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 | d1gcia_ | Subtilisin | Subtilisin-like | Subtilisin-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 <-- 0.849 --> HitDALI alignment (Z-score: 2.6 Raw score:369.10) d1saya1 1 agrlsvqfgarflerqqggrgvLLGGvpgvkpGKVVILGG-------------------- 40 :::: :::::::: d1gcia_ 1 -aqsvpwgisrvqapaahnrglTGSG------VKVAVLDTgisthpdlnirggasfvpge 53 d1saya1 41 ------gVVGTEAAKMAVG-----------LGAQVQIF--DINVerlsyletlfgsrvel 81 :::::::::::: :::::::: :::: d1gcia_ 54 pstqdgnGHGTHVAGTIAAlnnsigvlgvaPSAELYAVkvLGAS-------------gsg 100 d1saya1 82 lysnsaeieTAVA--EADLLIGAVlvpgrrapilvPASLVEQM-RTGSVIVDvAVDQ--- 135 :::: ::::::::: :::::::: :::::::: :::: d1gcia_ 101 svssiaqglEWAGnnGMHVANLSL---gspspsatLEQAVNSAtSRGVLVVA-ASGNsga 156 d1saya1 136 ggcvETLHptshtqptyevfgvVHYGVPN--------------------MPGA------- 168 :::: ::::::: :::: d1gcia_ 157 gsisYPAR------------yaNAMAVGAtdqnnnrasfsqygagldivAPGVnvqstyp 204 d1saya1 169 ------------------------------------------------------------ 169 d1gcia_ 205 gstyaslngtsmatphvagaaalvkqknpswsnvqirnhlkntatslgstnlygsglvna 264 d1saya1 169 ----- 169 d1gcia_ 265 eaatr 269 FAST alignment (Normalized score: 2.88 Raw score:611.70) d1saya1 1 AGRLSVQFGARFLERQQGGRGVLLGG----------------VPGVK---PGKVVILG-- 39 ::::: ::::::: d1gcia_ 1 --------------------------AQSVPWGISRVQAPAAHNRGLTGSGVKVAVL-DT 33 d1saya1 40 -------------------------GGVVGTEAAKMAVG-------------LGAQVQ-- 59 :::::::::::: :::::: d1gcia_ 34 GISTHPDLNIRGGASFVPGEPSTQDGNGHGTHVAGTI--AALNNSIGVLGVAPSAELYAV 91 d1saya1 60 IFDINVERLSYLETLFGSRVELL---YSNSAEIETAVA-----EADLLIGAVLVPGRRAP 111 :::: :::::::::::: ::::::: d1gcia_ 92 KVLG-------------------ASGSGSVSSIAQGLEWAGNNGMHVANL---------- 122 d1saya1 112 ILV----------PASLVEQMR---TGSVIVDVAVDQGGCVETLHPTSHTQPTYEVF--- 155 ::::::: ::::::: d1gcia_ 123 ---SLGSPSPSATLEQAVNS--ATSRGVLVVA-------------------------ASG 152 d1saya1 156 --------------GVVHYGVPNMPGA--------------------------------- 168 ::::: d1gcia_ 153 NSGAGSISYPARYANAMAV--------GATDQNNNRASFSQYGAGLDIVAPGVNVQSTYP 204 d1saya1 169 ------------------------------------------------------------ 169 d1gcia_ 205 GSTYASLNGTSMATPHVAGAAALVKQKNPSWSNVQIRNHLKNTATSLGSTNLYGSGLVNA 264 d1saya1 169 ----- 169 d1gcia_ 265 EAATR 269 TMalign alignment (TM-score: 0.48 Raw score:81.12) d1saya1 1 -----AGRLS-VQF-GAR-FLE----RQQGGRGVLLGGVPGVKPGKVVILGG-------- 40 ::: :: :: : ::: : : :::::::: d1gcia_ 1 AQSVP--WGIS-RVQ-APA--AHNRG-------LTG-S----G-VKVAVLDTGISTHPDL 41 d1saya1 41 ------------------GVVGTEAAKMAVG-----------LGA-QVQIFDINVERL-- 68 ::::::::::::: ::: :::::::: ::: d1gcia_ 42 NIRGGASFVPGEPSTQDGNGHGTHVAGTIAALNNSIGVLGVAPSAELYAVKVLG-ASGSG 100 d1saya1 69 --SYLETLFGSRVELLYSNSAEIETAVA-EADLLIGAVLVPGRRAP--IL-VPASLVEQM 122 :::::::::::: ::::::::::: :::: :: ::::::::: d1gcia_ 101 SV--------------SSIAQGLEWAGNNGMHVANLSLGS--PSPSATLEQAVNSATSRG 144 d1saya1 123 RTGSVIVDVAV-----DQGGCV-E-TL--------------------HPTSH-------- 147 : ::::::: :::::: : :: ::::: d1gcia_ 145 V---LVVAASGNSGAGSISYPARYANAMAVGATDQNNNRASFSQYGAGLDIVAPGVNVQS 201 d1saya1 148 -----------------------TQPT---------YEVFGV--VH--YG---------- 161 : ::: :: :: d1gcia_ 202 TYPGSTYASLNGTSMATPHVAGA---AALVKQKNPS---WSNVQIRNHLKNTATSLGSTN 255 d1saya1 162 -VPNMPGA------ 168 ::::::: d1gcia_ 256 LYGSGLVNAEAATR 269 HHsearch alignment (Probability: 0.01 E-value:0.50) d1saya1 9 GARFLERQQGGRGVLLGGVP 28 :::::::::::::::::::: d1gcia_ 13 APAAHNRGLTGSGVKVAVLD 32