3UWC - JenaLib

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Title :   STRUCTURE OF AN AMINOTRANSFERASE (DEGT-DNRJ-ERYC1-STRS FAMILY) FROM COXIELLA BURNETII IN COMPLEX WITH PMP

Authors :   J. Cheung, M. Franklin, M. Rudolph, M. Cassidy, E. Gary, F. Burshteyn, J

Date :   01 Dec 11 (Deposition) - 14 Dec 11 (Release) - 27 Jan 16 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

Chains :   Asym. Unit : A
Biol. Unit 1: A  (1x)
Biol. Unit 2: A  (2x)

Keywords :   Lipopolysaccharide Biosynthesis, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. C. Franklin, J. Cheung, M. J. Rudolph, F. Burshteyn, M. Cassidy, E. Gary, B. Hillerich, Z. K. Yao, P. R. Carlier, M. Totrov, J. D. Love
Structural Genomics For Drug Design Against The Pathogen Coxiella Burnetii.
Proteins V. 83 2124 2015
PubMed-ID: 26033498 | Reference-DOI: 10.1002/PROT.24841

Molecule 1 - NUCLEOTIDE-SUGAR AMINOTRANSFERASE
	Chains	:	A
	EC Number	:	2.6.1.-
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	CBU_0696
	Organism Scientific	:	COXIELLA BURNETII
	Organism Taxid	:	777
	Strain	:	RSA493

		1
Asymmetric Unit	:	A
Biological Unit 1 (1x)	:	A
Biological Unit 2 (2x)	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (5, 15)

No.	Name	Count	Type	Full Name
1	DIO	1	Ligand/Ion	1,4-DIETHYLENE DIOXIDE
2	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
3	MSE	9	Mod. Amino Acid	SELENOMETHIONINE
4	NA	3	Ligand/Ion	SODIUM ION
5	PMP	1	Ligand/Ion	4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE

Biological Unit 1 (4, 12)

No.	Name	Count	Type	Full Name
1	DIO	1	Ligand/Ion	1,4-DIETHYLENE DIOXIDE
2	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
3	MSE	9	Mod. Amino Acid	SELENOMETHIONINE
4	NA	-1	Ligand/Ion	SODIUM ION
5	PMP	1	Ligand/Ion	4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE

Biological Unit 2 (4, 24)

No.	Name	Count	Type	Full Name
1	DIO	2	Ligand/Ion	1,4-DIETHYLENE DIOXIDE
2	EDO	2	Ligand/Ion	1,2-ETHANEDIOL
3	MSE	18	Mod. Amino Acid	SELENOMETHIONINE
4	NA	-1	Ligand/Ion	SODIUM ION
5	PMP	2	Ligand/Ion	4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR A:84 , PHE A:85 , ILE A:86 , ARG A:217 , ASP A:218 , TYR A:310 , ILE A:312 , MSE A:314 , GLN A:317 , HOH A:406	BINDING SITE FOR RESIDUE DIO A 372
2	AC2	SOFTWARE	GLU A:105 , ASP A:137 , HOH A:421 , HOH A:481	BINDING SITE FOR RESIDUE NA A 373
3	AC3	SOFTWARE	SER A:190 , ASP A:230 , GLN A:233	BINDING SITE FOR RESIDUE NA A 374
4	AC4	SOFTWARE	TYR A:7 , LEU A:183 , LYS A:184 , ASN A:185 , ARG A:251 , EDO A:376 , HOH A:510	BINDING SITE FOR RESIDUE NA A 375
5	AC5	SOFTWARE	TYR A:5 , TYR A:7 , LEU A:183 , ALA A:345 , HIS A:346 , NA A:375 , HOH A:446 , HOH A:504 , HOH A:510	BINDING SITE FOR RESIDUE EDO A 376
6	AC6	SOFTWARE	THR A:58 , GLY A:59 , THR A:60 , PHE A:85 , ALA A:87 , SER A:88 , VAL A:129 , ASP A:155 , CYS A:157 , GLN A:158 , SER A:179 , LYS A:184 , ASN A:226 , HOH A:491 , HOH A:620 , HOH A:695 , HOH A:751	BINDING SITE FOR RESIDUE PMP A 377

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

Asymmetric Unit

No.	Residues
1	Pro A:182	-	Leu A:183
2	His A:309	-	Tyr A:310

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

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

(no "Exon" information available for 3UWC)

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:371
 aligned with B5U8Q1_COXBU | B5U8Q1 from UniProtKB/TrEMBL  Length:384

    Alignment length:371
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372 
         B5U8Q1_COXBU     3 MRVPYSYLERQFADIEPYLNDLREFIKTADFTLGAELEKFEKRFAALHNAPHAIGVGTGTDALAMSFKMLNIGAGDEVITCANTFIASVGAIVQAGATPVLVDSENGYVIDPEKIEAAITDKTKAIMPVHYTGNIADMPALAKIAKKHNLHIVEDACQTILGRINDKFVGSWGQFACFSLHPLKNLNVWSDAGVIITHSDEYAEKLRLYRNHGLINRDVCVEYGINCRMDTIQAVIANRLMNQLETITEKRRGIAHLYDQSFVDLSEFIDVPVRREGVYHVFHIYVLRVKYRDQLFQYLKDNGIEVKIHYPIAMHLQPAAKSLGYQQGDFPMAEKHGEAVITLPAHPYLTEEEINYIIKKVREFYLEKHYN 373
               SCOP domains d3uwca_ A: automated matches                                                                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhh..hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhhhh......eeeee...hhhhhhhhhhh..eeeee........hhhhhhhhh...eeee...hhhhh..hhhhhhhhhhhh..eeeee.......ee..ee......eeeee.............eeeee.hhhhhhhhhhhh...eee..ee.........hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh..ee.......ee.....eeeee.hhhhhhhhhhhh..........hhhhhhhhhhhh.....hhhhhhhhhheeee......hhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3uwc A   1 mRVPYSYLERQFADIEPYLNDLREFIKTADFTLGAELEKFEKRFAALHNAPHAIGVGTGTDALAmSFKmLNIGAGDEVITCANTFIASVGAIVQAGATPVLVDSENGYVIDPEKIEAAITDKTKAImPVHYTGNIADmPALAKIAKKHNLHIVEDACQTILGRINDKFVGSWGQFACFSLHPLKNLNVWSDAGVIITHSDEYAEKLRLYRNHGLINRDVCVEYGINCRmDTIQAVIANRLmNQLETITEKRRGIAHLYDQSFVDLSEFIDVPVRREGVYHVFHIYVLRVKYRDQLFQYLKDNGIEVKIHYPIAmHLQPAAKSLGYQQGDFPmAEKHGEAVITLPAHPYLTEEEINYIIKKVREFYLEKHYN 371
                            |       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       360       370 
                            |                                                              65-MSE                                                       127-MSE    138-MSE                                                                                    229-MSE     241-MSE                                                                  314-MSE           332-MSE                                   
                            1-MSE                                                              69-MSE

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 '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: PLP-dependent transferase-like (627)

Superfamily: PLP-dependent transferases (625)

Family: automated matches (163)

Protein domain: automated matches (163)

Coxiella burnetii [TaxId: 777] (1)

d3uwca_

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

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

Asymmetric Unit(hide GO term definitions)

Chain A (B5U8Q1_COXBU | B5U8Q1)


GO:0003824	catalytic activity	Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
GO:0008483	transaminase activity	Catalysis of the transfer of an amino group to an acceptor, usually a 2-oxo acid.
GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.

Asymmetric Unit
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	Cis Peptide Bonds
		His A:309 - Tyr A:310	[ RasMol ]
		Pro A:182 - Leu A:183	[ RasMol ]

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Description

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Ligands, Modified Residues, Ions (5, 15)

Sites (6, 6)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

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