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(-) Description

Title :  C-TERMINAL (ADENYLYLATION) DOMAIN OF E.COLI GLUTAMINE SYNTHETASE ADENYLYLTRANSFERASE
 
Authors :  Y. Xu, P. D. Carr, S. G. Vasudevan, D. L. Ollis
Date :  12 Oct 09  (Deposition) - 15 Dec 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A,B  (1x)
Keywords :  Nucleotidyl Transferase Domain, Atp-Binding, Nucleotide-Binding, Nucleotidyltransferase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Xu, P. D. Carr, S. G. Vasudevan, D. L. Ollis
Structure Of The Adenylylation Domain Of E. Coli Glutamine Synthetase Adenylyl Transferase: Evidence For Gene Duplication And Evolution Of A New Active Site.
J. Mol. Biol. V. 396 773 2010
PubMed-ID: 20026075  |  Reference-DOI: 10.1016/J.JMB.2009.12.011

(-) Compounds

Molecule 1 - GLUTAMATE-AMMONIA-LIGASE ADENYLYLTRANSFERASE
    Chains: A, B
    EC Number: 2.7.7.42
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PAT-C505
    Expression System Strain: JM109
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: C-TERMINAL DOMAIN (UNP RESIDUES 449-946)
    Gene: B3053, GLNE, JW3025
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Strain: JM109
    Synonym: [GLUTAMATE--AMMONIA-LIGASE] ADENYLYLTRANSFERASE, GLUTAMINE- SYNTHETASE ADENYLYLTRANSFERASE, ATASE

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (1x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 13)

Asymmetric Unit (1, 13)
No.NameCountTypeFull Name
1SO413Ligand/IonSULFATE ION
Biological Unit 1 (1, 8)
No.NameCountTypeFull Name
1SO48Ligand/IonSULFATE ION
Biological Unit 2 (1, 5)
No.NameCountTypeFull Name
1SO45Ligand/IonSULFATE ION
Biological Unit 3 (1, 13)
No.NameCountTypeFull Name
1SO413Ligand/IonSULFATE ION

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:497 , PRO A:498 , ARG A:499 , GLY A:500 , THR A:539 , TRP B:662 , ARG B:681BINDING SITE FOR RESIDUE SO4 A 1
02AC2SOFTWAREHOH A:84 , HOH A:238 , HOH A:255 , HOH A:395 , ARG A:808 , THR A:874 , ARG A:875BINDING SITE FOR RESIDUE SO4 A 3
03AC3SOFTWAREHOH A:265 , HOH A:399 , ARG A:527BINDING SITE FOR RESIDUE SO4 A 5
04AC4SOFTWAREHOH A:253 , ARG A:725 , SER A:767BINDING SITE FOR RESIDUE SO4 A 6
05AC5SOFTWAREHOH B:273 , PRO B:638 , VAL B:639BINDING SITE FOR RESIDUE SO4 B 7
06AC6SOFTWAREARG B:842 , SER B:924BINDING SITE FOR RESIDUE SO4 B 8
07AC7SOFTWAREARG B:571 , ARG B:742BINDING SITE FOR RESIDUE SO4 B 10
08AC8SOFTWAREHOH B:408 , TRP B:694 , ARG B:791 , ARG B:881BINDING SITE FOR RESIDUE SO4 B 11
09AC9SOFTWAREHOH A:212 , ARG A:518 , SER A:557BINDING SITE FOR RESIDUE SO4 A 12
10BC1SOFTWAREHOH A:236 , PRO A:638 , VAL A:639 , PRO B:467BINDING SITE FOR RESIDUE SO4 A 13
11BC2SOFTWARETRP A:662 , LYS A:671 , ARG A:681BINDING SITE FOR RESIDUE SO4 A 14
12BC3SOFTWAREHOH B:27 , HOH B:127 , HOH B:347 , LYS B:846BINDING SITE FOR RESIDUE SO4 B 15
13BC4SOFTWAREHOH A:173 , HOH A:275 , LYS A:846 , HOH A:947BINDING SITE FOR RESIDUE SO4 A 16

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3K7D)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3K7D)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3K7D)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3K7D)

(-) Exons   (0, 0)

(no "Exon" information available for 3K7D)

(-) 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:497
 aligned with GLNE_ECOLI | P30870 from UniProtKB/Swiss-Prot  Length:946

    Alignment length:497
                                   458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678       688       698       708       718       728       738       748       758       768       778       788       798       808       818       828       838       848       858       868       878       888       898       908       918       928       938       
           GLNE_ECOLI   449 SEQWRELWQDALQEDDTTPVLAHLSEDDRKQVLTLIADFRKELDKRTIGPRGRQVLDHLMPHLLSDVCAREDAAVTLSRITALLVGIVTRTTYLELLSEFPAALKHLISLCAASPMIASQLARYPLLLDELLDPNTLYQPTATDAYRDELRQYLLRVPEDDEEQQLEALRQFKQAQLLRIAAADIAGTLPVMKVSDHLTWLAEAMIDAVVQQAWVQMVARYGKPNHLNEREGRGFAVVGYGKLGGWELGYSSDLDLIFLHDCPMDAMTDGEREIDGRQFYLRLAQRIMHLFSTRTSSGILYEVDARLRPSGAAGMLVTSAEAFADYQKNEAWTWEHQALVRARVVYGDPQLTAHFDAVRREIMTLPREGKTLQTEVREMREKMRAHLGNKHRDRFDIKADEGGITDIEFITQYLVLRYAHEKPKLTRWSDNVRILELLAQNDIMEEQEAMALTRAYTTLRDELHHLALQELPGHVSEDCFTAERELVRASWQKWLVE 945
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhh...hhhhh..hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhh......eeeeehhhhhh........eeeeeee..............hhhhhhhhhhhhhhhhhhh.........ee.....hhhhh..eeehhhhhhhhhhh.hhhhhhhhhh.eeee.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh......eee......hhhhhhhhhhhhhhhhh..hhhhhh..hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhh....eee...hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3k7d A 449 SEQWRELWQDALQEDDTTPVLAHLSEDDRKQVLTLIADFRKELDKRTIGPRGRQVLDHLMPHLLSDVCAREDAAVTLSRITALLVGIVTRTTYLELLSEFPAALKHLISLCAASPMIASQLARYPLLLDELLDPNTLYQPTATDAYRDELRQYLLRVPEDDEEQQLEALRQFKQAQLLRIAAADIAGTLPVMKVSDHLTWLAEAMIDAVVQQAWVQMVARYGKPNHLNEREGRGFAVVGYGKLGGWELGYSSDLDLIFLHDCPMDAMTDGEREIDGRQFYLRLAQRIMHLFSTRTSSGILYEVDARLRPSGAAGMLVTSAEAFADYQKNEAWTWEHQALVRARVVYGDPQLTAHFDAVRREIMTLPREGKTLQTEVREMREKMRAHLGNKHRDRFDIKADEGGITDIEFITQYLVLRYAHEKPKLTRWSDNVRILELLAQNDIMEEQEAMALTRAYTTLRDELHHLALQELPGHVSEDCFTAERELVRASWQKWLVE 945
                                   458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678       688       698       708       718       728       738       748       758       768       778       788       798       808       818       828       838       848       858       868       878       888       898       908       918       928       938       


Chain B from PDB  Type:PROTEIN  Length:495
 aligned with GLNE_ECOLI | P30870 from UniProtKB/Swiss-Prot  Length:946

    Alignment length:498
                                   458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678       688       698       708       718       728       738       748       758       768       778       788       798       808       818       828       838       848       858       868       878       888       898       908       918       928       938        
           GLNE_ECOLI   449 SEQWRELWQDALQEDDTTPVLAHLSEDDRKQVLTLIADFRKELDKRTIGPRGRQVLDHLMPHLLSDVCAREDAAVTLSRITALLVGIVTRTTYLELLSEFPAALKHLISLCAASPMIASQLARYPLLLDELLDPNTLYQPTATDAYRDELRQYLLRVPEDDEEQQLEALRQFKQAQLLRIAAADIAGTLPVMKVSDHLTWLAEAMIDAVVQQAWVQMVARYGKPNHLNEREGRGFAVVGYGKLGGWELGYSSDLDLIFLHDCPMDAMTDGEREIDGRQFYLRLAQRIMHLFSTRTSSGILYEVDARLRPSGAAGMLVTSAEAFADYQKNEAWTWEHQALVRARVVYGDPQLTAHFDAVRREIMTLPREGKTLQTEVREMREKMRAHLGNKHRDRFDIKADEGGITDIEFITQYLVLRYAHEKPKLTRWSDNVRILELLAQNDIMEEQEAMALTRAYTTLRDELHHLALQELPGHVSEDCFTAERELVRASWQKWLVEE 946
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) -------------------------------------------------------------------------------------------------------GlnE-3k7dB03 B:552-806                                                                                                                                                                                                                                         ---------------GlnD_UR_UTase-3k7dB01 B:822-921                                                                     ------------------------- Pfam domains (1)
           Pfam domains (2) -------------------------------------------------------------------------------------------------------GlnE-3k7dB04 B:552-806                                                                                                                                                                                                                                         ---------------GlnD_UR_UTase-3k7dB02 B:822-921                                                                     ------------------------- Pfam domains (2)
         Sec.struct. author .hhhhhhhhh---....hhhhh..hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............eeeeehhhhhh........eeeeeee..............hhhhhhhhhhhhhhhhhhh.........ee.....hhhhh..eeehhhhhhhhhhh.hhhhhhhhh..eeeeehhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh.....eee......hhhhhhhhhhhhhhhhh..hhhhhh..hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhh....eee...hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3k7d B 449 SEQWRELWQD---EDDTTPVLAHLSEDDRKQVLTLIADFRKELDKRTIGPRGRQVLDHLMPHLLSDVCAREDAAVTLSRITALLVGIVTRTTYLELLSEFPAALKHLISLCAASPMIASQLARYPLLLDELLDPNTLYQPTATDAYRDELRQYLLRVPEDDEEQQLEALRQFKQAQLLRIAAADIAGTLPVMKVSDHLTWLAEAMIDAVVQQAWVQMVARYGKPNHLNEREGRGFAVVGYGKLGGWELGYSSDLDLIFLHDCPMDAMTDGEREIDGRQFYLRLAQRIMHLFSTRTSSGILYEVDARLRPSGAAGMLVTSAEAFADYQKNEAWTWEHQALVRARVVYGDPQLTAHFDAVRREIMTLPREGKTLQTEVREMREKMRAHLGNKHRDRFDIKADEGGITDIEFITQYLVLRYAHEKPKLTRWSDNVRILELLAQNDIMEEQEAMALTRAYTTLRDELHHLALQELPGHVSEDCFTAERELVRASWQKWLVEE 946
                                   458   |   468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678       688       698       708       718       728       738       748       758       768       778       788       798       808       818       828       838       848       858       868       878       888       898       908       918       928       938        
                                   458 462
   Legend:   → Mismatch (orange background)
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    → 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 3K7D)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3K7D)

(-) Pfam Domains  (2, 4)

Asymmetric Unit
(-)
Clan: KNTase_C (11)
(-)
Clan: NTP_transf (45)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (GLNE_ECOLI | P30870)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0008882    [glutamate-ammonia-ligase] adenylyltransferase activity    Catalysis of the reaction: ATP + [L-glutamate:ammonia ligase (ADP-forming)] = diphosphate + adenylyl-[L-glutamate:ammonia ligase (ADP-forming)].
    GO:0000287    magnesium ion binding    Interacting selectively and non-covalently with magnesium (Mg) ions.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0016779    nucleotidyltransferase activity    Catalysis of the transfer of a nucleotidyl group to a reactant.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
cellular component
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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  3k7d
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 Related Entries

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

UniProtKB/Swiss-Prot
        GLNE_ECOLI | P30870: 1v4a

(-) Related Entries Specified in the PDB File

1v4a N-TERMINAL DOMAIN OF SAME ENZYME