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 | d1l7da1 | Nicotinamide nucleotide transhydrogenase dI component | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | α/β |
| Hit | d1sb8a_ | UDP-N-acetylglucosamine 4-epimerase WbpP | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | α/β |
Query <-- 1.100 --> IntermediateDALI alignment (Z-score: 5.1 Raw score:345.40) query 1 ---------------GMEN----------KKMNLLLfsgdydkALASLIIANAAREMEIE 35 :::: ::::::: ::::::::::::::::: d1l7da1 1 agyravidgayefarAFPMmmtaagtvppARVLVFG------vGVAGLQAIATAKRLGAV 54 query 36 VTIFCafwgLLLLrdpekasqedkslyeqafssltpreaeelplskmnlggigkkmllem 95 ::::: :::: d1l7da1 55 VMATD----VRAA----------------------------------------------- 63 query 96 mkeekapklsdllSGARKKEVKFYAXQLsveimgfkkeelfpevqimDVKEYLKNALESD 155 ::::::::::::::: ::::::::::::: d1l7da1 64 -----------tkEQVESLGGKFITVKK-------------------QAEAVLKELVKTD 93 query 156 LQLFI------------------------------------------------------- 160 ::::: d1l7da1 94 IAITTalipgkpapvliteemvtkmkpgsviidlaveaggncplsepgkivvkhgvkivg 153 query 161 ------- 161 d1l7da1 154 htnvpsr 160 FAST alignment (Normalized score: 3.90 Raw score:624.80) query 1 GME----------------------------NKKMNLLLFSGDYDK---ALASLIIANAA 29 :::::: ::::::::::: d1l7da1 1 ---AGYRAVIDGAYEFARAFPMMMTAAGTVPPARVLV---------FGVGVAGLQAIATA 48 query 30 REMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNLGGIGK 89 :::::::::: d1l7da1 49 KRLGAVVMAT-------------------------------------------------- 58 query 90 KMLLEMMKEEKAPKLSD-----LLSGARKKEVKFYAXQLSVEIMGFKKEELFPEVQIM-- 142 :::::::::::::: d1l7da1 59 -----------------DVRAATKEQVESLGGKFIT----------------------VK 79 query 143 -DVKEYLKNALESDLQLFI----------------------------------------- 160 :::::::::::::::: d1l7da1 80 KQAEAVLKELVKTDIAI--TTALIPGKPAPVLITEEMVTKMKPGSVIIDLAVEAGGNCPL 137 query 161 ----------------------- 161 d1l7da1 138 SEPGKIVVKHGVKIVGHTNVPSR 160 TMalign alignment (TM-score: 0.23 Raw score:37.44) query 1 ------------------------------GMENKKMNLLLFSGDYDKALASLIIANAAR 30 d1l7da1 1 AGYRAVIDGAYEFARAFPMMMTAAGTVPPA------------------------------ 30 query 31 EMEIEVTIFCAFWGLLLLRDPEK--AS--QEDKSLYEQAFSSLTPREAE----------- 75 :: ::: ::::: :: :::::: : :: :: ::: d1l7da1 31 -----------RV-LVF-GVGVAGLQAIATAKRLG-A--VV--MA-TDVRAATKEQVESL 71 query 76 ---ELPL-SK-----------------MNLGGIGKKMLLEMMKEEKAPKLSDLLSGARKK 114 :::: :: ::::::: d1l7da1 72 GGKFITVKKQAEAVLKELVKTDIAITT--------------------------ALIPGKP 105 query 115 EVKFYA---X----QLSVEIMGFKKEELFPE---V----Q----IMDVKEY--------- 147 :::::: : :::: : : :::: : : ::::::: d1l7da1 106 APVLITEEMVTKMKPGSV----I-I--DLAVEAGGNCPLSEPGKIVVKHGVKIVGHTNVP 158 query 148 --LKNALESDLQLFI 160 d1l7da1 159 SR------------- 160 HHsearch alignment (Probability: 0.09 E-value:0.01) query 21 ASLIIANAAREMEIEVTIF 39 ::::::::::::::::::: d1l7da1 40 AGLQAIATAKRLGAVVMAT 58
Intermediate <-- 1.478 --> HitDALI alignment (Z-score: 5.9 Raw score:644.60) d1l7da1 1 agyravidgayefarAFPMmmtaagtvPPARVLVFGV-GVAGLQAIATAKRLGAVVMATD 59 :::: :::::::::: :::::::::::::::::::::: d1sb8a_ 1 -----mmsryeelrkELPA--------QPKVWLITGVaGFIGSNLLETLLKLDQKVVGLD 47 d1l7da1 60 VRA-aTKEQVESLG----------GKFIT-vkkQAEAVLKELVKTDIAITT-ALIPG--- 103 ::: ::::::::: ::::: :::::::::::::::::: ::::: d1sb8a_ 48 NFAtgHQRNLDEVRslvsekqwsnFKFIQgdirNLDDCNNACAGVDYVLHQaALGSVprs 107 d1l7da1 104 --------kpAPVL---ITEEMVTKMKpgSVIIDLA------------------------ 128 :::: :::::::::: ::::::: d1sb8a_ 108 indpitsnatNIDGflnMLIAARDAKV--QSFTYAAssstygdhpglpkvedtigkplsp 165 d1l7da1 129 ---vEAGGncPLSEpgkivvkHGVKIVGHTN----------------------------- 156 :::: :::: :::::::::: d1sb8a_ 166 yavtKYVN-eLYAD--vfsrcYGFSTIGLRYfnvfgrrqdpngayaavipkwtssmiqgd 222 d1l7da1 157 ---------------------------------------VPSR----------------- 160 :::: d1sb8a_ 223 dvyingdgetsrdfcyientvqanllaatagldarnqvyNIAVggrtslnqlffalrdgl 282 d1l7da1 161 ----------------------------------------------------------- 161 d1sb8a_ 283 aengvsyhrepvyrdfregdvrhsladiskaakllgyapkydvsagvalampwyimflk 341 FAST alignment (Normalized score: 4.40 Raw score:1027.00) d1l7da1 1 AGYRAVIDGAYEFARAFPMMMTAAGT-------------VPPARVLVFG-VGVAGLQAIA 46 :::::::::: :::::::::: d1sb8a_ 1 --------------------------MMSRYEELRKELPAQPKVWLITGVAGFIGSNLLE 34 d1l7da1 47 TAKRLGAVVMATD----VRAATKEQVESL--------GGKFITVKK------QAEAVLKE 88 ::::::::::::: ::::::::::: :::: :::::::: d1sb8a_ 35 TLLKLDQKVVGLDNFATGHQRNLDEVRS-LVSEKQWSNFKF-----IQGDIRNLDDCNNA 88 d1l7da1 89 LVKTDIAITTALIPGKPAPVLI-----------------------TEEMVTKMKPG---S 122 ::::::::::::: ::::::: : d1sb8a_ 89 CAGVDYVLHQAAL---------GSVPRSINDPITSNATNIDGFLNMLIAARD----AKVQ 135 d1l7da1 123 VIIDLAVEAGGNCPLSEPGKIVVK------------------------------------ 146 :::: d1sb8a_ 136 SFTY--------------------AASSSTYGDHPGLPKVEDTIGKPLSPYAVTKYVNEL 175 d1l7da1 147 ----------HGVKIVGHTNVPSR------------------------------------ 160 :::::::::: d1sb8a_ 176 YADVFSRCYGFSTIGLRYFN----VFGRRQDPNGAYAAVIPKWTSSMIQGDDVYINGDGE 231 d1l7da1 161 ------------------------------------------------------------ 161 d1sb8a_ 232 TSRDFCYIENTVQANLLAATAGLDARNQVYNIAVGGRTSLNQLFFALRDGLAENGVSYHR 291 d1l7da1 161 -------------------------------------------------- 161 d1sb8a_ 292 EPVYRDFREGDVRHSLADISKAAKLLGYAPKYDVSAGVALAMPWYIMFLK 341 TMalign alignment (TM-score: 0.62 Raw score:99.69) d1l7da1 1 ----AGYRAVI--DGAY-EFARAFPMMMTAAGTVPPARVLVFG-VGVAGLQAIATAKRLG 52 : :: ::::: :::::::: :::::::::::::::: d1sb8a_ 1 MMSR------YEE--LRK----ELPAQ--------PKVWLITGVAGFIGSNLLETLLKLD 40 d1l7da1 53 AVVMATDVRA-ATKEQVE--S--L----G--GKFITVK-KQAEAVLKELVKTDIAITT-A 99 :::::::::: ::::::: : : : ::::::: ::::::::::::::::::: : d1sb8a_ 41 QKVVGLDNFATGHQRNLDEVRSLVSEKQWSNFKFIQGDIRNLDDCNNACAGVDYVLHQAA 100 d1l7da1 100 LIPG--K-------P-APV-LIT--EEMVTKMKPGSVIIDLAV--E-------------- 130 :::: : : ::: ::: ::::::::: :::::::: : d1sb8a_ 101 LGSVPRSINDPITSNATNIDGFLNMLIAARDAKV-QSFTYAASSSTYGDHPGLPKVEDTI 159 d1l7da1 131 ----------AG-GNCPLSE-PGKIVVKHGVKIVGHT----------------------- 155 :: ::::::: :::::::::::: d1sb8a_ 160 GKPLSPYAVTKYVNELYADVF----SRCYGFSTIGLRYFNVFGRRQDPNGAYAAVIPKWT 215 d1l7da1 156 ----------------------------------------------NVPS---------- 159 :::: d1sb8a_ 216 SSMIQGDDVYINGDGETSRDFCYIENTVQANLLAATAGLDARNQVYNIAVGGRTSLNQLF 275 d1l7da1 160 ---------------------------------------------R-------------- 160 : d1sb8a_ 276 FALRDGLAENGVSYHREPVYRDFREGDVRHSLADISKAAKLLGYAPKYDVSAGVALAMPW 335 d1l7da1 161 ------ 161 d1sb8a_ 336 YIMFLK 341 HHsearch alignment (Probability: 0.97 E-value:0.00) d1l7da1 28 PPARVLVFG-VGVAGLQAIATAKRLGAVVMATDVRA----ATKEQVESLGG-------KF 75 ::::::::: :::::::::::::::::::::::::: ::::::::::: :: d1sb8a_ 15 QPKVWLITGVAGFIGSNLLETLLKLDQKVVGLDNFATGHQRNLDEVRSLVSEKQWSNFKF 74 d1l7da1 76 IT-VKKQAEAVLKELVKTDIAITTALIPGK----PAPVL-------ITEEMVTKMKPGS- 122 :: ::::::::::::::::::::::::::: ::::: ::::::::::::: d1sb8a_ 75 IQGDIRNLDDCNNACAGVDYVLHQAALGSVPRSINDPITSNATNIDGFLNMLIAARDAKV 134 d1l7da1 123 -VIIDLAV-------EAGGNCPLSEPGKI 143 ::::::: :::::::::::::: d1sb8a_ 135 QSFTYAASSSTYGDHPGLPKVEDTIGKPL 163