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(-) Description

Title :  E. COLI GYRB 43-KDA N-TERMINAL FRAGMENT IN COMPLEX WITH ADP+PI
 
Authors :  F. V. Stanger, T. Schirmer
Date :  06 Mar 14  (Deposition) - 24 Sep 14  (Release) - 24 Sep 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Gyrb, Atp Hydrolysis, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. V. Stanger, C. Dehio, T. Schirmer
Structure Of The N-Terminal Gyrase B Fragment In Complex With Adppi Reveals Rigid-Body Motion Induced By Atp Hydrolysis
Plos One V. 9 07289 2014
PubMed-ID: 25202966  |  Reference-DOI: 10.1371/JOURNAL.PONE.0107289

(-) Compounds

Molecule 1 - GYRB
    Chains: A
    EC Number: 5.99.1.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PRSFDUET1
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 2-392
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 4)

Asymmetric Unit (4, 4)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2GOL1Ligand/IonGLYCEROL
3MG1Ligand/IonMAGNESIUM ION
4PO41Ligand/IonPHOSPHATE ION
Biological Unit 1 (3, 6)
No.NameCountTypeFull Name
1ADP2Ligand/IonADENOSINE-5'-DIPHOSPHATE
2GOL2Ligand/IonGLYCEROL
3MG-1Ligand/IonMAGNESIUM ION
4PO42Ligand/IonPHOSPHATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:5 , ILE A:10 , ASN A:46 , GLU A:50 , ASP A:73 , ILE A:78 , ILE A:94 , ALA A:100 , GLY A:101 , GLY A:102 , LYS A:103 , TYR A:109 , GLY A:114 , LEU A:115 , HIS A:116 , GLY A:117 , VAL A:118 , GLY A:119 , VAL A:120 , THR A:165 , PO4 A:402 , MG A:403 , HOH A:502 , HOH A:504 , HOH A:505 , HOH A:511 , HOH A:535BINDING SITE FOR RESIDUE ADP A 401
2AC2SOFTWAREGLU A:42 , LEU A:115 , HIS A:116 , GLY A:117 , VAL A:118 , GLY A:119 , LYS A:337 , ADP A:401 , MG A:403 , HOH A:543 , HOH A:646BINDING SITE FOR RESIDUE PO4 A 402
3AC3SOFTWAREASN A:46 , ADP A:401 , PO4 A:402 , HOH A:642BINDING SITE FOR RESIDUE MG A 403
4AC4SOFTWARETRP A:170 , LYS A:223 , ASN A:239 , ILE A:240 , PHE A:241 , TYR A:242 , HOH A:563 , HOH A:575 , HOH A:587BINDING SITE FOR RESIDUE GOL A 404

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4PRX)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4PRX)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4PRX)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4PRX)

(-) Exons   (0, 0)

(no "Exon" information available for 4PRX)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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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:363
                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhh.....hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh....eeeeee.....eeeee...............hhhhhhhhh....................hhhhhhhhheeeeeeeeee..eeeeeeee..ee....eeeee....eeeeeeee...........hhhhhhhhhhhhhhhh...eeeeee.....eeee...hhhhhhhhhhhh.........eeeeeee..eeeeeeeee.....eeeeeee..ee....hhhhhhhhhhhhhhhhhhhhhh.......eeeeeeee...............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4prx A   4 SYDSSSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSQKLELVIQREGKIHRQIYEHGVPQAPLAVTGETEKTGTMVRFWPSLETFTNVTEFEYEILAKRLRELSFLNSGVSIRLRDKRDGKEDHFHYEGGIKAFVEYLNKNKTPIHPNIFYFSTEKDGIGVEVALQWNDGFQENIYCFTNNIPQRDGGTHLAGFRAAMTRTLNAYMDKEGYSAREGLIAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQQMNELLAEYLLENPTDAKIVVGKIID 377
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303|      324       334       344       354       364       374   
                                                                                                                                                                                                                                                                                                                                     303|                                                              
                                                                                                                                                                                                                                                                                                                                      315
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4PRX)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4PRX)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4PRX)

(-) Gene Ontology  (23, 23)

Asymmetric Unit(hide GO term definitions)

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  4prx
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  GYRB_ECOLI | P0AES6
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        GYRB_ECOLI | P0AES6: 1aj6 1ei1 1kzn 3g7e 3nuh 4duh 4hyp 4kfg 4prv 4pu9 4wub 4wuc 4wud 4xtj 4zvi 5l3j

(-) Related Entries Specified in the PDB File

1ei1 GYRB IN COMPLEX WITH AMPPNP
4prv GYRB IN COMPLEX WITH ADP
4pu9
4r1f