2Q92 - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   E. COLI METHIONINE AMINOPEPTIDASE MN-FORM WITH INHIBITOR B23

Authors :   Q. -Z. Ye

Date :   12 Jun 07 (Deposition) - 01 Jan 08 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

Chains :   Asym./Biol. Unit : A

Keywords :   Aminopeptidase, Hydrolase, Dinuclear, Mn(Ii)-Form, Enzyme- Inhibitor Complex, Metalloenzyme (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Z. Q. Ma, S. X. Xie, Q. Q. Huang, F. J. Nan, T. D. Hurley, Q. Z. Ye
Structural Analysis Of Inhibition Of E. Coli Methionine Aminopeptidase: Implication Of Loop Flexibility In Selective Inhibition Of Bacterial Enzymes.
Bmc Struct. Biol. V. 7 84 2007
PubMed-ID: 18093325 | Reference-DOI: 10.1186/1472-6807-7-84
(for further references see the PDB file header)

Molecule 1 - METHIONINE AMINOPEPTIDASE
	Chains	:	A
	EC Number	:	3.4.11.18
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PGEMEX-1
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	MAP
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Synonym	:	MAP, PEPTIDASE M

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 4)

No.	Name	Count	Type	Full Name
1	B23	1	Ligand/Ion	5-(2-NITROPHENYL)-2-FUROIC ACID
2	MN	2	Ligand/Ion	MANGANESE (II) ION
3	NA	1	Ligand/Ion	SODIUM ION

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:108 , HIS A:171 , GLU A:204 , GLU A:235 , MN A:301 , B23 A:400	BINDING SITE FOR RESIDUE MN A 300
2	AC2	SOFTWARE	ASP A:97 , ASP A:108 , GLU A:235 , MN A:300 , B23 A:400 , HOH A:510	BINDING SITE FOR RESIDUE MN A 301
3	AC3	SOFTWARE	ASN A:74 , VAL A:76 , SER A:231 , HOH A:527	BINDING SITE FOR RESIDUE NA A 500
4	AC4	SOFTWARE	CYS A:59 , TYR A:62 , TYR A:65 , CYS A:70 , ASP A:97 , ASP A:108 , HIS A:171 , PHE A:177 , HIS A:178 , GLU A:204 , TRP A:221 , GLU A:235 , MN A:300 , MN A:301	BINDING SITE FOR RESIDUE B23 A 400

(no "SS Bond" information available for 2Q92)

Asymmetric/Biological Unit

No.	Residues
1	Glu A:180	-	Pro A:181

(no "SAP(SNP)/Variant" information available for 2Q92)

Asymmetric/Biological Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	MAP_1	PS00680	Methionine aminopeptidase subfamily 1 signature.	MAP1_ECOLI	168-186	1	A:168-186

(no "Exon" information available for 2Q92)

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:262
 aligned with MAP1_ECOLI | P0AE18 from UniProtKB/Swiss-Prot  Length:264

    Alignment length:262
                                    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  
           MAP1_ECOLI     2 AISIKTPEDIEKMRVAGRLAAEVLEMIEPYVKPGVSTGELDRICNDYIVNEQHAVSACLGYHGYPKSVCISINEVVCHGIPDDAKLLKDGDIVNIDVTVIKDGFHGDTSKMFIVGKPTIMGERLCRITQESLYLALRMVKPGINLREIGAAIQKFVEAEGFSVVREYCGHGIGRGFHEEPQVLHYDSRETNVVLKPGMTFTIEPMVNAGKKEIRTMKDGWTVKTKDRSLSAQYEHTIVVTDNGCEILTLRKDDTIPAIISHD 263
               SCOP domains d2q92a_ A: Methionine aminopeptidase                                                                                                                                                                                                                                   SCOP domains
               CATH domains 2q92A00 A:2-263 Creatinase/methionine aminopeptidase superfamily                                                                                                                                                                                                       CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh...ee...hhhhh....eeee..eee..............eeeeeeeeee..eeeeeeeeee....hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh..ee.....eee......eeeee................eeee..eee.....eee......eee.....eee..eeeee...eeee...........eee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------MAP_1              ----------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2q92 A   2 AISIKTPEDIEKMRVAGRLAAEVLEMIEPYVKPGVSTGELDRICNDYIVNEQHAVSACLGYHGYPKSVCISINEVVCHGIPDDAKLLKDGDIVNIDVTVIKDGFHGDTSKMFIVGKPTIMGERLCRITQESLYLALRMVKPGINLREIGAAIQKFVEAEGFSVVREYCGHGIGRGFHEEPQVLHYDSRETNVVLKPGMTFTIEPMVNAGKKEIRTMKDGWTVKTKDRSLSAQYEHTIVVTDNGCEILTLRKDDTIPAIISHD 263
                                    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

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 '\|'

Asymmetric/Biological Unit

Classes(

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Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

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Organisms( (-)

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Class: Alpha and beta proteins (a+b) (23004)

Fold: Creatinase/aminopeptidase (103)

Superfamily: Creatinase/aminopeptidase (103)

Family: Creatinase/aminopeptidase (99)

Protein domain: Methionine aminopeptidase (66)

Escherichia coli [TaxId: 562] (30)

d2q92a_

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Alpha-Beta Complex (3881)

Topology: Creatine Amidinohydrolase (114)

Homologous Superfamily: Creatinase/methionine aminopeptidase superfamily (114)

Escherichia coli. Organism_taxid: 562. (23)

2q92A00

A:2-263

(no "Pfam Domain" information available for 2Q92)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (MAP1_ECOLI | P0AE18)

molecular function
	GO:0004177	aminopeptidase activity	Catalysis of the hydrolysis of N-terminal amino acid residues from in a polypeptide chain.
	GO:0008198	ferrous iron binding	Interacting selectively and non-covalently with ferrous iron, Fe(II).
	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.
	GO:0070006	metalloaminopeptidase activity	Catalysis of the hydrolysis of N-terminal amino acid residues from a polypeptide chain by a mechanism in which water acts as a nucleophile, one or two metal ions hold the water molecule in place, and charged amino acid side chains are ligands for the metal ions.
	GO:0008235	metalloexopeptidase activity	Catalysis of the hydrolysis of a peptide bond not more than three residues from the N- or C-terminus of a polypeptide chain by a mechanism in which water acts as a nucleophile, one or two metal ions hold the water molecule in place, and charged amino acid side chains are ligands for the metal ions.
	GO:0008233	peptidase activity	Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
biological process
	GO:0070084	protein initiator methionine removal	The protein modification process in which the translation-initiating methionine or formylmethionine residue is removed from a protein.
	GO:0006508	proteolysis	The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
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.

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
		B23	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		MN	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		NA	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

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	Cis Peptide Bonds
		Glu A:180 - Pro A:181	[ RasMol ]

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	2q92
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	3.4.11.18
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1xnz	E. COLI METHIONINE AMINOPEPTIDASE MN(II) FORM IN COMPLEX WITH 5-(2-CHLOROPHENYL)FURAN-2-CARBOXYLIC ACID
2evc	E. COLI METHIONINE AMINOPEPTIDASE IN COMPLEX WITH 5-(2- (TRIFLUOROMETHYL)PHENYL)FURAN-2-CARBOXYLIC ACID
2evm	E. COLI METHIONINE AMINOPEPTIDASE IN COMPLEX WITH 5-(2,5- DICHLOROPHENYL)FURAN-2-CARBOXYLIC ACID
2gtx	E. COLI MONONUCLEAR METHIONINE AMINOPEPTIDASE CATALYSIS
2q93	E. COLI METHIONINE AMINOPEPTIDASE MN-FORM WITH INHIBITOR B21
2q94	E. COLI METHIONINE AMINOPEPTIDASE MN-FORM WITH INHIBITOR A04
2q95	E. COLI METHIONINE AMINOPEPTIDASE MN-FORM WITH INHIBITOR A05
2q96	E. COLI METHIONINE AMINOPEPTIDASE MN-FORM WITH INHIBITOR A18

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 1)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (1, 1)

Pfam Domains (0, 0)

Gene Ontology (10, 10)

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