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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN B TYPE PHOSPHOGLYCERATE MUTASE H11 PHOSPHORYLATED FORM
 
Authors :  C. He, L. Zhou, L. Zhang
Date :  22 Aug 12  (Deposition) - 22 May 13  (Release) - 22 May 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Alpha/Beta, Isomerase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Hitosugi, L. Zhou, J. Fan, S. Elf, L. Zhang, J. Xie, Y. Wang, T. L. Gu, M. Aleckovic, G. Leroy, Y. Kang, H. B. Kang, J. H. Seo, C. Shan, P. Jin, W. Gong, S. Lonial, M. L. Arellano, H. J. Khoury, G. Z. Chen, D. M. Shin, F. R. Khuri, T. J. Boggon, S. Kang, C. He, J. Chen
Tyr26 Phosphorylation Of Pgam1 Provides A Metabolic Advantage To Tumours By Stabilizing The Active Conformation
Nat Commun V. 4 1790 2013
PubMed-ID: 23653202  |  Reference-DOI: 10.1038/NCOMMS2759

(-) Compounds

Molecule 1 - PHOSPHOGLYCERATE MUTASE 1
    Chains: A, B
    EC Number: 3.1.3.13, 5.4.2.1, 5.4.2.4
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: HUMAN TYPE B PHOSPHOGLYCERATE MUTASE
    Gene: PGAM1, PGAMA, CDABP0006
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: BPG-DEPENDENT PGAM 1, PHOSPHOGLYCERATE MUTASE ISOZYME B, PGAM-B

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric/Biological Unit (3, 5)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2MES2Ligand/Ion2-(N-MORPHOLINO)-ETHANESULFONIC ACID
3NEP2Mod. Amino AcidN1-PHOSPHONOHISTIDINE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETRP A:68 , ARG A:83 , TRP B:68 , ARG B:83BINDING SITE FOR RESIDUE CL A 301
2AC2SOFTWARENEP A:11 , ASN A:17 , ARG A:21 , PHE A:22 , SER A:23 , GLY A:24 , ARG A:62 , GLU A:89 , TYR A:92 , LYS A:100 , HOH A:454BINDING SITE FOR RESIDUE MES A 302
3AC3SOFTWAREALA A:44 , ASP A:47 , GLY A:234 , HOH A:514 , HOH A:533 , HOH A:585 , PRO B:125 , GLU B:127 , SER B:152BINDING SITE FOR RESIDUE MES A 303

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4GPZ)

(-) 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:242
                                                                                                                                                                                                                                                                                  
               SCOP domains d4gpza_ A: automated matches                                                                                                                                                                                                                       SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee....................hhhhhhhhhhhhhhhhhh.....eeee..hhhhhhhhhhhhhhh......eee.hhhh...hhhhh..hhhhhhhhhhhhhhhhhhhh.............hhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhh...eeeeehhhhhhhhhhhhhh.hhhhhhhh.......eeeee..........ee..hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gpz A   2 AAYKLVLIRhGESAWNLENRFSGWYDADLSPAGHEEAKRGGQALRDAGYEFDICFTSVQKRAIRTLWTVLDAIDQMWLPVVRTWRLNERHYGGLTGLNKAETAAKHGEAQVKIWRRSYDVPPPPMEPDHPFYSNISKDRRYADLTEDQLPSCESLKDTIARALPFWNEEIVPQIKEGKRVLIAAHGNSLRGIVKHLEGLSEEAIMELNLPTGIPIVYELDKNLKPIKPMQFLGDEETVRKAM 243
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241  
                                    11-NEP                                                                                                                                                                                                                                    


Chain B from PDB  Type:PROTEIN  Length:235
                                                                                                                                                                                                                                                                           
               SCOP domains d4gpzb_ B: automated matches                                                                                                                                                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee...hhhhhh...........hhhhhhhhhhhhhhhhhh.....eeee..hhhhhhhhhhhhhhh......eee.hhhh...hhhhh..hhhhhhhhhhhhhhhhhhhh.............hhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhh...eeeeehhhhhhhhhhhhhh.hhhhhhhh.......eeeee..........ee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gpz B   2 AAYKLVLIRhGESAWNLENRFSGWYDADLSPAGHEEAKRGGQALRDAGYEFDICFTSVQKRAIRTLWTVLDAIDQMWLPVVRTWRLNERHYGGLTGLNKAETAAKHGEAQVKIWRRSYDVPPPPMEPDHPFYSNISKDRRYADLTEDQLPSCESLKDTIARALPFWNEEIVPQIKEGKRVLIAAHGNSLRGIVKHLEGLSEEAIMELNLPTGIPIVYELDKNLKPIKPMQFLGDE 236
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231     
                                    11-NEP
   Legend:   → Mismatch (orange background)
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  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  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (23, 23)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        PGAM1_HUMAN | P18669: 1ljd 1yfk 1yjx 4gpi

(-) Related Entries Specified in the PDB File

1yfk IT IS THE CRYSTAL STRUCTURE OF HUMAN B TYPE PHOSPHOGLYCERATE MUTASE COMPLEXED WITH CITRATE