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(-) Description

Title :  REDUCED GLUTAREDOXIN 1 SIMULATION TRAJECTORY, MODELS 1-70
 
Authors :  N. Foloppe, L. Nilsson
Date :  15 Oct 03  (Deposition) - 06 Nov 03  (Release) - 19 Feb 04  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  G  (70x)
Keywords :  Electron Transport, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Foloppe, L. Nilsson
The Glutaredoxin-C-P-Y-C- Motif; Influence Of Peripheral Residues
Structure V. 12 289 2004
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GLUTAREDOXIN 1
    Chains: G
    Organism Scientific: ESCHERICHIA COLI
    Other Details: MODEL, 325 STRUCTURES FROM 70 NS MD SIMULATION. THIS ENTRY HAS 70 MODELS. THE OTHER ENTRIES ARE 1UQN, 1UQ6, 1UQ7, 1UQH
    Other Details - Source: INITIAL MODEL COORDINATES TAKEN FROM 1EGR

 Structural Features

(-) Chains, Units

  
Theoretical Model (70x): 

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1UQ3)

(-) Sites  (1, 1)

Theoretical Model (1, 1)
No.NameEvidenceResiduesDescription
1CCnot definedCYS G:11 , PRO G:12 , TYR G:13 , CYS G:14CYS 11 (THIOLATE) AND CYS 14 ARE THE ACTIVE CYSTEINS INVOLVED IN DISULFIDE FORMATION

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1UQ3)

(-) Cis Peptide Bonds  (1, 67)

Theoretical Model
No.ModelResidues
11, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 59, 60, 61, 62, 63, 64, 65, 66, 68, 69, 70Val G:59 -Pro G:60

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1UQ3)

(-) PROSITE Motifs  (2, 2)

Theoretical Model (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1GLUTAREDOXIN_2PS51354 Glutaredoxin domain profile.GLRX1_ECOLI1-85  1G:1-85
GLRX1_SHIFL1-85  1G:1-85
2GLUTAREDOXIN_1PS00195 Glutaredoxin active site.GLRX1_ECOLI5-20  1G:5-20
GLRX1_SHIFL5-20  1G:5-20

(-) Exons   (0, 0)

(no "Exon" information available for 1UQ3)

(-) 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 G from PDB  Type:PROTEIN  Length:85
 aligned with GLRX1_ECOLI | P68688 from UniProtKB/Swiss-Prot  Length:85

    Alignment length:85
                                    10        20        30        40        50        60        70        80     
           GLRX1_ECOLI    1 MQTVIFGRSGCPYCVRAKDLAEKLSNERDDFQYQYVDIRAEGITKEDLQQKAGKPVETVPQIFVDQQHIGGYTDFAAWVKENLDA 85
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee...hhhhhhhhhhhhhhhhhh...eeeeee......hhhhhhhhh........eeee..eeeehhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) GLUTAREDOXIN_2  PDB: G:1-85 UniProt: 1-85                                             PROSITE (2)
                PROSITE (3) ----GLUTAREDOXIN_1  ----------------------------------------------------------------- PROSITE (3)
                 Transcript ------------------------------------------------------------------------------------- Transcript
                  1uq3 G  1 MQTVIFGRSGCPYCVRAKDLAEKLSNERDDFQYQYVDIRAEGITKEDLQQKAGKPVETVPQIFVDQQHIGGYTDFAAWVKENLDA 85
                                    10        20        30        40        50        60        70        80     


Chain G from PDB  Type:PROTEIN  Length:85
 aligned with GLRX1_SHIFL | P68689 from UniProtKB/Swiss-Prot  Length:85

    Alignment length:85
                                    10        20        30        40        50        60        70        80     
           GLRX1_SHIFL    1 MQTVIFGRSGCPYCVRAKDLAEKLSNERDDFQYQYVDIRAEGITKEDLQQKAGKPVETVPQIFVDQQHIGGYTDFAAWVKENLDA 85
               SCOP domains ------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee...hhhhhhhhhhhhhhhhhh...eeeeee......hhhhhhhhh........eeee..eeeehhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) GLUTAREDOXIN_2  PDB: G:1-85 UniProt: 1-85                                             PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) ------------------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) ----GLUTAREDOXIN_1  ----------------------------------------------------------------- PROSITE (4)
                 Transcript ------------------------------------------------------------------------------------- Transcript
                  1uq3 G  1 MQTVIFGRSGCPYCVRAKDLAEKLSNERDDFQYQYVDIRAEGITKEDLQQKAGKPVETVPQIFVDQQHIGGYTDFAAWVKENLDA 85
                                    10        20        30        40        50        60        70        80
   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  (0, 0)

(no "SCOP Domain" information available for 1UQ3)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1UQ3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1UQ3)

(-) Gene Ontology  (6, 12)

Theoretical Model(hide GO term definitions)
Chain G   (GLRX1_SHIFL | P68689)
molecular function
    GO:0009055    electron carrier activity    Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
    GO:0015035    protein disulfide oxidoreductase activity    Catalysis of the reaction: a protein with reduced sulfide groups = a protein with oxidized disulfide bonds.
biological process
    GO:0045454    cell redox homeostasis    Any process that maintains the redox environment of a cell or compartment within a cell.
    GO:0009263    deoxyribonucleotide biosynthetic process    The chemical reactions and pathways resulting in the formation of a deoxyribonucleotide, a compound consisting of deoxyribonucleoside (a base linked to a deoxyribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
    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.
cellular component
    GO:0005623    cell    The basic structural and functional unit of all organisms. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope.

Chain G   (GLRX1_ECOLI | P68688)
molecular function
    GO:0009055    electron carrier activity    Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
    GO:0015035    protein disulfide oxidoreductase activity    Catalysis of the reaction: a protein with reduced sulfide groups = a protein with oxidized disulfide bonds.
biological process
    GO:0045454    cell redox homeostasis    Any process that maintains the redox environment of a cell or compartment within a cell.
    GO:0009263    deoxyribonucleotide biosynthetic process    The chemical reactions and pathways resulting in the formation of a deoxyribonucleotide, a compound consisting of deoxyribonucleoside (a base linked to a deoxyribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
    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.
cellular component
    GO:0005623    cell    The basic structural and functional unit of all organisms. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope.

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    Val G:59 - Pro G:60   [ RasMol ]  
 

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  GLRX1_ECOLI | P68688
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  GLRX1_SHIFL | P68689
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 Related Entries

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

UniProtKB/Swiss-Prot
        GLRX1_ECOLI | P68688: 1ego 1egr 1grx 1qfn 1upy 1upz 1uq0 1uq1 1uq2 1uq6 1uq7 1uqh 1uqn
        GLRX1_SHIFL | P68689: 1upy 1upz 1uq0 1uq1 1uq2 1uq6 1uq7 1uqh 1uqn

(-) Related Entries Specified in the PDB File

1upy REDUCED GLUTAREDOXIN 1 SIMULATION TRAJECTORY
1upz REDUCED GLUTAREDOXIN 1 SIMULATION TRAJECTORY
1uq0 REDUCED GLUTAREDOXIN 1 SIMULATION TRAJECTORY
1uq1 REDUCED GLUTAREDOXIN 1 SIMULATION TRAJECTORY
1uq2 REDUCED GLUTAREDOXIN 1 SIMULATION TRAJECTORY
1uq6 REDUCED GLUTAREDOXIN 1 SIMULATION TRAJECTORY
1uq7 REDUCED GLUTAREDOXIN 1 SIMULATION TRAJECTORY
1uq8 REDUCED GLUTAREDOXIN 3 SIMULATION TRAJECTORY
1uq9 REDUCED GLUTAREDOXIN 3 SIMULATION TRAJECTORY
1uqh REDUCED GLUTAREDOXIN 1 SIMULATION TRAJECTORY
1uqi REDUCED GLUTAREDOXIN 3 SIMULATION TRAJECTORY
1uqj REDUCED GLUTAREDOXIN 3 SIMULATION TRAJECTORY
1uqk REDUCED GLUTAREDOXIN 3 SIMULATION TRAJECTORY
1uql REDUCED GLUTAREDOXIN 3 SIMULATION TRAJECTORY
1uqm REDUCED GLUTAREDOXIN 3 SIMULATION TRAJECTORY
1uqn REDUCED GLUTAREDOXIN 1 SIMULATION TRAJECTORY
1uqo REDUCED GLUTAREDOXIN 3 SIMULATION TRAJECTORY
1uqp REDUCED GLUTAREDOXIN 3 SIMULATION TRAJECTORY
1uqq REDUCED GLUTAREDOXIN 3 SIMULATION TRAJECTORY