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(-) Description

Title :  X-RAY CRYSTAL STRUCTURE OF A CHEMICALLY SYNTHESIZED [D-VAL35]UBIQUITIN WITH A CUBIC SPACE GROUP
 
Authors :  D. Bang, A. V. Gribenko, V. Tereshko, A. A. Kossiakoff, S. B. Kent, G. I. M
Date :  12 Dec 05  (Deposition) - 31 Jan 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Ubiquitin, Structural Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Bang, A. V. Gribenko, V. Tereshko, A. A. Kossiakoff, S. B. Kent, G. I. Makhatadze
Dissecting The Energetics Of Protein Alpha-Helix C-Cap Termination Through Chemical Protein Synthesis.
Nat. Chem. Biol. V. 2 139 2006
PubMed-ID: 16446709  |  Reference-DOI: 10.1038/NCHEMBIO766

(-) Compounds

Molecule 1 - UBIQUITIN
    Chains: A, B
    Engineered: YES
    Fragment: RESIDUES 1-76
    Mutation: YES
    Other Details: THE PROTEIN WAS CHEMICALLY SYNTHESIZED. THE SEQUENCE OF THE PROTEIN CAN BE NATURALLY FOUND IN HOMO SAPIENS (HUMAN)
    Synthetic: YES

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 17)

Asymmetric Unit (3, 17)
No.NameCountTypeFull Name
1ACT3Ligand/IonACETATE ION
2CD12Ligand/IonCADMIUM ION
3DVA2Mod. Amino AcidD-VALINE
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1ACT3Ligand/IonACETATE ION
2CD-1Ligand/IonCADMIUM ION
3DVA1Mod. Amino AcidD-VALINE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1ACT-1Ligand/IonACETATE ION
2CD-1Ligand/IonCADMIUM ION
3DVA1Mod. Amino AcidD-VALINE

(-) Sites  (15, 15)

Asymmetric Unit (15, 15)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLU A:64 , HIS A:68 , ACT A:101 , ACT A:102 , HOH A:103BINDING SITE FOR RESIDUE CD A 100
02AC2SOFTWAREALA A:46 , GLY A:47 , LYS A:63 , GLU A:64 , HIS A:68 , CD A:100 , ACT A:102BINDING SITE FOR RESIDUE ACT A 101
03AC3SOFTWAREGLU A:64 , CD A:100 , ACT A:101 , HOH A:103 , HOH A:1012BINDING SITE FOR RESIDUE ACT A 102
04AC4SOFTWAREGLU A:18 , ASP A:21 , LYS A:29 , HOH A:201BINDING SITE FOR RESIDUE CD A 200
05AC5SOFTWARELEU A:1 , GLU A:16 , ASP A:32 , ACT A:301BINDING SITE FOR RESIDUE CD A 300
06AC6SOFTWARELEU A:1 , GLN A:2 , GLU A:16 , ASP A:32 , CD A:300 , HOH A:1004BINDING SITE FOR RESIDUE ACT A 301
07AC7SOFTWAREGLU A:24 , ASP A:52BINDING SITE FOR RESIDUE CD A 400
08AC8SOFTWAREASP A:39BINDING SITE FOR RESIDUE CD A 401
09AC9SOFTWAREASP A:58BINDING SITE FOR RESIDUE CD A 402
10BC1SOFTWAREHIS B:68BINDING SITE FOR RESIDUE CD B 500
11BC2SOFTWAREGLU B:18 , ASP B:21 , LYS B:29BINDING SITE FOR RESIDUE CD B 600
12BC3SOFTWARELEU B:1 , GLU B:16BINDING SITE FOR RESIDUE CD B 700
13BC4SOFTWAREGLU B:24 , ASP B:52BINDING SITE FOR RESIDUE CD B 800
14BC5SOFTWAREASP B:39BINDING SITE FOR RESIDUE CD B 801
15BC6SOFTWAREASP B:58BINDING SITE FOR RESIDUE CD B 802

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2FCN)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2FCN)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2FCN)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2FCN)

(-) Exons   (0, 0)

(no "Exon" information available for 2FCN)

(-) 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:73
                                                                                                        
               SCOP domains d2fcna1 A:1-73 Ubiquitin                                                  SCOP domains
               CATH domains 2fcnA00 A:1-73                                                            CATH domains
               Pfam domains ------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee......eeee....................hhh.eeeee..ee................eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------- Transcript
                  2fcn A  1 LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEvIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL 73
                                    10        20        30    |   40        50        60        70   
                                                             35-DVA                                  


Chain B from PDB  Type:PROTEIN  Length:73
                                                                                                        
               SCOP domains d2fcnb1 B:1-73 Ubiquitin                                                  SCOP domains
               CATH domains 2fcnB00 B:1-73                                                            CATH domains
               Pfam domains ------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.....eeeee....................hhh.eeeee..ee.....hhhhhh.....eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------- Transcript
                  2fcn B  1 LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEvIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL 73
                                    10        20        30    |   40        50        60        70   
                                                             35-DVA
   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: Designed proteins (167)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2FCN)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 2FCN)

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 Related Entries

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(-) Related Entries Specified in the PDB File

2fcm 2fcq 2fcs