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(-) Description

Title :  CRYSTAL STRUCTURE OF AN AMINO ACID ABC TRANSPORTER COMPLEX WITH ARGININES AND ATPS
 
Authors :  J. Ge, J. Yu, M. Yang
Date :  07 Mar 15  (Deposition) - 22 Apr 15  (Release) - 06 May 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A,C,D,J
Keywords :  Abc Transporter, Two Binding Sites, Substrate Specificity, Membrane Protein Complex, Protein Binding-Transport Protein Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Yu, J. Ge, J. Heuveling, E. Schneider, M. Yang
Structural Basis For Substrate Specificity Of An Amino Acid Abc Transporter
Proc. Natl. Acad. Sci. Usa V. 112 5243 2015
PubMed-ID: 25848002  |  Reference-DOI: 10.1073/PNAS.1415037112

(-) Compounds

Molecule 1 - ABC-TYPE POLAR AMINO ACID TRANSPORT SYSTEM, ATPASE COMPONENT
    Chains: J, A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: GLNQ, TTE0514
    Organism Scientific: CALDANAEROBACTER SUBTERRANEUS SUBSP. TENGCONGENSIS MB4
    Organism Taxid: 273068
    Strain: MB4
    Synonym: NBD
 
Molecule 2 - ABC-TYPE AMINO ACID TRANSPORT SYSTEM, PERMEASE COMPONENT
    Chains: D, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: ARTM, TTE0513
    Organism Scientific: CALDANAEROBACTER SUBTERRANEUS SUBSP. TENGCONGENSIS MB4
    Organism Taxid: 273068
    Strain: MB4
    Synonym: TMD

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ACDJ

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric/Biological Unit (3, 6)
No.NameCountTypeFull Name
1ARG2Mod. Amino AcidARGININE
2ATP2Ligand/IonADENOSINE-5'-TRIPHOSPHATE
3MG2Ligand/IonMAGNESIUM ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE J:11 , VAL J:16 , SER J:36 , GLY J:37 , SER J:38 , GLY J:39 , LYS J:40 , SER J:41 , THR J:42 , GLU J:51 , GLU J:162 , HIS J:194 , MG J:302binding site for residue ATP J 301
2AC2SOFTWARESER J:41 , GLU J:162 , ATP J:301binding site for residue MG J 302
3AC3SOFTWAREPHE A:11 , VAL A:16 , SER A:36 , GLY A:37 , SER A:38 , GLY A:39 , LYS A:40 , SER A:41 , THR A:42 , GLU A:51 , GLU A:162 , HIS A:194 , MG A:302binding site for residue ATP A 301
4AC4SOFTWARESER A:41 , GLU A:162 , ATP A:301binding site for residue MG A 302
5AC5SOFTWARELYS C:158 , GLU C:159 , ARG C:301 , LEU D:67 , ASN D:98 , TYR D:102 , GLU D:152 , MET D:156 , GLU D:159binding site for residue ARG D 301
6AC6SOFTWAREPRO C:66 , LEU C:67 , ASN C:98 , TYR C:102 , GLU C:152 , MET C:156 , GLU C:159 , LYS D:158 , GLU D:159 , ARG D:301binding site for residue ARG C 301
7AC7SOFTWARETHR C:202 , PHE C:203 , SER C:204 , LYS C:205 , LEU C:207 , SER C:208 , LEU C:209 , PHE C:210binding site for Ligand LEU C 206 bound to THR C 202

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4YMU)

(-) 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:240
                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeee..eeeeeeeeeee....eeeee.....hhhhhhhhhh......eeeeee..ee......hhhhhhhheeee..........hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh.hhhhh..hhhhhhhhhhhhhhhhhhhh....eeeee......hhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhh.eeeeee..eeeeeehhhhhhhhh.hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4ymu A   1 MIFVNDVYKNFGSLEVLKGVTLKVNKGEVVVIIGPSGSGKSTLLRCINLLEEPTKGEVFIDGVKINNGKVNINKVRQKVGMVFQHFNLFPHLTAIENITLAPVKVKKMNKKEAEELAVDLLAKVGLLDKKDQYPIKLSGGQKQRLAIARALAMQPEVMLFDEPTSALDPEMVKEVLNVMKQLANEGMTMVVVTHEMGFAREVGDRVIFMDDGVIVEEGTPEEIFYRAKNERTREFLSKIL 240
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240


Chain C from PDB  Type:PROTEIN  Length:215
                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ymu C   1 MTVDFLSMVKYTPLFISGLIMTLKLTFLAVTIGVLMGLFIALMKMSSIKPIKLVASSYIEVIRGTPLLVQLLLIYNGLMQFGMNIPAFTAGVSALAINSSAYVAEIIRAGIQAVDPGQNEAARSLGMTHAMAMRYVIIPQAIKNILPALGNEFIVMLKESAIVSVIGFADLTRQADIIQSVTYRYFEPYIIIAAIYFVMTLTFSKLLSLFERRLR 301
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210   ||
                                                                                                                                                                                                                                               214|
                                                                                                                                                                                                                                                301


Chain D from PDB  Type:PROTEIN  Length:216
                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh.hhhhhhhhhhh.hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4ymu D   1 MTVDFLSMVKYTPLFISGLIMTLKLTFLAVTIGVLMGLFIALMKMSSIKPIKLVASSYIEVIRGTPLLVQLLLIYNGLMQFGMNIPAFTAGVSALAINSSAYVAEIIRAGIQAVDPGQNEAARSLGMTHAMAMRYVIIPQAIKNILPALGNEFIVMLKESAIVSVIGFADLTRQADIIQSVTYRYFEPYIIIAAIYFVMTLTFSKLLSLFERRLRR 301
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210    ||
                                                                                                                                                                                                                                                215|
                                                                                                                                                                                                                                                 301


Chain J from PDB  Type:PROTEIN  Length:240
                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeee..eeeeeeeeeee....eeeee.....hhhhhhhhhh......eeeeee..ee......hhhhhhhheeee..........hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh.hhhhh..hhhhhhhhhhhhhhhhhhhhh...eeeee......hhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhh.eeeeee..eeeeeehhhhhhhhh.hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4ymu J   1 MIFVNDVYKNFGSLEVLKGVTLKVNKGEVVVIIGPSGSGKSTLLRCINLLEEPTKGEVFIDGVKINNGKVNINKVRQKVGMVFQHFNLFPHLTAIENITLAPVKVKKMNKKEAEELAVDLLAKVGLLDKKDQYPIKLSGGQKQRLAIARALAMQPEVMLFDEPTSALDPEMVKEVLNVMKQLANEGMTMVVVTHEMGFAREVGDRVIFMDDGVIVEEGTPEEIFYRAKNERTREFLSKIL 240
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240
   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 4YMU)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/TrEMBL
        Q8RCC2_CALS4 | Q8RCC2: 4yms 4ymt 4ymv 4ymw
        Q8RCC3_CALS4 | Q8RCC3: 4yms 4ymt 4ymv 4ymw

(-) Related Entries Specified in the PDB File

4yms 4ymt 4ymv 4ymw 4ymx