3NP1 - JenaLib

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Title :   CRYSTAL STRUCTURE OF THE COMPLEX OF NITROPHORIN 1 FROM RHODNIUS PROLIXUS WITH CYANIDE

Authors :   A. Weichsel, J. F. Andersen, D. E. Champagne, F. A. Walker, W. R. Montfort

Date :   22 Jan 98 (Deposition) - 27 May 98 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

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

Keywords :   Nitric Oxide Transport, Ferric Heme, Histamine, Antihistamine, Vasodilator, Lipocalin, Cyanide (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Weichsel, J. F. Andersen, D. E. Champagne, F. A. Walker, W. R. Montfort
Crystal Structures Of A Nitric Oxide Transport Protein From A Blood-Sucking Insect.
Nat. Struct. Biol. V. 5 304 1998
PubMed-ID: 9546222 | Reference-DOI: 10.1038/NSB0498-304
(for further references see the PDB file header)

Molecule 1 - NITROPHORIN 1
	Cell Line	:	BL21
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PET17B-NP1
	Expression System Strain	:	BL21 (DE3)
	Expression System Taxid	:	469008
	Expression System Vector	:	PET17B
	Organ	:	SALIVARY GLAND
	Organism Scientific	:	RHODNIUS PROLIXUS
	Organism Taxid	:	13249
	Synonym	:	NP1

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 6)

No.	Name	Count	Type	Full Name
1	CYN	2	Ligand/Ion	CYANIDE ION
2	HEM	2	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
3	PO4	2	Ligand/Ion	PHOSPHATE ION

Biological Unit 1 (3, 3)

No.	Name	Count	Type	Full Name
1	CYN	1	Ligand/Ion	CYANIDE ION
2	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
3	PO4	1	Ligand/Ion	PHOSPHATE ION

Biological Unit 2 (3, 3)

No.	Name	Count	Type	Full Name
1	CYN	1	Ligand/Ion	CYANIDE ION
2	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
3	PO4	1	Ligand/Ion	PHOSPHATE ION

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HEM A:302	BINDING SITE FOR RESIDUE CYN A 185
2	AC2	SOFTWARE	HEM B:303	BINDING SITE FOR RESIDUE CYN B 185
3	AC3	SOFTWARE	ASP A:113 , SER A:115 , SER A:116 , LYS A:148 , HOH A:320 , HOH A:321	BINDING SITE FOR RESIDUE PO4 A 301
4	AC4	SOFTWARE	ASP B:113 , SER B:115 , SER B:116 , LYS B:148 , HOH B:397	BINDING SITE FOR RESIDUE PO4 B 302
5	AC5	SOFTWARE	VAL A:25 , TYR A:28 , ASP A:30 , TYR A:40 , LEU A:44 , LEU A:57 , HIS A:59 , PHE A:68 , ASP A:70 , PHE A:86 , LYS A:88 , TYR A:105 , LEU A:123 , LYS A:125 , CYN A:185 , HOH A:313	BINDING SITE FOR RESIDUE HEM A 302
6	AC6	SOFTWARE	TYR B:40 , LEU B:44 , LEU B:57 , HIS B:59 , PHE B:68 , ASP B:70 , LYS B:88 , TYR B:105 , LEU B:123 , LYS B:125 , CYN B:185 , HOH B:382	BINDING SITE FOR RESIDUE HEM B 303

Asymmetric Unit

No.	Residues
1	A:2	-	A:122
2	A:41	-	A:171
3	B:2	-	B:122
4	B:41	-	B:171

(no "Cis Peptide Bond" information available for 3NP1)

(no "SAP(SNP)/Variant" information available for 3NP1)

(no "PROSITE Motif" information available for 3NP1)

(no "Exon" information available for 3NP1)

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
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	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:184
 aligned with NP1_RHOPR | Q26239 from UniProtKB/Swiss-Prot  Length:207

    Alignment length:184
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203    
            NP1_RHOPR    24 KCTKNALAQTGFNKDKYFNGDVWYVTDYLDLEPDDVPKRYCAALAAGTASGKLKEALYHYDPKTQDTFYDVSELQEESPGKYTANFKKVEKNGNVKVDVTSGNYYTFTVMYADDSSALIHTCLHKGNKDLGDLYAVLNRNKDTNAGDKVKGAVTAASLKFSDFISTKDNKCEYDNVSLKSLLTK 207
               SCOP domains d3np1a_ A: Nitrophorin 1                                                                                                                                                                 SCOP domains
               CATH domains 3np1A00 A:1-184  [code=2.40.128.20, no name defined]                                                                                                                                     CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhh...eeeeeeeeee..........eeeeeeeee..eeeeeeeee......eeeeeeeeeeee..eeeeeeeee.............eeeeeeeeee...eeeeeeeeee......eeeeeee........hhhhhhhhhh...hhh...hhh......hhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3np1 A   1 KCTKNALAQTGFNKDKYFNGDVWYVTDYLDLEPDDVPKRYCAALAAGTASGKLKEALYHYDPKTQDTFYDVSELQEESPGKYTANFKKVEKNGNVKVDVTSGNYYTFTVMYADDSSALIHTCLHKGNKDLGDLYAVLNRNKDTNAGDKVKGAVTAASLKFSDFISTKDNKCEYDNVSLKSLLTK 184
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180

Chain B from PDB  Type:PROTEIN  Length:184
 aligned with NP1_RHOPR | Q26239 from UniProtKB/Swiss-Prot  Length:207

    Alignment length:184
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203    
            NP1_RHOPR    24 KCTKNALAQTGFNKDKYFNGDVWYVTDYLDLEPDDVPKRYCAALAAGTASGKLKEALYHYDPKTQDTFYDVSELQEESPGKYTANFKKVEKNGNVKVDVTSGNYYTFTVMYADDSSALIHTCLHKGNKDLGDLYAVLNRNKDTNAGDKVKGAVTAASLKFSDFISTKDNKCEYDNVSLKSLLTK 207
               SCOP domains d3np1b_ B: Nitrophorin 1                                                                                                                                                                 SCOP domains
               CATH domains 3np1B00 B:1-184  [code=2.40.128.20, no name defined]                                                                                                                                     CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhh....eeeeeeeee.........eeeeeeeeee..eeeeeeeeee.....eeeeeeeeeeee..eeeeeeeee.............eeeeeeeeee...eeeeeeeeee.....eeeeeeee........hhhhhhhhhh...hhh....hhh.....hhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3np1 B   1 KCTKNALAQTGFNKDKYFNGDVWYVTDYLDLEPDDVPKRYCAALAAGTASGKLKEALYHYDPKTQDTFYDVSELQEESPGKYTANFKKVEKNGNVKVDVTSGNYYTFTVMYADDSSALIHTCLHKGNKDLGDLYAVLNRNKDTNAGDKVKGAVTAASLKFSDFISTKDNKCEYDNVSLKSLLTK 184
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180

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 '\|'

Asymmetric Unit

Classes(

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Folds(

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Superfamilies( (-)

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Families(

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Protein Domains( (-)

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Organisms( (-)

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Class: All beta proteins (24004)

Fold: Lipocalins (514)

Superfamily: Lipocalins (514)

Family: Retinol binding protein-like (261)

Protein domain: Nitrophorin 1 (6)

Rhodnius prolixus [TaxId: 13249] (6)

1a	d3np1a_	A:
1b	d3np1b_	B:

Asymmetric Unit

Classes(

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Architectures( (-)

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Topologies( (-)

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Homologous Superfamilies( (-)

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Organisms( (-)

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Class: Mainly Beta (13760)

Architecture: Beta Barrel (4804)

Topology: Lipocalin (526)

Homologous Superfamily: [code=2.40.128.20, no name defined] (352)

Rhodnius prolixus. Organism_taxid: 13249. Cell_line: bl21. (4)

1a	3np1A00	A:1-184
1b	3np1B00	B:1-184

(no "Pfam Domain" information available for 3NP1)

Asymmetric Unit(hide GO term definitions)

Chain A,B (NP1_RHOPR | Q26239)

molecular function
	GO:0051381	histamine binding	Interacting selectively and non-covalently with histamine, a physiologically active amine, found in plant and animal tissue and released from mast cells as part of an allergic reaction in humans.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0070026	nitric oxide binding	Interacting selectively and non-covalently with nitric oxide (NO).
biological process
	GO:0050880	regulation of blood vessel size	Any process that modulates the size of blood vessels.
	GO:0042311	vasodilation	An increase in the internal diameter of blood vessels, especially arterioles or capillaries, due to relaxation of smooth muscle cells that line the vessels, and usually resulting in a decrease in blood pressure.
cellular component
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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(no "Cis Peptide Bonds" information available for 3np1)

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	3np1
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	NP1_RHOPR \| Q26239	:	1np1 1u17 1u18 2np1 4np1

(no "Related Entries Specified in the PDB File" available for 3NP1)

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