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(-) Description

Title :  STRUCTURE OF THE SODIUM PROTON ANTIPORTER PANHAP FROM PYROCOCCUS ABYSSII WITH BOUND THALLIUM ION.
 
Authors :  D. Woehlert, W. Kuhlbrandt, O. Yildiz
Date :  16 Apr 14  (Deposition) - 17 Dec 14  (Release) - 17 Dec 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.20
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Membrane Protein, Transporter, Exchanger, Cpa (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Woehlert, W. Kuhlbrandt, O. Yildiz
Structure And Substrate Ion Binding In The Sodium/Proton Antiporter Panhap
Elife V. 3 2014
PubMed-ID: 25426802  |  Reference-DOI: 10.7554/ELIFE.03579

(-) Compounds

Molecule 1 - NA+/H+ ANTIPORTER, PUTATIVE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: C41
    Expression System Vector: PET21A
    Expression System Vector Type: PLASMID
    Fragment: TRANSPORTER DOMAIN, RESIDUES 1-420
    Organism Scientific: PYROCOCCUS ABYSSI GE5
    Organism Taxid: 272844
    Synonym: PANHAP ANTIPORTER

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 23)

Asymmetric/Biological Unit (6, 23)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2BOG1Ligand/IonB-OCTYLGLUCOSIDE
3MSE14Mod. Amino AcidSELENOMETHIONINE
4TAM4Ligand/IonTRIS(HYDROXYETHYL)AMINOMETHANE
5TL2Ligand/IonTHALLIUM (I) ION
6UND1Ligand/IonUNDECANE

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:69 , THR A:72 , GLU A:73 , ASP A:130 , ASP A:295 , THR A:302 , VAL A:364 , HOH A:2002BINDING SITE FOR RESIDUE TAM A1421
2AC2SOFTWAREASP B:146BINDING SITE FOR RESIDUE TAM B1420
3AC3SOFTWAREGLY A:180 , ASP A:251 , LYS B:281 , ARG B:285BINDING SITE FOR RESIDUE TAM B1421
4AC4SOFTWARELEU B:167 , TYR B:177 , GLU B:248 , ASP B:251 , HOH B:2004BINDING SITE FOR RESIDUE TAM B1422
5AC5SOFTWAREGLU A:288 , LYS A:289 , HIS A:292 , ASP A:295 , LYS B:289BINDING SITE FOR RESIDUE BOG A1422
6AC6SOFTWARETRP B:319 , SER B:320 , GLY B:323BINDING SITE FOR RESIDUE UND B1423
7AC7SOFTWAREGLU B:73 , HOH B:2001BINDING SITE FOR RESIDUE ACT B1424
8AC8SOFTWAREGLU A:73 , THR A:129 , SER A:155 , ASP A:159 , HOH A:2002BINDING SITE FOR RESIDUE TL A1423
9AC9SOFTWAREGLU B:73 , THR B:129 , SER B:155 , ASP B:159 , HOH B:2003BINDING SITE FOR RESIDUE TL B1425

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Phe A:229 -Pro A:230
2Phe B:229 -Pro B:230

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4CZA)

(-) 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:420
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh...hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh..hhhhhhh.hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4cza A   1 mIELSLAEALFLILFTGVISmLISRRTGISYVPIFILTGLVIGPLLKLIPRDLAHEIFDFVRVFGLVIILFTEGHNLSWRLLKKNmPTIVTLDTIGLILTALIAGFIFKVVFNSSFLLGFLFGAIIGATDPATLIPLFRQYRVKQDIETVIVTESIFNDPLGIVLTLIAISmLVPGYGGGIFSTLSEKLGIYAGGVIYFLYNVSVSISLGIFLGILGYKFIKRTGIFDFPEIEAFSLSLAFLGFFIGERLDASGYLVATVTGIVLGNYKLLKPRENIRILKRLQRAIEKEVHFNDTLAALATIFIFVLLGAEmNLEVIWSNLGKGLLVALGVmILARPLATLPLLKWWNFREYLFIALEGPRGVVPSALASLPLSLALKYKSPLLTVHWGEIImATVVITVLTSVIVETLWIPILKDKLD 420
                            |       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       280       290       300       310  |    320       330  |    340       350       360       370       380       390   |   400       410       420
                            |                  21-MSE                                                           86-MSE                                                                               172-MSE                                                                                                                                      313-MSE             333-MSE                                                      394-MSE                      
                            1-MSE                                                                                                                                                                                                                                                                                                                                                                                                                               


Chain B from PDB  Type:PROTEIN  Length:419
                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh.......hhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4cza B   1 mIELSLAEALFLILFTGVISmLISRRTGISYVPIFILTGLVIGPLLKLIPRDLAHEIFDFVRVFGLVIILFTEGHNLSWRLLKKNmPTIVTLDTIGLILTALIAGFIFKVVFNSSFLLGFLFGAIIGATDPATLIPLFRQYRVKQDIETVIVTESIFNDPLGIVLTLIAISmLVPGYGGGIFSTLSEKLGIYAGGVIYFLYNVSVSISLGIFLGILGYKFIKRTGIFDFPEIEAFSLSLAFLGFFIGERLDASGYLVATVTGIVLGNYKLLKPRENIRILKRLQRAIEKEVHFNDTLAALATIFIFVLLGAEmNLEVIWSNLGKGLLVALGVmILARPLATLPLLKWWNFREYLFIALEGPRGVVPSALASLPLSLALKYKSPLLTVHWGEIImATVVITVLTSVIVETLWIPILKDKL 419
                            |       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       280       290       300       310  |    320       330  |    340       350       360       370       380       390   |   400       410         
                            1-MSE              21-MSE                                                           86-MSE                                                                               172-MSE                                                                                                                                      313-MSE             333-MSE                                                      394-MSE
   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  (0, 0)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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 Related Entries

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

UniProtKB/TrEMBL
        Q9UZ55_PYRAB | Q9UZ55: 4cz8 4cz9

(-) Related Entries Specified in the PDB File

4cz8 STRUCTURE OF THE SODIUM PROTON ANTIPORTER PANHAP FROM PYROCOCCUS ABYSSII AT PH 8.
4cz9 STRUCTURE OF THE SODIUM PROTON ANTIPORTER PANHAP FROM PYROCOCCUS ABYSSII AT PH 4.
4czb STRUCTURE OF THE SODIUM PROTON ANTIPORTER MJNHAP1 FROM METHANOCALDOCOCCUS JANNASCHII AT PH 8.