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(-) Description

Title :  CRYSTAL STRUCTURE OF OXIDIZED HPDI (ABB'XA')
 
Authors :  C. Wang, W. Li, J. Ren, H. Ke, W. Gong, W. Feng, C. -C. Wang
Date :  10 Apr 12  (Deposition) - 10 Apr 13  (Release) - 03 Jul 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.88
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Abb'A' Domains, "Cghc" Active Sites, Horseshoe Shape, Enzyme, A Redox-Regulated Chaperone, Endoplasmic Reticulum, Chaperone (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  C. Wang, W. Li, J. Ren, J. Fang, H. Ke, W. Gong, W. Feng, C. -C. Wang
Structural Insights Into The Redox-Regulated Dynamic Conformations Of Human Protein Disulfide Isomerase
Antioxid Redox Signal V. 19 44 2013
PubMed-ID: 22657537  |  Reference-DOI: 10.1089/ARS.2012.4630

(-) Compounds

Molecule 1 - PROTEIN DISULFIDE-ISOMERASE
    ChainsA, B
    EC Number5.3.4.1
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidMODIFIED PET32A
    Expression System StrainCODON PLUS
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentOXIDIZED FULL-LENGTH HPDI, UNP RESIDUES 18-479
    GeneP4HB, ERBA2L, PDI, PDIA1, PO4DB
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymPDI, CELLULAR THYROID HORMONE-BINDING PROTEIN, PROLYL 4- HYDROXYLASE SUBUNIT BETA, P55

 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  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4EL1)

(-) Sites  (0, 0)

(no "Site" information available for 4EL1)

(-) SS Bonds  (4, 4)

Asymmetric Unit
No.Residues
1A:53 -A:56
2A:397 -A:400
3B:53 -B:56
4B:397 -B:400

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Tyr A:99 -Pro A:100
2Cys A:312 -Pro A:313
3Phe A:440 -Pro A:441
4Tyr B:99 -Pro B:100
5Cys B:312 -Pro B:313
6Phe B:440 -Pro B:441

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4EL1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4EL1)

(-) Exons   (0, 0)

(no "Exon" information available for 4EL1)

(-) 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:452
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee..eee....hhhhhhhhh.eeeeeee...hhhhhhhhhhhhhhhhhhhhhh...eeeeeehhhhhhhhhh.......eeeeee.......eee....hhhhhhhhhhh.....eeee.hhhhhhhhhhh..eeeeee.....hhhhhhhhhhhhh.....eeee.hhhhhhhh.....eeeeee.....eee.....hhhhhhhhhhhhh...eee....hhhhhh.eeeee......hhhhhhhhhhhhhhhh....eeeee.......hhhhhhh..hhhhh.eeeee...ee........hhhhhhhhhhhh.....................eee....hhhhhhh....eeeeeee...hhhhh.hhhhhhhhhhhh.....eeeeeee...............eeeee........ee.....hhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4el1 A  18 DAPEEEDHVLVLRKSNFAEALAAHKYLLVEFYAPWCGHCKALAPEYAKAAGKLKAEGSEIRLAKVDATEESDLAQQYGVRGYPTIKFFRNGDTASPKEYTAGREADDIVNWLKKRTGPAATTLPDGAAAESLVESSEVAVIGFFKDVESDSAKQFLQAAEAIDDIPFGITSNSDVFSKYQLDKDGVVLFKKFDEGRNNFEGEVTKENLLDFIKHNQLPLVIEFTEQTAPKIFTHILLFLPKSVSDYDGKLSNFKTAAESFKGKILFIFIDSDHTDNQRILEFFGLKKEECPAVRLITMTKYKPESEELTAERITEFCHRFLEGKIKPHLMSQELPEDWDKQPVKVLVGKNFEDVAFDEKKNVFVEFYAPWCGHCKQLAPIWDKLGETYKDHENIVIAKMDSTANEVEAVKVHSFPTLKFFPASADRTVIDYNGERTLDGFKKFLESGGQDGA 478
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247 ||    262       272       282       292       302       312      |326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476  
                                                                                                                                                                                                                                                                 249|                                                             319|                                                                                                                                                          
                                                                                                                                                                                                                                                                  255                                                              324                                                                                                                                                          

Chain B from PDB  Type:PROTEIN  Length:452
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eee....hhhhhhhhh.eeeeeee.....hhhhhhhhhhhhhhhhhhhh...eeeeee....hhhhhh.......eeeeee.......ee.....hhhhhhhhhhhh....eee..hhhhhhhhhhh..eeeeee.....hhhhhhhhhhhhhh....eeee.hhhhhhhh.....eeeeee.....eeee....hhhhhhhhhhh.....eee....hhhhhh.eeeee......hhhhhhhhhhhhhh......eeeee................hhhhh.eeeee...ee.......hhhhhhhhhhhhhh....................eee....hhhhhhh....eeeeeee...hhhhhhhhhhhhhhhhhh.....eeeeeee...............eeeee........ee.....hhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4el1 B  18 DAPEEEDHVLVLRKSNFAEALAAHKYLLVEFYAPWCGHCKALAPEYAKAAGKLKAEGSEIRLAKVDATEESDLAQQYGVRGYPTIKFFRNGDTASPKEYTAGREADDIVNWLKKRTGPAATTLPDGAAAESLVESSEVAVIGFFKDVESDSAKQFLQAAEAIDDIPFGITSNSDVFSKYQLDKDGVVLFKKFDEGRNNFEGEVTKENLLDFIKHNQLPLVIEFTEQTAPKIFTHILLFLPKSVSDYDGKLSNFKTAAESFKGKILFIFIDSDHTDNQRILEFFGLKKEECPAVRLITMTKYKPESEELTAERITEFCHRFLEGKIKPHLMSQELPEDWDKQPVKVLVGKNFEDVAFDEKKNVFVEFYAPWCGHCKQLAPIWDKLGETYKDHENIVIAKMDSTANEVEAVKVHSFPTLKFFPASADRTVIDYNGERTLDGFKKFLESGGQDGA 478
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247 ||    262       272       282       292       302       312      |326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476  
                                                                                                                                                                                                                                                                 249|                                                             319|                                                                                                                                                          
                                                                                                                                                                                                                                                                  255                                                              324                                                                                                                                                          

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (0, 0)

(no "SCOP Domain" information available for 4EL1)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4EL1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4EL1)

(-) Gene Ontology  (28, 28)

Asymmetric Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Cys A:312 - Pro A:313   [ RasMol ]  
    Cys B:312 - Pro B:313   [ RasMol ]  
    Phe A:440 - Pro A:441   [ RasMol ]  
    Phe B:440 - Pro B:441   [ RasMol ]  
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 Related Entries

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

UniProtKB/Swiss-Prot
        PDIA1_HUMAN | P072371bjx 1mek 1x5c 2bjx 2k18 3bj5 3uem 4ekz 4ju5

(-) Related Entries Specified in the PDB File

3uem CRYSTAL STRUCTURE OF REDUCED SHORT FORM HPDI
4ekz CRYSTAL STRUCTURE OF REDUCED FULL-LENGTH HPDI