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(-) Description

Title :  STRUCTURE OF UTP6
 
Authors :  C. Zhang, K. Ye
Date :  23 Feb 16  (Deposition) - 06 Jul 16  (Release) - 14 Sep 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.30
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Biol. Unit 5:  A (1x),D (1x)
Biol. Unit 6:  B,C  (1x)
Keywords :  Hat(Half A Tpr) Repeat, Nucleolus, Rrna Processing, Protein Binding, Structural Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Zhang, Q. Sun, R. Chen, X. Chen, J. Lin, K. Ye
Integrative Structural Analysis Of The Utpb Complex, An Early Assembly Factor For Eukaryotic Small Ribosomal Subunits
Nucleic Acids Res. V. 44 7475 2016
PubMed-ID: 27330138  |  Reference-DOI: 10.1093/NAR/GKW562

(-) Compounds

Molecule 1 - PUTATIVE UNCHARACTERIZED PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Strain: BL21(DE3)-RIL
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 81-414
    Gene: CTHT_0020090
    Organism Scientific: CHAETOMIUM THERMOPHILUM (STRAIN DSM 1495 / CBS 144.50 / IMI 039719)
    Organism Taxid: 759272
    Strain: DSM 1495 / CBS 144.50 / IMI 039719
    Synonym: U3 SMALL NUCLEOLAR RNA-ASSOCIATED PROTEIN 6

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D
Biological Unit 5 (1x): A (1x)  D (1x)
Biological Unit 6 (1x):  BC 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 5IC8)

(-) Sites  (0, 0)

(no "Site" information available for 5IC8)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5IC8)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Val A:348 -Leu A:349
2Val B:348 -Leu B:349
3Thr D:372 -Asp D:373

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5IC8)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5IC8)

(-) Exons   (0, 0)

(no "Exon" information available for 5IC8)

(-) 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:284
                                                                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh........................hhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh......hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ic8 A  86 HASQARTFGIFERAVLKHPGSIELWLAYLEFAAQVKATKRWRRIMTRALRLHPMNASLWTLAGRRAAQNGDMQRARAHFLRGCRFCTREPTLWLEYARCEMDWLARMEAKKDGLILPDPDAEGTDGTKKAAKPVFDAEQTKKLEQSPALSGAIPIAVFDVARKQPFWGPAAAEKFFDVFAKFGHLSCHERIISHVVTTMQELFPNHPCTWSVHIRQPLVGVDVLTPAFPKALRESLARLKAALQSTTDRKALATKMVAWMDGILAIEKLDAAIRTVLEHTKRSL 409
                                    95       105       115       125       135       145       155       165       175       185       195||     245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405    
                                                                                                                                        196|                                                                                                                                                                            
                                                                                                                                         237                                                                                                                                                                            


Chain B from PDB  Type:PROTEIN  Length:282
                                                                                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.........................hhhhhhhhhhh....hhhhhhhhhhhh.....hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5ic8 B  86 HASQARTFGIFERAVLKHPGSIELWLAYLEFAAQVKATKRWRRIMTRALRLHPMNASLWTLAGRRAAQNGDMQRARAHFLRGCRFCTREPTLWLEYARCEMDWLARMEAKKEDGLILPDPDAEGTDGTKKAAKPVFDAEQTKKLEQSPALSGAIPIAVFDVARKQPFWGPAAAEKFFDVFAKFGHLSCHERIISHVVTTMQELFPNHPCTWSVHIRQPLVGVDVLTPAFPKALRESLARLKAALQSTTDRKALATKMVAWMDGILALDAAIRTVLEHTKRSL 409
                                    95       105       115       125       135       145       155       165       175       185       195||     244       254       264       274       284       294       304       314       324       334       344       354       364       374       384     ||397       407  
                                                                                                                                        196|                                                                                                                                                       390|               
                                                                                                                                         236                                                                                                                                                        394               


Chain C from PDB  Type:PROTEIN  Length:252
                                                                                                                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh..................hhhhhhhhhh.....hhhhhhhhhhhh.....hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh.hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh.hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5ic8 C  86 HASQARTFGIFERAVLKHPGSIELWLAYLEFAAQVKATKRWRRIMTRALRLHPMNASLWTLAGRRAAQNGDMQRARAHFLRGCRFCTREPTLWLEYARCEMDWLARMEADGLILPDPDAKKAAKPVFDAEQTKKLEQSPALSGAIPIAVFDVARKQPFWGPAAAEKFFDVFAKFCHERIISHVVTTMQELFPCTWSVHIRQPLVGAFPKALRESLARLKAALQLATKMVAWMDGILAIAAIRTVLEHTKRSL 409
                                    95       105       115       125       135       145       155       165       175       185       237       253       263       273       283       293       303   ||  317       327||     340    || 356       366  ||   383       397       407  
                                                                                                                                      194|      246|                                                   307|             328|          345|              369|           391|             
                                                                                                                                       237       253                                                    312              332           352               377            396             


Chain D from PDB  Type:PROTEIN  Length:259
                                                                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhh.....hhhhhhhhhhhh.....hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh..hhhhhhhhhhh.....hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ic8 D  86 HASQARTFGIFERAVLKHPGSIELWLAYLEFAAQVKATKRWRRIMTRALRLHPMNASLWTLAGRRAAQNGDMQRARAHFLRGCRFCTREPTLWLEYARCEMDWLARMEADGLILPDPAAKPVFDAEQTKKLEQSPALSGAIPIAVFDVARKQPFWGPAAAEKFFDVFAKFSCHERIISHVVTTMQELFPNHPCTWSVHIRQPLVGFPKALRESLARLKAALQSTTDRKALATKMVAWMDGILAIDAAIRTVLEHTKRSL 409
                                    95       105       115       125       135       145       155       165       175       185       237      |257       267       277       287       297       307|      320       330       340    || 357       367       377       387   ||  400         
                                                                                                                                      194|    244|                                                 307|                               345|                                   391|              
                                                                                                                                       237     255                                                  311                                353                                    395
   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 5IC8)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5IC8)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5IC8)

(-) Gene Ontology  (3, 3)

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  Cis Peptide Bonds
    Thr D:372 - Asp D:373   [ RasMol ]  
    Val A:348 - Leu A:349   [ RasMol ]  
    Val B:348 - Leu B:349   [ RasMol ]  
 
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(-) Related Entries Specified in the PDB File

5ic7 5ic9 5ica