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(-) Description

Title :  CRYSTAL STRUCTURE OF VCCNT-7C8C BOUND TO GEMCITABINE
 
Authors :  Z. L. Johnson, S. -Y. Lee
Date :  17 Apr 14  (Deposition) - 13 Aug 14  (Release) - 01 Oct 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.91
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (3x)
Keywords :  Membrane Protein, Sodium-Coupled Transporter, Gemcitabine, Drug Transporter, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. L. Johnson, J. H. Lee, K. Lee, M. Lee, D. Y. Kwon, J. Hong, S. Y. Lee
Structural Basis Of Nucleoside And Nucleoside Drug Selectivity By Concentrative Nucleoside Transporters.
Elife V. 3 03604 2014
PubMed-ID: 25082345  |  Reference-DOI: 10.7554/ELIFE.03604

(-) Compounds

Molecule 1 - NUPC FAMILY PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET26
    Expression System Strain: C41 (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: VC_2352
    Mutation: YES
    Organism Scientific: VIBRIO CHOLERAE SEROTYPE O1
    Organism Taxid: 243277
    Strain: ATCC 39315 / EL TOR INABA N16961

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (3x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (3, 3)
No.NameCountTypeFull Name
1DMU1Ligand/IonDECYL-BETA-D-MALTOPYRANOSIDE
2GEO1Ligand/IonGEMCITABINE
3NA1Ligand/IonSODIUM ION
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
1DMU3Ligand/IonDECYL-BETA-D-MALTOPYRANOSIDE
2GEO3Ligand/IonGEMCITABINE
3NA-1Ligand/IonSODIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:154 , ALA A:185 , TYR A:192 , ASN A:331 , GLU A:332 , PHE A:333 , PHE A:366 , ASN A:368 , SER A:371 , ILE A:374 , HOH A:606binding site for residue GEO A 501
2AC2SOFTWAREASN A:149 , VAL A:152 , SER A:183 , ILE A:184 , HOH A:603binding site for residue NA A 502
3AC3SOFTWAREALA A:243 , ASN A:244 , LEU A:369 , ALA A:391 , VAL A:395binding site for residue DMU A 503

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4PD5)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4PD5)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) Sequences/Alignments

Asymmetric Unit
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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:403
                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh......hhhhhhh......hhhhhhhhhhhhhh..hhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pd5 A   3 LFMSCCGMAVLLGIAVLLSSNRKAINLRTVGGAFAIQFSLGAFILYVPWGQELLRGFSDAVSNVINYGNDGTSFLFGGLVSGKMFEVFGGGGFIFAFRVLPTLIFFSALISVLYYLGVMQWVIRILGGGLQKALGTSRAESMSAAANIFVGQTEAPLVVRPFVPKMTQSELFAVMCGGLASIAGGVLAGYASMGVKIEYLVAASFMAAPGGLLFAKLMMPETEKPQDKPANVIDAAAGGASAGLQLALNVGAMLIAFIGLIALINGMLGGIGGWFGMPELKLEMLLGWLFAPLAFLIGVPWNEATVAGEFIGLKTVANEFVAYSQFAPYLTEAAPVVLSEKTKAIISFALCGFANLSSIAILLGGLGSLAPKRRGDIARMGVKAVIAGTLSNLMAATIAGFFL 416
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222      |243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413   
                                                                                                                                                                                                                                                            229|                                                                                                                                                                               
                                                                                                                                                                                                                                                             241
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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 4PD5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4PD5)

(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (7, 7)

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 Related Entries

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        Q9KPL5_VIBCH | Q9KPL5: 3tij 4pb1 4pb2 4pd6 4pd7 4pd8 4pd9 4pda

(-) Related Entries Specified in the PDB File

3tij 3TIJ CONTAINS WILDTYPE VCCNT BOUND TO URIDINE.
4pb1
4pb2
4pd7
4pd8
4pd9
4pda