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(-) Description

Title :  STRUCTURE OF UAF1
 
Authors :  S. Dharadhar, T. Sixma
Date :  07 Jun 16  (Deposition) - 28 Sep 16  (Release) - 30 Nov 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A,C  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Wdr48 Activates Usp1/12/46 B Propellar, Structural Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Dharadhar, M. Clerici, W. J. Van Dijk, A. Fish, T. K. Sixma
A Conserved Two-Step Binding For The Uaf1 Regulator To The Usp12 Deubiquitinating Enzyme.
J. Struct. Biol. V. 196 437 2016
PubMed-ID: 27650958  |  Reference-DOI: 10.1016/J.JSB.2016.09.011

(-) Compounds

Molecule 1 - WD REPEAT-CONTAINING PROTEIN 48
    Chains: A, B
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Common: FALL ARMYWORM
    Expression System Taxid: 7108
    Gene: WDR48, KIAA1449, UAF1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: USP1-ASSOCIATED FACTOR 1,WD REPEAT ENDOSOMAL PROTEIN,P80
 
Molecule 2 - UNKNOWN
    Chains: C
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Common: FALL ARMYWORM
    Expression System Taxid: 7108
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): A C
Biological Unit 2 (1x):  B 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 19)

Asymmetric Unit (2, 19)
No.NameCountTypeFull Name
1GOL14Ligand/IonGLYCEROL
2UNK5Mod. Amino Acid
Biological Unit 1 (1, 7)
No.NameCountTypeFull Name
1GOL7Ligand/IonGLYCEROL
2UNK-1Mod. Amino Acid
Biological Unit 2 (1, 7)
No.NameCountTypeFull Name
1GOL7Ligand/IonGLYCEROL
2UNK-1Mod. Amino Acid

(-) Sites  (14, 14)

Asymmetric Unit (14, 14)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:50 , ARG A:272 , GOL A:602 , HOH A:805 , LYS B:378 , ASN B:382binding site for residue GOL A 601
02AC2SOFTWAREASN A:31 , ARG A:50 , LYS A:425 , GOL A:601 , HOH A:719 , GLN B:365binding site for residue GOL A 602
03AC3SOFTWAREHIS A:73 , CYS A:109 , MET A:110 , SER A:111 , THR A:112 , GOL A:605 , GLU B:536binding site for residue GOL A 603
04AC4SOFTWARELYS A:318 , SER A:319 , GLY A:359 , HOH A:715 , HOH A:718binding site for residue GOL A 604
05AC5SOFTWARESER A:111 , THR A:112 , GOL A:603 , HOH A:709binding site for residue GOL A 605
06AC6SOFTWAREHIS A:73 , LYS A:100 , ARG A:114 , ARG A:527binding site for residue GOL A 606
07AC7SOFTWARELYS A:168 , ARG A:193 , LYS A:202 , LYS A:205binding site for residue GOL A 607
08AC8SOFTWARELYS A:378 , ASN A:382 , ARG B:50 , ARG B:272 , THR B:317 , GOL B:602 , HOH B:821binding site for residue GOL B 601
09AC9SOFTWAREGLU A:404 , ASN B:31 , GOL B:601 , HOH B:745 , HOH B:752 , HOH B:798binding site for residue GOL B 602
10AD1SOFTWARELYS B:168 , ARG B:193 , LYS B:205binding site for residue GOL B 603
11AD2SOFTWAREHIS B:73 , LYS B:100 , ARG B:527 , GOL B:607binding site for residue GOL B 604
12AD3SOFTWARETHR B:112 , ASN B:157 , GOL B:607 , HOH B:710binding site for residue GOL B 605
13AD4SOFTWARESER B:319 , GLY B:360 , SER B:362 , THR B:380 , HOH B:825binding site for residue GOL B 606
14AD5SOFTWAREGLU A:536 , HIS B:73 , CYS B:109 , MET B:110 , THR B:112 , GOL B:604 , GOL B:605 , HOH B:703 , HOH B:710binding site for residue GOL B 607

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5L8E)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Asp A:307 -Pro A:308

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5L8E)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5L8E)

(-) Exons   (0, 0)

(no "Exon" information available for 5L8E)

(-) 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:517
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee...........eeeeeee....eeeeee....eeeee........eeeee......eeeeeee....eeeeee....eeeee....eeeeee......eeeeeeehhh.eeeeee....eeeeehhhhhh......eee.eee......eeeeee......eeeee....eeeee....eeeeee......eeeeee.....eeeeee....eeeee....eeeeee......eeeeee.....eeeeee...eeeeee......eeeeee....eeeeee........eeeeee....eeeee............eee.....eeeeee.....eeeeee....eeeee....eeeeeee..hhhhhhhhh..........eee.....eeeee........eee..............eeehhhhhhhhhh..hhhhh....................eeeeee....eeeeee.hhh.hhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5l8e A  12 RRKVQVSYVIRDEVEKYNRNGVNALQLDPALNRLFTAGRDSIIRIWSVNQHKQDPYIASMEHHTDWVNDIVLCCNGKTLISASSDTTVKVWNAHKGFCMSTLRTHKDYVKALAYAKDKELVASAGLDRQIFLWDVNTLTALTASNNTVTTSSLSGNKDSIYSLAMNQLGTIIVSGSTEKVLRVWDPRTCAKLMKLKGHTDNVKALLLNRDGTQCLSGSSDGTIRLWSLGQQRCIATYRVHDEGVWALQVNDAFTHVYSGGRDRKIYCTDLRNPDIRVLICEEKAPVLKMELDRSADPPPAIWVATTKSTVNKWTLKGIHPLCTQPDQVIKGGASIIQCHIFNDKRHILTKDTNNNVAYWDVLKACKVEDLGKVDFEDEIKKRFKMVYVPNWFSVDLKTGMLTITLDESDCFAAWVSAKDAGFSSPDGSDPKLNLGGLLLQALLEYWPRTHVNPMNRVQKGNGYFQVPPHTPVIFGEAGGRTLFRLLCRDSGGETESMLLNETVPQWVIDITVDKNMP 560
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       348       358       368       378       388       398       408       418       428       438       448       458       468       478   ||  503       513       523       533       543       553       
                                                                                                                                                                                                                                                                                                                                                        330|                                                                                                                                   482|                                                              
                                                                                                                                                                                                                                                                                                                                                         348                                                                                                                                    498                                                              


Chain B from PDB  Type:PROTEIN  Length:517
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee...........eeeeeee....eeeeee....eeeee........eeeee......eeeeeee....eeeeee....eeeee....eeeeee......eeeeeeehhh.eeeeee....eeeeehhhhhh...........ee......eeeeee......eeeee....eeeee....eeeeee......eeeeee.....eeeeee....eeeee....eeeeee......eeeeee.....eeeeee...eeeeee......eeeeee....eeeeee........eeeeee....eeeee............eee.....eeeeee.....eeeeee....eeeee....eeeeeee..hhhhhhhhh..........eee.....eeeeehhhhhh..eee..............eeehhhhhhhhhh..hhhhh....................eeeeee....eeeeee.hhh.hhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5l8e B  12 RRKVQVSYVIRDEVEKYNRNGVNALQLDPALNRLFTAGRDSIIRIWSVNQHKQDPYIASMEHHTDWVNDIVLCCNGKTLISASSDTTVKVWNAHKGFCMSTLRTHKDYVKALAYAKDKELVASAGLDRQIFLWDVNTLTALTASNNTVTTSSLSGNKDSIYSLAMNQLGTIIVSGSTEKVLRVWDPRTCAKLMKLKGHTDNVKALLLNRDGTQCLSGSSDGTIRLWSLGQQRCIATYRVHDEGVWALQVNDAFTHVYSGGRDRKIYCTDLRNPDIRVLICEEKAPVLKMELDRSADPPPAIWVATTKSTVNKWTLKGIHPLCTQPDQVIKGGASIIQCHIFNDKRHILTKDTNNNVAYWDVLKACKVEDLGKVDFEDEIKKRFKMVYVPNWFSVDLKTGMLTITLDESDCFAAWVSAKDAGFSSPDGSDPKLNLGGLLLQALLEYWPRTHVNPMNRVQKGNGYFQVPPHTPVIFGEAGGRTLFRLLCRDSGGETESMLLNETVPQWVIDITVDKNMP 560
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       348       358       368       378       388       398       408       418       428       438       448       458       468       478   ||  503       513       523       533       543       553       
                                                                                                                                                                                                                                                                                                                                                        330|                                                                                                                                   482|                                                              
                                                                                                                                                                                                                                                                                                                                                         348                                                                                                                                    498                                                              


Chain C from PDB  Type:PROTEIN  Length:5
                                     
               SCOP domains ----- SCOP domains
               CATH domains ----- CATH domains
               Pfam domains ----- Pfam domains
         Sec.struct. author .eee. Sec.struct. author
                 SAPs(SNPs) ----- SAPs(SNPs)
                    PROSITE ----- PROSITE
                 Transcript ----- Transcript
                 5l8e C 106 xxxxx 110
                            |||||
                          106-UNK
                           107-UNK
                            108-UNK
                             109-UNK
                              110-UNK
   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 5L8E)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5L8E)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5L8E)

(-) Gene Ontology  (21, 21)

Asymmetric Unit(hide GO term definitions)

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        WDR48_HUMAN | Q8TAF3: 5cvl 5cvn 5cvo 5k1a 5k1b 5k1c 5l8w

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