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(-) Description

Title :  STRUCTURE OF HUMAN SCP1 BOUND TO CIS-PROLINE PEPTIDOMIMETIC CTD PHOSPHO-SER5 PEPTIDE
 
Authors :  J. E. Mayfield, Y. Zhang
Date :  26 Feb 15  (Deposition) - 16 Sep 15  (Release) - 28 Oct 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,C  (1x)
Biol. Unit 2:  B,D  (1x)
Keywords :  Phosphatase, Peptidomimetic, Complex, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. E. Mayfield, S. Fan, S. Wei, M. Zhang, B. Li, A. D. Ellington, F. A. Etzkorn, Y. J. Zhang
Chemical Tools To Decipher Regulation Of Phosphatases By Proline Isomerization On Eukaryotic Rna Polymerase Ii.
Acs Chem. Biol. V. 10 2405 2015
PubMed-ID: 26332362  |  Reference-DOI: 10.1021/ACSCHEMBIO.5B00296

(-) Compounds

Molecule 1 - CARBOXY-TERMINAL DOMAIN RNA POLYMERASE II POLYPEPTIDE A SMALL PHOSPHATASE 1
    Chains: A, B
    EC Number: 3.1.3.16
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 76-254
    Gene: CTDSP1, NIF3, NLIIF, SCP1
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: NUCLEAR LIM INTERACTOR-INTERACTING FACTOR 3,NLI-INTERACTING FACTOR 3,SMALL C-TERMINAL DOMAIN PHOSPHATASE 1,SMALL CTD PHOSPHATASE 1
 
Molecule 2 - A SMALL PHOSPHATASE 1
    Chains: C, D
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A C 
Biological Unit 2 (1x):  B D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
14CG2Mod. Amino Acid(1R,2Z)-2-[(2R)-2-AMINO-3-(PHOSPHONOOXY)PROPYLIDENE]CYCLOPENTANECARBOXYLIC ACID
2MG2Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
14CG1Mod. Amino Acid(1R,2Z)-2-[(2R)-2-AMINO-3-(PHOSPHONOOXY)PROPYLIDENE]CYCLOPENTANECARBOXYLIC ACID
2MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
14CG1Mod. Amino Acid(1R,2Z)-2-[(2R)-2-AMINO-3-(PHOSPHONOOXY)PROPYLIDENE]CYCLOPENTANECARBOXYLIC ACID
2MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:96 , ASP A:98 , ASN A:207 , HOH A:426 , HOH A:450 , HOH C:104binding site for residue MG A 301
2AC2SOFTWAREASN B:96 , ASP B:98 , ASN B:207 , HOH B:458 , HOH B:466binding site for residue MG B 301

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4YH1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4YH1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4YH1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4YH1)

(-) Exons   (0, 0)

(no "Exon" information available for 4YH1)

(-) 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:179
                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhh...eeee......eeee........eeeeeee..eeeeeeeee..hhhhhhhhhhhhheeeee...hhhhhhhhhhhhh....eeeeehhhhheee..eee.hhhhh..hhh.eeeee.hhhhhh.hhh.eee..........hhhhhhhhhhhhhhhh..hhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yh1 A  77 QYLLPEAKAQDSDKICVVINLDETLVHSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTASLAKYADPVADLLDKWGAFRARLFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDNAVPVASWFDNMSDTELHDLLPFFEQLSRVDDVYSVLR 255
                                    86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246         


Chain B from PDB  Type:PROTEIN  Length:179
                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............eeee......eeee........eeeeeee..eeeeeeeee..hhhhhhhhhhhhheeeee...hhhhhhhhhhhhh....eeeeehhhhheee..eee.hhhhh..hhh.eeeee.hhhhhh.hhh.eee..........hhhhhhhhhhhhhhhh..hhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yh1 B  77 QYLLPEAKAQDSDKICVVINLDETLVHSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTASLAKYADPVADLLDKWGAFRARLFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDNAVPVASWFDNMSDTELHDLLPFFEQLSRVDDVYSVLR 255
                                    86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246         


Chain C from PDB  Type:PROTEIN  Length:4
                                    
               SCOP domains ---- SCOP domains
               CATH domains ---- CATH domains
               Pfam domains ---- Pfam domains
         Sec.struct. author .... Sec.struct. author
                 SAPs(SNPs) ---- SAPs(SNPs)
                    PROSITE ---- PROSITE
                 Transcript ---- Transcript
                 4yh1 C   2 SPTx   5
                               |
                               5-4CG


Chain D from PDB  Type:PROTEIN  Length:4
                                    
               SCOP domains ---- SCOP domains
               CATH domains ---- CATH domains
               Pfam domains ---- Pfam domains
         Sec.struct. author .... Sec.struct. author
                 SAPs(SNPs) ---- SAPs(SNPs)
                    PROSITE ---- PROSITE
                 Transcript ---- Transcript
                 4yh1 D   2 SPTx   5
                               |
                               |
                               5-4CG
   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 4YH1)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4YH1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4YH1)

(-) Gene Ontology  (15, 15)

Asymmetric Unit(hide GO term definitions)

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  CTDS1_HUMAN | Q9GZU7
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  3.1.3.16
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 Related Entries

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

UniProtKB/Swiss-Prot
        CTDS1_HUMAN | Q9GZU7: 1t9z 1ta0 2ghq 2ght 3l0b 3l0c 3l0y 3pgl 4ygy

(-) Related Entries Specified in the PDB File

4ygx 4ygy