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(-) Description

Title :  STRUCTURE, THERMODYNAMICS, AND THE ROLE OF CONFORMATIONAL DYNAMICS IN THE INTERACTIONS BETWEEN THE N-TERMINAL SH3 DOMAIN OF CRKII AND PROLINE-RICH MOTIFS IN CABL
 
Authors :  V. S. Bhatt, D. Zeng, I. Krieger, J. C. Sacchettini, J. -H. Cho
Date :  28 Feb 16  (Deposition) - 29 Jun 16  (Release) - 29 Jun 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A,B,M,N
Biol. Unit 1:  A,M  (1x)
Biol. Unit 2:  B,N  (1x)
Keywords :  Sh3 Domain Polyproline Ii Motif, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. S. Bhatt, D. Zeng, I. Krieger, J. C. Sacchettini, J. H. Cho
Binding Mechanism Of The N-Terminal Sh3 Domain Of Crkii And Proline-Rich Motifs In Cabl.
Biophys. J. V. 110 2630 2016
PubMed-ID: 27332121  |  Reference-DOI: 10.1016/J.BPJ.2016.05.008

(-) Compounds

Molecule 1 - ADAPTER MOLECULE CRK
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 134-191
    Gene: CRK, CRKO
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: PROTO-ONCOGENE C-CRK,P38
 
Molecule 2 - PROLINE RICH PEPTIDE
    Chains: M, N
    Engineered: YES
    Organism Scientific: ENDOTHIA GYROSA
    Organism Taxid: 40263
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABMN
Biological Unit 1 (1x): A M 
Biological Unit 2 (1x):  B N

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 11)

Asymmetric Unit (5, 11)
No.NameCountTypeFull Name
1ACE2Mod. Amino AcidACETYL GROUP
2NA4Ligand/IonSODIUM ION
3NH22Mod. Amino AcidAMINO GROUP
4P4G2Ligand/Ion1-ETHOXY-2-(2-ETHOXYETHOXY)ETHANE
5PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
Biological Unit 1 (3, 3)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
2NA-1Ligand/IonSODIUM ION
3NH21Mod. Amino AcidAMINO GROUP
4P4G-1Ligand/Ion1-ETHOXY-2-(2-ETHOXYETHOXY)ETHANE
5PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
Biological Unit 2 (3, 4)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
2NA-1Ligand/IonSODIUM ION
3NH21Mod. Amino AcidAMINO GROUP
4P4G2Ligand/Ion1-ETHOXY-2-(2-ETHOXYETHOXY)ETHANE
5PEG-1Ligand/IonDI(HYDROXYETHYL)ETHER

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:158 , GLU A:173 , ASP A:174 , SER A:175 , HOH A:321 , HOH A:326 , HOH A:327binding site for residue PEG A 201
2AC2SOFTWAREARG A:179 , HOH A:305 , HOH A:309 , HOH B:335binding site for residue NA A 202
3AC3SOFTWAREALA A:134 , HOH A:351 , HOH A:362 , HOH A:365 , HOH A:381 , HOH B:342 , HOH B:350binding site for residue NA A 203
4AC4SOFTWAREASN A:144 , LYS A:154binding site for residue NA A 204
5AC5SOFTWAREASP B:174 , SER B:175 , HOH B:337binding site for residue P4G B 201
6AC6SOFTWAREGLY B:145 , ASP B:147 , GLU B:148 , ASP B:150 , HOH B:319 , HOH B:324binding site for residue NA B 202
7AC7SOFTWAREPHE B:141 , ASP B:142 , TYR N:0 , LYS N:2 , HOH N:203binding site for residue P4G N 101

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5IH2)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5IH2)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5IH2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5IH2)

(-) Exons   (0, 0)

(no "Exon" information available for 5IH2)

(-) 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:58
                                                                                          
               SCOP domains ---------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..................eeeeee.....eeeee.....eeeee...eee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------- Transcript
                 5ih2 A 134 AEYVRALFDFNGNDEEDLPFKKGDILRIRDKPEEQWWNAEDSEGKRGMIPVPYVEKYR 191
                                   143       153       163       173       183        


Chain B from PDB  Type:PROTEIN  Length:56
                                                                                        
               SCOP domains -------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee..................eeeeee.....eeeee.....eeeee...ee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                 5ih2 B 134 AEYVRALFDFNGNDEEDLPFKKGDILRIRDKPEEQWWNAEDSEGKRGMIPVPYVEK 189
                                   143       153       163       173       183      


Chain M from PDB  Type:PROTEIN  Length:12
                                            
               SCOP domains ------------ SCOP domains
               CATH domains ------------ CATH domains
               Pfam domains ------------ Pfam domains
         Sec.struct. author ............ Sec.struct. author
                 SAPs(SNPs) ------------ SAPs(SNPs)
                    PROSITE ------------ PROSITE
                 Transcript ------------ Transcript
                 5ih2 M  -1 xYEKPALPRKRx  10
                            |        8 |
                           -1-ACE     10-NH2


Chain N from PDB  Type:PROTEIN  Length:12
                                            
               SCOP domains ------------ SCOP domains
               CATH domains ------------ CATH domains
               Pfam domains ------------ Pfam domains
         Sec.struct. author ............ Sec.struct. author
                 SAPs(SNPs) ------------ SAPs(SNPs)
                    PROSITE ------------ PROSITE
                 Transcript ------------ Transcript
                 5ih2 N  -1 xYEKPALPRKRx  10
                            |        8 |
                            |         10-NH2
                           -1-ACE
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → 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 5IH2)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5IH2)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5IH2)

(-) Gene Ontology  (120, 125)

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  CRK_MOUSE | Q64010
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 Related Entries

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

UniProtKB/Swiss-Prot
        ABL1_MOUSE | P00520: 1abo 1abq 1fpu 1iep 1m52 1opj 1opk 2hzn 2qoh 2z60 3dk3 3dk6 3dk7 3ik3 3k5v 3kf4 3kfa 3ms9 3mss 3oxz 3oy3
        CRK_MOUSE | Q64010: 1b07 1cka 1ckb 1ju5 1m30 1m3a 1m3b 1m3c 2ggr 5l23

(-) Related Entries Specified in the PDB File

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