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Theoretical Model  (Jmol Viewer)

(-) Description

Title :  THEORETICAL MODEL OF HUMAN GAMMA C CRYSTALLIN
 
Authors :  A. Salim, Z. H. Zaidi
Date :  11 Apr 02  (Deposition) - 01 May 02  (Release) - 07 Jan 03  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  A
Keywords :  Gamma Crystallin, Eye Lens Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Salim, Z. H. Zaidi
Homology Models Of Human Gamma-Crystallins: Structural Study Of The Extensive Charge Network In Gamma-Crystallins.
Biochem. Biophys. Res. Comm. V. 300 624 2003
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GAMMA CRYSTALLIN C
    Chains: A
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Synonym: GAMMA CRYSTALLIN 2-1, GAMMA CRYSTALLIN 3

 Structural Features

(-) Chains, Units

  
Theoretical Model : 

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1LFE)

(-) Sites  (0, 0)

(no "Site" information available for 1LFE)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (5, 5)

Theoretical Model (5, 5)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_021142T5PCRGC_HUMANDisease (CTRCT2)104893618AT4P
2UniProtVAR_038432F6LCRGC_HUMANPolymorphism2242072AF5L
3UniProtVAR_021143R48HCRGC_HUMANPolymorphism61751949AR47H
4UniProtVAR_067212G129CCRGC_HUMANDisease (CTRCT2)137853924AG128C
5UniProtVAR_021144R168WCRGC_HUMANUnclassified (CTRCT2)28931604AR167W
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 4)

Theoretical Model (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CRYSTALLIN_BETA_GAMMAPS50915 Crystallins beta and gamma 'Greek key' motif profile.CRGC_HUMAN2-40
41-83
88-128
129-171		  4A:1-39
A:40-82
A:87-127
A:128-170

(-) Exons   (3, 3)

Theoretical Model (3, 3)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000002821411ENSE00001695790chr2:208994554-20899450847CRGC_HUMAN1-331A:1-22
1.2ENST000002821412ENSE00000796724chr2:208994407-208994165243CRGC_HUMAN4-84811A:3-8381
1.3ENST000002821413ENSE00000796725chr2:208993199-208992861339CRGC_HUMAN85-174901A:84-17390

(-) Sequences/Alignments

Theoretical Model
   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:173
 aligned with CRGC_HUMAN | P07315 from UniProtKB/Swiss-Prot  Length:174

    Alignment length:173
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171   
           CRGC_HUMAN     2 GKITFYEDRAFQGRSYETTTDCPNLQPYFSRCNSIRVESGCWMLYERPNYQGQQYLLRRGEYPDYQQWMGLSDSIRSCCLIPQTVSHRLRLYEREDHKGLMMELSEDCPSIQDRFHLSEIRSLHVLEGCWVLYELPNYRGRQYLLRPQEYRRCQDWGAMDAKAGSLRRVVDLY 174
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeehhheeeeeee...............eeeeee.eeeeeee...eeeeeee..eee..hhhhh.......eeeee......eeeeeee...eeee........hhhhhhh.....eeeeee..eeeeee...eeeeeee...ee.hhhhhh.......eeee..... Sec.struct. author
                 SAPs(SNPs) ---PL-----------------------------------------H--------------------------------------------------------------------------------C--------------------------------------W------ SAPs(SNPs)
                    PROSITE CRYSTALLIN_BETA_GAMMA  PDB: A:1-39     CRYSTALLIN_BETA_GAMMA  PDB: A:40-82        ----CRYSTALLIN_BETA_GAMMA  PDB: A:87-127     CRYSTALLIN_BETA_GAMMA  PDB: A:128-170      --- PROSITE
               Transcript 1 1.Exon 1.2  PDB: A:3-83 UniProt: 4-84                                              Exon 1.3  PDB: A:84-173 UniProt: 85-174                                                    Transcript 1
                 1lfe A   1 GKITFYEDRAFQGRSYETTTDCPNLQPYFSRCNSIRVESGCWMLYERPNYQGQQYLLRRGEYPDYQQWMGLSDSIRSCCLIPQTVSHRLRLYEREDHKGLMMELSEDCPSIQDRFHLSEIRSLHYLEGCWVLYELPNYRGRGYLLRPQEYRRCQDWGAMDAKAGSLRRVVDLY 173
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170
   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 1LFE)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Theoretical Model(hide GO term definitions)
Chain A   (CRGC_HUMAN | P07315)
molecular function
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    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: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: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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  1lfe
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 Related Entries

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

UniProtKB/Swiss-Prot
        CRGC_HUMAN | P07315: 2nbr

(-) Related Entries Specified in the PDB File

1ld0 THEORETICAL MODEL OF HUMAN GAMMA D CRYSTALLIN
1ler THEORETICAL MODEL OF HUMAN GAMMA A CRYSTALLIN
1leu THEORETICAL MODEL OF HUMAN GAMMA B CRYSTALLIN