1GMW - JenaLib

Asym./Biol. Unit (Jmol Viewer)

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

Title :   STRUCTURE OF UREE

Authors :   H. K. Song, S. B. Mulrooney, R. Huber, R. Hausinger

Date :   24 Sep 01 (Deposition) - 28 Nov 01 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.50

Chains :   Asym./Biol. Unit : A,B,C,D

Keywords :   Metallochaperone, Chaperone (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. K. Song, S. B. Mulrooney, R. Huber, R. Hausinger
Crystal Structure Of Klebsiella Aerogenes Uree, A Nickel-Binding Metallochaperone For Urease Activation
J. Biol. Chem. V. 276 49359 2001
PubMed-ID: 11591723 | Reference-DOI: 10.1074/JBC.M108619200

Molecule 1 - UREE
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	RESIDUES 1-143
	Mutation	:	YES
	Organism Scientific	:	KLEBSIELLA AEROGENES
	Organism Taxid	:	28451

		1	2	3	4
Asymmetric/Biological Unit	:	A	B	C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 22)

No.	Name	Count	Type	Full Name
1	CU	6	Ligand/Ion	COPPER (II) ION
2	MSE	16	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:110 , HIS A:112 , HOH A:2034 , THR C:33 , ASP C:39	BINDING SITE FOR RESIDUE CU A1139
2	AC2	SOFTWARE	HIS B:96 , HIS D:96	BINDING SITE FOR RESIDUE CU B1139
3	AC3	SOFTWARE	HIS B:110 , HIS B:112 , THR D:33 , GLY D:37 , ASP D:39 , HOH D:2010	BINDING SITE FOR RESIDUE CU B1140
4	AC4	SOFTWARE	HIS A:96 , HIS C:96	BINDING SITE FOR RESIDUE CU C1139
5	AC5	SOFTWARE	HOH A:2009 , HIS C:110 , HIS C:112	BINDING SITE FOR RESIDUE CU C1140
6	AC6	SOFTWARE	HIS D:110 , HIS D:112 , HOH D:2026 , HOH D:2027	BINDING SITE FOR RESIDUE CU D1139

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

(no "Cis Peptide Bond" information available for 1GMW)

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

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

(no "Exon" information available for 1GMW)

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:138
 aligned with UREE_ENTAE | P18317 from UniProtKB/Swiss-Prot  Length:158

    Alignment length:138
                                    10        20        30        40        50        60        70        80        90       100       110       120       130        
           UREE_ENTAE     1 MLYLTQRLEIPAAATASVTLPIDVRVKSRVKVTLNDGRDAGLLLPRGLLLRGGDVLSNEEGTEFVQVIAADEEVSVVRCDDPFMLAKACYHLGNRHVPLQIMPGELRYHHDHVLDDMLRQFGLTVTFGQLPFEPEAGA 138
               SCOP domains d1gmwa1 A:1-70 Urease metallochaperone UreE, N-terminal domain        d1gmwa2 A:71-138 Urease metallochaperone UreE, C-terminal domain     SCOP domains
               CATH domains -1gmwA02 A:2-71 Urease metallochaperone UreE, N-terminal domain        1gmwA01 A:72-135  [code=3.30.70.790, no name defined]           --- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..ee.ee........eeeee........eeeee.....eeeee...........eee......eeeeee.eeeeeeee..hhhhhhhhhhhhhhh....eee..eeeee.hhhhhhhhh.....eeeeeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1gmw A   1 mLYLTQRLEIPAAATASVTLPIDVRVKSRVKVTLNDGRDAGLLLPRGLLLRGGDVLSNEEGTEFVQVIAADEEVSVVRCDDPFmLAKACYALGNRHVPLQImPGELRYHHDHVLDDmLRQFGLTVTFGQLPFEPEAGA 138
                            |       10        20        30        40        50        60        70        80   |    90       100 |     110      |120       130        
                            |                                                                                 84-MSE           102-MSE        117-MSE                 
                            1-MSE

Chain B from PDB  Type:PROTEIN  Length:138
 aligned with UREE_ENTAE | P18317 from UniProtKB/Swiss-Prot  Length:158

    Alignment length:138
                                    10        20        30        40        50        60        70        80        90       100       110       120       130        
           UREE_ENTAE     1 MLYLTQRLEIPAAATASVTLPIDVRVKSRVKVTLNDGRDAGLLLPRGLLLRGGDVLSNEEGTEFVQVIAADEEVSVVRCDDPFMLAKACYHLGNRHVPLQIMPGELRYHHDHVLDDMLRQFGLTVTFGQLPFEPEAGA 138
               SCOP domains d1gmwb1 B:1-70 Urease metallochaperone UreE, N-terminal domain        d1gmwb2 B:71-138 Urease metallochaperone UreE, C-terminal domain     SCOP domains
               CATH domains -1gmwB02 B:2-71 Urease metallochaperone UreE, N-terminal domain        1gmwB01 B:72-135  [code=3.30.70.790, no name defined]           --- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..ee...........eeeeehhhhhh..eeeee.....eeeee...........eee......eeeeee.eeeeeeee..hhhhhhhhhhhhhhh....eee..eeeee.hhhhhhhhhh....eeeeeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1gmw B   1 mLYLTQRLEIPAAATASVTLPIDVRVKSRVKVTLNDGRDAGLLLPRGLLLRGGDVLSNEEGTEFVQVIAADEEVSVVRCDDPFmLAKACYALGNRHVPLQImPGELRYHHDHVLDDmLRQFGLTVTFGQLPFEPEAGA 138
                            |       10        20        30        40        50        60        70        80   |    90       100 |     110      |120       130        
                            1-MSE                                                                             84-MSE           102-MSE        117-MSE

Chain C from PDB  Type:PROTEIN  Length:138
 aligned with UREE_ENTAE | P18317 from UniProtKB/Swiss-Prot  Length:158

    Alignment length:138
                                    10        20        30        40        50        60        70        80        90       100       110       120       130        
           UREE_ENTAE     1 MLYLTQRLEIPAAATASVTLPIDVRVKSRVKVTLNDGRDAGLLLPRGLLLRGGDVLSNEEGTEFVQVIAADEEVSVVRCDDPFMLAKACYHLGNRHVPLQIMPGELRYHHDHVLDDMLRQFGLTVTFGQLPFEPEAGA 138
               SCOP domains d1gmwc1 C:1-70 Urease metallochaperone UreE, N-terminal domain        d1gmwc2 C:71-138 Urease metallochaperone UreE, C-terminal domain     SCOP domains
               CATH domains -1gmwC02 C:2-71 Urease metallochaperone UreE, N-terminal domain        1gmwC01 C:72-135  [code=3.30.70.790, no name defined]           --- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eee.ee.........eeee........eeeee.....eeeee...........eee......eeeeee.eeeeeeee..hhhhhhhhhhhhhhh....eee..eeeee.hhhhhhhhhh...eeeeeeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1gmw C   1 mLYLTQRLEIPAAATASVTLPIDVRVKSRVKVTLNDGRDAGLLLPRGLLLRGGDVLSNEEGTEFVQVIAADEEVSVVRCDDPFmLAKACYALGNRHVPLQImPGELRYHHDHVLDDmLRQFGLTVTFGQLPFEPEAGA 138
                            |       10        20        30        40        50        60        70        80   |    90       100 |     110      |120       130        
                            1-MSE                                                                             84-MSE           102-MSE        117-MSE

Chain D from PDB  Type:PROTEIN  Length:138
 aligned with UREE_ENTAE | P18317 from UniProtKB/Swiss-Prot  Length:158

    Alignment length:138
                                    10        20        30        40        50        60        70        80        90       100       110       120       130        
           UREE_ENTAE     1 MLYLTQRLEIPAAATASVTLPIDVRVKSRVKVTLNDGRDAGLLLPRGLLLRGGDVLSNEEGTEFVQVIAADEEVSVVRCDDPFMLAKACYHLGNRHVPLQIMPGELRYHHDHVLDDMLRQFGLTVTFGQLPFEPEAGA 138
               SCOP domains d1gmwd1 D:1-70 Urease metallochaperone UreE, N-terminal domain        d1gmwd2 D:71-138 Urease metallochaperone UreE, C-terminal domain     SCOP domains
               CATH domains -1gmwD02 D:2-71 Urease metallochaperone UreE, N-terminal domain        1gmwD01 D:72-135  [code=3.30.70.790, no name defined]           --- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..ee.ee........eeeeehhhhhh..eeeee.....eeeee...........eee......eeeeee.eeeeeeee..hhhhhhhhhhhhhhh....eee..eeeee.hhhhhhhhhh....eeeeeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1gmw D   1 mLYLTQRLEIPAAATASVTLPIDVRVKSRVKVTLNDGRDAGLLLPRGLLLRGGDVLSNEEGTDFVQVIAADEEVSVVRCDDPFmLAKACYALGNRHVPLQImPGELRYHHDHVLDDmLRQFGLTVTFGQLPFEPEAGA 138
                            |       10        20        30        40        50        60        70        80   |    90       100 |     110      |120       130        
                            1-MSE                                                                             84-MSE           102-MSE        117-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 '\|'

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Alpha-Beta Plaits (1688)

Homologous Superfamily: [code=3.30.70.790, no name defined] (6)

Klebsiella aerogenes. Organism_taxid: 28451. (3)

1a	1gmwA01	A:72-135
1b	1gmwB01	B:72-135
1c	1gmwC01	C:72-135
1d	1gmwD01	D:72-135

Class: Mainly Beta (13760)

Architecture: Sandwich (5577)

Topology: HSP40/DNAj peptide-binding domain (12)

Homologous Superfamily: Urease metallochaperone UreE, N-terminal domain (9)

Klebsiella aerogenes. Organism_taxid: 28451. (3)

2a	1gmwA02	A:2-71
2b	1gmwB02	B:2-71
2c	1gmwC02	C:2-71
2d	1gmwD02	D:2-71

(no "Pfam Domain" information available for 1GMW)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C,D (UREE_ENTAE | P18317)

molecular function
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0016151	nickel cation binding	Interacting selectively and non-covalently with nickel (Ni) cations.
	GO:0051082	unfolded protein binding	Interacting selectively and non-covalently with an unfolded protein.
biological process
	GO:0018307	enzyme active site formation	The modification of part of an enzyme to form the active site.
	GO:0006461	protein complex assembly	The aggregation, arrangement and bonding together of a set of components to form a protein complex.
	GO:0006457	protein folding	The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.
	GO:0019627	urea metabolic process	The chemical reactions and pathways involving urea, the water soluble compound O=C-(NH2)2.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1gmw)

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	1gmw
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	UREE_ENTAE \| P18317	:	1gmu 1gmv

1gmu	STRUCTURE OF UREE
1gmv	STRUCTURE OF UREE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 22)

Sites (6, 6)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (2, 8)

CATH Domains (2, 8)

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Gene Ontology (8, 8)

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