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(-) Description

Title :  CRYSTAL STRUCTURE OF THE SGIP1 MU HOMOLOGY DOMAIN IN THE P1 SPACE GROUP
 
Authors :  A. Shimada, A. Yamaguchi, D. Kohda
Date :  08 Jul 15  (Deposition) - 06 Jul 16  (Release) - 06 Jul 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Endocytosis, Protein-Protein Interaction (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Shimada, A. Yamaguchi, D. Kohda
Structural Basis For The Recognition Of Two Consecutive Mutually Interacting Dpf Motifs By The Sgip1 Mu Homology Domain.
Sci Rep V. 6 19565 2016
PubMed-ID: 26822536  |  Reference-DOI: 10.1038/SREP19565

(-) Compounds

Molecule 1 - SH3-CONTAINING GRB2-LIKE PROTEIN 3-INTERACTING PROTEIN 1
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEX-6P-1
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 552-828
    Gene: SGIP1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: ENDOPHILIN-3-INTERACTING PROTEIN

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 12)

Asymmetric Unit (1, 12)
No.NameCountTypeFull Name
1ZN12Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLU A:589 , ASP A:672 , HOH A:1008 , HOH A:1020binding site for residue ZN A 901
02AC2SOFTWAREGLN A:629 , HIS A:655 , HOH A:1012 , HOH A:1015 , HOH A:1088binding site for residue ZN A 902
03AC3SOFTWARECYS A:632 , GLU B:748 , HOH B:1023 , HOH B:1036 , HOH B:1068binding site for residue ZN A 903
04AC4SOFTWAREGLU A:622 , HIS A:623 , CYS B:633 , HOH B:1076binding site for residue ZN A 904
05AC5SOFTWAREASP A:558 , HIS A:601 , GLU A:697 , HOH A:1089binding site for residue ZN A 905
06AC6SOFTWARELYS A:658 , GLU A:804binding site for residue ZN A 906
07AC7SOFTWARECYS A:633 , GLU B:622 , HIS B:623 , HOH B:1075binding site for residue ZN A 907
08AC8SOFTWAREHIS B:655 , HOH B:1003 , HOH B:1016 , HOH B:1073 , HOH B:1074binding site for residue ZN B 901
09AC9SOFTWAREGLU B:589 , ASP B:672binding site for residue ZN B 902
10AD1SOFTWARECYS B:632 , HOH B:1072 , HOH B:1084binding site for residue ZN B 903
11AD2SOFTWAREASN B:765binding site for residue ZN B 904
12AD3SOFTWAREARG B:600 , HIS B:601 , GLU B:697binding site for residue ZN B 905

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (8, 8)

Asymmetric Unit
No.Residues
1Asn A:605 -Pro A:606
2Asn A:635 -Thr A:636
3Thr A:636 -Gln A:637
4Leu A:740 -Pro A:741
5Gly A:780 -Pro A:781
6Asn B:605 -Pro B:606
7Leu B:740 -Pro B:741
8Gly B:780 -Pro B:781

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5AWS)

(-) 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:275
                                                                                                                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeeeeeeeeeeee..hhhhheeeeeeeeeeeee................eeeeehhh.eeeeee....eee.........eeeeehhhhhhhhhhhhhhhh....eeeeeeeeeee..hhhhhh.eeeeeeeee...eeeeeeeeee.hhhh.....eeeeeeeee....eeeeeeee...eee....eeeeeeeee........eeeeeeeeee.........eeeeeeee.......eeeee...eeeeeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5aws A 554 MGAQDTLPVAAAFTETVNAYFKGADPSKCIVKITGEMVLSFPAGITRHFANNPSPAALTFRVINFSRLEHVLPNPQLLCCDNTQNDANTKEFWVNMPNLMTHLKKVSEQKPQATYYNVDMLKYQVSAQGIQSTPLNLAVNWRCEPSSTDLRIDYKYNTDAMTTAVALNNVQFLVPIDGGVTKLQAVLPPAVWNAEQQRILWKIPDISQKSENGGVGSLLARFQLSEGPSKPSPLVVQFTSEGSTLSGCDIELVGAGYRFSLIKKRFAAGKYLADN 828
                                   563       573       583       593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803       813       823     


Chain B from PDB  Type:PROTEIN  Length:265
                                                                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeeeeeeee..eeeeeeeeeeeeeeeeee.hhh............eeeeehhh.eeeeee....eee...eeeeehhhhhhhhhhhhhhhh....eeeeeeeeeee..hhhhhh.eeeeeeeee...eeeeeeeeee.hhhh.....eeeeeeeee....eeeeeeee...eee....eeeeeeeee...hhhh.eeeeeeeeee.........eeeeeeee.......eeee....eeeeeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5aws B 558 DTLPVAAAFTETVNAYFKGADPSKCIVKITGEMVLSFPAGITRHFANNPSPAALTFRVINFSRLEHVLPNPQLLCCDNTKEFWVNMPNLMTHLKKVSEQKPQATYYNVDMLKYQVSAQGIQSTPLNLAVNWRCEPSSTDLRIDYKYNTDAMTTAVALNNVQFLVPIDGGVTKLQAVLPPAVWNAEQQRILWKIPDISQKSENGGVGSLLARFQLSEGPSKPSPLVVQFTSEGSTLSGCDIELVGAGYRFSLIKKRFAAGKYLADN 828
                                   567       577       587       597       607       617       627      |643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803       813       823     
                                                                                                      634|                                                                                                                                                                                           
                                                                                                       641
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  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 5AWS)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (14, 14)

Asymmetric Unit(hide GO term definitions)

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  5aws
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  SGIP1_HUMAN | Q9BQI5
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 Related Entries

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

UniProtKB/Swiss-Prot
        SGIP1_HUMAN | Q9BQI5: 5awr 5awt 5awu

(-) Related Entries Specified in the PDB File

5awr THE SAME PROTEIN IN A DIFFERENT SPACE GROUP.
5awt
5awu