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(-) Description

Title :  CRYSTAL STRUCTURE OF ENHANCING LYCOPENE BIOSYNTHESIS PROTEIN 2
 
Authors :  Structural Genomix
Date :  01 Dec 03  (Deposition) - 30 Dec 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Structural Genomics, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Badger, J. M. Sauder, J. M. Adams, S. Antonysamy, K. Bain, M. G. Bergseid, S. G. Buchanan, M. D. Buchanan, Y. Batiyenko, J. A. Christopher, S. Emtage, A. Eroshkina, I. Feil, E. B. Furlong, K. S. Gajiwala, X. Gao, D. He, J. Hendle, A. Huber, K. Hoda, P. Kearins, C. Kissinger, B. Laubert, H. A. Lewis, J. Lin, K. Loomis, D. Lorimer, G. Louie, M. Maletic, C. D. Marsh, I. Miller, J. Molinari, H. J. Muller-Dieckmann, J. M. Newman, B. W. Noland, B. Pagarigan, F. Park, T. S. Peat, K. W. Post, S. Radojicic, A. Ramos, R. Romero, M. E. Rutter, W. E. Sanderson, K. D. Schwinn, J. Tresser, J. Winhoven, T. A. Wright, L. Wu, J. Xu, T. J. Harris
Structural Analysis Of A Set Of Proteins Resulting From A Bacterial Genomics Project
Proteins V. 60 787 2005
PubMed-ID: 16021622  |  Reference-DOI: 10.1002/PROT.20541

(-) Compounds

Molecule 1 - ENHANCING LYCOPENE BIOSYNTHESIS PROTEIN 2
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: ELBB, ELB2, B3209, SF3249, S3467
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: SIGMA CROSS-REACTING PROTEIN 27A, SCRP-27A

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 18)

Asymmetric/Biological Unit (3, 18)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2CSO2Mod. Amino AcidS-HYDROXYCYSTEINE
3MSE14Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:16 , CSO A:138 , TYR A:195 , ARG B:75BINDING SITE FOR RESIDUE ACT A 231
2AC2SOFTWAREARG A:75 , VAL B:16 , CSO B:138 , TYR B:195BINDING SITE FOR RESIDUE ACT B 231

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1VHQ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1VHQ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1VHQ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1VHQ)

(-) Exons   (0, 0)

(no "Exon" information available for 1VHQ)

(-) Sequences/Alignments

Asymmetric/Biological 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:217
 aligned with ELBB_ECOLI | P0ABU5 from UniProtKB/Swiss-Prot  Length:217

    Alignment length:217
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       
           ELBB_ECOLI     1 MKKIGVILSGCGVYDGSEIHEAVLTLLAISRSGAQAVCFAPDKQQVDVINHLTGEAMTETRNVLIEAARITRGEIRPLAQADAAELDALIVPGGFGAAKNLSNFASLGSECTVDRELKALAQAMHQAGKPLGFMCIAPAMLPKIFDFPLRLTIGTDIDTAEVLEEMGAEHVPCPVDDIVVDEDNKIVTTPAYMLAQNIAEAASGIDKLVSRVLVLAE 217
               SCOP domains d1vhqa_ A: Putative sigma cross-reacting protein 27A (SCRP-27A, EllB)                                                                                                                                                     SCOP domains
               CATH domains -1vhqA00 A:5-220  [code=3.40.50.880, no name defined]                                                                                                                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..........hhhhhhhhhhhhhhh..eeeeee.....................hhhhhhh.......ee.hhhhhhhh.eeee...hhhhhh..hhhhhhhhh..hhhhhhhhhhhhhh...eeee.hhhhhhhhhh....ee....hhhhhhhhhhh..ee........eee....eeeehhhhh..hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vhq A   4 mKKIGVILSGCGVYDGSEIHEAVLTLLAISRSGAQAVCFAPDKQQVDVINHLTGEAmTETRNVLIEAARITRGEIRPLAQADAAELDALIVPGGFGAAKNLSNFASLGSECTVDRELKALAQAmHQAGKPLGFmcIAPAmLPKIFDFPLRLTIGTDIDTAEVLEEmGAEHVPCPVDDIVVDEDNKIVTTPAYmLAQNIAEAASGIDKLVSRVLVLAE 220
                            |       13        23        33        43        53      | 63        73        83        93       103       113       123   |   133   ||  143       153       163     | 173       183       193  |    203       213       
                            |                                                      60-MSE                                                            127-MSE   137-MSE |                       169-MSE                    196-MSE                    
                            4-MSE                                                                                                                               138-CSO|                                                                             
                                                                                                                                                                     143-MSE                                                                         


Chain B from PDB  Type:PROTEIN  Length:216
 aligned with ELBB_ECOLI | P0ABU5 from UniProtKB/Swiss-Prot  Length:217

    Alignment length:216
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210      
           ELBB_ECOLI     1 MKKIGVILSGCGVYDGSEIHEAVLTLLAISRSGAQAVCFAPDKQQVDVINHLTGEAMTETRNVLIEAARITRGEIRPLAQADAAELDALIVPGGFGAAKNLSNFASLGSECTVDRELKALAQAMHQAGKPLGFMCIAPAMLPKIFDFPLRLTIGTDIDTAEVLEEMGAEHVPCPVDDIVVDEDNKIVTTPAYMLAQNIAEAASGIDKLVSRVLVLA 216
               SCOP domains d1vhqb_ B: Putative sigma cross-reacting protein 27A (SCRP-27A, EllB)                                                                                                                                                    SCOP domains
               CATH domains -1vhqB00 B:5-219  [code=3.40.50.880, no name defined]                                                                                                                                                                    CATH domains
           Pfam domains (1) --------------------------------------------DJ-1_PfpI-1vhqB01 B:48-206                                                                                                                                     ------------- Pfam domains (1)
           Pfam domains (2) --------------------------------------------DJ-1_PfpI-1vhqB02 B:48-206                                                                                                                                     ------------- Pfam domains (2)
         Sec.struct. author ..eeeee..........hhhhhhhhhhhhhhh..eeeeee.....................hhhhhhhhhh....ee.hhhhhhhh.eeee...hhhhhh..hhhhhhhhh..hhhhhhhhhhhhhh...eeee.hhhhhhhhhh....ee....hhhhhhhhhhh..ee........eee....eeeehhhhh..hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1vhq B   4 mKKIGVILSGCGVYDGSEIHEAVLTLLAISRSGAQAVCFAPDKQQVDVINHLTGEAmTETRNVLIEAARITRGEIRPLAQADAAELDALIVPGGFGAAKNLSNFASLGSECTVDRELKALAQAmHQAGKPLGFmcIAPAmLPKIFDFPLRLTIGTDIDTAEVLEEmGAEHVPCPVDDIVVDEDNKIVTTPAYmLAQNIAEAASGIDKLVSRVLVLA 219
                            |       13        23        33        43        53      | 63        73        83        93       103       113       123   |   133   ||  143       153       163     | 173       183       193  |    203       213      
                            4-MSE                                                  60-MSE                                                            127-MSE   137-MSE |                       169-MSE                    196-MSE                   
                                                                                                                                                                138-CSO|                                                                            
                                                                                                                                                                     143-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/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: Glutaminase_I (73)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (ELBB_ECOLI | P0ABU5)
molecular function
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
biological process
    GO:0008299    isoprenoid biosynthetic process    The chemical reactions and pathways resulting in the formation of any isoprenoid compound, isoprene (2-methylbuta-1,3-diene) or compounds containing or derived from linked isoprene (3-methyl-2-butenylene) residues.
    GO:0045828    positive regulation of isoprenoid metabolic process    Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving isoprenoid.
cellular component
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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 Related Entries

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        ELBB_ECOLI | P0ABU5: 1oy1

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