GAQVQIFDI--NVERLS------------------------------------------- 69 query 93 lemmkeekapklsdlLSGARkkEVKFYAXqlsveimgfkkeelfpevqimDVKEYLKNAL 152 ::::: ::::::: :::::::::: d1saya1 70 -------------ylETLFG-sRVELLYS---------------------NSAEIETAVA 94 query 153 ESDLQLFI---------------------------------------------------- 160 :::::::: d1saya1 95 EADLLIGAvlvpgrrapilvpaslveqmrtgsvivdvavdqggcvetlhptshtqptyev 154 query 161 -------------- 161 d1saya1 155 fgvvhygvpnmpga 168 FAST alignment (Normalized score: 3.98 Raw score:652.10) query 1 GME-------------------------------NKKMNLLLFSGDYDK---ALASLIIA 26 :::::: :::::::: d1saya1 1 ---AGRLSVQFGARFLERQQGGRGVLLGGVPGVKPGKVVI---------LGGGVVGTEAA 48 query 27 NAAREMEIEVTIFCAFW-GLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNLG 85 :::::::::::::: :::: d1saya1 49 KMAVGLGAQVQIFD---INVER-------------------------------------- 67 query 86 GIGKKMLLEMMKEEKAPKLSDLLS--GARKK----EVKFYAXQLSVEIMGFKKEELFPEV 139 :::: :::::: d1saya1 68 ------------------------LSYLET-LFGSRVELLY------------------- 83 query 140 QIMDVKEYLKNALESDLQLFI--------------------------------------- 160 ::::::::::::::::: d1saya1 84 --SNSAEIETAVAEADLLI--GAVLVPGRRAPILVPASLVEQMRTGSVIVDVAVDQGGCV 139 query 161 ----------------------------- 161 d1saya1 140 ETLHPTSHTQPTYEVFGVVHYGVPNMPGA 168 TMalign alignment (TM-score: 0.40 Raw score:63.78) query 1 ----------------------GME------NKKMNLLLFSGDYDKALASLIIANAAREM 32 ::: :::::::: ::::::::::::::: d1saya1 1 AGRLSVQFGARFLERQQGGRGVLLGGVPGVKPGKVVILG------GGVVGTEAAKMAVGL 54 query 33 EIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNLGGIGKKML 92 ::::::::: :::::: : d1saya1 55 GAQVQIFDI--NVERLS------------------------Y------------------ 70 query 93 LEMMKEEKAPKLSDLLSGARKKEVKFYAXQLSVEIMGFKKEELFPEVQIMDVKEYLKNAL 152 ::::::: ::::::: :::::::::: d1saya1 71 --------------LETLFGS-RVELLYS---------------------NSAEIETAVA 94 query 153 ESDLQLF-I--------------------------------------------------- 160 ::::::: : d1saya1 95 EADLLIGAVLVPGRRAPILVPASLVEQMRTGSVIVDVAVDQGGCVETLHPTSHTQPTYEV 154 query 161 -------------- 161 d1saya1 155 FGVVHYGVPNMPGA 168 HHsearch alignment (Probability: 0.08 E-value:0.01) query 21 ASLIIANAAREMEIEVTIF 39 ::::::::::::::::::: d1saya1 43 VGTEAAKMAVGLGAQVQIF 61
Intermediate <-- 1.430 --> HitDALI alignment (Z-score: 3.7 Raw score:479.10) d1saya1 1 agrlsvqfgarflerqqggrgvllggvpgvkPGKVVILGGG------------------- 41 :::::::::: d1dgma_ 1 -----------------------------tgPMRVFAIGNPildlvaevpssfldefflk 31 d1saya1 42 ----------------------------VVGTEAAKMAVGLG---aQVQIFDINVER--l 68 :::::::::::::: ::::::::::: d1dgma_ 32 rgdatlatpeqmriystldqfnptslpgGSALNSVRVVQKLLrkpgSAGYMGAIGDDprg 91 d1saya1 69 SYLETLF-GSRVELLY---------------------------------SNSAEiETAVa 94 ::::::: :::::::: ::::: :::: d1dgma_ 92 QVLKELCdKEGLATRFmvapgqstgvcavlinekertlcthlgacgsfrLPEDW-TTFAs 150 d1saya1 95 EADLLIGAVLvpgRRAPILVP--aSLVEQmRTGSVIVDVA--vdQGGC-----vETLHpt 145 :::::::::: :::::::: ::::: :::::::::: :::: :::: d1dgma_ 151 GALIFYATAY-tlTATPKNAFevaGYAHG-IPNAIFTLNLsapfCVELykdamqSLLL-- 206 d1saya1 146 shtqptyevfgvvHYGVPN----------------------------------------- 164 :::::: d1dgma_ 207 -----------htNILFGNeeefahlakvhnlvtankehavevctgalrlltagqntgat 255 d1saya1 165 ----MPGA---------------------------------------------------- 168 :::: d1dgma_ 256 klvvMTRGhnpviaaeqtadgtvvvhevgvpvvaaekivdtngagdafvggflyalsqgk 315 d1saya1 169 ------------------------------- 169 d1dgma_ 316 tvkqcimcgnacaqdviqhvgfslsftslpc 346 FAST alignment (Normalized score: 2.52 Raw score:608.60) d1saya1 1 AGRLSVQFGARFLERQQGGRGVLLGGVPGVKPG----KVVILGGG--------------- 41 :::: d1dgma_ 1 ---------------------------------TGPMRVFA----IGNPILDLVAEVPSS 23 d1saya1 42 ------------------------------------VVGTEAAKMAVG-LGA--QVQIFD 62 :::::::::::: ::: :::::: d1dgma_ 24 FLDEFFLKRGDATLATPEQMRIYSTLDQFNPTSLPGGSALNSVRVVQKLLRKPGSAGYMG 83 d1saya1 63 I-------NVERLSYLETLFGSRVELLYSNS----------------------------- 86 :::::::::: :::::: d1dgma_ 84 -AIGDDPRGQVLKELCDK---EGLATR----FMVAPGQSTGVCAVLINEKERTLCTHLGA 135 d1saya1 87 -------AEIETAVAEADLLIGAVLVPGRRAPILV-----------PASLVEQ---MRTG 125 ::::::::::::::: :::::: :::: d1dgma_ 136 CGSFRLPEDWTTFASGALIFYA-------------TAYTLTATPKNAFEVAG-YAHGIPN 181 d1saya1 126 SVIVDVAVDQGGCVETLHPTSHTQPTYEVFGVV----------------------HYGVP 163 ::::: :::: d1dgma_ 182 AIFTL----------------------------NLSAPFCVELYKDAMQSLLLHTNILF- 212 d1saya1 164 NMPGA------------------------------------------------------- 168 d1dgma_ 213 -----GNEEEFAHLAKVHNLVTANKEHAVEVCTGALRLLTAGQNTGATKLVVMTRGHNPV 267 d1saya1 169 ------------------------------------------------------------ 169 d1dgma_ 268 IAAEQTADGTVVVHEVGVPVVAAEKIVDTNGAGDAFVGGFLYALSQGKTVKQCIMCGNAC 327 d1saya1 169 ------------------- 169 d1dgma_ 328 AQDVIQHVGFSLSFTSLPC 346 TMalign alignment (TM-score: 0.47 Raw score:78.71) d1saya1 1 AGRLSVQFGARFLERQQGGRGVLLGGVPGVKPGKVVILGGG------------------- 41 :: :::::::: ::: d1dgma_ 1 --------------------------TG-PMRVFAIG-NPILDLVAEVPSSFLDEFFLKR 32 d1saya1 42 --V-----------------------VGTEAAKMAVGLG--------AQVQIFDINVERL 68 : :::::::::::: ::::: : : d1dgma_ 33 GDATLATPEQMRIYSTLDQFNPTSLP-GGSALNSVRVVQKLLRKPGSAGYMG----A--I 85 d1saya1 69 S-Y-LETLFG--S------RVE----------------------------L--LY----- 83 : : :::::: : ::: : :: d1dgma_ 86 GDDPRGQVLKELCDKEGLATRFMVAPGQSTGVCAVLINEKERTLCTHLGACGSFRLPEDW 145 d1saya1 84 ------------------SNSAEIETAVA-E------ADLLIGAVLVPGRRAPI-LVPAS 117 ::::::::::: : ::::::::::: ::::: ::: : d1dgma_ 146 TTFASGALIFYATAYTLTATPKNAFEVAGYAHGIPNAIFTLNLSAPFC-VELYKDAMQ-S 203 d1saya1 118 LVEQMRTGSVIVDV--AVDQGG-CVETLHP-----TSH-TQP-TYE-VF------G-VVH 159 ::::: :::::: :::::: :::::: ::: :: ::: :: : ::: d1dgma_ 204 LLLHT---NILFGNEEEFAHLAK-VHNLVTANKEHAVEV-CTGALRLLTAGQNTGATKLV 258 d1saya1 160 YGVPNMPG--------------------A------------------------------- 168 : ::: :: : d1dgma_ 259 V-MTR-GHNPVIAAEQTADGTVVVHEVGVPVVAAEKIVDTNGAGDAFVGGFLYALSQGKT 316 d1saya1 169 ------------------------------ 169 d1dgma_ 317 VKQCIMCGNACAQDVIQHVGFSLSFTSLPC 346 HHsearch alignment (Probability: 0.01 E-value:0.27) d1saya1 31 KPGKVVILGGGVVGTEAAKMAVGLGAQVQIF 61 ::::::::::::::::::::::::::::::: d1dgma_ 78 SAGYMGAIGDDPRGQVLKELCDKEGLATRFM 108