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(-) Description

Title :  AFFILIN BASED ON HUMAN GAMMA-B CRYSTALLIN
 
Authors :  H. Ebersbach, E. Fiedler, T. Scheuermann, M. Fiedler, M. T. Stubbs, C. Reimann, G. Proetzel, R. Rudolph, U. Fiedler
Date :  08 Jan 07  (Deposition) - 24 Jul 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Artificial Binding Protein, Structural Protein, Eye Lens Protein, Gamma Crystallin, Affilin, Oxidation, Polymorphism, Phosphorylation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Ebersbach, E. Fiedler, T. Scheuermann, M. Fiedler, M. T. Stubbs, C. Reimann, G. Proetzel, R. Rudolph, U. Fiedler
Affilin-Novel Binding Molecules Based On Human Gamma-B-Crystallin, An All Beta-Sheet Protein.
J. Mol. Biol. V. 372 172 2007
PubMed-ID: 17628592  |  Reference-DOI: 10.1016/J.JMB.2007.06.045

(-) Compounds

Molecule 1 - GAMMA CRYSTALLIN B
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Other Details: THIS IS A SYNTHETIC ENGINEERED BINDING VARIANT OF HUMAN GAMMA-B CRYSTALLIN
    Synonym: AFFILIN-TM, GAMMA-B CRYSTALLIN, GAMMA CRYSTALLIN 1-2

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2JDG)

(-) Sites  (0, 0)

(no "Site" information available for 2JDG)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2JDG)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (3, 3)

Asymmetric/Biological Unit (3, 3)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_021140S73ICRGB_HUMANPolymorphism  ---AS72I
2UniProtVAR_029517R90TCRGB_HUMANPolymorphism2241980AR89T
3UniProtVAR_021141I111LCRGB_HUMANPolymorphism796287AL110L
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 4)

Asymmetric/Biological Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CRYSTALLIN_BETA_GAMMAPS50915 Crystallins beta and gamma 'Greek key' motif profile.CRGB_HUMAN2-40
41-83
89-129
130-172		  4A:1-39
A:40-82
A:88-128
A:129-171

(-) Exons   (3, 3)

Asymmetric/Biological Unit (3, 3)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000002609881ENSE00001072773chr2:209010892-20901083657CRGB_HUMAN1-331A:1-22
1.2ENST000002609882ENSE00000796723chr2:209010740-209010498243CRGB_HUMAN4-84811A:3-8381
1.3ENST000002609883ENSE00000469896chr2:209007637-209007297341CRGB_HUMAN85-175911A:84-17289

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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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 CRGB_HUMAN | P07316 from UniProtKB/Swiss-Prot  Length:175

    Alignment length:172
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171  
           CRGB_HUMAN     2 GKITFYEDRAFQGRSYECTTDCPNLQPYFSRCNSIRVESGCWMIYERPNYQGHQYFLRRGEYPDYQQWMGLSDSIRSCCLIPPHSGAYRMKIYDRDELRGQMSELTDDCISVQDRFHLTEIHSLNVLEGSWILYEMPNYRGRQYLLRPGEYRRFLDWGAPNAKVGSLRRVMD 173
               SCOP domains d2jdga1 A:1-86 automated matches                                                      -------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2jdgA01 A:1-83 Crystallins                                                         2jdgA02 A:84-172 Crystallins                                                              CATH domains
           Pfam domains (1) ----------------------------------------------------------------------------------------Crystall-2jdgA01 A:89-170                                                         -- Pfam domains (1)
           Pfam domains (2) ----------------------------------------------------------------------------------------Crystall-2jdgA02 A:89-170                                                         -- Pfam domains (2)
         Sec.struct. author .eeeeeee...eeeeeee...............eeeeee..eeeeee...eeeeeee..eee.hhhhhh.......eeee........eeeee........eeee.....hhhhhhh.....eeeeee..eeeeee...eeeeeee..eee.hhhhhh.......eeee... Sec.struct. author
                 SAPs(SNPs) -----------------------------------------------------------------------I----------------T--------------------L-------------------------------------------------------------- SAPs(SNPs)
                    PROSITE CRYSTALLIN_BETA_GAMMA  PDB: A:1-39     CRYSTALLIN_BETA_GAMMA  PDB: A:40-82        -----CRYSTALLIN_BETA_GAMMA  PDB: A:88-128     CRYSTALLIN_BETA_GAMMA  PDB: A:129-171      - PROSITE
               Transcript 1 1.Exon 1.2  PDB: A:3-83 UniProt: 4-84                                              Exon 1.3  PDB: A:84-172 UniProt: 85-175 [INCOMPLETE]                                      Transcript 1
                 2jdg A   1 GSIIFLEDRAFQGRIYGCTTDCPNLQPYFSRCNSIVVQSGCWMIYERPNYQGHQYFLRRGEYPDYQQWMGLSDSIRSCCLIPPHSGAYRMKIYDRDELRGQMSELTDDCLSVQDRFHLTEIHSLNVLEGSWILYEMPNYRGRQYLLRPGEYRRFLDWGAPNAKVGSLRRVMD 172
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170
   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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: gCrystallin (22)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (CRGB_HUMAN | P07316)
molecular function
    GO:0005212    structural constituent of eye lens    The action of a molecule that contributes to the structural integrity of the lens of an eye.
biological process
    GO:0001654    eye development    The process whose specific outcome is the progression of the eye over time, from its formation to the mature structure. The eye is the organ of sight.
    GO:0002088    lens development in camera-type eye    The process whose specific outcome is the progression of the lens over time, from its formation to the mature structure. The lens is a transparent structure in the eye through which light is focused onto the retina. An example of this process is found in Mus musculus.
    GO:0070307    lens fiber cell development    The process whose specific outcome is the progression of a lens fiber cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a lens fiber cell fate. A lens fiber cell is any of the elongated, tightly packed cells that make up the bulk of the mature lens in a camera-type eye.
    GO:0070309    lens fiber cell morphogenesis    The process in which the structures of a lens fiber cell are generated and organized. This process occurs while the initially relatively unspecialized cell is acquiring the specialized features of a lens fiber cell. A lens fiber cell is any of the elongated, tightly packed cells that make up the bulk of the mature lens in a camera-type eye.
    GO:0007601    visual perception    The series of events required for an organism to receive a visual stimulus, convert it to a molecular signal, and recognize and characterize the signal. Visual stimuli are detected in the form of photons and are processed to form an image.
cellular component
    GO:0005575    cellular_component    The part of a cell, extracellular environment or virus in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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 Related Entries

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

UniProtKB/Swiss-Prot
        CRGB_HUMAN | P07316: 1leu 1myv 1myx 1myy 1mz1 1mz2 1mz3 2jdf

(-) Related Entries Specified in the PDB File

1leu THEORETICAL MODEL OF HUMAN GAMMA B CRYSTALLIN
1myv HOMOLOGY MODEL OF HUMAN GAMMA-B-CRYSTALLIN BOUND WITH ALPHA-D-GLUCOSE AT GLY1
1myx HOMOLOGY MODEL OF HUMAN GAMMA-B-CRYSTALLIN BOUND WITH TWOMOLECULES OF ALPHA-D-GLUCOSE EACH AT GLY1 AND LYS2
1myy HOMOLOGY MODEL OF HUMAN GAMMA-B-CRYSTALLIN BOUND WITH ALPHA-D-GLUCOSE-6-PHOSPHATE AT GLY1
1mz1 HOMOLOGY MODEL OF HUMAN GAMMA-B-CRYSTALLIN BOUND WITH ALPHA-D-GLUCOSE AT LYS2
1mz2 HOMOLOGY MODEL OF HUMAN GAMMA-B-CRYSTALLIN BOUND WITH ALPHA-D-GLUCOSE-6-PHOSPHATE AT LYS2
1mz3 HOMOLOGY MODEL OF HUMAN GAMMA-B-CRYSTALLIN BOUND WITH TWOMOLECULES OF ALPHA-D-GLUCOSE- 6-PHOSPHATE EACH AT GLY1 ANDLYS2
2jdf HUMAN GAMMA-B CRYSTALLIN