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(-) Description

Title :  MOUSE POFUT1 IN COMPLEX WITH MOUSE NOTCH1 EGF12(D464G) AND GDP
 
Authors :  Z. Li, J. M. Rini
Date :  20 Jul 16  (Deposition) - 17 May 17  (Release) - 28 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.53
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 Taxid: 9606
    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  (3, 5)

Asymmetric/Biological Unit (3, 5)
No.NameCountTypeFull Name
1GDP1Ligand/IonGUANOSINE-5'-DIPHOSPHATE
2GOL2Ligand/IonGLYCEROL
3NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:48 , PHE A:49 , GLY A:50 , ASN A:51 , HIS A:243 , ARG A:245 , TRP A:250 , 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:519 , HOH A:532 , HOH A:536 , HOH A:563 , HOH A:738 , HOH A:765 , HOH A:771 , HOH A:811binding site for residue GDP A 403
2AC2SOFTWAREPHE A:170 , THR A:171 , GLN A:182 , ARG A:186 , HOH A:507 , HOH A:772binding site for residue GOL A 404
3AC3SOFTWARELYS A:64 , ASN A:67 , HIS A:105 , HOH A:504 , HOH A:591 , HOH A:818binding site for residue GOL A 405
4AC4SOFTWAREASP A:35 , ALA A:37 , ASN A:67 , ARG A:106 , GLN A:351 , ARG A:376 , HOH A:527 , HOH A:542 , HOH A:548 , HOH A:564 , HOH A:608 , HOH A:683 , HOH A:832binding site for Mono-Saccharide NAG A 401 bound to ASN A 67
5AC5SOFTWAREASN A:165 , HOH A:556 , HOH A:728binding site for Mono-Saccharide NAG A 402 bound to ASN A 165

(-) 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 5KY0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5KY0)

(-) Exons   (0, 0)

(no "Exon" information available for 5KY0)

(-) 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:349
                                                                                                                                                                                                                                                                                                                                                                                             
               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..hhhhhhhhh........hhhhhh.........hhhhhh.hhhhhhhhhhhhhhhhh..eeeeee....hhhhhhh......eee.....hhhhhhhhhhh..eeee...hhhhhhhhhhhhhh...eee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ky0 A  31 APSWDLAGYLLYCPCMGRFGNQADHFLGSLAFAKLLNRTLAVPPWIEYQHHKPPFTNLHVSYQKYFKLEPLQAYHRVVSLEDFMENLAPSHWPPEKRVAYCFEVAAQRSPDKKTCPMKEGNPFGPFWDQFHVSFNKSELFTGISFSASYKEQWTQRFPAKEHPVLALPGAPAQFPVLEEHRELQKYMVWSDEMVRTGEALISAHLVRPYVGIHLRIGSDWKNACAMLGSHFMASPQCVGYSRSTATPLTMTMCLPDLKEIQRAVTLWVRALNARSVYIATDSESYVSEIQQLFKDKVRVVSLKPEVAQIDLYILGQADHFIGNCVSSFTAFVKRERDLHGRQSSFFGMD 384
                                    40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250      |265       275       285       295       305       315       325       335       345       355       365       375         
                                                                                                                                                                                                                                                            257|                                                                                                                         
                                                                                                                                                                                                                                                             263                                                                                                                         


Chain B from PDB  Type:PROTEIN  Length:38
                                                                      
               SCOP domains -------------------------------------- SCOP domains
               CATH domains -------------------------------------- CATH domains
               Pfam domains -------------------------------------- Pfam domains
         Sec.struct. author .hhhhh......eeee....eeee....ee.....ee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------- PROSITE
                 Transcript -------------------------------------- Transcript
                 5ky0 B 454 NECISNPCQNGATCLDQIGEFQCICMPGYEGVYCEINT 491
                                   463       473       483
   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 5KY0)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5KY0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5KY0)

(-) Gene Ontology  (210, 215)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Arg A:237 - Pro A:238   [ RasMol ]  
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    Pro A:83 - Pro A:84   [ RasMol ]  
 

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  5ky0
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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 5ky4 5ky8 5ky9
        OFUT1_MOUSE | Q91ZW2: 5kxh 5kxq 5ky2 5ky3 5ky4 5ky5 5ky7 5ky8 5ky9

(-) Related Entries Specified in the PDB File

5khq 5khx 5ky2 5ky3 5ky4 5ky5 5ky7 5ky8 5ky9