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(-) Description

Title :  CRYSTAL STRUCTURE OF YEEU FROM E. COLI. NORTHEAST STRUCTURAL GENOMICS TARGET ER304
 
Authors :  M. Arbing, M. Su, J. Benach, N. K. Karpowich, M. Jiang, R. Xiao, K. Cunnin C. Ma, C. X. Chen, T. B. Acton, G. T. Montelione, L. Tong, J. F. Hunt, Nort Structural Genomics Consortium (Nesg)
Date :  18 May 06  (Deposition) - 18 Jul 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A,B  (1x)
Keywords :  Er304, E. Coli, Structural Genomics, Psi-2, Protein Structure Initiative, Northeast Structural Genomics Consortium, Nesg, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. A. Arbing, S. K. Handelman, A. P. Kuzin, G. Verdon, C. Wang, M. Su, F. P. Rothenbacher, M. Abashidze, M. Liu, J. M. Hurley, R. Xiao, T. Acton, M. Inouye, G. T. Montelione, N. A. Woychik, J. F. Hunt
Crystal Structures Of Phd-Doc, Higa, And Yeeu Establish Multiple Evolutionary Links Between Microbial Growth-Regulating Toxin-Antitoxin Systems.
Structure V. 18 996 2010
PubMed-ID: 20696400  |  Reference-DOI: 10.1016/J.STR.2010.04.018

(-) Compounds

Molecule 1 - HYPOTHETICAL PROTEIN YEEU
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21
    Expression System Strain: BL21(DE3)+ MAGIC
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: YEEU
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Strain: K12 MG1655

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (1x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 10)

Asymmetric Unit (4, 10)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2GOL2Ligand/IonGLYCEROL
3MG2Ligand/IonMAGNESIUM ION
4MSE5Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL-1Ligand/IonGLYCEROL
3MG-1Ligand/IonMAGNESIUM ION
4MSE3Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL2Ligand/IonGLYCEROL
3MG-1Ligand/IonMAGNESIUM ION
4MSE2Mod. Amino AcidSELENOMETHIONINE
Biological Unit 3 (2, 7)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL2Ligand/IonGLYCEROL
3MG-1Ligand/IonMAGNESIUM ION
4MSE5Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:23 , CYS A:24 , ARG A:51 , CYS B:24 , ARG B:51BINDING SITE FOR RESIDUE CL A 4001
2AC2SOFTWAREHIS A:86 , HIS A:88 , ASP A:102 , THR A:103BINDING SITE FOR RESIDUE MG A 5001
3AC3SOFTWAREARG A:51 , HOH A:3014 , TRP B:19 , GLY B:21BINDING SITE FOR RESIDUE MG B 5002
4AC4SOFTWARETHR A:25 , PRO B:23 , CYS B:24 , THR B:25 , VAL B:26 , TYR B:115BINDING SITE FOR RESIDUE GOL B 6000
5AC5SOFTWARETRP A:19 , TRP A:20 , GLY A:21 , LEU A:104 , TRP B:19 , ARG B:51BINDING SITE FOR RESIDUE GOL B 6001

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2H28)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Thr A:27 -Pro A:28
2Thr B:27 -Pro B:28

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2H28)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2H28)

(-) Exons   (0, 0)

(no "Exon" information available for 2H28)

(-) 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:109
 aligned with CBEA_ECOLI | P76364 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:109
                                                                                                                                    122  
                                    25        35        45        55        65        75        85        95       105       115      |  
           CBEA_ECOLI    16 DRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGLFSDADAYHLDQAFPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCKADTLSSCDYVYLAVYPTPEMKN--   -
               SCOP domains d2h28a1 A:16-122 Hypothetical protein YeeU                                                                 -- SCOP domains
               CATH domains -----------2h28A01 A:27-118  [code=3.30.450.20, no name defined]                                       ------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eeeeeeeee..eee.hhh.eeee...hhhhhhhhhhhhhhhhhhhhhhhhhh.........eeeee..eeeeee......eeeeeeee........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 2h28 A  16 DRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGLFSDADAYHLDQAFPLLmKQLELmLTSGELNPRHQHTVTLYAKGLTCKADTLSSCDYVYLAVYPTPEmKNLE 124
                                    25        35        45        55        65    |   75|       85        95       105       115    |    
                                                                                 70-MSE |                                         120-MSE
                                                                                       76-MSE                                            


Chain B from PDB  Type:PROTEIN  Length:104
 aligned with CBEA_ECOLI | P76364 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:104
                                    24        34        44        54        64        74        84        94       104       114    
           CBEA_ECOLI    15 HDRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGLFSDADAYHLDQAFPLLMKQLELMLTSGELNPRHQHTVTLYAKGLTCKADTLSSCDYVYLAVYPTP 118
               SCOP domains d2h28b_ B: Hypothetical protein YeeU                                                                     SCOP domains
               CATH domains ------------2h28B01 B:27-118  [code=3.30.450.20, no name defined]                                        CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............eeeeeeeee..eee.hhh.eeee...hhhhhhhhhhhhhhhhhhhhhhhhhh.........eeeee..eeeeee......eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------- Transcript
                 2h28 B  15 HDRPWWGLPCTVTPCFGARLVQEGNRLHYLADRAGIRGLFSDADAYHLDQAFPLLmKQLELmLTSGELNPRHQHTVTLYAKGLTCKADTLSSCDYVYLAVYPTP 118
                                    24        34        44        54        64     |  74 |      84        94       104       114    
                                                                                  70-MSE |                                          
                                                                                        76-MSE
   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  (1, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2H28)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (CBEA_ECOLI | P76364)
molecular function
    GO:0008092    cytoskeletal protein binding    Interacting selectively and non-covalently with any protein component of any cytoskeleton (actin, microtubule, or intermediate filament cytoskeleton).
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0051495    positive regulation of cytoskeleton organization    Any process that activates or increases the frequency, rate or extent of the formation, arrangement of constituent parts, or disassembly of cytoskeletal structures.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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  2h28
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