4PF8 - JenaLib

Title :   CRYSTAL STRUCTURE OF A TRAP PERIPLASMIC SOLUTE BINDING PROTEIN FROM SULFITOBACTER SP. NAS-14.1 (TARGET EFI-510299) WITH BOUND BETA-D-GALACTURONATE

Authors :   M. W. Vetting, N. F. Al Obaidi, L. L. Morisco, S. R. Wasserman, M. Stead, J. D. Attonito, A. Scott Glenn, S. Chowdhury, B. Evans, B. Hillerich, R. D. Seidel, K. L. Whalen, J. A. Gerlt, S. C. Almo, Enzyme Function In (Efi)

Date :   28 Apr 14 (Deposition) - 14 May 14 (Release) - 14 Oct 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.50

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

Keywords :   Trap Periplasmic Solute Binding Family, Enzyme Function Initiative, Efi, Structural Genomics, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. W. Vetting, N. Al-Obaidi, S. Zhao, B. San Francisco, J. Kim, D. J. Wichelecki, J. T. Bouvier, J. O. Solbiati, H. Vu, X. Zhang, D. A. Rodionov, J. D. Love, B. S. Hillerich, R. D. Seidel, R. J. Quinn, A. L. Osterman, J. E. Cronan, M. P. Jacobson, J. A. Gerlt, S. C. Almo
Experimental Strategies For Functional Annotation And Metabolism Discovery: Targeted Screening Of Solute Binding Proteins And Unbiased Panning Of Metabolomes.
Biochemistry V. 54 909 2015
PubMed-ID: 25540822 | Reference-DOI: 10.1021/BI501388Y

Compounds

Molecule 1 - TRAP-T FAMILY TRANSPORTER, DCTP (PERIPLASMIC BINDING) SUBUNIT
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Fragment	:	UNP RESIDUES 30-331
	Gene	:	NAS141_03681
	Organism Scientific	:	SULFITOBACTER SP. NAS-14.1
	Organism Taxid	:	314267

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 36)

Asymmetric Unit (3, 36)

No.	Name	Count	Type	Full Name
1	CL	2	Ligand/Ion	CHLORIDE ION
2	GTR	2	Ligand/Ion	BETA-D-GALACTOPYRANURONIC ACID
3	MSE	32	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (2, 17)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	GTR	1	Ligand/Ion	BETA-D-GALACTOPYRANURONIC ACID
3	MSE	16	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (2, 17)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	GTR	1	Ligand/Ion	BETA-D-GALACTOPYRANURONIC ACID
3	MSE	16	Mod. Amino Acid	SELENOMETHIONINE

Sites (4, 4)

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLN A:71 , ALA A:190 , PHE A:191 , HOH A:595 , HOH A:691	binding site for residue CL A 401
2	AC2	SOFTWARE	ILE A:32 , HIS A:33 , GLN A:71 , SER A:89 , ARG A:147 , ARG A:168 , MSE A:170 , PHE A:191 , ASN A:208 , ASN A:209 , SER A:212 , GLU A:235 , HOH A:574 , HOH A:576 , HOH A:581 , HOH A:583	binding site for residue GTR A 402
3	AC3	SOFTWARE	GLN B:71 , ALA B:190 , PHE B:191 , HOH B:603	binding site for residue CL B 401
4	AC4	SOFTWARE	ILE B:32 , HIS B:33 , GLN B:71 , SER B:89 , ARG B:147 , ARG B:168 , MSE B:170 , PHE B:191 , ASN B:208 , ASN B:209 , SER B:212 , GLU B:235 , HOH B:574 , HOH B:577 , HOH B:578 , HOH B:581	binding site for residue GTR B 402

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:300
                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeee......hhhhhhhhhhhhhhhhhh.....eeee......hhhhhhhhhhh....eeeeehhhhh..hhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee....eeeee......hhhhhh..eeee..hhhhhhhhhh...eeee.hhhhhhhhhhh....eeeehhhhhhhhhhhhhh.eeeeeeee...eeeeeehhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4pf8 A  26 DWRGWNIHVEDYPVSHGmEAFmEEVTEKTGGEIKGKVFHAGVLGSQPDAIEQLRLGImDFGVFSLGPmGQAVPATNVVSLPFVFKSVPQmYELmDGEPGAALGKALEEKGIVALGYYDAGARSFYNSVKPINTPEDVQGmKVRVmNNDLFVGmIESmGGNATPmAFAEVYQSIKTGVVDGAENNPPSYESTSHFEVAKYYSLTQHLIIPECLCmSKKTFDGLTPEQQEIVKTAGKNSTDLQRKLWGEREAASmKIImDGGVEVNEIADKSAFQEAmVPVYEKYLAANPEmTDLVNLFRNA 325
                                    35       |45 |      55        65        75       |85       |95       105       115   |   125       135       145       155       165    |  175  |   |185   |   195       205       215       225       235   |   245       255       265       275  |   |285       295     | 305       315       325
                                            43-MSE                                  83-MSE    93-MSE               115-MSE                                           165-MSE|     178-MSE      |                                               239-MSE                                278-MSE                301-MSE       315-MSE      
                                                47-MSE                                                                 119-MSE                                            170-MSE     182-MSE  |                                                                                          282-MSE                                       
                                                                                                                                                                                             189-MSE

Chain B from PDB  Type:PROTEIN  Length:300
                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeee......hhhhhhhhhhhhhhhhhh....eeeee......hhhhhhhhhhh....eeeeehhhhh..hhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee....eeeee......hhhhhh..eeee..hhhhhhhhhh...eeee.hhhhhhhhhhh....eeeehhhhhhhhhhhhhh.eeeeeeee...eeeeeehhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhhhhh..hhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4pf8 B  25 KDWRGWNIHVEDYPVSHGmEAFmEEVTEKTGGEIKGKVFHAGVLGSQPDAIEQLRLGImDFGVFSLGPmGQAVPATNVVSLPFVFKSVPQmYELmDGEPGAALGKALEEKGIVALGYYDAGARSFYNSVKPINTPEDVQGmKVRVmNNDLFVGmIESmGGNATPmAFAEVYQSIKTGVVDGAENNPPSYESTSHFEVAKYYSLTQHLIIPECLCmSKKTFDGLTPEQQEIVKTAGKNSTDLQRKLWGEREAASmKIImDGGVEVNEIDKSAFQEAmVPVYEKYLAANPEmTDLVNLFRNA 325
                                    34        44  |     54        64        74        84        94       104       114|   |  124       134       144       154       164|    | 174   |   184    |  194       204       214       224       234    |  244       254       264       274   |   284      |295     | 305       315       325
                                             43-MSE                                  83-MSE    93-MSE               115-MSE                                           165-MSE|     178-MSE      |                                               239-MSE                                278-MSE      291|     301-MSE       315-MSE      
                                                 47-MSE                                                                 119-MSE                                            170-MSE     182-MSE  |                                                                                          282-MSE   293                                
                                                                                                                                                                                              189-MSE

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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)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (2, 2)

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