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(-) Description

Title :  ESCHERICHIA COLI MURC
 
Authors :  T. Deva, E. N. Baker, C. J. Squire, C. A. Smith
Date :  10 Nov 05  (Deposition) - 24 Oct 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Amide Bond Ligase, Atpase, Bacterial Cell Wall (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Deva, E. N. Baker, C. J. Squire, C. A. Smith
Structure Of Escherichia Coliudp-N-Acetylmuramoyl:L-Alanine Ligase (Murc).
Acta Crystallogr. , Sect. D V. 62 1466 2006
PubMed-ID: 17139082  |  Reference-DOI: 10.1107/S0907444906038376
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - UDP-N-ACETYLMURAMATE--L-ALANINE LIGASE
    Chains: A, B
    EC Number: 6.3.2.8
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: MURC
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: UDP-N-ACETYLMURAMOYL-L-ALANINE SYNTHETASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 32)

Asymmetric/Biological Unit (2, 32)
No.NameCountTypeFull Name
1MG2Ligand/IonMAGNESIUM ION
2MSE30Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS B:199 , HOH B:1140 , HOH B:1141 , HOH B:1142 , HOH B:1143 , HOH B:1144BINDING SITE FOR RESIDUE MG B 901
2AC2SOFTWAREHIS A:199 , HOH A:1033 , HOH A:1034 , HOH A:1035 , HOH A:1036 , HOH A:1037BINDING SITE FOR RESIDUE MG A 902

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2F00)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2F00)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2F00)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2F00)

(-) Exons   (0, 0)

(no "Exon" information available for 2F00)

(-) 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:476
 aligned with MURC_ECOLI | P17952 from UniProtKB/Swiss-Prot  Length:491

    Alignment length:483
                                    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       430       440       450       460       470       480   
           MURC_ECOLI     1 MNTQQLAKLRSIVPEMRRVRHIHFVGIGGAGMGGIAEVLANEGYQISGSDLAPNPVTQQLMNLGATIYFNHRPENVRDASVVVVSSAISADNPEIVAAHEARIPVIRRAEMLAELMRFRHGIAIAGTHGKTTTTAMVSSIYAEAGLDPTFVNGGLVKAAGVHARLGHGRYLIAEADESDASFLHLQPMVAIVTNIEADHMDTYQGDFENLKQTFINFLHNLPFYGRAVMCVDDPVIRELLPRVGRQTTTYGFSEDADVRVEDYQQIGPQGHFTLLRQDKEPMRVTLNAPGRHNALNAAAAVAVATEEGIDDEAILRALESFQGTGRRFDFLGEFPLEPVNGKSGTAMLVDDYGHHPTEVDATIKAARAGWPDKNLVMLFQPHRFTRTRDLYDDFANVLTQVDTLLMLEVYPAGEAPIPGADSRSLCRTIRGRGKIDPILVPDPARVAEMLAPVLTGNDLILVQGAGNIGKIARSLAEIKLKPQ 483
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------2f00A01 A:20-107 NAD(P)-binding Rossmann-like Domain                                    2f00A02 A:108-324  [code=3.40.1190.10, no name defined]                                                                                                                                                                  2f00A03 A:325-483  [code=3.90.190.20, no name defined]                                                                                                          CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhh..........eeeee.....hhhhhhhhhhhh..eeeee....hhhhhhhhhh..eee...hhhhhh...eeee.......hhhhhhhhhh...eeehhhhhhhhhh..eeeeee...hhhhhhhhhhhhhhhh....eee...........ee.....eeeee.....hhhhhh...eeee......hhhhh..hhhhhhhhhhhhhh......eeeee..hhhhhhhhhhh..eeeeee......eeeeeeeee..eeeeeee......eeeee...hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh........eeeeeee.........eeeeeee...hhhhhhhhhhhhhh.....eeeeee...hhhhhh.hhhhhhhhhh...eeee..............hhhhhh..-------..ee......hhhhhhhhh..eeeeeee...hhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2f00 A   1 mNTQQLAKLRSIVPEmRRVRHIHFVGIGGAGmGGIAEVLANEGYQISGSDLAPNPVTQQLmNLGATIYFNHRPENVRDASVVVVSSAISADNPEIVAAHEARIPVIRRAEmLAELmRFRHGIAIAGTHGKTTTTAmVSSIYAEAGLDPTFVNGGLVKAAGVHARLGHGRYLIAEADESDASFLHLQPmVAIVTNIEADHmDTYQGDFENLKQTFINFLHNLPFYGRAVmCVDDPVIRELLPRVGRQTTTYGFSEDADVRVEDYQQIGPQGHFTLLRQDKEPmRVTLNAPGRHNALNAAAAVAVATEEGIDDEAILRALESFQGTGRRFDFLGEFPLEPVNGKSGTAmLVDDYGHHPTEVDATIKAARAGWPDKNLVmLFQPHRFTRTRDLYDDFANVLTQVDTLLmLEVYPAGEAPIPGADSRSLCRT-------DPILVPDPARVAEmLAPVLTGNDLILVQGAGNIGKIARSLAEIKLKPQ 483
                            |       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       | -     | 440       450       460       470       480   
                            |             16-MSE          32-MSE                       61-MSE                                           111-MSE|                 136-MSE                                             188-MSE     200-MSE                      229-MSE                                              282-MSE                                                          347-MSE                       377-MSE                      406-MSE               428     436          449-MSE                              
                            1-MSE                                                                                                            116-MSE                                                                                                                                                                                                                                                                                                                                                                           


Chain B from PDB  Type:PROTEIN  Length:483
 aligned with MURC_ECOLI | P17952 from UniProtKB/Swiss-Prot  Length:491

    Alignment length:483
                                    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       430       440       450       460       470       480   
           MURC_ECOLI     1 MNTQQLAKLRSIVPEMRRVRHIHFVGIGGAGMGGIAEVLANEGYQISGSDLAPNPVTQQLMNLGATIYFNHRPENVRDASVVVVSSAISADNPEIVAAHEARIPVIRRAEMLAELMRFRHGIAIAGTHGKTTTTAMVSSIYAEAGLDPTFVNGGLVKAAGVHARLGHGRYLIAEADESDASFLHLQPMVAIVTNIEADHMDTYQGDFENLKQTFINFLHNLPFYGRAVMCVDDPVIRELLPRVGRQTTTYGFSEDADVRVEDYQQIGPQGHFTLLRQDKEPMRVTLNAPGRHNALNAAAAVAVATEEGIDDEAILRALESFQGTGRRFDFLGEFPLEPVNGKSGTAMLVDDYGHHPTEVDATIKAARAGWPDKNLVMLFQPHRFTRTRDLYDDFANVLTQVDTLLMLEVYPAGEAPIPGADSRSLCRTIRGRGKIDPILVPDPARVAEMLAPVLTGNDLILVQGAGNIGKIARSLAEIKLKPQ 483
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------2f00B01 B:20-107 NAD(P)-binding Rossmann-like Domain                                    2f00B02 B:108-324  [code=3.40.1190.10, no name defined]                                                                                                                                                                  2f00B03 B:325-483  [code=3.90.190.20, no name defined]                                                                                                          CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhh.......eeeee.....hhhhhhhhhhhh..eeeee....hhhhhhhhhh..eee...hhhhhh...eeee.......hhhhhhhhhh...eeehhhhhhhhhhh.eeeeee...hhhhhhhhhhhhhhhh....eee...........ee.....eeeee.....hhhhhh...eeee......hhhhhh.hhhhhhhhhhhhhh......eeeee..hhhhhhhhhhh..eeeeee......eeeeeeeee..eeeeeee......eeeee...hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh........eeeeeeehhhhhh...eeeeeee...hhhhhhhhhhhhhhhh...eeeeee...hhhhhhhhhhhhhhhhh...eeeee.............hhhhhhhhhhhh.....eee....hhhhhhhhhh..eeeeeee...hhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2f00 B   1 mNTQQLAKLRSIVPEmRRVRHIHFVGIGGAGmGGIAEVLANEGYQISGSDLAPNPVTQQLmNLGATIYFNHRPENVRDASVVVVSSAISADNPEIVAAHEARIPVIRRAEmLAELmRFRHGIAIAGTHGKTTTTAmVSSIYAEAGLDPTFVNGGLVKAAGVHARLGHGRYLIAEADESDASFLHLQPmVAIVTNIEADHmDTYQGDFENLKQTFINFLHNLPFYGRAVmCVDDPVIRELLPRVGRQTTTYGFSEDADVRVEDYQQIGPQGHFTLLRQDKEPmRVTLNAPGRHNALNAAAAVAVATEEGIDDEAILRALESFQGTGRRFDFLGEFPLEPVNGKSGTAmLVDDYGHHPTEVDATIKAARAGWPDKNLVmLFQPHRFTRTRDLYDDFANVLTQVDTLLmLEVYPAGEAPIPGADSRSLCRTIRGRGKIDPILVPDPARVAEmLAPVLTGNDLILVQGAGNIGKIARSLAEIKLKPQ 483
                            |       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       430       440       450       460       470       480   
                            1-MSE         16-MSE          32-MSE                       61-MSE                                           111-MSE|                 136-MSE                                             188-MSE     200-MSE                      229-MSE                                              282-MSE                                                          347-MSE                       377-MSE                      406-MSE                                    449-MSE                              
                                                                                                                                             116-MSE
   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 2F00)

(-) CATH Domains  (3, 6)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2F00)

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (MURC_ECOLI | P17952)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0008763    UDP-N-acetylmuramate-L-alanine ligase activity    Catalysis of the reaction: L-alanine + ATP + UDP-N-acetylmuramate = ADP + 2 H(+) + phosphate + UDP-N-acetylmuramoyl-L-alanine.
    GO:0016874    ligase activity    Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
    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:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0009058    biosynthetic process    The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.
    GO:0007049    cell cycle    The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.
    GO:0051301    cell division    The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells.
    GO:0071555    cell wall organization    A process that results in the assembly, arrangement of constituent parts, or disassembly of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis.
    GO:0009252    peptidoglycan biosynthetic process    The chemical reactions and pathways resulting in the formation of peptidoglycans, any of a class of glycoconjugates found in bacterial cell walls.
    GO:0008360    regulation of cell shape    Any process that modulates the surface configuration of a cell.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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 Related Entries

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        MURC_ECOLI | P17952: 1cc9

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