Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Asym. Unit - sites
(-)Biological Unit 1
(-)Biol. Unit 1 - sites
(-)Biological Unit 2
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Asym. Unit - sites
Asym. Unit - sites  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biol. Unit 1 - sites
Biol. Unit 1 - sites  (Jmol Viewer)
Image Biological Unit 2
Biological Unit 2  (Jmol Viewer)

(-) Description

Title :  STRUCTURE OF THE PYRIDOXAL KINASE FROM STAPHYLOCOCCUS AUREUS IN COMPLEX WITH ADP
 
Authors :  M. Nodwell, F. Alte, S. A. Sieber, S. Schneider
Date :  12 Sep 13  (Deposition) - 19 Mar 14  (Release) - 16 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  B,D  (1x)
Biol. Unit 2:  A,C  (1x)
Keywords :  Transferase, Ribokinase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. B. Nodwell, M. F. Koch, F. Alte, S. Schneider, S. A. Sieber
A Subfamily Of Bacterial Ribokinases Utilizes A Hemithioacetal For Pyridoxal Phosphate Salvage.
J. Am. Chem. Soc. V. 136 4992 2014
PubMed-ID: 24601602  |  Reference-DOI: 10.1021/JA411785R

(-) Compounds

Molecule 1 - PHOSPHOMETHYLPYRIMIDINE KINASE
    Atcc: 700699
    Chains: A, B, C, D
    EC Number: 2.7.1.35
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: STAPHYLOCOCCUS AUREUS SUBSP. AUREUS MU50
    Organism Taxid: 158878
    Synonym: PYRIDOXAL KINASE

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x):  B D
Biological Unit 2 (1x): A C 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 17)

Asymmetric Unit (2, 17)
No.NameCountTypeFull Name
1ADP4Ligand/IonADENOSINE-5'-DIPHOSPHATE
2SO413Ligand/IonSULFATE ION
Biological Unit 1 (2, 9)
No.NameCountTypeFull Name
1ADP2Ligand/IonADENOSINE-5'-DIPHOSPHATE
2SO47Ligand/IonSULFATE ION
Biological Unit 2 (2, 8)
No.NameCountTypeFull Name
1ADP2Ligand/IonADENOSINE-5'-DIPHOSPHATE
2SO46Ligand/IonSULFATE ION

(-) Sites  (17, 17)

Asymmetric Unit (17, 17)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELYS A:176 , GLY A:178 , LYS A:179 , ALA A:180 , SER A:186 , ASP A:188 , ASP A:202 , MET A:203 , PHE A:204 , GLN A:205 , ASN A:209 , ALA A:212 , GLY A:213 , LYS A:238 , ILE A:245 , SO4 A:1280 , HOH A:2150 , HOH A:2151 , HOH A:2178BINDING SITE FOR RESIDUE ADP A1277
02AC2SOFTWAREASN B:139 , LYS B:176 , LYS B:179 , SER B:186 , ASP B:188 , ASP B:202 , MET B:203 , PHE B:204 , GLN B:205 , ASN B:209 , GLY B:213 , LYS B:238 , ILE B:245 , SO4 B:1278 , HOH B:2130 , HOH B:2131 , HOH B:2146 , HOH B:2147 , HOH B:2173BINDING SITE FOR RESIDUE ADP B1277
03AC3SOFTWAREASN C:139 , LYS C:176 , LYS C:179 , SER C:186 , ASP C:188 , ASP C:202 , MET C:203 , PHE C:204 , GLN C:205 , ASN C:209 , ALA C:212 , GLY C:213 , LYS C:238 , ILE C:245 , SO4 C:1279 , HOH C:2069 , HOH C:2070 , HOH C:2107 , HOH C:2118BINDING SITE FOR RESIDUE ADP C1277
04AC4SOFTWAREASN D:139 , LYS D:176 , GLY D:178 , LYS D:179 , SER D:186 , ASP D:188 , ASP D:202 , MET D:203 , PHE D:204 , GLN D:205 , ASN D:209 , GLY D:213 , LYS D:238 , ILE D:245 , SO4 D:1278 , HOH D:2138 , HOH D:2165 , HOH D:2179 , HOH D:2261BINDING SITE FOR RESIDUE ADP D1277
05AC5SOFTWAREHIS B:210 , GLY B:211 , ALA B:212 , GLY B:213 , CYS B:214 , ADP B:1277BINDING SITE FOR RESIDUE SO4 B1278
06AC6SOFTWAREGLY A:72 , ASN A:98 , HOH A:2016 , HOH A:2103BINDING SITE FOR RESIDUE SO4 A1278
07AC7SOFTWAREGLN A:205 , GLN A:206 , SER A:207BINDING SITE FOR RESIDUE SO4 A1279
08AC8SOFTWAREGLN B:205 , GLN B:206 , SER B:207 , HOH B:2184BINDING SITE FOR RESIDUE SO4 B1279
09AC9SOFTWAREGLU A:123 , GLN C:205 , GLN C:206 , SER C:207 , HOH C:2171BINDING SITE FOR RESIDUE SO4 C1278
10BC1SOFTWAREHIS C:210 , GLY C:211 , ALA C:212 , GLY C:213 , CYS C:214 , ADP C:1277BINDING SITE FOR RESIDUE SO4 C1279
11BC2SOFTWAREHIS A:210 , GLY A:211 , ALA A:212 , GLY A:213 , CYS A:214 , ADP A:1277BINDING SITE FOR RESIDUE SO4 A1280
12BC3SOFTWAREGLY D:211 , ALA D:212 , GLY D:213 , CYS D:214 , ADP D:1277 , HOH D:2207 , HOH D:2262BINDING SITE FOR RESIDUE SO4 D1278
13BC4SOFTWAREGLY D:72 , ASN D:98 , HOH D:2008 , HOH D:2079 , HOH D:2082BINDING SITE FOR RESIDUE SO4 D1279
14BC5SOFTWAREGLN D:205 , GLN D:206 , SER D:207BINDING SITE FOR RESIDUE SO4 D1280
15BC6SOFTWARESER D:229 , LYS D:231 , HOH D:2181 , HOH D:2182 , HOH D:2220BINDING SITE FOR RESIDUE SO4 D1281
16BC7SOFTWARETYR B:208 , LYS B:250 , HOH B:2153 , HOH B:2154 , HOH B:2189 , HOH B:2237BINDING SITE FOR RESIDUE SO4 B1280
17BC8SOFTWARELYS C:5 , GLY C:72 , ASN C:98 , HOH C:2010 , HOH C:2047BINDING SITE FOR RESIDUE SO4 C1280

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4C5K)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4C5K)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4C5K)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4C5K)

(-) Exons   (0, 0)

(no "Exon" information available for 4C5K)

(-) 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:274
 aligned with A0A0H3JTP0_S | A0A0H3JTP0 from UniProtKB/TrEMBL  Length:276

    Alignment length:276
                                    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      
         A0A0H3JTP0_S     1 MALKKVLTIAGSDTSAGAGMQADLKTFQELDTYGMVALTAIVTMDKDTWSHDVTPLPMDVFEKQLETALSIGPDAIKTGMLGTEEIIKRAGEVYEASNAQYFVVDPVMVCKGEDEVLNPGNTEAMIKYLLPKATVVTPNLFEAGQLSGLGKLNSIEDMKKAATIIFDKGAQHVIIKGGKALDQDKSYDLYYDGQTFYQLTTDMFQQSYNHGAGCTFAAATTAYLANGKSPKEAVISAKAFVASAIKNGWKMNDFVGPVDHGAYNRIEHIDVEVTEV 276
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeeeeee....hhhhhhhhhhhhh..eeeeeeeeeeee......eeeee.hhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhhhhh...eeee.......--....hhhhhhhhhhhhhhhh.ee..hhhhhhhhh......hhhhhhhhhhhhhhh....eeeehhhhhh..eeeeeee....eeeeeee........hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.............hhhhhh.....eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4c5k A   1 GALKKVLTIAGSDTSAGAGMQADLKTFQELDTYGMVALTAIVTMDKDTWSHDVTPLPMDVFEKQLETALSIGPDAIKTGMLGTEEIIKRAGEVYEASNAQYFVVDPVMVCK--DEVLNPGNTEAMIKYLLPKATVVTPNLFEAGQLSGLGKLNSIEDMKKAATIIFDKGAQHVIIKGGKALDQDKSYDLYYDGQTFYQLTTDMFQQSYNHGAGCTFAAATTAYLANGKSPKEAVISAKAFVASAIKNGWKMNDFVGPVDHGAYNRIEHIDVEVTEV 276
                                    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      
                                                                                                                                        111  |                                                                                                                                                                  
                                                                                                                                           114                                                                                                                                                                  


Chain B from PDB  Type:PROTEIN  Length:274
 aligned with A0A0H3JTP0_S | A0A0H3JTP0 from UniProtKB/TrEMBL  Length:276

    Alignment length:276
                                    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      
         A0A0H3JTP0_S     1 MALKKVLTIAGSDTSAGAGMQADLKTFQELDTYGMVALTAIVTMDKDTWSHDVTPLPMDVFEKQLETALSIGPDAIKTGMLGTEEIIKRAGEVYEASNAQYFVVDPVMVCKGEDEVLNPGNTEAMIKYLLPKATVVTPNLFEAGQLSGLGKLNSIEDMKKAATIIFDKGAQHVIIKGGKALDQDKSYDLYYDGQTFYQLTTDMFQQSYNHGAGCTFAAATTAYLANGKSPKEAVISAKAFVASAIKNGWKMNDFVGPVDHGAYNRIEHIDVEVTEV 276
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeeeeee....hhhhhhhhhhhhh..eeeeeeeeeeee......eeeee.hhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhhhhh...eeee.......--....hhhhhhhhhhhhhhhh.ee..hhhhhhhhh......hhhhhhhhhhhhhhh....eeeehhhhhh..eeeeeee....eeeeeee........hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.............hhhhhh.....eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4c5k B   1 GALKKVLTIAGSDTSAGAGMQADLKTFQELDTYGMVALTAIVTMDKDTWSHDVTPLPMDVFEKQLETALSIGPDAIKTGMLGTEEIIKRAGEVYEASNAQYFVVDPVMVCK--DEVLNPGNTEAMIKYLLPKATVVTPNLFEAGQLSGLGKLNSIEDMKKAATIIFDKGAQHVIIKGGKALDQDKSYDLYYDGQTFYQLTTDMFQQSYNHGAGCTFAAATTAYLANGKSPKEAVISAKAFVASAIKNGWKMNDFVGPVDHGAYNRIEHIDVEVTEV 276
                                    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      
                                                                                                                                        111  |                                                                                                                                                                  
                                                                                                                                           114                                                                                                                                                                  


Chain C from PDB  Type:PROTEIN  Length:270
 aligned with A0A0H3JTP0_S | A0A0H3JTP0 from UniProtKB/TrEMBL  Length:276

    Alignment length:276
                                    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      
         A0A0H3JTP0_S     1 MALKKVLTIAGSDTSAGAGMQADLKTFQELDTYGMVALTAIVTMDKDTWSHDVTPLPMDVFEKQLETALSIGPDAIKTGMLGTEEIIKRAGEVYEASNAQYFVVDPVMVCKGEDEVLNPGNTEAMIKYLLPKATVVTPNLFEAGQLSGLGKLNSIEDMKKAATIIFDKGAQHVIIKGGKALDQDKSYDLYYDGQTFYQLTTDMFQQSYNHGAGCTFAAATTAYLANGKSPKEAVISAKAFVASAIKNGWKMNDFVGPVDHGAYNRIEHIDVEVTEV 276
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeeeeee....hhhhhhhhhhhhh..eeeeeeeeeeee......eeeee.hhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhhhhh...eeee....------....hhhhhhhhhhhhhhh.ee..hhhhhhhhhh.....hhhhhhhhhhhhhhh...eeeeehhhhhh..eeeeeee....eeeeeee........hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.............hhhhhh.....eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4c5k C   1 GALKKVLTIAGSDTSAGAGMQADLKTFQELDTYGMVALTAIVTMDKDTWSHDVTPLPMDVFEKQLETALSIGPDAIKTGMLGTEEIIKRAGEVYEASNAQYFVVDPVM------EVLNPGNTEAMIKYLLPKATVVTPNLFEAGQLSGLGKLNSIEDMKKAATIIFDKGAQHVIIKGGKALDQDKSYDLYYDGQTFYQLTTDMFQQSYNHGAGCTFAAATTAYLANGKSPKEAVISAKAFVASAIKNGWKMNDFVGPVDHGAYNRIEHIDVEVTEV 276
                                    10        20        30        40        50        60        70        80        90       100       | -    |  120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270      
                                                                                                                                     108    115                                                                                                                                                                 


Chain D from PDB  Type:PROTEIN  Length:276
 aligned with A0A0H3JTP0_S | A0A0H3JTP0 from UniProtKB/TrEMBL  Length:276

    Alignment length:276
                                    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      
         A0A0H3JTP0_S     1 MALKKVLTIAGSDTSAGAGMQADLKTFQELDTYGMVALTAIVTMDKDTWSHDVTPLPMDVFEKQLETALSIGPDAIKTGMLGTEEIIKRAGEVYEASNAQYFVVDPVMVCKGEDEVLNPGNTEAMIKYLLPKATVVTPNLFEAGQLSGLGKLNSIEDMKKAATIIFDKGAQHVIIKGGKALDQDKSYDLYYDGQTFYQLTTDMFQQSYNHGAGCTFAAATTAYLANGKSPKEAVISAKAFVASAIKNGWKMNDFVGPVDHGAYNRIEHIDVEVTEV 276
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeeeeee....hhhhhhhhhhhhh..eeeeeeeeeeee......eeeee.hhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhhhhh...eeee....ee.....eehhhhhhhhhhhhhhhh.ee..hhhhhhhhhh.....hhhhhhhhhhhhhhh...eeeeehhhhhh..eeeeeee....eeeeeee........hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.............hhhhhh.....eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4c5k D   1 GALKKVLTIAGSDTSAGAGMQADLKTFQELDTYGMVALTAIVTMDKDTWSHDVTPLPMDVFEKQLETALSIGPDAIKTGMLGTEEIIKRAGEVYEASNAQYFVVDPVMVCKGEDEVLNPGNTEAMIKYLLPKATVVTPNLFEAGQLSGLGKLNSIEDMKKAATIIFDKGAQHVIIKGGKALDQDKSYDLYYDGQTFYQLTTDMFQQSYNHGAGCTFAAATTAYLANGKSPKEAVISAKAFVASAIKNGWKMNDFVGPVDHGAYNRIEHIDVEVTEV 276
                                    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
   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)

(no "SCOP Domain" information available for 4C5K)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4C5K)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4C5K)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4C5K)

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    ADP  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    SO4  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
    AC6  [ RasMol ]  +environment [ RasMol ]
    AC7  [ RasMol ]  +environment [ RasMol ]
    AC8  [ RasMol ]  +environment [ RasMol ]
    AC9  [ RasMol ]  +environment [ RasMol ]
    BC1  [ RasMol ]  +environment [ RasMol ]
    BC2  [ RasMol ]  +environment [ RasMol ]
    BC3  [ RasMol ]  +environment [ RasMol ]
    BC4  [ RasMol ]  +environment [ RasMol ]
    BC5  [ RasMol ]  +environment [ RasMol ]
    BC6  [ RasMol ]  +environment [ RasMol ]
    BC7  [ RasMol ]  +environment [ RasMol ]
    BC8  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 4c5k)
 
Biological Units
  Complete Structure
    Biological Unit 1  [ Jena3D ]
    Biological Unit 2  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym. Unit PNG format | Asym. Unit - sites PNG format | Biol. Unit 1 PNG format | Biol. Unit 1 - sites PNG format | Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  4c5k
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  A0A0H3JTP0_S | A0A0H3JTP0
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/TrEMBL
 
Access by Enzyme Classificator   (EC Number)
  2.7.1.35
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  A0A0H3JTP0_S | A0A0H3JTP0
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/TrEMBL
        A0A0H3JTP0_S | A0A0H3JTP0: 4c5j 4c5l 4c5m

(-) Related Entries Specified in the PDB File

4c5j STRUCTURE OF THE PYRIDOXAL KINASE FROM STAPHYLOCOCCUS AUREUS
4c5l STRUCTURE OF THE PYRIDOXAL KINASE FROM STAPHYLOCOCCUS AUREUS IN COMPLEX WITH PYRIDOXAL
4c5m STRUCTURE OF THE PYRIDOXAL KINASE FROM STAPHYLOCOCCUS AUREUS IN COMPLEX WITH AMP-PCP
4c5n STRUCTURE OF THE PYRIDOXAL KINASE FROM STAPHYLOCOCCUS AUREUS IN COMPLEX WITH AMP-PCP AND PYRIDOXAL