1NAQ - JenaLib

Asymmetric Unit (Jmol Viewer)

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Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF CUTA1 FROM E.COLI AT 1.7 A RESOLUTION

Authors :   V. Calderone, S. Mangani, M. Benvenuti, M. S. Viezzoli, L. Banci, I. Bertini, Structural Proteomics In Europe (Spine)

Date :   28 Nov 02 (Deposition) - 25 Nov 03 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.70

Chains :   Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C  (1x)
Biol. Unit 2: D,E,F  (1x)
Biol. Unit 3: A,B,C,D,E,F  (1x)

Keywords :   Cuta, Copper Resistance, Structural Proteomics In Europe, Spine, Structural Genomics, Electron Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   F. Arnesano, L. Banci, M. Benvenuti, I. Bertini, V. Calderone, S. Mangani, M. S. Viezzoli
The Evolutionarily Conserved Trimeric Structure Of Cuta1 Proteins Suggests A Role In Signal Transduction.
J. Biol. Chem. V. 278 45999 2003
PubMed-ID: 12949080 | Reference-DOI: 10.1074/JBC.M304398200
(for further references see the PDB file header)

Molecule 1 - PERIPLASMIC DIVALENT CATION TOLERANCE PROTEIN CUTA
	Chains	:	A, B, C, D, E, F
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	CUTA
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Synonym	:	C-TYPE CYTOCHROME BIOGENESIS PROTEIN CYCY

		1	2	3	4	5	6
Asymmetric Unit	:	A	B	C	D	E	F
Biological Unit 1 (1x)	:	A	B	C
Biological Unit 2 (1x)	:				D	E	F
Biological Unit 3 (1x)	:	A	B	C	D	E	F

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 18)

No.	Name	Count	Type	Full Name
1	HG	8	Ligand/Ion	MERCURY (II) ION
2	MBO	10	Ligand/Ion	MERCURIBENZOIC ACID

Biological Unit 1 (1, 5)

No.	Name	Count	Type	Full Name
1	HG	-1	Ligand/Ion	MERCURY (II) ION
2	MBO	5	Ligand/Ion	MERCURIBENZOIC ACID

Biological Unit 2 (1, 5)

No.	Name	Count	Type	Full Name
1	HG	-1	Ligand/Ion	MERCURY (II) ION
2	MBO	5	Ligand/Ion	MERCURIBENZOIC ACID

Biological Unit 3 (1, 10)

No.	Name	Count	Type	Full Name
1	HG	-1	Ligand/Ion	MERCURY (II) ION
2	MBO	10	Ligand/Ion	MERCURIBENZOIC ACID

Asymmetric Unit (18, 18)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLU A:34 , CYS A:79 , HIS A:83	BINDING SITE FOR RESIDUE HG A 1333
02	AC2	SOFTWARE	CYS B:79 , HIS B:83	BINDING SITE FOR RESIDUE HG B 1666
03	AC3	SOFTWARE	GLU B:90 , CYS C:39 , TYR C:103 , TRP C:106	BINDING SITE FOR RESIDUE HG C 1888
04	AC4	SOFTWARE	CYS C:79 , HOH C:1933	BINDING SITE FOR RESIDUE HG C 1119
05	AC5	SOFTWARE	CYS D:39 , SER F:48 , GLU F:90	BINDING SITE FOR RESIDUE HG D 2222
06	AC6	SOFTWARE	GLU D:34 , CYS D:79 , HIS D:83	BINDING SITE FOR RESIDUE HG D 2223
07	AC7	SOFTWARE	GLU E:34 , CYS E:79 , HIS E:83	BINDING SITE FOR RESIDUE HG E 2226
08	AC8	SOFTWARE	CYS F:79 , SER F:82 , HIS F:83	BINDING SITE FOR RESIDUE HG F 2999
09	AC9	SOFTWARE	CYS A:16 , THR A:17 , THR A:23 , LEU A:27 , HIS A:84 , PRO A:85	BINDING SITE FOR RESIDUE MBO A 987
10	BC1	SOFTWARE	CYS A:39 , HOH A:1338 , HOH A:1375 , THR C:17 , HIS C:84 , THR C:88 , GLU C:90	BINDING SITE FOR RESIDUE MBO A 988
11	BC2	SOFTWARE	CYS B:16 , THR B:17 , LEU B:27 , LEU B:80 , HIS B:83 , HIS B:84 , HOH B:1715	BINDING SITE FOR RESIDUE MBO B 989
12	BC3	SOFTWARE	GLU A:61 , HIS A:84 , GLU A:90 , CYS B:39 , HOH B:1672 , HOH B:1710 , HOH B:1712	BINDING SITE FOR RESIDUE MBO B 990
13	BC4	SOFTWARE	CYS C:16 , THR C:17 , PRO C:19 , THR C:23 , LEU C:27 , HIS C:83 , HIS C:84 , PRO C:85 , HOH C:1916	BINDING SITE FOR RESIDUE MBO C 991
14	BC5	SOFTWARE	CYS D:16 , THR D:17 , LEU D:27 , HIS D:83 , HIS D:84 , PRO D:85	BINDING SITE FOR RESIDUE MBO D 992
15	BC6	SOFTWARE	CYS E:16 , THR E:17 , LEU E:27 , LEU E:80 , HIS E:83 , HIS E:84 , PRO E:85 , ARG F:112	BINDING SITE FOR RESIDUE MBO E 995
16	BC7	SOFTWARE	GLU D:61 , HIS D:84 , GLU D:90 , HOH D:2231 , HOH D:2275 , CYS E:39 , HOH E:2233 , HOH E:2278	BINDING SITE FOR RESIDUE MBO E 996
17	BC8	SOFTWARE	CYS F:16 , THR F:17 , PRO F:19 , LEU F:27 , LEU F:80 , HIS F:83 , HIS F:84 , PRO F:85 , HOH F:3011 , HOH F:3045	BINDING SITE FOR RESIDUE MBO F 997
18	BC9	SOFTWARE	GLU E:61 , HIS E:84 , GLU E:90 , HOH E:2227 , HOH E:2234 , HOH E:2288 , CYS F:39	BINDING SITE FOR RESIDUE MBO F 998

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

Asymmetric Unit

No.	Residues
1	Leu F:111	-	Arg F:112

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

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

(no "Exon" information available for 1NAQ)

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:106
 aligned with CUTA_ECOLI | P69488 from UniProtKB/Swiss-Prot  Length:112

    Alignment length:106
                                    16        26        36        46        56        66        76        86        96       106      
           CUTA_ECOLI     7 SNTASVVVLCTAPDEATAQDLAAKVLAEKLAACATLIPGATSLYYWEGKLEQEYEVQMILKTTVSHQQALLECLKSHHPYQTPELLVLPVTHGDTDYLSWLNASLR 112
               SCOP domains d1naqa_ A: Cut A1                                                                                          SCOP domains
               CATH domains 1naqA00 A:7-112  [code=3.30.70.830, no name defined]                                                       CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeee.hhhhhhhhhhhhhhh....eeeeeeeeeeeeee..eeeeeeeeeeeeeee..hhhhhhhhhhhhh......eeeee....hhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------- Transcript
                 1naq A   7 SNTASVVVLCTAPDEATAQDLAAKVLAEKLAACATLIPGATSLYYWEGKLEQEYEVQMILKTTVSHQQALLECLKSHHPYQTPELLVLPVTHGDTDYLSWLNASLR 112
                                    16        26        36        46        56        66        76        86        96       106

Chain B from PDB  Type:PROTEIN  Length:103
 aligned with CUTA_ECOLI | P69488 from UniProtKB/Swiss-Prot  Length:112

    Alignment length:103
                                    18        28        38        48        58        68        78        88        98       108   
           CUTA_ECOLI     9 TASVVVLCTAPDEATAQDLAAKVLAEKLAACATLIPGATSLYYWEGKLEQEYEVQMILKTTVSHQQALLECLKSHHPYQTPELLVLPVTHGDTDYLSWLNASL 111
               SCOP domains d1naqb_ B: Cut A1                                                                                       SCOP domains
               CATH domains 1naqB00 B:9-111  [code=3.30.70.830, no name defined]                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeee.hhhhhhhhhhhhhhh....eeeeeeeeeeeeee..eeeeeeeeeeeeeeehhhhhhhhhhhhhhh.......eeee..eehhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 1naq B   9 TASVVVLCTAPDEATAQDLAAKVLAEKLAACATLIPGATSLYYWEGKLEQEYEVQMILKTTVSHQQALLECLKSHHPYQTPELLVLPVTHGDTDYLSWLNASL 111
                                    18        28        38        48        58        68        78        88        98       108

Chain C from PDB  Type:PROTEIN  Length:105
 aligned with CUTA_ECOLI | P69488 from UniProtKB/Swiss-Prot  Length:112

    Alignment length:105
                                    17        27        37        47        57        67        77        87        97       107     
           CUTA_ECOLI     8 NTASVVVLCTAPDEATAQDLAAKVLAEKLAACATLIPGATSLYYWEGKLEQEYEVQMILKTTVSHQQALLECLKSHHPYQTPELLVLPVTHGDTDYLSWLNASLR 112
               SCOP domains d1naqc_ C: Cut A1                                                                                         SCOP domains
               CATH domains 1naqC00 C:8-112  [code=3.30.70.830, no name defined]                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeee.hhhhhhhhhhhhhhh....eeeeeeeeeeeeee..eeeeeeeeeeeeeee..hhhhhhhhhhhhh......eeeee..eehhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------- Transcript
                 1naq C   8 NTASVVVLCTAPDEATAQDLAAKVLAEKLAACATLIPGATSLYYWEGKLEQEYEVQMILKTTVSHQQALLECLKSHHPYQTPELLVLPVTHGDTDYLSWLNASLR 112
                                    17        27        37        47        57        67        77        87        97       107

Chain D from PDB  Type:PROTEIN  Length:104
 aligned with CUTA_ECOLI | P69488 from UniProtKB/Swiss-Prot  Length:112

    Alignment length:104
                                    17        27        37        47        57        67        77        87        97       107    
           CUTA_ECOLI     8 NTASVVVLCTAPDEATAQDLAAKVLAEKLAACATLIPGATSLYYWEGKLEQEYEVQMILKTTVSHQQALLECLKSHHPYQTPELLVLPVTHGDTDYLSWLNASL 111
               SCOP domains d1naqd_ D: Cut A1                                                                                        SCOP domains
               CATH domains 1naqD00 D:8-111  [code=3.30.70.830, no name defined]                                                     CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeee.hhhhhhhhhhhhhhh....eeeeeeeeeeeeee..eeeeeeeeeeeeeee..hhhhhhhhhhhhh.......eeee..eehhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------- Transcript
                 1naq D   8 NTASVVVLCTAPDEATAQDLAAKVLAEKLAACATLIPGATSLYYWEGKLEQEYEVQMILKTTVSHQQALLECLKSHHPYQTPELLVLPVTHGDTDYLSWLNASL 111
                                    17        27        37        47        57        67        77        87        97       107

Chain E from PDB  Type:PROTEIN  Length:105
 aligned with CUTA_ECOLI | P69488 from UniProtKB/Swiss-Prot  Length:112

    Alignment length:105
                                    16        26        36        46        56        66        76        86        96       106     
           CUTA_ECOLI     7 SNTASVVVLCTAPDEATAQDLAAKVLAEKLAACATLIPGATSLYYWEGKLEQEYEVQMILKTTVSHQQALLECLKSHHPYQTPELLVLPVTHGDTDYLSWLNASL 111
               SCOP domains d1naqe_ E: Cut A1                                                                                         SCOP domains
               CATH domains 1naqE00 E:7-111  [code=3.30.70.830, no name defined]                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeee.hhhhhhhhhhhhhhh....eeeeeeeeeeeeee..eeeeeeeeeeeeeee..hhhhhhhhhhhhh.......eeee..eehhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------- Transcript
                 1naq E   7 SNTASVVVLCTAPDEATAQDLAAKVLAEKLAACATLIPGATSLYYWEGKLEQEYEVQMILKTTVSHQQALLECLKSHHPYQTPELLVLPVTHGDTDYLSWLNASL 111
                                    16        26        36        46        56        66        76        86        96       106

Chain F from PDB  Type:PROTEIN  Length:105
 aligned with CUTA_ECOLI | P69488 from UniProtKB/Swiss-Prot  Length:112

    Alignment length:105
                                    17        27        37        47        57        67        77        87        97       107     
           CUTA_ECOLI     8 NTASVVVLCTAPDEATAQDLAAKVLAEKLAACATLIPGATSLYYWEGKLEQEYEVQMILKTTVSHQQALLECLKSHHPYQTPELLVLPVTHGDTDYLSWLNASLR 112
               SCOP domains d1naqf_ F: Cut A1                                                                                         SCOP domains
               CATH domains 1naqF00 F:8-112  [code=3.30.70.830, no name defined]                                                      CATH domains
           Pfam domains (1) ---CutA1-1naqF01 F:11-112                                                                                 Pfam domains (1)
           Pfam domains (2) ---CutA1-1naqF02 F:11-112                                                                                 Pfam domains (2)
           Pfam domains (3) ---CutA1-1naqF03 F:11-112                                                                                 Pfam domains (3)
           Pfam domains (4) ---CutA1-1naqF04 F:11-112                                                                                 Pfam domains (4)
           Pfam domains (5) ---CutA1-1naqF05 F:11-112                                                                                 Pfam domains (5)
           Pfam domains (6) ---CutA1-1naqF06 F:11-112                                                                                 Pfam domains (6)
         Sec.struct. author ...eeeeeeee.hhhhhhhhhhhhhhh....eeeeeeeeeeeeee..eeeeeeeeeeeeeee..hhhhhhhhhhhhh.......eeee..eehhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------- Transcript
                 1naq F   8 NTASVVVLCTAPDEATAQDLAAKVLAEKLAACATLIPGATSLYYWEGKLEQEYEVQMILKTTVSHQQALLECLKSHHPYQTPELLVLPVTHGDTDYLSWLNASLR 112
                                    17        27        37        47        57        67        77        87        97       107

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 Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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

Fold: Ferredoxin-like (1795)

Superfamily: GlnB-like (79)

Family: Divalent ion tolerance proteins CutA (CutA1) (22)

Protein domain: Cut A1 (14)

Escherichia coli [TaxId: 562] (4)

1a	d1naqa_	A:
1b	d1naqb_	B:
1c	d1naqc_	C:
1d	d1naqd_	D:
1e	d1naqe_	E:
1f	d1naqf_	F:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Alpha-Beta Plaits (1688)

Homologous Superfamily: [code=3.30.70.830, no name defined] (20)

Escherichia coli. Organism_taxid: 562. (1)

1a	1naqD00	D:8-111
1b	1naqC00	C:8-112
1c	1naqE00	E:7-111
1d	1naqF00	F:8-112
1e	1naqB00	B:9-111
1f	1naqA00	A:7-112

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: GlnB-like (50)

Family: CutA1 (13)

Escherichia coli (strain K12) (1)

1a	CutA1-1naqF01	F:11-112
1b	CutA1-1naqF02	F:11-112
1c	CutA1-1naqF03	F:11-112
1d	CutA1-1naqF04	F:11-112
1e	CutA1-1naqF05	F:11-112
1f	CutA1-1naqF06	F:11-112

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D,E,F (CUTA_ECOLI | P69488)

molecular function
	GO:0005507	copper ion binding	Interacting selectively and non-covalently with copper (Cu) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0051260	protein homooligomerization	The process of creating protein oligomers, compounds composed of a small number, usually between three and ten, of identical component monomers. Oligomers may be formed by the polymerization of a number of monomers or the depolymerization of a large protein polymer.
	GO:0046688	response to copper ion	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a copper ion stimulus.
	GO:0010038	response to metal ion	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a metal ion stimulus.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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	Cis Peptide Bonds
		Leu F:111 - Arg F:112	[ RasMol ]

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	1naq
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	CUTA_ECOLI \| P69488	:	3aa8 3aa9 3ah6 3x3u 4y65 4y6i

1kr4	STRUCTURE OF PROTEIN TM1056, CUTA RELATED ID: CIRMMP03 RELATED DB: TARGETDB

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 18)

Sites (18, 18)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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SCOP Domains (1, 6)

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