.
The Open Protein Structure Annotation Network
PDB Keyword
.

4ghn

    Site JCSG
    PDB Id 4ghn Target Id
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    Molecular Characteristics
    Source
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    Alias Ids
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    TPS74968,ZP_02068778.1, 323264
    Molecular Weight
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    Da.
    Residues
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    Isoelectric Point
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    Sequence
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
      BLAST   FFAS

    Structure Determination
    Method
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    Chains
    Resolution (Å)
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    Rfree
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    Matthews' coefficent Rfactor
    Waters
    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)
    Solvent Content

    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)

    Ligand Information
    Ligands
    Metals

    Jmol

     
    parameter 'target' could not convert from 'list' to 'str' (click for details)
    Google Scholar output for 4ghn

    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)

    reference to undefined name 'note' Exception of type 'MindTouch.Deki.Script.Runtime.DekiScriptUndefinedNameException' was thrown. (click for details)

    Protein Summary

    The protein ZP_02068778.1 is annotated as hypothetical protein BACUNI_00178. ZP_02068778.1 belongs to PFAM PF03572 Peptidase_S41.

     

    The monomer structure in rainbow representation is shown below.

    SP16764A.png

     

    Top 10 DALI Structural Homologs
     
    N PDB Z-score RMSD LALI NRES %ID Description (JCSG structures highlighted in red)
    1 3dpm 28.2 2.5 352 522 16 Protein Ct_858
    2 3dor 27.6 2.7 351 522 16 Protein Ct_858
    3 3dja 27.6 2.7 352 527 16 Protein Ct_858
    4 3dpn 25.8 2.5 351 537 15 Protein Ct_858
    5 1fc6 20.0 5.6 302 386 16 Photosystem Ii D1 Protease
    6 1fc7 19.7 5.7 303 386 16 Photosystem Ii D1 Protease
    7 1fcf 19.4 6.0 303 387 16 Photosystem Ii D1 Protease
    8 1fc9 19.2 6.1 304 386 16 Photosystem Ii D1 Protease
    9 3k50 18.2 3.7 245 389 17 Putative S41 Protease
    10 1j7x 18.1 2.2 155 302 26 Interphotoreceptor Retinoid-binding Protein

     

    A comparison between ZP_02068778.1 and other proteins in the DALI search results show a considerable degree of similarity as well as some differences.

    SP16764A_1fc6.png SP16764A_3dpm.png SP16764A_3k50.png
    ZP_02068778.1(green) and 1fc6 (magenta) ZP_02068778.1(green) and 3dpm (magenta) ZP_02068778.1(green) and 3k50 (magenta)

     

    The degree of structural similarity suggests that this could be a protease, which is also supported by a sequence based annotation on PFAM and BLAST search (see below).


    Accession Description Max score Total score Query coverage E value Max ident
    ZP_02068778.1
    hypothetical protein BACUNI_00178 [Bacteroides uniformis ATCC 8492] >gb|EDO56148.1| hypothetical protein BACUNI_00178 [Bacteroides uniformis ATCC 8492]
    880 880 100% 0.0 100%
    EIY75034.1
    hypothetical protein HMPREF1073_03240 [Bacteroides uniformis CL03T12C37] >gb|EIY78032.1| hypothetical protein HMPREF1072_01319 [Bacteroides uniformis CL03T00C23]
    873 873 100% 0.0 99%
    ZP_06201264.1
    conserved hypothetical protein [Bacteroides sp. D20] >gb|EFA20171.1| conserved hypothetical protein [Bacteroides sp. D20]
    870 870 100% 0.0 99%
    ZP_07937223.1
    peptidase family S41 [Bacteroides sp. 4_1_36] >gb|EFV27602.1| peptidase family S41 [Bacteroides sp. 4_1_36]
    868 868 100% 0.0 99%
    YP_006297708.1
    peptidase, S41 family [Prevotella intermedia 17] >gb|AFJ07759.1| peptidase, S41 family [Prevotella intermedia 17]
    284 284 99% 5e-88 36%
    YP_004328724.1
    peptidase, S41 family [Prevotella denticola F0289] >gb|AEA21690.1| peptidase, S41 family [Prevotella denticola F0289]
    275 275 98% 9e-85 36%
    ZP_08171664.1
    peptidase, S41 family [Prevotella denticola CRIS 18C-A] >gb|EGC86866.1| peptidase, S41 family [Prevotella denticola CRIS 18C-A]
    270 270 98% 2e-82 36%
    ZP_08301136.1
    peptidase, S41 family [Bacteroides fluxus YIT 12057] >gb|EGF54692.1| peptidase, S41 family [Bacteroides fluxus YIT 12057]
    256 256 38% 2e-80 79%
    YP_003814423.1
    peptidase, S41 family [Prevotella melaninogenica ATCC 25845] >gb|ADK95447.1| peptidase, S41 family [Prevotella melaninogenica ATCC 25845]
    261 261 96% 4e-79 33%
    ZP_08836870.1
    hypothetical protein HMPREF0666_03046 [Prevotella sp. C561] >gb|EGW49115.1| hypothetical protein HMPREF0666_03046 [Prevotella sp. C561]
    260 260 98% 9e-79 32%
    ZP_05857477.1
    putative tricorn protease [Prevotella veroralis F0319] >gb|EEX18920.1| putative tricorn protease [Prevotella veroralis F0319]
    258 258 99% 5e-78 32%
    ZP_09966263.1
    peptidase, S41 family [Prevotella sp. oral taxon 306 str. F0472] >gb|EID34119.1| peptidase, S41 family [Prevotella sp. oral taxon 306 str. F0472]
    254 254 98% 2e-76 33%
    ZP_09853104.1
    hypothetical protein XsacN4_00712 [Xanthomonas sacchari NCPPB 4393]
    90.5 90.5 88% 1e-16 23%
    ZP_10329850.1
    peptidase S41 [Fibrisoma limi BUZ 3] >emb|CCH51894.1| peptidase S41 [Fibrisoma limi BUZ 3]
    86.3 86.3 80% 3e-15 25%
    ZP_01693293.1
    peptidase, S41 family [Microscilla marina ATCC 23134] >gb|EAY25710.1| peptidase, S41 family [Microscilla marina ATCC 23134]
    84.3 84.3 84% 9e-15 24%
    YP_001295802.1
    hypothetical protein [Flavobacterium psychrophilum JIP02/86] >emb|CAL42986.1| Protein of unknown function [Flavobacterium psychrophilum JIP02/86]
    82.0 82.0 83% 5e-14 28%
    ZP_10422146.1
    peptidase S41 [Sphingomonas sp. PAMC 26617]
    81.3 81.3 69% 7e-14 25%
    YP_005013600.1
    peptidase, S41 family [Tannerella forsythia ATCC 43037] >gb|AEW21059.1| peptidase, S41 family [Tannerella forsythia ATCC 43037]
    77.4 77.4 82% 2e-12 24%

    Ligand Summary

    Reviews

    References

     

    No references found.

    Tag page
    • No tags
    You must login to post a comment.
    All content on this site is licensed under a Creative Commons Attribution 3.0 License
    Powered by MindTouch