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(-) Description

Title :  THE CRYSTAL STRUCTURE OF CELLULAR REPRESSOR OF E1A-STIMULATED GENES (CREG)
 
Authors :  M. Sacher, V. V. Lunin, M. Cygler
Date :  20 Sep 04  (Deposition) - 15 Nov 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Beta-Barrel, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. Sacher, A. Di Bacco, V. V. Lunin, Z. Ye, J. Wagner, G. Gill, M. Cygler
The Crystal Structure Of Creg, A Secreted Glycoprotein Involved In Cellular Growth And Differentiation
Proc. Natl. Acad. Sci. Usa V. 102 18326 2005
PubMed-ID: 16344469  |  Reference-DOI: 10.1073/PNAS.0505071102
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CELLULAR REPRESSOR OF E1A-STIMULATED GENES
    ChainsA, B, C, D
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    FragmentRESIDUES 13-184
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymCREG

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit ABCD
Biological Unit 1 (1x)AB  
Biological Unit 2 (1x)  CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 16)

Asymmetric Unit (1, 16)
No.NameCountTypeFull Name
1MSE16Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 8)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 8)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 1XHN)

(-) SS Bonds  (4, 4)

Asymmetric Unit
No.Residues
1A:99 -A:111
2B:99 -B:111
3C:99 -C:111
4D:99 -D:111

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (3, 12)

Asymmetric Unit (3, 12)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000003705091ENSE00001452907chr1:167523004-167522625380CREG1_HUMAN1-1181184A:11-82 (gaps)
B:12-82
C:12-82
D:11-82 (gaps)
85
71
71
85
1.2ENST000003705092ENSE00000958440chr1:167517358-167517239120CREG1_HUMAN119-158404A:83-122
B:83-122
C:83-122
D:83-122
40
40
40
40
1.3aENST000003705093aENSE00000958441chr1:167515522-167515338185CREG1_HUMAN159-220624A:123-182
B:123-182
C:123-182
D:123-182
60
60
60
60
1.4ENST000003705094ENSE00001445787chr1:167511538-1675102501289CREG1_HUMAN220-22010--

(-) 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:172
 aligned with CREG1_HUMAN | O75629 from UniProtKB/Swiss-Prot  Length:220

    Alignment length:185
                                    43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213     
          CREG1_HUMAN    34 GRDHGDWDEASRLPPLPPREDAARVARFVTHVSDWGALATISTLEAVRGRPFADVLSLSDGPPGAGSGVPYFYLSPLQLSVSNLQENPYATLTMTLAQTNFCKKHGFDPQSPLCVHIMLSGTVTKVNETEMDIAKHSLFIRHPEMKTWPSSHNWFFAKLNITNIWVLDYFGGPKIVTPEEYYNVT 218
               SCOP domains ---------------d1xhna1 A:13-182 Cellular repressor of E1A-stimulated genes CREG1                                                                                                          SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .-------------......hhhhhhhhhhhhh.eeeeeee..hhhhh..eeeeeee.............eeee...hhhhhhhhhh.eeeeeee.hhhhhhhhhh.........eeeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeeeee......ee.hhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: A:11-82 (gaps) UniProt: 1-118 [INCOMPLETE]                            Exon 1.2  PDB: A:83-122 UniProt: 119-158Exon 1.3a  PDB: A:123-182 UniProt: 159-220 [INCOMPLETE]      Transcript 1
                 1xhn A  11 G-------------SLPPREDAARVARFVTHVSDWGALATISTLEAVRGRPFADVLSLSDGPPGAGSGVPYFYLSPLQLSVSNLQENPYATLTmTLAQTNFCKKHGFDPQSPLCVHImLSGTVTKVNETEmDIAKHSLFIRHPEmKTWPSSHNWFFAKLNITNIWVLDYFGGPKIVTPEEYYNVT 182
                            |        -    |   17        27        37        47        57        67        77        87   |    97       107       117       127|      137    |  147       157       167       177     
                            |            12                                                                             91-MSE                 115-MSE      128-MSE       142-MSE                                    
                           11                                                                                                                                                                                        

Chain B from PDB  Type:PROTEIN  Length:171
 aligned with CREG1_HUMAN | O75629 from UniProtKB/Swiss-Prot  Length:220

    Alignment length:171
                                    57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217 
          CREG1_HUMAN    48 PLPPREDAARVARFVTHVSDWGALATISTLEAVRGRPFADVLSLSDGPPGAGSGVPYFYLSPLQLSVSNLQENPYATLTMTLAQTNFCKKHGFDPQSPLCVHIMLSGTVTKVNETEMDIAKHSLFIRHPEMKTWPSSHNWFFAKLNITNIWVLDYFGGPKIVTPEEYYNVT 218
               SCOP domains d1xhnb_ B: automated matches                                                                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhh.eeeeeee..hhhhh..eeeeeee.............eeee...hhhhhhhhhh.eeeeeee.hhhhhhhhhh.........eeeeeeeeee....hhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeeeee......eeehhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: B:12-82 UniProt: 1-118 [INCOMPLETE]                     Exon 1.2  PDB: B:83-122 UniProt: 119-158Exon 1.3a  PDB: B:123-182 UniProt: 159-220 [INCOMPLETE]      Transcript 1
                 1xhn B  12 SLPPREDAARVARFVTHVSDWGALATISTLEAVRGRPFADVLSLSDGPPGAGSGVPYFYLSPLQLSVSNLQENPYATLTmTLAQTNFCKKHGFDPQSPLCVHImLSGTVTKVNETEmDIAKHSLFIRHPEmKTWPSSHNWFFAKLNITNIWVLDYFGGPKIVTPEEYYNVT 182
                                    21        31        41        51        61        71        81        91       101       111   |   121      |131       141|      151       161       171       181 
                                                                                                          91-MSE                 115-MSE      128-MSE       142-MSE                                    

Chain C from PDB  Type:PROTEIN  Length:171
 aligned with CREG1_HUMAN | O75629 from UniProtKB/Swiss-Prot  Length:220

    Alignment length:171
                                    57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217 
          CREG1_HUMAN    48 PLPPREDAARVARFVTHVSDWGALATISTLEAVRGRPFADVLSLSDGPPGAGSGVPYFYLSPLQLSVSNLQENPYATLTMTLAQTNFCKKHGFDPQSPLCVHIMLSGTVTKVNETEMDIAKHSLFIRHPEMKTWPSSHNWFFAKLNITNIWVLDYFGGPKIVTPEEYYNVT 218
               SCOP domains d1xhnc_ C: automated matches                                                                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhh.eeeeeee..hhhhh..eeeeeee.............eeee...hhhhhhhhhh.eeeeeee.hhhhhhhhhh.........eeeeeeeeee....hhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeeeee......eeehhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: C:12-82 UniProt: 1-118 [INCOMPLETE]                     Exon 1.2  PDB: C:83-122 UniProt: 119-158Exon 1.3a  PDB: C:123-182 UniProt: 159-220 [INCOMPLETE]      Transcript 1
                 1xhn C  12 SLPPREDAARVARFVTHVSDWGALATISTLEAVRGRPFADVLSLSDGPPGAGSGVPYFYLSPLQLSVSNLQENPYATLTmTLAQTNFCKKHGFDPQSPLCVHImLSGTVTKVNETEmDIAKHSLFIRHPEmKTWPSSHNWFFAKLNITNIWVLDYFGGPKIVTPEEYYNVT 182
                                    21        31        41        51        61        71        81        91       101       111   |   121      |131       141|      151       161       171       181 
                                                                                                          91-MSE                 115-MSE      128-MSE       142-MSE                                    

Chain D from PDB  Type:PROTEIN  Length:172
 aligned with CREG1_HUMAN | O75629 from UniProtKB/Swiss-Prot  Length:220

    Alignment length:185
                                    43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213     
          CREG1_HUMAN    34 GRDHGDWDEASRLPPLPPREDAARVARFVTHVSDWGALATISTLEAVRGRPFADVLSLSDGPPGAGSGVPYFYLSPLQLSVSNLQENPYATLTMTLAQTNFCKKHGFDPQSPLCVHIMLSGTVTKVNETEMDIAKHSLFIRHPEMKTWPSSHNWFFAKLNITNIWVLDYFGGPKIVTPEEYYNVT 218
               SCOP domains d             1xhnd_ D: automated matches                                                                                                                                                 SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .-------------......hhhhhhhhhhhhh.eeeeeee..hhhhh..eeeeeee.............eeee...hhhhhhhhhh.eeeeeee.hhhhhhhhhh.........eeeeeeeeee.hhhhhhhhhhhhhh.hhhhhhhhhhhh.eeeeeeeeeeeee......eeehhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: D:11-82 (gaps) UniProt: 1-118 [INCOMPLETE]                            Exon 1.2  PDB: D:83-122 UniProt: 119-158Exon 1.3a  PDB: D:123-182 UniProt: 159-220 [INCOMPLETE]      Transcript 1
                 1xhn D  11 G-------------SLPPREDAARVARFVTHVSDWGALATISTLEAVRGRPFADVLSLSDGPPGAGSGVPYFYLSPLQLSVSNLQENPYATLTmTLAQTNFCKKHGFDPQSPLCVHImLSGTVTKVNETEmDIAKHSLFIRHPEmKTWPSSHNWFFAKLNITNIWVLDYFGGPKIVTPEEYYNVT 182
                            |        -    |   17        27        37        47        57        67        77        87   |    97       107       117       127|      137    |  147       157       167       177     
                           11            12                                                                             91-MSE                 115-MSE      128-MSE       142-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  (2, 4)

Asymmetric Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1XHN)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1XHN)

(-) Gene Ontology  (15, 15)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (CREG1_HUMAN | O75629)
molecular function
    GO:0010181    FMN binding    Interacting selectively and non-covalently with flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0003714    transcription corepressor activity    Interacting selectively and non-covalently with a repressing transcription factor and also with the basal transcription machinery in order to stop, prevent, or reduce the frequency, rate or extent of transcription. Cofactors generally do not bind the template nucleic acid, but rather mediate protein-protein interactions between repressive transcription factors and the basal transcription machinery.
    GO:0008134    transcription factor binding    Interacting selectively and non-covalently with a transcription factor, any protein required to initiate or regulate transcription.
biological process
    GO:0008283    cell proliferation    The multiplication or reproduction of cells, resulting in the expansion of a cell population.
    GO:0007275    multicellular organism development    The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).
    GO:1903507    negative regulation of nucleic acid-templated transcription    Any process that stops, prevents or reduces the frequency, rate or extent of nucleic acid-templated transcription.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0040008    regulation of growth    Any process that modulates the frequency, rate or extent of the growth of all or part of an organism so that it occurs at its proper speed, either globally or in a specific part of the organism's development.
    GO:0006357    regulation of transcription from RNA polymerase II promoter    Any process that modulates the frequency, rate or extent of transcription from an RNA polymerase II promoter.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
cellular component
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
    GO:0005615    extracellular space    That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
    GO:0005667    transcription factor complex    A protein complex that is capable of associating with DNA by direct binding, or via other DNA-binding proteins or complexes, and regulating transcription.

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