1HZV - JenaLib

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Biol. Unit 1 - sites (Jmol Viewer)

Title :   DOMAIN SWING UPON HIS TO ALA MUTATION IN NITRITE REDUCTASE OF PSEUDOMONAS AERUGINOSA

Authors :   K. Brown, M. Tegoni, C. Cambillau

Date :   26 Jan 01 (Deposition) - 26 Sep 01 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.83

Chains :   Asym. Unit : A
Biol. Unit 1: A  (2x)

Keywords :   8-Bladed Beta Propeller, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   K. Brown, V. Roig-Zamboni, F. Cutruzzola', M. Arese, W. Sun, M. Brunori, C. Cambillau, M. Tegoni
Domain Swing Upon His To Ala Mutation In Nitrite Reductase Of Pseudomonas Aeruginosa.
J. Mol. Biol. V. 312 541 2001
PubMed-ID: 11563915 | Reference-DOI: 10.1006/JMBI.2001.4986
(for further references see the PDB file header)

Molecule 1 - NITRITE REDUCTASE
	Chains	:	A
	EC Number	:	1.9.3.2
	Engineered	:	YES
	Expression System	:	PSEUDOMONAS PUTIDA
	Expression System Plasmid	:	PNM185 (PEMBL18NR)
	Expression System Strain	:	PAW340
	Expression System Taxid	:	303
	Expression System Vector Type	:	PLASMID
	Gene	:	NIRS
	Mutation	:	YES
	Organism Scientific	:	PSEUDOMONAS AERUGINOSA
	Organism Taxid	:	287

		1
Asymmetric Unit	:	A
Biological Unit 1 (2x)	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 3)

No.	Name	Count	Type	Full Name
1	DHE	1	Ligand/Ion	HEME D
2	HEC	1	Ligand/Ion	HEME C
3	NO	1	Ligand/Ion	NITRIC OXIDE

Biological Unit 1 (2, 4)

No.	Name	Count	Type	Full Name
1	DHE	2	Ligand/Ion	HEME D
2	HEC	2	Ligand/Ion	HEME C
3	NO	-1	Ligand/Ion	NITRIC OXIDE

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ILE A:42 , ARG A:46 , CYS A:47 , CYS A:50 , HIS A:51 , LEU A:63 , ARG A:71 , THR A:84 , LEU A:86 , GLY A:87 , HOH A:700	BINDING SITE FOR RESIDUE HEC A 601
2	AC2	SOFTWARE	ARG A:156 , HIS A:182 , ARG A:185 , ARG A:198 , ARG A:225 , SER A:226 , TYR A:245 , ALA A:283 , ALA A:284 , ILE A:285 , HIS A:327 , ARG A:372 , PHE A:425 , GLN A:483 , TRP A:498 , GLY A:531 , PHE A:533 , NO A:603 , HOH A:644 , HOH A:655 , HOH A:785 , HOH A:871 , HOH A:872 , HOH A:876 , HOH A:878	BINDING SITE FOR RESIDUE DHE A 602
3	AC3	SOFTWARE	ASP A:328 , DHE A:602 , HOH A:870	BINDING SITE FOR RESIDUE NO A 603

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

Asymmetric Unit

No.	Residues
1	Trp A:246	-	Pro A:247

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

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CYTC	PS51007	Cytochrome c family profile.	NIRS_PSEAE	59-138	1	A:34-113

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CYTC	PS51007	Cytochrome c family profile.	NIRS_PSEAE	59-138	2	A:34-113

(no "Exon" information available for 1HZV)

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
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Chain A from PDB  Type:PROTEIN  Length:514
 aligned with NIRS_PSEAE | P24474 from UniProtKB/Swiss-Prot  Length:568

    Alignment length:521
                                    57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567 
           NIRS_PSEAE    48 VRTNGAPDMSESEFNEAKQIYFQRCAGCHGVLRKGATGKPLTPDITQQRGQQYLEALITYGTPLGMPNWGSSGELSKEQITLMAKYIQHTPPQPPEWGMPEMRESWKVLVKPEDRPKKQLNDLDLPNLFSVTLRDAGQIALVDGDSKKIVKVIDTGYAVHISRMSASGRYLLVIGRDARIDMIDLWAKEPTKVAEIKIGIEARSVESSKFKGYEDRYTIAGAYWPPQFAIMDGETLEPKQIVSTRGMTVDTQTYHPEPRVAAIIASHEHPEFIVNVKETGKVLLVNYKDIDNLTVTSIGAAPFLHDGGWDSSHRYFMTAANNSNKVAVIDSKDRRLSALVDVGKTPHPGRGANFVHPKYGPVWSTSHLGDGSISLIGTDPKNHPQYAWKKVAELQGQGGGSLFIKTHPKSSHLYVDTTFNPDARISQSVAVFDLKNLDAKYQVLPIAEWADLGEGAKRVVQPEYNKRGDEVWFSVWNGKNDSSALVVVDDKTLKLKAVVKDPRLITPTGKFNVYNTQHDVY 568
               SCOP domains d1hzva1 A:23-117 N-terminal (heme c) domain of cytochrome cd1-nitr       ite reductase         d1hzva2 A:118-543 C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase                                                                                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains 1hzvA01 A:23-116 Cytochrome c                                                                 1hzvA02 A:117-542  [code=2.140.10.20, no name defined]                                                                                                                                                                                                                                                                                                                                                                                    - CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........hhhhhhhhhhhhhh................hhhhhhhhh.hhhhhhhhhh.....-------..hhhhhhhhhhhh..........hhhhhhhhh.................hhh.eeeeee....eeeeee.....eeeeee......eeee.....eeeee....eeeeee.......eeeeee...eeeeeee.........eeeeeeee..eeeeee.....eeeeee..ee......ee....eeeeee.....eeeeee....eeeeee.......eeeeee....eeeeee.....eeeeee....eeeeee....eeeeeee....eeeeeeeeeee...eeeeeeee.....eeeee............eeeee.........ee......eeee........hhhhheeeee........eeehhhhhhh......eeeeeee.....eeeeeee.......eeeeee.....eeeeee......eeeeeehhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------CYTC  PDB: A:34-113 UniProt: 59-138                                             ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1hzv A  23 VRTNGAPDMSESEFNEAKQIYFQRCAGCHGVLRKGATGKPLTPDITQQRGQQYLEALITYGTPLGM-------ELSKEQITLMAKYIQHTPPQPPEWGMPEMRESWKVLVKPEDRPKKQLNDLDLPNLFSVTLRDAGQIALVDGDSKKIVKVIDTGYAVHISRMSASGRYLLVIGRDARIDMIDLWAKEPTKVAEIKIGIEARSVESSKFKGYEDRYTIAGAYWPPQFAIMDGETLEPKQIVSTRGMTVDTQTYHPEPRVAAIIASHEHPEFIVNVKETGKVLLVNYKDIDNLTVTSIGAAPFLHDGGWDSSHRYFMTAANNSNKVAVIDSKDRRLSALVDVGKTPAPGRGANFVHPKYGPVWSTSHLGDGSISLIGTDPKNHPQYAWKKVAELQGQGGGSLFIKTHPKSSHLYVDTTFNPDARISQSVAVFDLKNLDAKYQVLPIAEWADLGEGAKRVVQPEYNKRGDEVWFSVWNGKNDSSALVVVDDKTLKLKAVVKDPRLITPTGKFNVYNTQHDVY 543
                                    32        42        52        62        72        82     |   -   |   102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542 
                                                                                            88      96

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 '\|'

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

Asymmetric Unit(hide GO term definitions)

Chain A (NIRS_PSEAE | P24474)

molecular function
	GO:0009055	electron carrier activity	Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
	GO:0020037	heme binding	Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
	GO:0050418	hydroxylamine reductase activity	Catalysis of the reaction: NH3 + H2O + acceptor = hydroxylamine + reduced acceptor.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0050421	nitrite reductase (NO-forming) activity	Catalysis of the reaction: nitric oxide + H2O + ferricytochrome c = nitrite + ferrocytochrome c + 2 H+.
	GO:0016491	oxidoreductase activity	Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
cellular component
	GO:0042597	periplasmic space	The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

Asymmetric Unit
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	Cis Peptide Bonds
		Trp A:246 - Pro A:247	[ RasMol ]

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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	1hzv
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	1.9.3.2
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		Domain Information	:	XDom
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UniProtKB/Swiss-Prot
	NIRS_PSEAE \| P24474	:	1bl9 1gjq 1hzu 1n15 1n50 1n90 1nir 1nno

1hzu	1HZU IS NITRITE REDUCTASE OF PSEUDOMONAS AERUGINOSA WITH H327A
1nir	1NIR IS OXYDIZED NITRITE REDUCTASE FROM PSEUDOMONAS AERUGINOSA

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 3)

Sites (3, 3)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

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