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(-) Description

Title :  CRYSTAL STRUCTURE OF AMIDOHYDROROLASE II; NORTHEAST STRUCTURAL GENOMICS TARGET LPR24
 
Authors :  K. Das, R. Xiao, T. Acton, L. Ma, E. Arnold, G. T. Montelione, Northeast Structural Genomics Consortium (Nesg)
Date :  29 Nov 05  (Deposition) - 10 Jan 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Metal Dependent Hydrolyse, Aminohydro_2, Acmds, Acms, Tryptophan-Nda Metabolism, Quinolinic Acid, Quin, Nitrobenzoic Acid Biodegradation, Structural Genomics, Psi, Protein Structure Initiative, Northeast Structural Genomics Consortium, Nesg, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Das, R. Xiao, T. Acton, L. Ma, E. Arnold, G. T. Montelione
Crystal Structure Of Acmds From Lactobacillus Plantarum
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - METAL-DEPENDENT HYDROLASE
    Chains: A, B
    EC Number: 4.1.1.45
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: LACTOBACILLUS PLANTARUM
    Organism Taxid: 220668
    Strain: WCFS1

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 14)

Asymmetric Unit (2, 14)
No.NameCountTypeFull Name
1MN2Ligand/IonMANGANESE (II) ION
2MSE12Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 24)
No.NameCountTypeFull Name
1MN-1Ligand/IonMANGANESE (II) ION
2MSE24Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:7 , HIS A:9 , HIS A:154 , ASP A:266 , HOH A:409 , HOH A:459BINDING SITE FOR RESIDUE MN A 402
2AC2SOFTWAREHIS B:7 , HIS B:9 , HIS B:154 , ASP B:266 , HOH B:454 , HOH B:456BINDING SITE FOR RESIDUE MN B 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2F6K)

(-) Cis Peptide Bonds  (8, 8)

Asymmetric Unit
No.Residues
1Ser A:58 -Pro A:59
2Ile A:99 -Pro A:100
3Leu A:245 -Pro A:246
4Ile A:267 -Pro A:268
5Ser B:58 -Pro B:59
6Ile B:99 -Pro B:100
7Leu B:245 -Pro B:246
8Ile B:267 -Pro B:268

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2F6K)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2F6K)

(-) Exons   (0, 0)

(no "Exon" information available for 2F6K)

(-) 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:306
 aligned with F9US96_LACPL | F9US96 from UniProtKB/TrEMBL  Length:307

    Alignment length:306
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301      
         F9US96_LACPL     2 SKIDFHTHYLPTSYVEALKRHVPGDPDGWPTPEWTPQLTLNFMRDNDISYSILSLSSPHVNFGDKAETIRLVEAANDDGKSLAQQYPDQLGYLASLPIPYELDAVKTVQQALDQDGALGVTVPTNSRGLYFGSPVLERVYQELDARQAIVALHPNEPAILPKNVDIDLPVPLLGFFMDTTMTFINMLKYHFFEKYPNIKVIIPHAGAFLGIVDDRIAQYAQKVYQVDVYDVMHHVYFDVAGAVLPRQLPTLMSLAQPEHLLYGSDIPYTPLDGSRQLGHALATTDLLTNEQKQAIFYDNAHRLLTE 307
               SCOP domains d2f6ka1 A:2-307 Putative amidohydrolase LP2961                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains 2f6kA00 A:2-307 Metal-dependent hydrolases                                                                                                                                                                                                                                                                         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeee..hhhhhhhhhhhh..hhhhh.....hhhhhhhhhhhh.eeeeeee.........hhhhhhhhhhhhhhhhhhhhhhh...eeeee.....hhhhhhhhhhhhhhh....eeeee.ee..ee..hhhhhhhhhhhhh...eeeee...............hhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeehhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhheee.......hhhhhhh...hhh.ee........hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2f6k A   2 SKIDFHTHYLPTSYVEALKRHVPGDPDGWPTPEWTPQLTLNFmRDNDISYSILSLSSPHVNFGDKAETIRLVEAANDDGKSLAQQYPDQLGYLASLPIPYELDAVKTVQQALDQDGALGVTVPTNSRGLYFGSPVLERVYQELDARQAIVALHPNEPAILPKNVDIDLPVPLLGFFmDTTmTFINmLKYHFFEKYPNIKVIIPHAGAFLGIVDDRIAQYAQKVYQVDVYDVmHHVYFDVAGAVLPRQLPTLmSLAQPEHLLYGSDIPYTPLDGSRQLGHALATTDLLTNEQKQAIFYDNAHRLLTE 307
                                    11        21        31        41  |     51        61        71        81        91       101       111       121       131       141       151       161       171      |181|    | 191       201       211       221       231 |     241       251 |     261       271       281       291       301      
                                                                     44-MSE                                                                                                                               178-MSE    |                                           233-MSE             253-MSE                                                  
                                                                                                                                                                                                              182-MSE|                                                                                                                        
                                                                                                                                                                                                                   187-MSE                                                                                                                    


Chain B from PDB  Type:PROTEIN  Length:306
 aligned with F9US96_LACPL | F9US96 from UniProtKB/TrEMBL  Length:307

    Alignment length:306
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301      
         F9US96_LACPL     2 SKIDFHTHYLPTSYVEALKRHVPGDPDGWPTPEWTPQLTLNFMRDNDISYSILSLSSPHVNFGDKAETIRLVEAANDDGKSLAQQYPDQLGYLASLPIPYELDAVKTVQQALDQDGALGVTVPTNSRGLYFGSPVLERVYQELDARQAIVALHPNEPAILPKNVDIDLPVPLLGFFMDTTMTFINMLKYHFFEKYPNIKVIIPHAGAFLGIVDDRIAQYAQKVYQVDVYDVMHHVYFDVAGAVLPRQLPTLMSLAQPEHLLYGSDIPYTPLDGSRQLGHALATTDLLTNEQKQAIFYDNAHRLLTE 307
               SCOP domains d2f6kb_ B: Putative amidohydrolase LP2961                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains 2f6kB00 B:2-307 Metal-dependent hydrolases                                                                                                                                                                                                                                                                         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeee..hhhhhhhhhhhh..hhhhh.....hhhhhhhhhhhh.eeeeeee.........hhhhhhhhhhhhhhhhhhhhhhh...eeeee.....hhhhhhhhhhhhhhh....eeeee.ee..ee..hhhhhhhhhhhhh...eeeee...............hhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeehhhhhhhhhhhhhhhhhhhhh...hhhhhhhhheee.......hhhhhhh...hhh.ee........hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2f6k B   2 SKIDFHTHYLPTSYVEALKRHVPGDPDGWPTPEWTPQLTLNFmRDNDISYSILSLSSPHVNFGDKAETIRLVEAANDDGKSLAQQYPDQLGYLASLPIPYELDAVKTVQQALDQDGALGVTVPTNSRGLYFGSPVLERVYQELDARQAIVALHPNEPAILPKNVDIDLPVPLLGFFmDTTmTFINmLKYHFFEKYPNIKVIIPHAGAFLGIVDDRIAQYAQKVYQVDVYDVmHHVYFDVAGAVLPRQLPTLmSLAQPEHLLYGSDIPYTPLDGSRQLGHALATTDLLTNEQKQAIFYDNAHRLLTE 307
                                    11        21        31        41  |     51        61        71        81        91       101       111       121       131       141       151       161       171      |181|    | 191       201       211       221       231 |     241       251 |     261       271       281       291       301      
                                                                     44-MSE                                                                                                                               178-MSE    |                                           233-MSE             253-MSE                                                  
                                                                                                                                                                                                              182-MSE|                                                                                                                        
                                                                                                                                                                                                                   187-MSE
   Legend:   → Mismatch (orange background)
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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, 2)

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

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2F6K)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (F9US96_LACPL | F9US96)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.

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