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(-) Description

Title :  MOUSE POFUT1 IN COMPLEX WITH MOUSE NOTCH1 EGF12 MUTANT (D464G/A465G) AND GDP
 
Authors :  Z. Li, J. M. Rini
Date :  21 Jul 16  (Deposition) - 17 May 17  (Release) - 28 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.83
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Glycosyltransferase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. Li, K. Han, J. E. Pak, M. Satkunarajah, D. Zhou, J. M. Rini
Recognition Of Egf-Like Domains By The Notch-Modifying O-Fucosyltransferase Pofut1.
Nat. Chem. Biol. V. 13 757 2017
PubMed-ID: 28530709  |  Reference-DOI: 10.1038/NCHEMBIO.2381

(-) Compounds

Molecule 1 - GDP-FUCOSE PROTEIN O-FUCOSYLTRANSFERASE 1
    Chains: A
    EC Number: 2.4.1.221
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Plasmid: PB-T-PAF
    Expression System Taxid: 9606
    Expression System Vector Type: PLASMID
    Gene: POFUT1
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: PEPTIDE-O-FUCOSYLTRANSFERASE 1,O-FUCT-1
 
Molecule 2 - NEUROGENIC LOCUS NOTCH HOMOLOG PROTEIN 1
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: NOTCH1, MOTCH
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: NOTCH 1,MOTCH A,MT14,P300

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1GDP1Ligand/IonGUANOSINE-5'-DIPHOSPHATE
2NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:48 , PHE A:49 , GLY A:50 , ASN A:51 , HIS A:243 , ARG A:245 , ALA A:314 , THR A:315 , ASP A:316 , PRO A:339 , ALA A:342 , ASP A:345 , SER A:361 , SER A:362 , PHE A:363 , HOH A:502 , HOH A:513binding site for residue GDP A 402
2AC2SOFTWAREASP A:35 , ALA A:37 , ASN A:67 , ARG A:106 , GLN A:351 , ARG A:376 , HOH A:505 , HOH A:511 , HOH A:529 , HOH A:570 , HOH A:618binding site for Mono-Saccharide NAG A 401 bound to ASN A 67

(-) SS Bonds  (7, 7)

Asymmetric/Biological Unit
No.Residues
1A:43 -A:45
2A:131 -A:145
3A:254 -A:288
4A:272 -A:359
5B:456 -B:467
6B:461 -B:476
7B:478 -B:487

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Pro A:83 -Pro A:84
2Asn A:151 -Pro A:152
3Phe A:204 -Pro A:205
4Arg A:237 -Pro A:238

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5KY9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5KY9)

(-) Exons   (0, 0)

(no "Exon" information available for 5KY9)

(-) Sequences/Alignments

Asymmetric/Biological 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:350
                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeee.....hhhhhhhhhhhhhhhhhhhh.eeee..eee..........eeehhhhhh.hhhhhhh..eeehhhhhhhhhhhhhhhhh.eeeeehhhhh..............hhhhhhhh......eeeee.....hhhhhhhhhhhh......eeee.........hhhhhhhhhhh..hhhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhhhhh........hhhhhh......hhhhhh.hhhhhhhhhhhhhhhhh..eeeeee....hhhhhhh......eee.....hhhhhhhhhhh..eeee...hhhhhhhhhhhhhh...eee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ky9 A  32 PSWDLAGYLLYCPCMGRFGNQADHFLGSLAFAKLLNRTLAVPPWIEYQHHKPPFTNLHVSYQKYFKLEPLQAYHRVVSLEDFMENLAPSHWPPEKRVAYCFEVAAQRSPDKKTCPMKEGNPFGPFWDQFHVSFNKSELFTGISFSASYKEQWTQRFPAKEHPVLALPGAPAQFPVLEEHRELQKYMVWSDEMVRTGEALISAHLVRPYVGIHLRIGSDWKNACAMLKDGTAGSHFMASPQCVGYSATPLTMTMCLPDLKEIQRAVTLWVRALNARSVYIATDSESYVSEIQQLFKDKVRVVSLKPEVAQIDLYILGQADHFIGNCVSSFTAFVKRERDLHGRQSSFFGMD 384
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271    || 284       294       304       314       324       334       344       354       364       374       384
                                                                                                                                                                                                                                                                              276|                                                                                                        
                                                                                                                                                                                                                                                                               280                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:34
                                                                  
               SCOP domains ---------------------------------- SCOP domains
               CATH domains ---------------------------------- CATH domains
               Pfam domains ---------------------------------- Pfam domains
         Sec.struct. author hhhhh......eee...eee....ee.....ee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------- PROSITE
                 Transcript ---------------------------------- Transcript
                 5ky9 B 455 ECISNPCQNGGTCLDQFQCICMPGYEGVYCEINT 491
                                   464     ||477       487    
                                         470|                 
                                          474
   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 5KY9)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5KY9)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5KY9)

(-) Gene Ontology  (210, 215)

Asymmetric/Biological Unit(hide GO term definitions)

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  NOTC1_MOUSE | Q01705
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  OFUT1_MOUSE | Q91ZW2
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  2.4.1.221
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 Related Entries

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

UniProtKB/Swiss-Prot
        NOTC1_MOUSE | Q01705: 1ymp 2qc9 2rqz 2rr0 2rr2 3p3n 3p3p 5ky0 5ky4 5ky8
        OFUT1_MOUSE | Q91ZW2: 5kxh 5kxq 5ky0 5ky2 5ky3 5ky4 5ky5 5ky7 5ky8

(-) Related Entries Specified in the PDB File

5kxh 5kxq 5ky0 5ky2 5ky3 5ky4 5ky5 5ky7 5ky8