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 | d1l1sa_ | Hypothetical protein MTH1491 | YchN-like | YchN-like | α/β |
| Hit | d1mjna_ | Integrin CD11a/CD18 (Leukocyte function associated antigen-1, LFA-1) | vWA-like | vWA-like | α/β |
Query <-- 2.229 --> IntermediateDALI alignment (Z-score: 12.7 Raw score:767.50) query 1 gmeNKKMNLLLFSGDYDKALASLIIANAAREME--IEVTIFCAFWGLLLLRDpekasqed 58 :::::::::::::::::::::::::::::: ::::::::::::::::: d1l1sa_ 1 ---DYRVVFHIDEDDESRVLLLISNVRNLMADLesVRIEVVAYSMGVNVLRR-------- 49 query 59 kslyeqafssltpREAEelplskmnlggigkkmllemmkeekapklSDLLSGARKKEVKF 118 :::: :::::::::::::: d1l1sa_ 50 -------------DSEY-----------------------------SGDVSELTGQGVRF 67 query 119 YAXQLSVEIMGFKKEELFPEVQIMD--VKEYLKNA-LESDlQLFI 160 ::::::::::::::::::::::::: :::::::: :::: :::: d1l1sa_ 68 CACSNTLRASGMDGDDLLEGVDVVSsgVGHIVRRQtEGWA-YIRP 111 FAST alignment (Normalized score: 12.67 Raw score:1688.00) query 1 GMENKKMNLLLFSGDYDKALASLIIANAARE--MEIEVTIFCAFWGLLLLRDPEKASQED 58 :::::::::::::::::::::::::::: :::::::::::::::::: d1l1sa_ 1 ---DYRVVFHIDEDDESRVLLLISNVRNLMADLESVRIEVVAYSMGVNVLR--------- 48 query 59 KSLYEQAFSSLTPREAEELPLSKMNLGGIGKKMLLEMMKEEKAP---KLSDLLSGARKKE 115 ::::::::::::: d1l1sa_ 49 --------------------------------------------RDSEYSGDVSELTGQG 64 query 116 VKFYAXQLSVEIMGFKKEELFPEVQIM--DVKEYLKNALES--DLQLFI-- 160 ::::::::::::::::::::::::::: :::::::::: :::: d1l1sa_ 65 VRFCACSNTLRASGMDGDDLLEGVDVVSSGVGHIVRRQT--EGWAYI--RP 111 TMalign alignment (TM-score: 0.60 Raw score:95.28) query 1 GMENKKMNLLLFSGDYDKALASLIIANAARE-M-EIEVTIFCAFWGLLLLRDPEKASQED 58 :::::::::::::::::::::::::::: : ::::::::::::::::::: d1l1sa_ 1 ---DYRVVFHIDEDDESRVLLLISNVRNLMADLESVRIEVVAYSMGVNVLRRD------- 50 query 59 KSLYEQAFSSLTPREAEELPLSKMNLGGIGKKMLLEMMKEEKAPKLSDLLSGARKKEVKF 118 : : ::::::::::::::: d1l1sa_ 51 --------------S-E----------------------------YSGDVSELTGQGVRF 67 query 119 YAXQLSVEIMGFKKEELFPEVQIM-D-VKEYLKNAL-ESDLQLFI 160 :::::::::::::::::::::::: : ::::::::: ::: :::: d1l1sa_ 68 CACSNTLRASGMDGDDLLEGVDVVSSGVGHIVRRQTEGWA-YIRP 111 HHsearch alignment (Probability: 0.96 E-value:0.00) query 6 KMNLLLFSGDYDKALASLIIAN--AAREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYE 63 :::::::::::::::::::::: :::::::::::::::::::::::: d1l1sa_ 3 RVVFHIDEDDESRVLLLISNVRNLMADLESVRIEVVAYSMGVNVLRRD------------ 50 query 64 QAFSSLTPREAEELPLSKMNLGGIGKKMLLEMMKEEKAPKLSDLLSGARKKEVKFYAXQL 123 :::::::::::::::::::::: d1l1sa_ 51 --------------------------------------SEYSGDVSELTGQGVRFCACSN 72 query 124 SVEIMGFKKEELFPEVQI--MDVKEYLKNALES 154 :::::::::::::::::: ::::::::::::: d1l1sa_ 73 TLRASGMDGDDLLEGVDVVSSGVGHIVRRQTEG 105
Intermediate <-- 0.876 --> HitDALI alignment (Z-score: 2.5 Raw score:244.20) d1l1sa_ 1 -DYRVVFHIDE---DDESRVLLLISNVRNLMADL--ESVRIEVVAYS--mgvnvlrrdse 52 :::::::::: :::::::::::::::::::: ::::::::::: d1mjna_ 1 gNVDLVFLFDGsmsLQPDEFQKILDFMKDVMKKCsnTSYQFAAVQFStsyktefdfsdyv 60 d1l1sa_ 53 ysgdvSELTGqgvrfcacsntlrasgmdgddllegvdvvSSGVGHIVR-RQTE------- 104 ::::: ::::::::: :::: d1mjna_ 61 krkdpDALLK------------------hvkhmllltntFGAINYVATeVFREelgarpd 102 d1l1sa_ 105 -gWAYIRP---------------------------------------------------- 111 :::::: d1mjna_ 103 atKVLIIItdgeatdsgnidaakdiiryiigigkhfqtkesqetlhkfaskpasefvkil 162 d1l1sa_ 112 ----------------- 112 d1mjna_ 163 dtfeklkdlctelqkki 179 FAST alignment (Normalized score: 2.80 Raw score:394.80) d1l1sa_ 1 -DYRVVFHIDE----DDESRVLLLISNVRNLMADL---ESVRIEVVAYSMGVNVLRRDSE 52 ::::::::: ::::::::::::::::::: ::::::::: d1mjna_ 1 GNVDLVFLFD-GSMSLQPDEFQKILDFMKDVMKK-CSNTSYQFAAVQ------------- 45 d1l1sa_ 53 YSGDVSELTGQGVRFCACSNTLRASGMDGDDLLEGV------------------------ 88 d1mjna_ 46 ------------------------------------FSTSYKTEFDFSDYVKRKDPDALL 69 d1l1sa_ 89 ---------DVVSSGVGHIVRRQT-------------EGWAYIRP--------------- 111 ::::::::::: ::::::: d1mjna_ 70 KHVKHMLLLTNTFGAINYVA----TEVFREELGARPDATKVLII-ITDGEATDSGNIDAA 124 d1l1sa_ 112 ------------------------------------------------------- 112 d1mjna_ 125 KDIIRYIIGIGKHFQTKESQETLHKFASKPASEFVKILDTFEKLKDLCTELQKKI 179 TMalign alignment (TM-score: 0.54 Raw score:59.82) d1l1sa_ 1 -DYRVVFHIDED----------------------------------DESR---------- 15 ::::::::::: :::: d1mjna_ 1 GNVDLVFLFDGSMSLQPDEFQKILDFMKDVMKKCSNTSYQFAAVQFSTSYKTEFDFSDYV 60 d1l1sa_ 16 -------------------V--LLLISNVRNLMAD----LE-SVRIEVVAYSMGVNVLRR 49 : ::::::::::::: :: :::::::::: ::: d1mjna_ 61 KRKDPDALLKHVKHMLLLTNTFGAINYVATEVFREELGARPDATKVLIIITD--GEA--- 115 d1l1sa_ 50 DSEYSGDVSELTGQGVRFCACSNT-LRA-SGMDGDDLLEGV---D---VVSS-GVG-HIV 99 :::::: ::: :::::::::::: ::: :::: :::::: : :::: ::: : : d1mjna_ 116 -TDSGNI-DAA-KDIIRYIIGIGKHFQTK-ESQE-TLHKFASKPASEFVKILDTFEKL-K 169 d1l1sa_ 100 RRQTEGW----AYIRP 111 :: :::: d1mjna_ 170 DL-CTELQKKI----- 179 HHsearch alignment (Probability: 0.12 E-value:0.04) d1l1sa_ 3 RVVFHIDED---DESRVLLLISNVRNLMADLE--SVRIEVVAYSMGVNVL 47 ::::::::: :::::::::::::::::::: :::::::::::::::: d1mjna_ 4 DLVFLFDGSMSLQPDEFQKILDFMKDVMKKCSNTSYQFAAVQFSTSYKTE 53