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(-) Description

Title :  A SECOND ALLOSTERIC SITE IN E. COLI ASPARTATE TRANSCARBAMOYLASE: R-STATE ATCASE WITH UTP BOUND
 
Authors :  A. W. Peterson, G. M. Cockrell, E. R. Kantrowitz
Date :  03 May 12  (Deposition) - 11 Jul 12  (Release) - 26 Jun 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B,C,D  (3x)
Keywords :  Allosteric Regulation, Atcase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. W. Peterson, G. M. Cockrell, E. R. Kantrowitz
A Second Allosteric Site In Escherichia Coli Aspartate Transcarbamoylase.
Biochemistry V. 51 4776 2012
PubMed-ID: 22667327  |  Reference-DOI: 10.1021/BI3006219

(-) Compounds

Molecule 1 - ASPARTATE CARBAMOYLTRANSFERASE CATALYTIC CHAIN
    Chains: A, C
    EC Number: 2.1.3.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PEK152
    Expression System Strain: EK1104
    Expression System Taxid: 562
    Gene: B4245, JW4204, PYRB
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12
    Synonym: ASPARTATE TRANSCARBAMYLASE, ATCASE
 
Molecule 2 - ASPARTATE CARBAMOYLTRANSFERASE REGULATORY CHAIN
    Chains: B, D
    EC Number: 2.1.3.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PEK152
    Expression System Strain: EK1104
    Expression System Taxid: 562
    Gene: B4244, JW4203, PYRI
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (3x): ABCD

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (3, 6)
No.NameCountTypeFull Name
1PAL2Ligand/IonN-(PHOSPHONACETYL)-L-ASPARTIC ACID
2UTP2Ligand/IonURIDINE 5'-TRIPHOSPHATE
3ZN2Ligand/IonZINC ION
Biological Unit 1 (2, 12)
No.NameCountTypeFull Name
1PAL6Ligand/IonN-(PHOSPHONACETYL)-L-ASPARTIC ACID
2UTP6Ligand/IonURIDINE 5'-TRIPHOSPHATE
3ZN-1Ligand/IonZINC ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:52 , THR A:53 , ARG A:54 , THR A:55 , SER A:80 , LYS A:84 , ARG A:105 , HIS A:134 , GLN A:137 , ARG A:167 , ARG A:229 , GLN A:231 , LEU A:267 , HOH A:505 , HOH A:516BINDING SITE FOR RESIDUE PAL A 401
2AC2SOFTWARECYS B:109 , CYS B:114 , CYS B:138 , CYS B:141BINDING SITE FOR RESIDUE ZN B 201
3AC3SOFTWAREHIS B:20 , SER B:50 , GLY B:51 , GLU B:52 , LYS B:56 , LYS B:60BINDING SITE FOR RESIDUE UTP B 202
4AC4SOFTWARESER C:52 , THR C:53 , ARG C:54 , THR C:55 , SER C:80 , LYS C:84 , ARG C:105 , HIS C:134 , ARG C:167 , THR C:168 , ARG C:229 , GLN C:231 , LEU C:267 , HOH C:509 , HOH C:514 , HOH C:520BINDING SITE FOR RESIDUE PAL C 401
5AC5SOFTWARECYS D:109 , CYS D:114 , CYS D:138 , CYS D:141BINDING SITE FOR RESIDUE ZN D 201
6AC6SOFTWAREARG B:41 , HIS D:20 , PRO D:49 , SER D:50 , GLY D:51 , GLU D:52 , LYS D:56 , LEU D:58 , LYS D:60 , HOH D:317 , HOH D:318BINDING SITE FOR RESIDUE UTP D 202

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4F04)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Leu A:267 -Pro A:268
2Leu C:267 -Pro C:268

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4F04)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4F04)

(-) Exons   (0, 0)

(no "Exon" information available for 4F04)

(-) Sequences/Alignments

Asymmetric 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:310
                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains d4f04a1 A:1-150 Aspartate carbamoyltransferase catalytic subunit                                                                                      d4f04a2 A:151-310 Aspartate carbamoyltransferase catalytic subunit                                                                                               SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhhhhh.........eeeeee....hhhhhhhhhhhhhh..eeeee.hhhhhhhhhh..hhhhhhhhhh....eeeeee...hhhhhhhh......eeeeee....hhhhhhhhhhhhhhhhh.....eeeee.....hhhhhhhhhhhh.....eeeee.hhhhh.hhhhhhhhhhh..eeee...hhhhhh...eeee........hhhhhhhh......hhhhhh......eee.........hhhhh.....hhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4f04 A   1 ANPLYQKHIISINDLSRDDLNLVLATAAKLKANPQPELLKHKVIASCFFEASTRTRLSFETSMHRLGASVVGFSDSANTSLGKKGETLADTISVISTYVDAIVMRHPQEGAARLATEFSGNVPVLNAGDGSNQHPTQTLLDLFTIQETQGRLDNLHVAMVGDLKYGRTVHSLTQALAKFDGNRFYFIAPDALAMPQYILDMLDEKGIAWSLHSSIEEVMAEVDILYMTRVQKERLDPSEYANVKAQFVLRASDLHNAKANMKVLHPLPRVDEIATDVDKTPHAWYFQQAGNGIFARQALLALVLNRDLVL 310
                                    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


Chain B from PDB  Type:PROTEIN  Length:143
                                                                                                                                                                               
               SCOP domains d4f04b1 B:11-100 Aspartate carbamoyltransferase                                           d4f04b2 B:101-153                                     SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee...hhhhhhhhh........eeeeeeee.....eeeeeeee....hhhhhhhhhhh....eeeeee..eeeeee......eee..ee.....hhhhh.....eeeeeee..eeeeee.....eee.hhhee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4f04 B  11 AIKRGTVIDHIPAQIGFKLLSLFKLTETDQRITIGLNLPSGEMGRKDLIKIENTFLSEDQVDQLALYAPQATVNRIDNYEVVGKSRPSLPERIDNVLVCPNSNCISHAEPVSSSFAVRKRANDIALKCKYCEKEFSHNVVLAN 153
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150   


Chain C from PDB  Type:PROTEIN  Length:310
                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains d4f04c1 C:1-150 Aspartate carbamoyltransferase catalytic subunit                                                                                      d4f04c2 C:151-310 Aspartate carbamoyltransferase catalytic subunit                                                                                               SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhhhhh.........eeeeee....hhhhhhhhhhhhhh..eeeee.....hhhhhh..hhhhhhhhhh....eeeeee...hhhhhhhh......eeeeee....hhhhhhhhhhhhhhhhh.....eeeee.....hhhhhhhhhhhh.....eeeee.hhhhh.hhhhhhhhhhh...eeee.....hhhhh.eeee........hhhhhhhh......hhhhhh......eee.........hhhhh.....hhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4f04 C   1 ANPLYQKHIISINDLSRDDLNLVLATAAKLKANPQPELLKHKVIASCFFEASTRTRLSFETSMHRLGASVVGFSDSANTSLGKKGETLADTISVISTYVDAIVMRHPQEGAARLATEFSGNVPVLNAGDGSNQHPTQTLLDLFTIQETQGRLDNLHVAMVGDLKYGRTVHSLTQALAKFDGNRFYFIAPDALAMPQYILDMLDEKGIAWSLHSSIEEVMAEVDILYMTRVQKERLDPSEYANVKAQFVLRASDLHNAKANMKVLHPLPRVDEIATDVDKTPHAWYFQQAGNGIFARQALLALVLNRDLVL 310
                                    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


Chain D from PDB  Type:PROTEIN  Length:143
                                                                                                                                                                               
               SCOP domains d4f04d1 D:11-100 Aspartate carbamoyltransferase                                           d4f04d2 D:101-153                                     SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee...hhhhhhhhh........eeeeeeeee...eeeeeeeee....hhhhhhhhhhhh...eeeeee..eeeeee......eee...................eeeeee....eeeee.....eee....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4f04 D  11 AIKRGTVIDHIPAQIGFKLLSLFKLTETDQRITIGLNLPSGEMGRKDLIKIENTFLSEDQVDQLALYAPQATVNRIDNYEVVGKSRPSLPERIDNVLVCPNSNCISHAEPVSSSFAVRKRANDIALKCKYCEKEFSHNVVLAN 153
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (3, 8)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)
(-)
Class: Alpha and beta proteins (a/b) (23833)
(-)
Class: Small proteins (3458)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4F04)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4F04)

(-) Gene Ontology  (16, 20)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        PYRB_ECOLI | P0A786: 1acm 1at1 1d09 1ekx 1ezz 1f1b 1gq3 1i5o 1nbe 1q95 1r0b 1r0c 1raa 1rab 1rac 1rad 1rae 1raf 1rag 1rah 1rai 1sku 1tth 1tu0 1tug 1xjw 1za1 1za2 2a0f 2air 2at1 2atc 2fzc 2fzg 2fzk 2h3e 2hse 2ipo 2qg9 2qgf 3at1 3csu 3d7s 3mpu 3npm 4at1 4e2f 4fyv 4fyw 4fyx 4fyy 4wto 5at1 6at1 7at1 8at1 8atc 9atc
        PYRI_ECOLI | P0A7F3: 1acm 1at1 1d09 1ezz 1f1b 1i5o 1nbe 1q95 1r0b 1r0c 1raa 1rab 1rac 1rad 1rae 1raf 1rag 1rah 1rai 1sku 1tth 1tu0 1tug 1xjw 1za1 1za2 2a0f 2air 2at1 2atc 2fzc 2fzg 2fzk 2h3e 2hse 2ipo 2qg9 2qgf 3at1 3d7s 3mpu 4at1 4e2f 4fyv 4fyw 4fyx 4fyy 4wto 5at1 6at1 7at1 8at1 8atc 9atc

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4F04)