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(-) Description

Title :  NOD1 CARD DOMAIN WITH THREE DISULFIDE-CLINCHED, DOMAIN-SWAPPED DIMERS IN THE ASYMMETRIC UNIT
 
Authors :  E. A. Berry, L. S. Huang, N. Walker-Kopp
Date :  21 Mar 12  (Deposition) - 04 Apr 12  (Release) - 06 Feb 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.15
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Biol. Unit 5:  E  (1x)
Biol. Unit 6:  F  (1x)
Biol. Unit 7:  A,B  (1x)
Biol. Unit 8:  C,D  (1x)
Biol. Unit 9:  E,F  (1x)
Keywords :  Innate Immunity, Ripk2, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  E. A. Berry, L. S. Huang, N. Walker-Kopp
Crystal Structure Of Nod1 Card Domain With Three Disulfide-Clinched, Domain-Swapped Dimers In The Asymmetric Unit
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - NUCLEOTIDE-BINDING OLIGOMERIZATION DOMAIN-CONTAINING PROTEIN 1
    ChainsA, B, C, D, E, F
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainBL21
    Expression System Taxid511693
    FragmentCARD DOMAIN
    GeneCARD4, NOD1
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymCASPASE RECRUITMENT DOMAIN-CONTAINING PROTEIN 4

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit ABCDEF
Biological Unit 1 (1x)A     
Biological Unit 2 (1x) B    
Biological Unit 3 (1x)  C   
Biological Unit 4 (1x)   D  
Biological Unit 5 (1x)    E 
Biological Unit 6 (1x)     F
Biological Unit 7 (1x)AB    
Biological Unit 8 (1x)  CD  
Biological Unit 9 (1x)    EF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1FLC1Ligand/IonCITRATE ANION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1FLC-1Ligand/IonCITRATE ANION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1FLC-1Ligand/IonCITRATE ANION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1FLC-1Ligand/IonCITRATE ANION
Biological Unit 4 (1, 1)
No.NameCountTypeFull Name
1FLC1Ligand/IonCITRATE ANION
Biological Unit 5 (0, 0)
No.NameCountTypeFull Name
1FLC-1Ligand/IonCITRATE ANION
Biological Unit 6 (0, 0)
No.NameCountTypeFull Name
1FLC-1Ligand/IonCITRATE ANION
Biological Unit 7 (0, 0)
No.NameCountTypeFull Name
1FLC-1Ligand/IonCITRATE ANION
Biological Unit 8 (1, 1)
No.NameCountTypeFull Name
1FLC1Ligand/IonCITRATE ANION
Biological Unit 9 (0, 0)
No.NameCountTypeFull Name
1FLC-1Ligand/IonCITRATE ANION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP C:42 , LEU C:45 , LYS D:46BINDING SITE FOR RESIDUE FLC D 1101

(-) SS Bonds  (3, 3)

Asymmetric Unit
No.Residues
1A:39 -B:39
2C:39 -D:39
3E:39 -F:39

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4E9M)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4E9M)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4E9M)

(-) Exons   (0, 0)

(no "Exon" information available for 4E9M)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:97
                                                                                                                                 
               SCOP domains ------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhh..hhhhhhhhhhh...hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------- Transcript
                 4e9m A  14 SESHPHIQLLKSNRELLVTHIRNTQCLVDNLLKNDYFSAEDAEIVCACPTQPDKVRKILDLVQSKGEEVSEFFLYLLQQLADAYVDLRPWLLEIGFS 110
                                    23        33        43        53        63        73        83        93       103       

Chain B from PDB  Type:PROTEIN  Length:95
                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh..hhhhhhhhhhh...hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------- Transcript
                 4e9m B  16 SHPHIQLLKSNRELLVTHIRNTQCLVDNLLKNDYFSAEDAEIVCACPTQPDKVRKILDLVQSKGEEVSEFFLYLLQQLADAYVDLRPWLLEIGFS 110
                                    25        35        45        55        65        75        85        95       105     

Chain C from PDB  Type:PROTEIN  Length:91
                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh..hhhhhhhhhhh...hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------- Transcript
                 4e9m C  16 SHPHIQLLKSNRELLVTHIRNTQCLVDNLLKNDYFSAEDAEIVCACPTQPDKVRKILDLVQSKGEEVSEFFLYLLQQLADAYVDLRPWLLE 106
                                    25        35        45        55        65        75        85        95       105 

Chain D from PDB  Type:PROTEIN  Length:95
                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh..hhhhhhhhhhh...hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------- Transcript
                 4e9m D  16 SHPHIQLLKSNRELLVTHIRNTQCLVDNLLKNDYFSAEDAEIVCACPTQPDKVRKILDLVQSKGEEVSEFFLYLLQQLADAYVDLRPWLLEIGFS 110
                                    25        35        45        55        65        75        85        95       105     

Chain E from PDB  Type:PROTEIN  Length:87
                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhh..hhhhhhhhhhh...hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 4e9m E  15 ESHPHIQLLKSNRELLVTHIRNTQCLVDNLLKNDYFSAEDAEIVCACPTQPDKVRKILDLVQSKGEEVSEFFLYLLQQLADAYVDLR 101
                                    24        34        44        54        64        74        84        94       

Chain F from PDB  Type:PROTEIN  Length:94
                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhh.hhhhhhh....hhhhhhhhhhh...hhhhhhhhhh..hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh..hhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------- Transcript
                 4e9m F  17 HPHIQLLKSNRELLVTHIRNTQCLVDNLLKNDYFSAEDAEIVCACPTQPDKVRKILDLVQSKGEEVSEFFLYLLQQLADAYVDLRPWLLEIGFS 110
                                    26        36        46        56        66        76        86        96       106    

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    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4E9M)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4E9M)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4E9M)

(-) Gene Ontology  (47, 47)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        NOD1_HUMAN | Q9Y2392b1w 2dbd 2nsn 2nz7 4jqw

(-) Related Entries Specified in the PDB File

2biw
2dbd
2nsn CRYSTAL STRUCTURE OF CASPACE ACTIVATION AND RECRUITMENT DOMAIN (CARD) OF NOD1
2nz7 CRYSTAL STRUCTURE ANALYSIS OF CASPASE-RECRUITMENT DOMAIN (CARD) OF NOD1