1NP1 - JenaLib

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

Authors :   A. Weichsel, W. R. Montfort

Date :   19 Jan 98 (Deposition) - 27 May 98 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

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 (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	HEM	2	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
2	HSM	2	Ligand/Ion	HISTAMINE
3	PO4	2	Ligand/Ion	PHOSPHATE ION

Biological Unit 1 (3, 3)

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

Biological Unit 2 (3, 3)

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

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:113 , SER A:115 , SER A:116 , HOH A:344	BINDING SITE FOR RESIDUE PO4 A 301
2	AC2	SOFTWARE	ASP B:113 , SER B:116 , LYS B:148 , HOH B:323 , HOH B:327 , HOH B:378	BINDING SITE FOR RESIDUE PO4 B 302
3	AC3	SOFTWARE	VAL A:25 , TYR A:28 , ASP A:34 , TYR A:40 , 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 , LEU A:133 , HSM A:303 , HOH A:312	BINDING SITE FOR RESIDUE HEM A 302
4	AC4	SOFTWARE	ASP A:30 , GLU A:32 , LEU A:123 , LEU A:130 , HEM A:302 , HOH A:304	BINDING SITE FOR RESIDUE HSM A 303
5	AC5	SOFTWARE	TYR B:28 , TYR B:40 , LEU B:57 , HIS B:59 , PHE B:68 , ASP B:70 , PHE B:86 , LYS B:88 , TYR B:105 , LEU B:123 , LYS B:125 , HSM B:304 , HOH B:313	BINDING SITE FOR RESIDUE HEM B 303
6	AC6	SOFTWARE	ASP B:30 , GLU B:32 , LEU B:130 , HEM B:303 , HOH B:305	BINDING SITE FOR RESIDUE HSM B 304

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 1NP1)

(no "SAP(SNP)/Variant" information available for 1NP1)

(no "PROSITE Motif" information available for 1NP1)

(no "Exon" information available for 1NP1)

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: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 d1np1a_ A: Nitrophorin 1                                                                                                                                                                 SCOP domains
               CATH domains 1np1A00 A:1-184  [code=2.40.128.20, no name defined]                                                                                                                                     CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhh....eeeeeeeee..........eeeeeeeee..eeeeeeeee......eeeeeeeeeeee..eeeeeeeee..............eeeeeeeee...eeeeeeeee.......eeeeeee........hhhhhhhhhh...hhh............hhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1np1 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 d1np1b_ B: Nitrophorin 1                                                                                                                                                                 SCOP domains
               CATH domains 1np1B00 B:1-184  [code=2.40.128.20, no name defined]                                                                                                                                     CATH domains
           Pfam domains (1) -Nitrophorin-1np1B01 B:2-181                                                                                                                                                         --- Pfam domains (1)
           Pfam domains (2) -Nitrophorin-1np1B02 B:2-181                                                                                                                                                         --- Pfam domains (2)
         Sec.struct. author .............hhhh....eeeeeeeee.........eeeeeeeeee..eeeeeeeeee.....eeeeeeeeeeee..eeeeeeeee.............eeeeeeeeee...eeeeeeeeee......eeeeeee........hhhhhhhhh....hhh............hhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1np1 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)
		→ 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(

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Folds(

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Superfamilies( (-)

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Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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	d1np1a_	A:
1b	d1np1b_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

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

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Calycin (163)

Family: Nitrophorin (25)

Rhodnius prolixus (Triatomid bug) (25)

1a	Nitrophorin-1np1B01	B:2-181
1b	Nitrophorin-1np1B02	B:2-181

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.

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

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Description

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SS Bonds (4, 4)

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