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(-) Description

Title :  CARBAMATE KINASE FROM GIARDIA LAMBLIA BOUND TO AMP-PNP
 
Authors :  K. Lim, O. Herzberg
Date :  02 Apr 13  (Deposition) - 05 Jun 13  (Release) - 05 Jun 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Modified Rossmann Fold, Atp Carbamate Phosphotransferase, Adp, Mg2+, Carbamoyl Phosphate, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Lim, L. Kulakova, A. Galkin, O. Herzberg
Crystal Structures Of Carbamate Kinase From Giardia Lamblia Bound With Citric Acid And Amp-Pnp.
Plos One V. 8 64004 2013
PubMed-ID: 23700444  |  Reference-DOI: 10.1371/JOURNAL.PONE.0064004
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CARBAMATE KINASE
    Chains: A, B, C, D
    EC Number: 2.7.2.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PDEST-HISMBP
    Expression System Strain: BL21(DE3)STAR
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: GL50803_16453
    Organism Scientific: GIARDIA LAMBLIA
    Organism Taxid: 184922
    Strain: ATCC 50803 / WB CLONE C6

 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, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1ANP4Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1ANP2Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1ANP2Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:12 , GLY A:13 , LYS A:216 , THR A:236 , ASP A:237 , CYS A:242 , TYR A:245 , HIS A:269 , PHE A:270 , ALA A:271 , SER A:274 , MET A:275 , LYS A:278 , HOH A:1104 , HOH A:1128 , HOH A:1132 , HOH A:1155 , HOH A:1163 , HOH A:1183 , HOH A:1186 , HOH A:1199BINDING SITE FOR RESIDUE ANP A 1001
2AC2SOFTWAREGLY B:12 , GLY B:13 , LYS B:216 , THR B:236 , ASP B:237 , VAL B:238 , CYS B:242 , HIS B:269 , SER B:274 , MET B:275 , LYS B:278 , HOH B:501 , HOH B:521 , HOH B:547 , HOH B:549BINDING SITE FOR RESIDUE ANP B 401
3AC3SOFTWAREGLY C:12 , GLY C:13 , LYS C:216 , THR C:236 , ASP C:237 , CYS C:242 , TYR C:245 , HIS C:269 , SER C:274 , MET C:275 , LYS C:278 , HOH C:502 , HOH C:512 , HOH C:582BINDING SITE FOR RESIDUE ANP C 401
4AC4SOFTWAREGLY D:12 , GLY D:13 , LYS D:216 , THR D:236 , ASP D:237 , VAL D:238 , CYS D:242 , TYR D:245 , SER D:274 , MET D:275 , LYS D:278 , HOH D:514 , HOH D:555 , HOH D:581 , HOH D:609 , HOH D:610 , HOH D:619BINDING SITE FOR RESIDUE ANP D 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4JZ7)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4JZ7)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4JZ7)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4JZ7)

(-) Exons   (0, 0)

(no "Exon" information available for 4JZ7)

(-) 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:285
                                                                                                                                                                                                                                                                                                                             
               SCOP domains d4jz7a_ A: automated matches                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee.hhhhh.......hhhhhhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eee...eeee...hhhhh............eeee.hhhhhhhhhh...eee......eeeeee..eeee.....hhhhhhhhhhhhh....eeeee.....ee.......ee..eeehhhhhhhhhh......hhhhhhhhhhhhhhhhh..eeeee..hhhhhhh....eeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jz7 A   1 MSAGKTVVIALGGNAMLQAKEKGDYDTQRKNVEIAASEIYKIHKAGYKVVLTSGNGPQVGAIKLQNQAAAGVSPEMPLHVCGAMSQGFIGYMMSQAMDNVFCANNEPANCVTCVTQTLVDPKDQAFTNPTKPVVVPSPRPLEIVEYGVIKTLIDNNVLVICTNGGGIPCKRENKVISGVDAVIDKDLATSLLAKTLNSDYLMILTDVLNACINYKKPDERKLEEIKLSEILALEKDGHFAAGSMGPKVRAAIEFTQATGKMSIITSLSTAVDALNGKCGTRIIKD 316
                                    10        20        30        40        50        60        70        80        90       100       110       120       130 ||    171       181       191       201       211       221       231       241       251       261       271       281       291       301       311     
                                                                                                                                                             132|                                                                                                                                                        
                                                                                                                                                              164                                                                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:285
                                                                                                                                                                                                                                                                                                                             
               SCOP domains d4jz7b_ B: automated matches                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee.hhhhh.......hhhhhhhhhhhhhhhhhhhhhhh.eeeeee.hhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eee...eee....hhhhh..............ee.hhhhhhhhhhh..eeeeee...eeeeee..eeee.....hhhhhhhhhhhhh...eeeeee.....ee.......ee..eeehhhhhhhhhhh.....hhhhhhhhhhhhhhhhh.eeeeee..hhhhhhh....eeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jz7 B   1 MSAGKTVVIALGGNAMLQAKEKGDYDTQRKNVEIAASEIYKIHKAGYKVVLTSGNGPQVGAIKLQNQAAAGVSPEMPLHVCGAMSQGFIGYMMSQAMDNVFCANNEPANCVTCVTQTLVDPKDQAFTNPTKPVVVPSPRPLEIVEYGVIKTLIDNNVLVICTNGGGIPCKRENKVISGVDAVIDKDLATSLLAKTLNSDYLMILTDVLNACINYKKPDERKLEEIKLSEILALEKDGHFAAGSMGPKVRAAIEFTQATGKMSIITSLSTAVDALNGKCGTRIIKD 316
                                    10        20        30        40        50        60        70        80        90       100       110       120       130 ||    171       181       191       201       211       221       231       241       251       261       271       281       291       301       311     
                                                                                                                                                             132|                                                                                                                                                        
                                                                                                                                                              164                                                                                                                                                        


Chain C from PDB  Type:PROTEIN  Length:316
                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains d4jz7c_ C: automated matches                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee.hhhhh.......hhhhhhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeee..eeee...hhhhh....ee....................eee.....eeee.....eeee.hhhhhhhhhhh..eeee.hhhheeeeee..eeee.....hhhhhhhhhhhhhh..eeeeee.....ee.......ee..eeehhhhhhhh........hhhhhhhhhhhhhhhhh.eeeeee..hhhhhhh....eeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jz7 C   1 MSAGKTVVIALGGNAMLQAKEKGDYDTQRKNVEIAASEIYKIHKAGYKVVLTSGNGPQVGAIKLQNQAAAGVSPEMPLHVCGAMSQGFIGYMMSQAMDNVFCANNEPANCVTCVTQTLVDPKDQAFTNPTKPVGRFYTEQEAKDLMAANPGKILREDAGRGWRVVVPSPRPLEIVEYGVIKTLIDNNVLVICTNGGGIPCKRENKVISGVDAVIDKDLATSLLAKTLNSDYLMILTDVLNACINYKKPDERKLEEIKLSEILALEKDGHFAAGSMGPKVRAAIEFTQATGKMSIITSLSTAVDALNGKCGTRIIKD 316
                                    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:316
                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains d4jz7d_ D: automated matches                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeee.hhhh.......hhhhhhhhhhhhhhhhhhhhhhh.eeeee..hhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeee..eeee...hhhhh...eeeeeeehhhhhhhhhhhh....eee.....eeeee....eeee.hhhhhhhhhhh..eeee.hhhheeeee....eee.....hhhhhhhhhhhhhh..eeeeee.....ee.......ee..eeehhhhhhhhhh......hhhhhhhhhhhhhhhhh.eeeeee..hhhhhhh....eeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jz7 D   1 MSAGKTVVIALGGNAMLQAKEKGDYDTQRKNVEIAASEIYKIHKAGYKVVLTSGNGPQVGAIKLQNQAAAGVSPEMPLHVCGAMSQGFIGYMMSQAMDNVFCANNEPANCVTCVTQTLVDPKDQAFTNPTKPVGRFYTEQEAKDLMAANPGKILREDAGRGWRVVVPSPRPLEIVEYGVIKTLIDNNVLVICTNGGGIPCKRENKVISGVDAVIDKDLATSLLAKTLNSDYLMILTDVLNACINYKKPDERKLEEIKLSEILALEKDGHFAAGSMGPKVRAAIEFTQATGKMSIITSLSTAVDALNGKCGTRIIKD 316
                                    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
   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  (1, 4)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4JZ7)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4JZ7)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/TrEMBL
        A8BB85_GIAIC | A8BB85: 3kzf 4jz8 4jz9 4olc

(-) Related Entries Specified in the PDB File

3kzf CARBAMATE KINASE FROM GIARDIA LAMBLIA AT 3 ANGSTROM RESOLUTION
4jz8
4jz9