3PG5 - JenaLib

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

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
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.	Name	Count	Type	Full Name
1	MSE	24	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (1, 6)

No.	Name	Count	Type	Full Name
1	MSE	6	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (1, 6)

No.	Name	Count	Type	Full Name
1	MSE	6	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 3 (1, 6)

No.	Name	Count	Type	Full Name
1	MSE	6	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 4 (1, 6)

No.	Name	Count	Type	Full Name
1	MSE	6	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 5 (1, 12)

No.	Name	Count	Type	Full Name
1	MSE	12	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 6 (1, 12)

No.	Name	Count	Type	Full Name
1	MSE	12	Mod. Amino Acid	SELENOMETHIONINE

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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

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)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (3, 3)

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