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(-) Description

Title :  CRYSTAL STRUCTURE OF PROTEIN DIP2308 FROM CORYNEBACTERIUM DIPHTHERIAE, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET CDR78
 
Authors :  F. Forouhar, S. Lew, J. Seetharaman, D. Lee, C. Ciccosanti, S. Sahdev, R B. Rost, T. B. Acton, R. Xiao, J. K. Everett, G. T. Montelione, J. F. Hunt Northeast Structural Genomics Consortium (Nesg)
Date :  30 Oct 10  (Deposition) - 22 Dec 10  (Release) - 22 Feb 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.30
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Biol. Unit 5:  A,C  (1x)
Biol. Unit 6:  B,D  (1x)
Keywords :  Structural Genomics, Psi-Biology, Protein Structure Initiative, Northeast Structural Genomics Consortium, Nesg, Alpha-Beta P-Loop Containing Protein, Atp-Binding Protein, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. Forouhar, S. Lew, J. Seetharaman, D. Lee, C. Ciccosanti, S. Sahdev, R. Nair, B. Rost, T. B. Acton, R. Xiao, J. K. Everett, G. T. Montelione, J. F. Hunt, L. Tong
Crystal Structure Of Protein Dip2308 From Corynebacterium Diphtheriae, Northeast Structural Genomics Consortium Targe Cdr78
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - UNCHARACTERIZED PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)+MAGIC
    Expression System Taxid: 469008
    Expression System Vector: PET21
    Gene: DIP2308
    Organism Scientific: CORYNEBACTERIUM DIPHTHERIAE
    Organism Taxid: 1717
    Strain: NCTC 13129

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D
Biological Unit 5 (1x): A C 
Biological Unit 6 (1x):  B D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 24)

Asymmetric Unit (1, 24)
No.NameCountTypeFull Name
1MSE24Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
Biological Unit 3 (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
Biological Unit 4 (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
Biological Unit 5 (1, 12)
No.NameCountTypeFull Name
1MSE12Mod. Amino AcidSELENOMETHIONINE
Biological Unit 6 (1, 12)
No.NameCountTypeFull Name
1MSE12Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 3PG5)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3PG5)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3PG5)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3PG5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3PG5)

(-) Exons   (0, 0)

(no "Exon" information available for 3PG5)

(-) 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:298
 aligned with Q6NEG6_CORDI | Q6NEG6 from UniProtKB/TrEMBL  Length:353

    Alignment length:353
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350   
         Q6NEG6_CORDI     1 MRTISFFNNKGGVGKTTLSTNVAHYFALQGKRVLYVDCDPQCNATQLMLTEEQTESIYLDGLNDEVAERNSLAKTVYAIFVPLREGESQIAAEITPMRSERFGVDVLPGHPALSQIEDLMSDSWQSALGRQTGPFRRIHWAGQLAHAMERDDRYDVIFFDVGPSLGPFNRTVLLGCDAFVTPTATDLFSFHAFGNLARWFDAWVTQYAEIHEGNMAEWKKYSADVEAKTRPLRLGGFDGEGLRYLGYTTLEYVKRRANGQEQLVGAFERFRGRFAAEAERISNSLSKHSNSTLLGHVPHMHSMPATAQDVHAPIMELSSSDRVRGAQINQRNAYAEKINSVAANVYKALFPNE 353
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee......hhhhhhhhhhhhhhhhhh...eeeee......hhhhhhhhhhhhhhh.----.hhhhhhhhhhhhhhhhhhhhh...................eee..hhhhhhhhhhhhhhhhhhhh.hhhhhh..hhhhhhhhhhhhh....eeeee.....hhhhhhhhh...eeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.............eeeeeee.-----------------..hhhhhhhhhhhhhhhh.......eeee..----------------------------------.hhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pg5 A   1 mRTISFFNNKGGVGKTTLSTNVAHYFALQGKRVLYVDCDPQCNATQLmLTEEQTESIYL----DEVAERNSLAKTVYAIFVPLREGESQIAAEITPmRSERFGVDVLPGHPALSQIEDLmSDSWQSALGRQTGPFRRIHWAGQLAHAmERDDRYDVIFFDVGPSLGPFNRTVLLGCDAFVTPTATDLFSFHAFGNLARWFDAWVTQYAEIHEGNmAEWKKYSADVEAKTRPLRLGGFDGEGLRYLGYTTL-----------------ERFRGRFAAEAERISNSLSKHSNSTLLGHVP----------------------------------AYAEKINSVAANVYKALFPNE 353
                            |       10        20        30        40       |50        |-   |    70        80        90      |100       110       120       130       140       150       160       170       180       190       200       210    |  220       230       240       250         -       270       280       290       | -         -         -         -  |    340       350   
                            |                                             48-MSE     59   64                               97-MSE                120-MSE                     148-MSE                                                            215-MSE                            250               268                           298                                333                    
                            1-MSE                                                                                                                                                                                                                                                                                                                                                            


Chain B from PDB  Type:PROTEIN  Length:301
 aligned with Q6NEG6_CORDI | Q6NEG6 from UniProtKB/TrEMBL  Length:353

    Alignment length:352
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350  
         Q6NEG6_CORDI     1 MRTISFFNNKGGVGKTTLSTNVAHYFALQGKRVLYVDCDPQCNATQLMLTEEQTESIYLDGLNDEVAERNSLAKTVYAIFVPLREGESQIAAEITPMRSERFGVDVLPGHPALSQIEDLMSDSWQSALGRQTGPFRRIHWAGQLAHAMERDDRYDVIFFDVGPSLGPFNRTVLLGCDAFVTPTATDLFSFHAFGNLARWFDAWVTQYAEIHEGNMAEWKKYSADVEAKTRPLRLGGFDGEGLRYLGYTTLEYVKRRANGQEQLVGAFERFRGRFAAEAERISNSLSKHSNSTLLGHVPHMHSMPATAQDVHAPIMELSSSDRVRGAQINQRNAYAEKINSVAANVYKALFPN 352
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.......hhhhhhhhhhhhhhh....eeeee......hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhh..........ee......eee....hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh....eeeee.....hhhhhhhhhh..eeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhh............eeeeeee.-----------------..hhhhhhhhhhhhhhhh.......eeee..----------------------------------.hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pg5 B   1 mRTISFFNNKGGVGKTTLSTNVAHYFALQGKRVLYVDCDPQCNATQLmLTEEQTESIYLDGLNDEVAERNSLAKTVYAIFVPLREGESQIAAEITPmRSERFGVDVLPGHPALSQIEDLmSDSWQSALGRQTGPFRRIHWAGQLAHAmERDDRYDVIFFDVGPSLGPFNRTVLLGCDAFVTPTATDLFSFHAFGNLARWFDAWVTQYAEIHEGNmAEWKKYSADVEAKTRPLRLGGFDGEGLRYLGYTTL-----------------ERFRGRFAAEAERISNSLSKHSNSTLLGHVP----------------------------------AYAEKINSVAANVYKALFPN 352
                            |       10        20        30        40       |50        60        70        80        90      |100       110       120       130       140       150       160       170       180       190       200       210    |  220       230       240       250         -       270       280       290       | -         -         -         -  |    340       350  
                            1-MSE                                         48-MSE                                           97-MSE                120-MSE                     148-MSE                                                            215-MSE                            250               268                           298                                333                   


Chain C from PDB  Type:PROTEIN  Length:312
 aligned with Q6NEG6_CORDI | Q6NEG6 from UniProtKB/TrEMBL  Length:353

    Alignment length:353
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350   
         Q6NEG6_CORDI     1 MRTISFFNNKGGVGKTTLSTNVAHYFALQGKRVLYVDCDPQCNATQLMLTEEQTESIYLDGLNDEVAERNSLAKTVYAIFVPLREGESQIAAEITPMRSERFGVDVLPGHPALSQIEDLMSDSWQSALGRQTGPFRRIHWAGQLAHAMERDDRYDVIFFDVGPSLGPFNRTVLLGCDAFVTPTATDLFSFHAFGNLARWFDAWVTQYAEIHEGNMAEWKKYSADVEAKTRPLRLGGFDGEGLRYLGYTTLEYVKRRANGQEQLVGAFERFRGRFAAEAERISNSLSKHSNSTLLGHVPHMHSMPATAQDVHAPIMELSSSDRVRGAQINQRNAYAEKINSVAANVYKALFPNE 353
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.....hhhhhhhhhhhhhhhhhh...eeeee......hhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhh..........ee......eee..hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh....eeeee.....hhhhhhhhhh..eeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......................eeeeeee....--------....hhhhhhhhhhhhhhhhhhhh......eeeee...---------------------------------.hhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pg5 C   1 mRTISFFNNKGGVGKTTLSTNVAHYFALQGKRVLYVDCDPQCNATQLmLTEEQTESIYLDGLNDEVAERNSLAKTVYAIFVPLREGESQIAAEITPmRSERFGVDVLPGHPALSQIEDLmSDSWQSALGRQTGPFRRIHWAGQLAHAmERDDRYDVIFFDVGPSLGPFNRTVLLGCDAFVTPTATDLFSFHAFGNLARWFDAWVTQYAEIHEGNmAEWKKYSADVEAKTRPLRLGGFDGEGLRYLGYTTLEYV--------QLVGAFERFRGRFAAEAERISNSLSKHSNSTLLGHVPH---------------------------------AYAEKINSVAANVYKALFPNE 353
                            |       10        20        30        40       |50        60        70        80        90      |100       110       120       130       140       150       160       170       180       190       200       210    |  220       230       240       250  |      - |     270       280       290        |-         -         -         -  |    340       350   
                            1-MSE                                         48-MSE                                           97-MSE                120-MSE                     148-MSE                                                            215-MSE                               253      262                                  299                               333                    


Chain D from PDB  Type:PROTEIN  Length:302
 aligned with Q6NEG6_CORDI | Q6NEG6 from UniProtKB/TrEMBL  Length:353

    Alignment length:353
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350   
         Q6NEG6_CORDI     1 MRTISFFNNKGGVGKTTLSTNVAHYFALQGKRVLYVDCDPQCNATQLMLTEEQTESIYLDGLNDEVAERNSLAKTVYAIFVPLREGESQIAAEITPMRSERFGVDVLPGHPALSQIEDLMSDSWQSALGRQTGPFRRIHWAGQLAHAMERDDRYDVIFFDVGPSLGPFNRTVLLGCDAFVTPTATDLFSFHAFGNLARWFDAWVTQYAEIHEGNMAEWKKYSADVEAKTRPLRLGGFDGEGLRYLGYTTLEYVKRRANGQEQLVGAFERFRGRFAAEAERISNSLSKHSNSTLLGHVPHMHSMPATAQDVHAPIMELSSSDRVRGAQINQRNAYAEKINSVAANVYKALFPNE 353
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.....hhhhhhhhhhhhhhhhhh...eeeee......hhhhhhhhhhhhh...----...hhhhhhhhhhhhhhhhhhh...................eee....hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh....eeeee.....hhhhhhhhhh..eeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhh.........eeeeeeee.--------------....hhhhhhhhhhhhhh.........eeeee..---------------------------------.hhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pg5 D   1 mRTISFFNNKGGVGKTTLSTNVAHYFALQGKRVLYVDCDPQCNATQLmLTEEQTESIYL----DEVAERNSLAKTVYAIFVPLREGESQIAAEITPmRSERFGVDVLPGHPALSQIEDLmSDSWQSALGRQTGPFRRIHWAGQLAHAmERDDRYDVIFFDVGPSLGPFNRTVLLGCDAFVTPTATDLFSFHAFGNLARWFDAWVTQYAEIHEGNmAEWKKYSADVEAKTRPLRLGGFDGEGLRYLGYTTLE--------------AFERFRGRFAAEAERISNSLSKHSNSTLLGHVPH---------------------------------AYAEKINSVAANVYKALFPNE 353
                            |       10        20        30        40       |50        |-   |    70        80        90      |100       110       120       130       140       150       160       170       180       190       200       210    |  220       230       240       250|        -     | 270       280       290        |-         -         -         -  |    340       350   
                            1-MSE                                         48-MSE     59   64                               97-MSE                120-MSE                     148-MSE                                                            215-MSE                             251            266                              299                               333
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  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 3PG5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3PG5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3PG5)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (Q6NEG6_CORDI | Q6NEG6)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    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.

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