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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN RTF1 PLUS3 DOMAIN
 
Authors :  A. D. Wier, A. Heroux, A. P. Vandemark
Date :  03 Jun 13  (Deposition) - 02 Oct 13  (Release) - 20 Nov 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.12
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  B  (1x)
Biol. Unit 2:  A  (1x)
Keywords :  Tutor, Plus3, Peptide Binding Protein, Spt5 Ctr Binding, Transcription, Paf1 Complex, Rtf1, Orf Association Region, Chromatin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. D. Wier, M. K. Mayekar, A. Heroux, K. M. Arndt, A. P. Vandemark
Structural Basis For Spt5-Mediated Recruitment Of The Paf1 Complex To Chromatin.
Proc. Natl. Acad. Sci. Usa V. 110 17290 2013
PubMed-ID: 24101474  |  Reference-DOI: 10.1073/PNAS.1314754110

(-) Compounds

Molecule 1 - RNA POLYMERASE-ASSOCIATED PROTEIN RTF1 HOMOLOG
    Chains: B, A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PLC3
    Expression System Strain: BL21(DE3) CODON+RILP
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 353-484
    Gene: KIAA0252, RTF1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 5)

Asymmetric Unit (1, 5)
No.NameCountTypeFull Name
1GOL5Ligand/IonGLYCEROL
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1GOL4Ligand/IonGLYCEROL
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG B:366 , SER B:443 , ASN B:444 , GLN B:445 , GOL B:502BINDING SITE FOR RESIDUE GOL B 501
2AC2SOFTWARETYR B:400 , PHE B:441 , VAL B:442 , GOL B:501BINDING SITE FOR RESIDUE GOL B 502
3AC3SOFTWAREGLY B:384 , GLU B:404 , GLU B:471BINDING SITE FOR RESIDUE GOL B 503
4AC4SOFTWARELYS B:480BINDING SITE FOR RESIDUE GOL B 504
5AC5SOFTWAREARG A:366 , SER A:443 , ASN A:444 , HOH A:627BINDING SITE FOR RESIDUE GOL A 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4L1P)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4L1P)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4L1P)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4L1P)

(-) Exons   (0, 0)

(no "Exon" information available for 4L1P)

(-) 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:127
                                                                                                                                                               
               SCOP domains d4l1pa_ A: automated matches                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhh.hhhhhhhhh...hhhhhhh..eeeee...eeeeeeeeeeeeeeeeee..eeeeeeeeeee..eeeeee.hhh.....hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l1p A 351 HMVSLPEELNRVRLSRHKLERWCHMPFFAKTVTGCFVRIGIPVYRVAEITGVVETAKVYQLGGTRTNKGLQLRHGNDQRVFRLEFVSNQEFTESEFMKWKEAMFSAGMQLPTLDEINKKELSIKEAL 483
                                   360       370       380       390||     406       416       426       436       446       456       466       476       
                                                                  391|                                                                                     
                                                                   398                                                                                     


Chain B from PDB  Type:PROTEIN  Length:132
                                                                                                                                                                    
               SCOP domains d4l1pb_ B: automated matches                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....hhhhhhhhh.hhhhhhhhh...hhhhhhh..eeeeeeee....eeeeeeeeeeeeeeeeeeee..eeeeeeeeeee..eeeeee.hhh.....hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4l1p B 351 HMVSLPEELNRVRLSRHKLERWCHMPFFAKTVTGCFVRIGIGNHNSKPVYRVAEITGVVETAKVYQLGGTRTNKGLQLRHGNDQRVFRLEFVSNQEFTESEFMKWKEAMFSAGMQLPTLDEINKKELSIKEA 482
                                   360       370       380       390       400       410       420       430       440       450       460       470       480
   Legend:   → Mismatch (orange background)
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  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  (1, 2)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4L1P)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4L1P)

(-) Gene Ontology  (20, 20)

Asymmetric Unit(hide GO term definitions)

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  RTF1_HUMAN | Q92541
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 Related Entries

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UniProtKB/Swiss-Prot
        RTF1_HUMAN | Q92541: 2bze 2db9 3u1u 4l1u

(-) Related Entries Specified in the PDB File

4l1u