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Title :   CRYSTAL STRUCTURE OF THE ATP BINDING DOMAIN OF S. AUREUS GYRB COMPLEXED WITH A FRAGMENT

Authors :   O. A. Andersen, J. Barker, R. K. Cheng, J. Kahmann, B. Felicetti, M. Wood C. Scheich, M. Mesleh, J. B. Cross, J. Zhang, Q. Yang, B. Lippa, M. D. Rya

Date :   24 Jul 15 (Deposition) - 03 Feb 16 (Release) - 17 Feb 16 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.60

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

Keywords :   Dna Gyrase, Gyrb, Fragment-Based Screening, Structure-Based Design, Isomerase-Isomerase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. F. Mesleh, J. B. Cross, J. Zhang, J. Kahmann, O. A. Andersen, J. Barker, R. K. Cheng, B. Felicetti, M. Wood, A. T. Hadfield, C. Scheich, T. I. Moy, Q. Yang, J. Shotwell, K. Nguyen, B. Lippa, R. Dolle, M. D. Ryan
Fragment-Based Discovery Of Dna Gyrase Inhibitors Targeting The Atpase Subunit Of Gyrb.
Bioorg. Med. Chem. Lett. V. 26 1314 2016
PubMed-ID: 26786695 | Reference-DOI: 10.1016/J.BMCL.2016.01.009

Molecule 1 - DNA GYRASE SUBUNIT B
	Chains	:	A, B
	EC Number	:	5.99.1.3
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET24
	Expression System Strain	:	ROSETTA 2 (DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Fragment	:	ATP BINDING DOMAIN, UNP RESIDUES 2-234 (DELTA 105-127)
	Gene	:	GYRB
	Organism Scientific	:	STAPHYLOCOCCUS AUREUS
	Organism Taxid	:	1280

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 7)

No.	Name	Count	Type	Full Name
1	55G	1	Ligand/Ion	4-PHENYL-3-[2-(PYRIDIN-3-YL)-1,3-THIAZOL-5-YL]-2,7-DIHYDRO-6H-PYRAZOLO[3,4-B]PYRIDIN-6-ONE
2	MG	2	Ligand/Ion	MAGNESIUM ION
3	MPD	4	Ligand/Ion	(4S)-2-METHYL-2,4-PENTANEDIOL

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	55G	-1	Ligand/Ion	4-PHENYL-3-[2-(PYRIDIN-3-YL)-1,3-THIAZOL-5-YL]-2,7-DIHYDRO-6H-PYRAZOLO[3,4-B]PYRIDIN-6-ONE
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	MPD	2	Ligand/Ion	(4S)-2-METHYL-2,4-PENTANEDIOL

Biological Unit 2 (2, 3)

No.	Name	Count	Type	Full Name
1	55G	1	Ligand/Ion	4-PHENYL-3-[2-(PYRIDIN-3-YL)-1,3-THIAZOL-5-YL]-2,7-DIHYDRO-6H-PYRAZOLO[3,4-B]PYRIDIN-6-ONE
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	MPD	2	Ligand/Ion	(4S)-2-METHYL-2,4-PENTANEDIOL

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:81 , HIS A:143 , LYS A:170 , THR A:171 , MPD A:302 , HOH A:404	binding site for residue MPD A 301
2	AC2	SOFTWARE	TYR A:141 , HIS A:143 , MPD A:301	binding site for residue MPD A 302
3	AC3	SOFTWARE	THR B:80 , ASP B:81 , HIS B:143 , LYS B:170 , MPD B:302 , HOH B:414	binding site for residue MPD B 301
4	AC4	SOFTWARE	TYR B:141 , HIS B:143 , GLU B:186 , MPD B:301	binding site for residue MPD B 302
5	AC5	SOFTWARE	THR A:185 , ASN B:54 , GLU B:58 , ASP B:81 , ARG B:84 , GLY B:85 , PRO B:87 , ILE B:102 , ARG B:144 , ILE B:175 , HOH B:424 , HOH B:449 , HOH B:467	binding site for residue 55G B 303
6	AC6	SOFTWARE	HOH A:484 , ASP B:53 , ASP B:57 , HOH B:419 , HOH B:429 , HOH B:451	binding site for residue MG B 304
7	AC7	SOFTWARE	GLU B:164 , GLU B:219 , HOH B:468 , HOH B:528 , HOH B:530	binding site for residue MG B 305

(no "SS Bond" information available for 5CTX)

(no "Cis Peptide Bond" information available for 5CTX)

(no "SAP(SNP)/Variant" information available for 5CTX)

(no "PROSITE Motif" information available for 5CTX)

(no "Exon" information available for 5CTX)

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
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	UniProt sequence: complete aligned part

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Chain A from PDB  Type:PROTEIN  Length:192
                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh....eeeeeeehhheeeeee...............hhhhhhhhhhhhhhheeeeeeeeee..eeeeeeee..ee....eeeee....eeeeeeee...........hhhhhhhhhhhhhhhh...eeeeee.......eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5ctx A  16 AGQIQVLEGLEAVRKRPGMYIGSTSERGLHHLVWEIVDNSIDEALAGYANQIEVVIEKDNWIKVTDNGRGIPVDIQEKMGRPAVEVILTSSVVNALSQDLEVYVHRNETIYHQAYKKGVPQFDLKEVGTTDKTGTVIRFKADGEIFTETTVYNYETLQQRIRELAFLNKGIQITLRDERDEENVREDSYHYE 230
                                    25        35        45        55        65        75        85        95       128       138       148       158       168       178       188       198       208       218       228  
                                                                                                                  104|                                                                                                      
                                                                                                                   128

Chain B from PDB  Type:PROTEIN  Length:189
                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh....eeeeee....eeeeee...............hhhhhhhh.hhhhhheeeeeeeeee..eeeeeeee..ee....eeeee....eeeeeeee...........hhhhhhhhhhhhhhhh...eeeeee.......eeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ctx B  20 QVLEGLEAVRKRPGMYIGSTSERGLHHLVWEIVDNSIDEALAGYANQIEVVIEKDNWIKVTDNGRGIPVDIQEKMGRPAVEVILTSSVVNALSQDLEVYVHRNETIYHQAYKKGVPQFDLKEVGTTDKTGTVIRFKADGEIFTETTVYNYETLQQRIRELAFLNKGIQITLRDERDEENVREDSYHYEG 231
                                    29        39        49        59        69        79        89        99    || 132       142       152       162       172       182       192       202       212       222         
                                                                                                              104|                                                                                                       
                                                                                                               128

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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

(no "SCOP Domain" information available for 5CTX)

(no "CATH Domain" information available for 5CTX)

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Description

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Ligands, Modified Residues, Ions (3, 7)

Sites (7, 7)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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Gene Ontology (13, 13)

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