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(-) Description

Title :  THE CRYSTAL STRUCTURE OF MURINE CMP-5-N-ACETYLNEURAMINIC ACID SYNTHETASE
 
Authors :  S. Krapp, A. K. Muenster-Kuehnel, J. T. Kaiser, R. Huber, J. Tiralongo, R. Gerardy-Schahn, U. Jacob
Date :  02 Sep 03  (Deposition) - 09 Dec 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Cmp-5-N-Acetylneuraminic Acid Synthetase, Cmp-Neu5Ac, Sialic Acid, Glycosylation, Lipopolysaccharide Biosynthesis, Sugar-Activating Enzyme, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Krapp, A. K. Muenster-Kuehnel, J. T. Kaiser, R. Huber, J. Tiralongo, R. Gerardy-Schahn, U. Jacob
The Crystal Structure Of Murine Cmp-5-N-Acetylneuraminic Acid Synthetase
J. Mol. Biol. V. 334 625 2003
PubMed-ID: 14636592  |  Reference-DOI: 10.1016/J.JMB.2003.09.080
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CYTIDINE MONOPHOSPHO-N-ACETYLNEURAMINIC ACID SYNTHETASE
    Chains: A, B, C, D
    EC Number: 2.7.7.43
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Plasmid: PGEX-4T-2
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 40-268
    Gene: CMAS
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric Unit (1, 3)
No.NameCountTypeFull Name
1NCC3Ligand/IonCYTIDINE-5'-MONOPHOSPHATE-5-N-ACETYLNEURAMINIC ACID
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1NCC1Ligand/IonCYTIDINE-5'-MONOPHOSPHATE-5-N-ACETYLNEURAMINIC ACID
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1NCC2Ligand/IonCYTIDINE-5'-MONOPHOSPHATE-5-N-ACETYLNEURAMINIC ACID

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:48 , ALA A:49 , ARG A:50 , ASN A:60 , ARG A:109 , THR A:113 , SER A:118 , THR A:119 , SER A:120 , ALA A:123 , GLN A:141 , THR A:143 , GLY A:213 , TYR A:216 , HOH A:2020 , HOH A:2022 , HOH A:2024 , PHE B:176 , ARG B:199 , ARG B:201 , ARG B:202BINDING SITE FOR RESIDUE NCC A 2002
2AC2SOFTWARELEU C:48 , ALA C:49 , ARG C:50 , LYS C:59 , ASN C:60 , SER C:118 , GLN C:141 , THR C:143 , GLU C:211 , GLY C:213 , TYR C:216 , ASP C:247 , PHE D:176 , ARG D:199 , ARG D:201 , ARG D:202BINDING SITE FOR RESIDUE NCC C 3002
3AC3SOFTWAREPHE C:176 , ARG C:201 , ARG C:202 , LEU D:48 , ALA D:49 , ARG D:50 , ASN D:60 , ARG D:109 , SER D:120 , GLN D:141 , THR D:143 , GLY D:213 , TYR D:216 , ASP D:247BINDING SITE FOR RESIDUE NCC D 4002

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1QWJ)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ile C:56 -Pro C:57
2Pro D:40 -Pro D:41

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1QWJ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1QWJ)

(-) Exons   (0, 0)

(no "Exon" information available for 1QWJ)

(-) 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:228
 aligned with NEUA_MOUSE | Q99KK2 from UniProtKB/Swiss-Prot  Length:432

    Alignment length:228
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259        
           NEUA_MOUSE    40 PPHLAALVLARGGSKGIPLKNIKRLAGVPLIGWVLRAALDAGVFQSVWVSTDHDEIENVAKQFGAQVHRRSSETSKDSSTSLDAIVEFLNYHNEVDIVGNIQATSPCLHPTDLQKVAEMIREEGYDSVFSVVRRHQFRWSEIQKGVREVTEPLNLNPAKRPRRQDWDGELYENGSFYFAKRHLIEMGYLQGGKMAYYEMRAEHSVDIDVDIDWPIAEQRVLRFGYFGK 267
               SCOP domains d1qwja_ A: CMP acylneuraminate synthetase                                                                                                                                                                                            SCOP domains
               CATH domains 1qwjA00 A:40-267 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A                                                                                                                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeee..............ee..eehhhhhhhhhhhhh...eeeeee.hhhhhhhhhhh..eeee.hhhhh....hhhhhhhhhhh......eeeee.......hhhhhhhhhhhhhh....eeeeeeee...ee.............................eeeeeeeeeeeehhhhhh.......eeeee.hhhhh.hhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1qwj A  40 PPHLAALVLARGGSKGIPLKNIKRLAGVPLIGWVLRAALDAGVFQSVWVSTDHDEIENVAKQFGAQVHRRSSETSKDSSTSLDAIVEFLNYHNEVDIVGNIQATSPCLHPTDLQKVAEMIREEGYDSVFSVVRRHQFRWSEIQKGVREVTEPLNLNPAKRPRRQDWDGELYENGSFYFAKRHLIEMGYLQGGKMAYYEMRAEHSVDIDVDIDWPIAEQRVLRFGYFGK 267
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259        


Chain B from PDB  Type:PROTEIN  Length:229
 aligned with NEUA_MOUSE | Q99KK2 from UniProtKB/Swiss-Prot  Length:432

    Alignment length:229
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259         
           NEUA_MOUSE    40 PPHLAALVLARGGSKGIPLKNIKRLAGVPLIGWVLRAALDAGVFQSVWVSTDHDEIENVAKQFGAQVHRRSSETSKDSSTSLDAIVEFLNYHNEVDIVGNIQATSPCLHPTDLQKVAEMIREEGYDSVFSVVRRHQFRWSEIQKGVREVTEPLNLNPAKRPRRQDWDGELYENGSFYFAKRHLIEMGYLQGGKMAYYEMRAEHSVDIDVDIDWPIAEQRVLRFGYFGKE 268
               SCOP domains d1qwjb_ B: CMP acylneuraminate synthetase                                                                                                                                                                                             SCOP domains
               CATH domains 1qwjB00 B:40-268 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A                                                                                                                                                         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee.........hhhh.ee..eehhhhhhhhhhhhh...eeeeee.hhhhhhhhhhh..eeee..........hhhhhhhhhhh......eeeee.......hhhhhhhhhhhhhhh...eeeeeeee...........................hhhhh..eeeeeeeeeeeehhhhh........eeeee.hhhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1qwj B  40 PPHLAALVLARGGSKGIPLKNIKRLAGVPLIGWVLRAALDAGVFQSVWVSTDHDEIENVAKQFGAQVHRRSSETSKDSSTSLDAIVEFLNYHNEVDIVGNIQATSPCLHPTDLQKVAEMIREEGYDSVFSVVRRHQFRWSEIQKGVREVTEPLNLNPAKRPRRQDWDGELYENGSFYFAKRHLIEMGYLQGGKMAYYEMRAEHSVDIDVDIDWPIAEQRVLRFGYFGKE 268
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259         


Chain C from PDB  Type:PROTEIN  Length:228
 aligned with NEUA_MOUSE | Q99KK2 from UniProtKB/Swiss-Prot  Length:432

    Alignment length:228
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259        
           NEUA_MOUSE    40 PPHLAALVLARGGSKGIPLKNIKRLAGVPLIGWVLRAALDAGVFQSVWVSTDHDEIENVAKQFGAQVHRRSSETSKDSSTSLDAIVEFLNYHNEVDIVGNIQATSPCLHPTDLQKVAEMIREEGYDSVFSVVRRHQFRWSEIQKGVREVTEPLNLNPAKRPRRQDWDGELYENGSFYFAKRHLIEMGYLQGGKMAYYEMRAEHSVDIDVDIDWPIAEQRVLRFGYFGK 267
               SCOP domains d1qwjc_ C: CMP acylneuraminate synthetase                                                                                                                                                                                            SCOP domains
               CATH domains 1qwjC00 C:40-267 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A                                                                                                                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeeee.............ee..eehhhhhhhhhhhhh...eeeeee.hhhhhhhhhhh..eeee..hhhhh...hhhhhhhhhhhh.....eeeee.......hhhhhhhhhhhhhh....eeeeeeee...ee.............................eeeeeeeeeeeehhhhh........eeeee.hhhhh.hhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1qwj C  40 PPHLAALVLARGGSKGIPLKNIKRLAGVPLIGWVLRAALDAGVFQSVWVSTDHDEIENVAKQFGAQVHRRSSETSKDSSTSLDAIVEFLNYHNEVDIVGNIQATSPCLHPTDLQKVAEMIREEGYDSVFSVVRRHQFRWSEIQKGVREVTEPLNLNPAKRPRRQDWDGELYENGSFYFAKRHLIEMGYLQGGKMAYYEMRAEHSVDIDVDIDWPIAEQRVLRFGYFGK 267
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259        


Chain D from PDB  Type:PROTEIN  Length:228
 aligned with NEUA_MOUSE | Q99KK2 from UniProtKB/Swiss-Prot  Length:432

    Alignment length:228
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259        
           NEUA_MOUSE    40 PPHLAALVLARGGSKGIPLKNIKRLAGVPLIGWVLRAALDAGVFQSVWVSTDHDEIENVAKQFGAQVHRRSSETSKDSSTSLDAIVEFLNYHNEVDIVGNIQATSPCLHPTDLQKVAEMIREEGYDSVFSVVRRHQFRWSEIQKGVREVTEPLNLNPAKRPRRQDWDGELYENGSFYFAKRHLIEMGYLQGGKMAYYEMRAEHSVDIDVDIDWPIAEQRVLRFGYFGK 267
               SCOP domains d1qwjd_ D: CMP acylneuraminate synthetase                                                                                                                                                                                            SCOP domains
               CATH domains 1qwjD00 D:40-267 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A                                                                                                                                                        CATH domains
           Pfam domains (1) ----CTP_transf_3-1qwjD01 D:44-267                                                                                                                                                                                                    Pfam domains (1)
           Pfam domains (2) ----CTP_transf_3-1qwjD02 D:44-267                                                                                                                                                                                                    Pfam domains (2)
           Pfam domains (3) ----CTP_transf_3-1qwjD03 D:44-267                                                                                                                                                                                                    Pfam domains (3)
           Pfam domains (4) ----CTP_transf_3-1qwjD04 D:44-267                                                                                                                                                                                                    Pfam domains (4)
         Sec.struct. author ...eeeeeee.............ee..eehhhhhhhhhhhhh...eeeeee.hhhhhhhhhhh..eeee..........hhhhhhhhhhh......eeeee.......hhhhhhhhhhhhhhhh..eeeeeeee...ee.............................eeeeeeeeeeeehhhhhh.......eeeee..hhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1qwj D  40 PPHLAALVLARGGSKGIPLKNIKRLAGVPLIGWVLRAALDAGVFQSVWVSTDHDEIENVAKQFGAQVHRRSSETSKDSSTSLDAIVEFLNYHNEVDIVGNIQATSPCLHPTDLQKVAEMIREEGYDSVFSVVRRHQFRWSEIQKGVREVTEPLNLNPAKRPRRQDWDGELYENGSFYFAKRHLIEMGYLQGGKMAYYEMRAEHSVDIDVDIDWPIAEQRVLRFGYFGK 267
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259
   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  (1, 4)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (1, 4)

Asymmetric Unit
(-)
Clan: GT-A (172)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (NEUA_MOUSE | Q99KK2)
molecular function
    GO:0008781    N-acylneuraminate cytidylyltransferase activity    Catalysis of the reaction: CTP + N-acylneuraminate = diphosphate + CMP-N-acylneuraminate.
    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.
biological process
    GO:0006055    CMP-N-acetylneuraminate biosynthetic process    The chemical reactions and pathways resulting in the formation of CMP-N-acetylneuraminate, a substance composed of 5-(acetylamino)-3,5-dideoxy-D-glycero-D-galacto-non-3-ulosonic acid in glycosidic linkage with cytidine monophosphate.
    GO:0006054    N-acetylneuraminate metabolic process    The chemical reactions and pathways involving N-acetylneuraminate, the anion of 5-(acetylamino)-3,5-dideoxy-D-glycero-D-galacto-non-3-ulosonic acid.
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.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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 Related Entries

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

UniProtKB/Swiss-Prot
        NEUA_MOUSE | Q99KK2: 3ewi

(-) Related Entries Specified in the PDB File

1eyr STRUCTURE OF A SIALIC ACID ACTIVATING SYNTHETASE, CMP ACYLNEURAMINATE SYNTHETASE IN THE PRESENCE AND ABSENCE OF CDP
1gqc THE STRUCTURE OF CMP:2-KETO-3-DEOXY-MANNO-OCTONIC ACID SYNTHETASE COMPLEXED WITH CMP-KDO AT 100K