• Resource: panther/N-acetylglucosamine_metabolism.owl; different types of problem: 9
    • number of genes : 0  number of interactions : 18  number of pathways : 1  number of physical entities : 31 
    • auto-fix: true; normalize:
    • errors/warnings: 58 - not fixed: 54;  errors not fixed: 5
    • Modified BioPAX  ("escaped" RDF in HTML; choose BioPAX or XML as return if you plan to process it)
    • ERROR: cardinality.violated , category: SPECIFICATION,  cases: 1,  not fixed: 1
      Cardinality violation
      • object: STATE_TRANSITION
        property: db requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.XrefDbCRRule)

    • ERROR: no.xrefs , category: RECOMMENDATION,  cases: 4,  not fixed: 4
      EntityReference does not have any xrefs
      • object: _Glucosamine_1_phosphate_br_acetyltransferase_PROTEIN
        (found by: org.biopax.validator.rules.EntityReferenceXrefRule)
      • object: _N_acetylglucosamine_1__br_phosphate_uridyltransferase_PROTEIN
        (found by: org.biopax.validator.rules.EntityReferenceXrefRule)
      • object: _N_acetylmannosamine_br_kinase_PROTEIN
        (found by: org.biopax.validator.rules.EntityReferenceXrefRule)
      • object: _Phosphoglucosamine_br_mutase_PROTEIN
        (found by: org.biopax.validator.rules.EntityReferenceXrefRule)

    • WARNING: cardinality.violated , category: SPECIFICATION,  cases: 6,  not fixed: 6
      Cardinality violation
      • object: _Glucosamine_1_phosphate_br_acetyltransferase_PROTEIN
        property: organism requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ProteinReferenceOrganismRule)
      • object: _N_acetylglucosamine_1__br_phosphate_uridyltransferase_PROTEIN
        property: organism requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ProteinReferenceOrganismRule)
      • object: _N_acetylmannosamine_br_kinase_PROTEIN
        property: organism requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ProteinReferenceOrganismRule)
      • object: _Phosphoglucosamine_br_mutase_PROTEIN
        property: organism requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ProteinReferenceOrganismRule)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=STATE_TRANSITION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)
      • object: CELLDESIGNER_REACTION_TYPE=STATE_TRANSITION
        property: xref requires exactly 1 value(s)
        (found by: org.biopax.validator.rules.ControlledVocabularyXrefCRRule)

    • WARNING: illegal.cv.term , category: SPECIFICATION,  cases: 2,  not fixed: 2
      Term is not found in the recommended controlled vocabulary (- wrong name/spelling or the identifier/accession is used instead of the term)
      • object: CELLDESIGNER_INTERACTION_VOCABULARY=STATE_TRANSITION
        Illegal term(s): [STATE_TRANSITION]; [Valid 'MI' terms: ALL children of MI:0190]
        (found by: org.biopax.validator.rules.InteractionTypeCvRule)
      • object: CELLDESIGNER_REACTION_TYPE=STATE_TRANSITION
        Illegal term(s): [STATE_TRANSITION]; [Valid 'MI' terms: ALL children of MI:0353]
        (found by: org.biopax.validator.rules.RelationshipTypeCvRule)

    • WARNING: min.cardinality.violated , category: SPECIFICATION,  cases: 2,  not fixed: 2
      Minimal cardinality violation
      • object: _Fructose_6_phosphate_br_aminotransferase_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)
      • object: _Glucosamine_6_phosphate_br_deaminase_PROTEIN
        property: organism requires at least 1 value(s).
        (found by: org.biopax.validator.rules.GenericProteinReferenceOrganismRule)

    • WARNING: no.display.name , category: RECOMMENDATION,  cases: 4,  all fixed!
      No display name is specified. It is useful to have one for the visualization purposes
      • [FIXED!]  object: http://identifiers.org/uniprot/O94808
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/P46926
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q06210
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • [FIXED!]  object: http://identifiers.org/uniprot/Q8TDQ7
        (found by: org.biopax.validator.rules.DisplayNameRule)

    • WARNING: no.xrefs , category: RECOMMENDATION,  cases: 2,  not fixed: 2
      EntityReference does not have any xrefs
      • object: _Fructose_6_phosphate_br_aminotransferase_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)
      • object: _Glucosamine_6_phosphate_br_deaminase_PROTEIN
        (found by: org.biopax.validator.rules.GenericEntityReferenceXrefRule)

    • WARNING: null.entity.reference , category: RECOMMENDATION,  cases: 4,  not fixed: 4
      A Protein, SmallMolecule, etc. (but not a complex) has neither 'entityReference' (highly recommended) nor 'memberPhysicalEntity' values set
      • object: _D_glucosamine_1_phosphate_s11_a11_
        entityReference (range: SmallMoleculeReference) is null, and memberPhysicalEntity is empty
        (found by: org.biopax.validator.rules.SmallMoleculeEntityReferenceRule)
      • object: _N_acetyl_D_glucos_amine_6_phosphate_s7_a7_
        entityReference (range: SmallMoleculeReference) is null, and memberPhysicalEntity is empty
        (found by: org.biopax.validator.rules.SmallMoleculeEntityReferenceRule)
      • object: _N_acetyl_D_mannosamine_6_phosphate_s4_a4_
        entityReference (range: SmallMoleculeReference) is null, and memberPhysicalEntity is empty
        (found by: org.biopax.validator.rules.SmallMoleculeEntityReferenceRule)
      • object: _N_acetylmannosamine_6_phospate_epimerase_s25_a26_
        entityReference (range: ProteinReference) is null, and memberPhysicalEntity is empty
        (found by: org.biopax.validator.rules.ProteinEntityReferenceRule)

    • WARNING: too.long.display.name , category: RECOMMENDATION,  cases: 33,  not fixed: 33
      'displayName' exceeds the recommended maximum. These names should be kept short so they can easily be displayed, e.g., in a pathway diagram
      • object: _Fructose_6_phosphate_aminotransferase_s27_a28_
        Fructose-6-phosphate aminotransferase, length=37 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Fructose_6_phosphate_br_aminotransferase_PROTEIN
        Fructose-6-phosphate aminotransferase, length=37 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Glucosamine_1_phosphate_acetyltransferase_s30_a31_
        Glucosamine-1-phosphate acetyltransferase, length=41 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Glucosamine_1_phosphate_br_acetyltransferase_PROTEIN
        Glucosamine-1-phosphate acetyltransferase, length=41 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Glucosamine_6_phosphate_br_deaminase_PROTEIN
        Glucosamine-6-phosphate deaminase, length=33 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _Glucosamine_6_phosphate_deaminase_s28_a29_
        Glucosamine-6-phosphate deaminase, length=33 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _N_acetyl_D_glucos_amine_6_phosphate_s7_a7_
        N-acetyl-D-glucos-amine-6-phosphate, length=35 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _N_acetyl_D_mannosamine_6_phosphate_s4_a4_
        N-acetyl-D-mannosamine-6-phosphate, length=34 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _N_acetylglucosamine_1__br_phosphate_uridyltransferase_PROTEIN
        N-acetylglucosamine-1-phosphate uridyltransferase, length=49 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _N_acetylglucosamine_1_phosphate_s12_a12_
        N-acetylglucosamine-1-phosphate, length=31 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _N_acetylglucosamine_1_phosphate_uridyltransferase_s31_a32_
        N-acetylglucosamine-1-phosphate uridyltransferase, length=49 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _N_acetylglucosamine_6_phosphate_deacetylase_s26_a27_
        N-acetylglucosamine-6-phosphate deacetylase, length=43 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _N_acetylmannosamine_6_phospate_epimerase_s25_a26_
        N-acetylmannosamine-6-phospate epimerase, length=40 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _N_acetylmannosamine_br_kinase_PROTEIN
        N-acetylmannosamine kinase, length=26 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _N_acetylmannosamine_kinase_s24_a25_
        N-acetylmannosamine kinase, length=26 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: _UDP_N_acetyl_D_glucosamine_s15_a15_
        UDP-N-acetyl-D-glucosamine, length=26 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: CHEBI:16264
        UDP-N-acetyl-D-glucosamine, length=26 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: CHEBI:16446
        N-acetylglucosamine-1-phosphate, length=31 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/panther.pathway/P02756
        N-acetylglucosamine metabolism, length=30 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/O94808
        Glutamine--fructose-6-phosphate aminotransferase [isomerizing] 2(auto-created form other names!), length=64 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/P46926
        Glucosamine-6-phosphate isomerase 1(auto-created form other names!), length=35 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q06210
        Glutamine--fructose-6-phosphate aminotransferase [isomerizing] 1(auto-created form other names!), length=64 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q8TDQ7
        Glucosamine-6-phosphate isomerase 2(auto-created form other names!), length=35 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: http://identifiers.org/uniprot/Q9Y303
        N-acetylglucosamine-6-phosphate deacetylase, length=43 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__D_glucosamine_1_phosphate-_acetyl_CoA-RIGHT__N_acetylglucosamine_1_phosphate-_CoA-_r8
        STATE_TRANSITION_LEFT__D_glucosamine_1_phosphate-_acetyl_CoA-RIGHT__N_acetylglucosamine_1_phosphate-_CoA-_r8, length=108 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__D_glucosamine_6_phosphate-_H2O-RIGHT__NH3-_fructose_6_phosphate-_r6
        STATE_TRANSITION_LEFT__D_glucosamine_6_phosphate-_H2O-RIGHT__NH3-_fructose_6_phosphate-_r6, length=90 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__D_glucosamine_6_phosphate-RIGHT__D_glucosamine_1_phosphate-_r7
        STATE_TRANSITION_LEFT__D_glucosamine_6_phosphate-RIGHT__D_glucosamine_1_phosphate-_r7, length=85 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__glutamine-_D_glucosamine_6_phosphate-RIGHT__glutamate-_Fructose_6_phosphate-_r5
        STATE_TRANSITION_LEFT__glutamine-_D_glucosamine_6_phosphate-RIGHT__glutamate-_Fructose_6_phosphate-_r5, length=102 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__N_acetyl_D_glucos_amine_6_phosphate-_H2O-RIGHT__acetate-_D_glucosamine_6_phosphate-_r4
        STATE_TRANSITION_LEFT__N_acetyl_D_glucos_amine_6_phosphate-_H2O-RIGHT__acetate-_D_glucosamine_6_phosphate-_r4, length=109 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__N_acetyl_D_mannosamine_6_phosphate-RIGHT__N_acetyl_D_glucos_amine_6_phosphate-_r3
        STATE_TRANSITION_LEFT__N_acetyl_D_mannosamine_6_phosphate-RIGHT__N_acetyl_D_glucos_amine_6_phosphate-_r3, length=104 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__N_acetylglucosamine_1_phosphate-_UTP-RIGHT__PPi-_UDP_N_acetyl_D_glucosamine-_r9
        STATE_TRANSITION_LEFT__N_acetylglucosamine_1_phosphate-_UTP-RIGHT__PPi-_UDP_N_acetyl_D_glucosamine-_r9, length=102 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__N_acetylmannosamine-_ATP-RIGHT__N_acetyl_D_mannosamine_6_phosphate-_ADP-_r2
        STATE_TRANSITION_LEFT__N_acetylmannosamine-_ATP-RIGHT__N_acetyl_D_mannosamine_6_phosphate-_ADP-_r2, length=98 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)
      • object: STATE_TRANSITION_LEFT__N_acetylneuraminate-RIGHT__N_acetylmannosamine-_pyruvate-_r1
        STATE_TRANSITION_LEFT__N_acetylneuraminate-RIGHT__N_acetylmannosamine-_pyruvate-_r1, length=83 exceeds 25
        (found by: org.biopax.validator.rules.DisplayNameRule)