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(-) Description

Title :  STRUCTURE OF RAT CYTOSOLIC PEPCK IN COMPLEX WITH 3-MERCAPTOPICOLINIC ACID
 
Authors :  M. D. Balan, T. A. Johnson, M. J. Mcleod, W. R. Lotosky, T. Holyoak
Date :  20 Mar 15  (Deposition) - 23 Sep 15  (Release) - 08 Jun 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.55
Chains :  Asym./Biol. Unit :  A
Keywords :  Kinase, Gluconeogenesis, Lyase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. D. Balan, M. J. Mcleod, W. R. Lotosky, M. Ghaly, T. Holyoak
Inhibition And Allosteric Regulation Of Monomeric Phosphoenolpyruvate Carboxykinase By 3-Mercaptopicolinic Acid.
Biochemistry V. 54 5878 2015
PubMed-ID: 26322521  |  Reference-DOI: 10.1021/ACS.BIOCHEM.5B00822

(-) Compounds

Molecule 1 - PHOSPHOENOLPYRUVATE CARBOXYKINASE, CYTOSOLIC [GTP]
    Chains: A
    EC Number: 4.1.1.32
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEX4T2
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: PCK1
    Organism Common: RAT
    Organism Scientific: RATTUS NORVEGICUS
    Organism Taxid: 10116
    Synonym: PEPCK-C

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 9)

Asymmetric/Biological Unit (6, 9)
No.NameCountTypeFull Name
11WD2Ligand/Ion3-SULFANYLPYRIDINE-2-CARBOXYLIC ACID
2EDO2Ligand/Ion1,2-ETHANEDIOL
3MEE1Ligand/IonMETHANETHIOL
4MN2Ligand/IonMANGANESE (II) ION
5MOH1Ligand/IonMETHANOL
6NA1Ligand/IonSODIUM ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:244 , HIS A:264 , ASP A:311 , 1WD A:704 , HOH A:1591binding site for residue MN A 701
2AC2SOFTWAREHIS A:502 , GLU A:607 , HOH A:1484 , HOH A:1702 , HOH A:1726binding site for residue MN A 702
3AC3SOFTWARELEU A:79 , ASN A:208 , HOH A:1637 , HOH A:1678 , HOH A:1902binding site for residue NA A 703
4AC4SOFTWAREARG A:87 , TYR A:235 , LYS A:243 , LYS A:244 , HIS A:264 , SER A:286 , ASP A:311 , PHE A:333 , ARG A:405 , MN A:701 , HOH A:1591binding site for residue 1WD A 704
5AC5SOFTWAREARG A:87 , ILE A:88 , GLU A:89 , SER A:90 , HOH A:1405binding site for residue EDO A 706
6AC6SOFTWARELYS A:14binding site for residue EDO A 707
7AC7SOFTWAREPRO A:285 , CYS A:288 , GLY A:434 , GLY A:435 , ARG A:436 , VAL A:514 , ASN A:515 , TRP A:516 , PHE A:517 , HOH A:1412binding site for residues 1WD A 708 and MEE A 709
8AC8SOFTWAREPRO A:285 , CYS A:288 , GLY A:434 , GLY A:435 , ARG A:436 , VAL A:514 , ASN A:515 , TRP A:516 , PHE A:517 , HOH A:1412binding site for residues 1WD A 708 and MEE A 709
9AC9SOFTWAREPRO A:285 , CYS A:288 , GLY A:434 , GLY A:435 , ARG A:436 , VAL A:514 , ASN A:515 , TRP A:516 , PHE A:517 , HOH A:1412binding site for residues 1WD A 708 and MEE A 709

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:708 -A:709

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Leu A:200 -Pro A:201

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4YW8)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4YW8)

(-) Exons   (0, 0)

(no "Exon" information available for 4YW8)

(-) Sequences/Alignments

Asymmetric/Biological 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:616
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhh.eee......hhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhh...ee.......eee.........hhh.eeee..hhhhh.............eehhhhhhhhhhh.........eeeeeeeee........eeeeeee.hhhhhhhhhhhheehhhhhhhhh....eeeeee.................hhhhheeeeehhh.eeeee...hhhhhh..hhhhhhhhhhhhhhhhh.eee..eeeeee.....eeeeeee.....hhhhhhh........eeeeee...eeeee.....eeee....eeeee........hhhhhhhh....eee..eee....ee.............ee.....ee.........eeeee.hhh............eeeeeeeee.........eee..hhhhhhhhhhh.eee.......eee.hhhh......hhhhhhhhhhhhhhh......eeeee..............hhhhhhhhhhhhhhhhh....eeee..eeee.............hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yw8 A  -1 GSMPPQLHNGLDFSAKVIQGSLDSLPQEVRKFVEGNAQLCQPEYIHICDGSEEEYGRLLAHMQEEGVIRKLKKYDNCWLALTDPRDVARIESKTVIITQEQRDTVPIPKSGQSQLGRWMSEEDFEKAFNARFPGCMKGRTMYVIPFSMGPLGSPLAKIGIELTDSPYVVASMRIMTRMGTSVLEALGDGEFIKCLHSVGCPLPLKKPLVNNWACNPELTLIAHLPDRREIISFGSGYGGNSLLGKKCFALRIASRLAKEEGWLAEHMLILGITNPEGKKKYLAAAFPSACGKTNLAMMNPTLPGWKVECVGDDIAWMKFDAQGNLRAINPENGFFGVAPGTSVKTNPNAIKTIQKNTIFTNVAETSDGGVYWEGIDEPLAPGVTITSWKNKEWREPCAHPNSRFCTPASQCPIIDPAWESPEGVPIEGIIFGGRRPAGVPLVYEALSWQHGVFVGAAMRSEATAKGKVIMHDPFAMRPFFGYNFGKYLAHWLSMAHRPAAKLPKIFHVNWFRKDKNGKFLWPGFGENSRVLEWMFGRIEGEDSAKLTPIGYVPKEDALNLKGLGDVNVEELFGISKEFWEKEVEEIDKYLEDQVNADLPYEIERELRALKQRISQM 622
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388   ||  402       412       422       432       442       452       462   ||  476       486       496       506       516       526       536       546       556       566       576       586       596       606       616      
                                                                                                                                                                                                                                                                                                                                                                                                                                   392|                                                                  466|                                                                                                                                                       
                                                                                                                                                                                                                                                                                                                                                                                                                                    397                                                                   471
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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)

(no "SCOP Domain" information available for 4YW8)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4YW8)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4YW8)

(-) Gene Ontology  (42, 42)

Asymmetric/Biological Unit(hide GO term definitions)

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  4.1.1.32
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 Related Entries

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

UniProtKB/Swiss-Prot
        PCKGC_RAT | P07379: 2qew 2qey 2qf1 2qf2 2rk7 2rk8 2rka 2rkd 2rke 3dt2 3dt4 3dt7 3dtb 3moe 3mof 3moh 4gmm 4gmu 4gmw 4gmz 4gnl 4gnm 4gno 4gnp 4gnq 4ox2 4yw9 4ywb 4ywd 5fh0 5fh1 5fh2 5fh3 5fh4 5fh5 5v95 5v97 5v9f 5v9g 5v9h

(-) Related Entries Specified in the PDB File

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