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(-) Description

Title :  CRYSTAL STRUCTURE OF WILD TYPE HUMAN CELLULAR RETINOL BINDING PROTEIN II (HCRBPII) BOUND TO RETINOL AT 7 KEV BEAM ENERGY
 
Authors :  Z. Assar, J. H. Geiger
Date :  28 Jul 14  (Deposition) - 10 Dec 14  (Release) - 31 Dec 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  C  (1x)
Biol. Unit 3:  B  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Retinol, Human Cellular Retinol Binding Protein Ii, Intracellular Lipid Binding Protein, X-Ray Flux, X-Ray Damage, Retinal, Retinoid Chaperones, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. Nossoni, Z. Assar, I. Yapici, M. Nosrati, W. Wang, T. Berbasova, C. Vasileiou, B. Borhan, J. Geiger
Structures Of Holo Wild-Type Human Cellular Retinol-Binding Protein Ii (Hcrbpii) Bound To Retinol And Retinal.
Acta Crystallogr. , Sect. D V. 70 3226 2014
PubMed-ID: 25478840  |  Reference-DOI: 10.1107/S1399004714023839

(-) Compounds

Molecule 1 - RETINOL-BINDING PROTEIN 2
    Chains: A, C, B, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET17B
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: RBP2, CRBP2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: CELLULAR RETINOL-BINDING PROTEIN II, CRBP-II

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):   C 
Biological Unit 3 (1x):  B  
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric Unit (2, 5)
No.NameCountTypeFull Name
1ACT3Ligand/IonACETATE ION
2RTL2Ligand/IonRETINOL
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2RTL1Ligand/IonRETINOL
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2RTL1Ligand/IonRETINOL
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2RTL-1Ligand/IonRETINOL
Biological Unit 4 (0, 0)
No.NameCountTypeFull Name
1ACT-1Ligand/IonACETATE ION
2RTL-1Ligand/IonRETINOL

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:16 , LYS A:40 , THR A:51 , SER A:76 , LEU A:77 , TRP A:106 , GLN A:108 , LEU A:117 , LEU A:119 , ACT A:202BINDING SITE FOR RESIDUE RTL A 201
2AC2SOFTWARETYR A:60 , GLU A:72 , THR A:74 , LEU A:77 , GLN A:97 , RTL A:201 , HOH A:334BINDING SITE FOR RESIDUE ACT A 202
3AC3SOFTWAREPHE C:16 , ALA C:33 , GLN C:38 , LYS C:40 , SER C:76 , LEU C:77 , TRP C:106 , GLN C:108 , LEU C:119 , ACT C:202 , HOH C:345BINDING SITE FOR RESIDUE RTL C 201
4AC4SOFTWAREGLU C:72 , GLN C:97 , TRP C:106 , RTL C:201 , HOH C:314BINDING SITE FOR RESIDUE ACT C 202
5AC5SOFTWARETYR B:60 , GLU B:72 , LEU B:77 , GLN B:97 , HOH B:302 , HOH B:355BINDING SITE FOR RESIDUE ACT B 201

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4QZT)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4QZT)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4QZT)

(-) 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:133
                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeeeehhhhhhhhh..hhhhhhhhh....eeeeeee..eeeeeee....eeeeeee....eeee.......eeeeeeeee..eeeeeee......eeeeeee..eeeeeeee..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qzt A   1 TRDQNGTWEMESNENFEGYMKALDIDFATRKIAVRLTQTKVIDQDGDNFKTKTTSTFRNYDVDFTVGVEFDEYTKSLDNRHVKALVTWEGDVLVCVQKGEKENRGWKQWIEGDKLYLELTCGDQVCRQVFKKK 133
                                    10        20        30        40        50        60        70        80        90       100       110       120       130   


Chain B from PDB  Type:PROTEIN  Length:133
                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeeeehhhhhhhhh..hhhhhhhhh....eeeeeee..eeeeeee.....eeeeee....eeee.......eeeeeeeee..eeeeeee......eeeeeee..eeeeeeee..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qzt B   1 TRDQNGTWEMESNENFEGYMKALDIDFATRKIAVRLTQTKVIDQDGDNFKTKTTSTFRNYDVDFTVGVEFDEYTKSLDNRHVKALVTWEGDVLVCVQKGEKENRGWKQWIEGDKLYLELTCGDQVCRQVFKKK 133
                                    10        20        30        40        50        60        70        80        90       100       110       120       130   


Chain C from PDB  Type:PROTEIN  Length:133
                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeeeehhhhhhhhh..hhhhhhhhh....eeeeeee..eeeeeee....eeeeeee....eeee.......eeeeeeeee..eeeeeee......eeeeeee..eeeeeeee..eeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qzt C   1 TRDQNGTWEMESNENFEGYMKALDIDFATRKIAVRLTQTKVIDQDGDNFKTKTTSTFRNYDVDFTVGVEFDEYTKSLDNRHVKALVTWEGDVLVCVQKGEKENRGWKQWIEGDKLYLELTCGDQVCRQVFKKK 133
                                    10        20        30        40        50        60        70        80        90       100       110       120       130   


Chain D from PDB  Type:PROTEIN  Length:133
                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeeeehhhhhhhhh..hhhhhhh......eeeeeee..eeeeeee....eeeeeee....eeee.......eeeeeeeee..eeeeeeee.....eeeeeee..eeeeeeee..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qzt D   1 TRDQNGTWEMESNENFEGYMKALDIDFATRKIAVRLTQTKVIDQDGDNFKTKTTSTFRNYDVDFTVGVEFDEYTKSLDNRHVKALVTWEGDVLVCVQKGEKENRGWKQWIEGDKLYLELTCGDQVCRQVFKKK 133
                                    10        20        30        40        50        60        70        80        90       100       110       120       130
   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  (0, 0)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (11, 11)

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 Related Entries

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

UniProtKB/Swiss-Prot
        RET2_HUMAN | P50120: 2rcq 2rct 4ede 4eej 4efg 4exz 4gkc 4qyn 4qyp 4qzu 4ruu 4zcb 4zgu 4zh6 4zh9 4zj0 4zr2 5dg4 5dpq 5f58 5f6b 5f7g 5faz 5fen 5ffh

(-) Related Entries Specified in the PDB File

2rcq 2rct 4ede 4eej 4efg 4qzu