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 | d1m72a_ | Caspase-1 | Caspase-like | Caspase-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 <-- 0.711 --> HitDALI alignment (Z-score: 3.9 Raw score:440.70) d1saya1 1 agrlsvqfgarflerqqggrgvllggVPGVKPGKVVILG--------------gGVVGTE 46 ::::::::::::: :::::: d1m72a_ 1 -----------rvarmpvdrnapyynMNHKHRGMAIIFNhehfdihslksrtgtNVDSDN 49 d1saya1 47 AAKMAVGLGAQVQIFDInverlsyletlfgsrvellySNSAEIETAVAE----------a 96 ::::::::::::::::: :::::::::::: d1m72a_ 50 LSKVLKTLGFKVTVFPN--------------------LKSEEINKFIQQtaemdhsdadc 89 d1saya1 97 DLLIGAVlvpgrRAPIL------vPASLVEQM---------rtGSVIVDVAVDQggcvet 141 ::::::: ::::: :::::::: ::::::::::: d1m72a_ 90 LLVAVLT--hgeLGMLYakdthykPDNLWYYFtadkcptlagkPKLFFIQACQG-drldg 146 d1saya1 142 lhptshtqptyeVFGVVHYGVP-------------------------------------- 163 :::::::::: d1m72a_ 147 gitlsrsyripvHADFLIAFSTvpgyfswrnttrgswfmqalceelryagterdiltllt 206 d1saya1 164 nMPGA------------------------------------ 168 :::: d1m72a_ 207 fVCQKvaldfesnapdsammhqqkqvpcitsmltrllvfgk 247 FAST alignment (Normalized score: 3.55 Raw score:722.70) d1saya1 1 AGRLSVQFGARFLERQQGGRGVLLGGVPG------------------VKPGKVVILGG-- 40 :::::::: d1m72a_ 1 -----------------------------RVARMPVDRNAPYYNMNHKHRGMAII---FN 28 d1saya1 41 ---------------GVVGTEAAKMAVGLGAQVQIFDINVERLSYLETLFGSRVELLYSN 85 ::::::::::::::::::::: :::: d1m72a_ 29 HEHFDIHSLKSRTGTNVDSDNLSKVLKTLGFKVTVF--------------------PNLK 68 d1saya1 86 SAEIETAVAEA------------DLLIGAVLVPGRRAPILV----------------PAS 117 ::::::::: :::::: ::: d1m72a_ 69 SEEINKFIQ--QTAEMDHSDADCLLVAVL------------THGELGMLYAKDTHYKPDN 114 d1saya1 118 LVEQMR----------TGSVIVDVAVDQGGCVETLHPTSHTQPTYEV------------- 154 ::::: :::::::: d1m72a_ 115 LWYYF-TADKCPTLAGKPKLFFIQ-----------------------ACQGDRLDGGITL 150 d1saya1 155 ---------FGVVHYGVPNMPGA------------------------------------- 168 :::::: d1m72a_ 151 SRSYRIPVHADFLIA--------FSTVPGYFSWRNTTRGSWFMQALCEELRYAGTERDIL 202 d1saya1 169 --------------------------------------------- 169 d1m72a_ 203 TLLTFVCQKVALDFESNAPDSAMMHQQKQVPCITSMLTRLLVFGK 247 TMalign alignment (TM-score: 0.48 Raw score:81.05) d1saya1 1 ----------AGRLSVQFGARFLERQQGGRGVLLGGVPGVKPGKVVILGG---------- 40 ::: :::: : ::::::::::: d1m72a_ 1 RVARMPVDRN--------------APY--YNMN--H---KHRGMAIIFNHEHFDIHSLKS 39 d1saya1 41 ----GVVGTEAAKMAVGLGAQVQIFDINVERLSYLETLFGSRVELLYS--N-SAEIETAV 93 ::::::::::::::::::::::: :: : :::::::: d1m72a_ 40 RTGTNVDSDNLSKVLKTLGFKVTVFPN-------------------LKSEEINKFIQQTA 80 d1saya1 94 AE------ADLLIGAVLVPGRR---AP----ILVPASLVEQM-------RT--GSVIVDV 131 :: :::::::: : :: :: ::::::::::: :: ::::::: d1m72a_ 81 EMDHSDADCLLVAVLT-H--GELGMLYAKDTHYKPDNLWYYFTADKCPTLAGKPKLFFIQ 137 d1saya1 132 AVDQGG---------------CVETLHPTSHTQPTYEVFG-VVHYGVP------------ 163 : ::: :::: ::::::: d1m72a_ 138 A--CQGDRLDGGITLSRSYRI---------------PVHADFLIAFSTVPGYFSWRNTTR 180 d1saya1 164 --NM--P----------------------GA----------------------------- 168 :: : :: d1m72a_ 181 GSWFMQALCEELRYAGTERDILTLLTFVCQKVALDFESNAPDSAMMHQQKQVPCITSMLT 240 d1saya1 169 ------- 169 d1m72a_ 241 RLLVFGK 247 HHsearch alignment (Probability: 0.12 E-value:0.30) d1saya1 42 VVGTEAAKMAVGLGAQVQIFDINVERLSYLETLFGSRVELLYSNSAEIE-TAVAEADLLI 100 ::::::::::::::::::::: ::::: :::::: :::: :::::::::: d1m72a_ 45 VDSDNLSKVLKTLGFKVTVFP-NLKSE-EINKFI-----------QQTAEMDHSDADCLL 91 d1saya1 101 GAVLVPGRRAPIL---------------VPASLVEQM--RTGSVIVDVAVDQGGCVETLH 143 :::::::::: :: ::::::::: :::::::::: ::::::::: d1m72a_ 92 VAVLTHGELG-MLYAKDTHYKPDNLWYYFTADKCPTLAGKPKLFFIQAC--QGDRLDGGI 148 d1saya1 144 PTSHTQPTYEVFGVV 158 ::::::::::::::: d1m72a_ 149 TLSRSYRIPVHADFL 163