1NSN - JenaLib

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

Asym./Biol. Unit (Jmol Viewer)

Title :   THE CRYSTAL STRUCTURE OF ANTIBODY N10-STAPHYLOCOCCAL NUCLEASE COMPLEX AT 2.9 ANGSTROMS RESOLUTION

Authors :   S. Sheriff, P. Bossart-Whitaker

Date :   06 Jun 95 (Deposition) - 15 Sep 95 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.80

Chains :   Asym./Biol. Unit : H,L,S

Keywords :   Immunoglobulin, Staphylococcal Nuclease, Complex (Immunoglobulin/Hydrolase) Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. Bossart-Whitaker, C. Y. Chang, J. Novotny, D. C. Benjamin, S. Sheriff
The Crystal Structure Of The Antibody N10-Staphylococcal Nuclease Complex At 2. 9 A Resolution.
J. Mol. Biol. V. 253 559 1995
PubMed-ID: 7473734 | Reference-DOI: 10.1006/JMBI.1995.0573
(for further references see the PDB file header)

Molecule 1 - IGG FAB (IGG1, KAPPA)
	Chains	:	L
	Organism Common	:	HOUSE MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Strain	:	CAF1
	Synonym	:	N10 FAB IMMUNOGLOBULIN

Molecule 2 - IGG FAB (IGG1, KAPPA)
	Chains	:	H
	Organism Common	:	HOUSE MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Strain	:	CAF1
	Synonym	:	N10 FAB IMMUNOGLOBULIN

Molecule 3 - STAPHYLOCOCCAL NUCLEASE
	Chains	:	S
	EC Number	:	3.1.31.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Gene	:	NUCLEASE
	Expression System Plasmid	:	PFOG405
	Expression System Taxid	:	562
	Gene	:	NUCLEASE
	Organism Scientific	:	STAPHYLOCOCCUS AUREUS
	Organism Taxid	:	1280
	Strain	:	FOGGI
	Synonym	:	STAPHYLOCOCCAL NUCLEASE RIBONUCLEATE, (DEOXYRIBONUCLEATE)-3'-NUCLEOTIDOHYDROLASE

		1	2	3
Asymmetric/Biological Unit	:	H	L	S

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 1NSN)

(no "Site" information available for 1NSN)

Asymmetric/Biological Unit

No.	Residues
1	H:22	-	H:92
2	H:142	-	H:208
3	L:23	-	L:88
4	L:134	-	L:194

Asymmetric/Biological Unit

No.	Residues
1	Ser L:7	-	Pro L:8
2	Ile L:94	-	Pro L:95
3	Phe H:148	-	Pro H:149
4	Glu H:150	-	Pro H:151
5	Arg H:200	-	Pro H:202
6	Lys S:116	-	Pro S:117

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

Asymmetric/Biological Unit (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TNASE_3	PS50830	Thermonuclease domain profile.	NUC_STAAU	90-224	1	S:8-141
2	TNASE_1	PS01123	Thermonuclease family signature 1.	NUC_STAAU	101-125	1	S:19-43
3	TNASE_2	PS01284	Thermonuclease family signature 2.	NUC_STAAU	165-175	1	S:83-93

(no "Exon" information available for 1NSN)

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 H from PDB  Type:PROTEIN  Length:210
                                                                                                                                                                                                                                                  
               SCOP domains d1nsnh1 H:1-114 Immunoglobulin heavy chain variable domain, VH                                                    d1nsnh2 H:115-223 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                  SCOP domains
               CATH domains 1nsnH01 H:1-113 Immunoglobulins                                                                                  1nsnH02 H:114-223 Immunoglobulins                                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..................eeeee...........eeeeeee...eeeeeeee.....eee.......eeeeee....eeeeee....hhh.eeee...........eee..........eeeee.............eeeeee.......eeeehhh......eee..eee..eeeeeeee............eeeeeehhh.eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1nsn H   1 DVQLQESGPGLVKPSQSLSLTCTVTGYSITSDYAWNWIRQFPGNKLEWMGYITYSGTTSYNPSLKSRISISRDTSKNQFFMQLNSVTTEDTGTFYCTRGNGDWGQGTTLTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSPRPSETVTCNVAHPASSTKVDKKI 223
                                    10        20        30     |  39        49        59        69        79   |||  86        96 ||    110       120       130|      142       152   ||  166 ||    178 ||    190     ||203       213       223
                                                             35A                                             82A||              98|                        130|                    156|    168|      180|          196|||                     
                                                                                                              82B|              103                         133                     161     171       183           199||                     
                                                                                                               82C                                                                                                   200|                     
                                                                                                                                                                                                                      202

Chain L from PDB  Type:PROTEIN  Length:217
                                                                                                                                                                                                                                                         
               SCOP domains d1nsnl1 L:1-107 Immunoglobulin light chain kappa variable domain, VL-kappa                                     d1nsnl2 L:108-213 Immunoglobulin light chain kappa constant domain, CL-kappa                               SCOP domains
               CATH domains 1nsnL01 L:1-108 Immunoglobulins                                                                                 1nsnL02 L:109-211 Immunoglobulins                                                                      -- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeeee.....eeeeee...........eeeeee......eeee.............eeeeee..eeeeee....hhh..eeeeee............eeeee......eeeee...hhhhhh.eeeeeeeee......eeeeeee.........eeee...........eeeeeeeehhhhhh..eeeeeeee........eeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1nsn L   1 DIVLTQSPSSLAVSLGQRATISCRASQSVSTSSFRYMHWYQQKPGQPPRLLIKYASNLESGVPARFSGSGSGTDFTLNIHPVEEEDTATYYCQHSWEIPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNE 213
                                    10        20       27C|       36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       
                                                     27A|||                                                                                                                                                                                          
                                                      27B||                                                                                                                                                                                          
                                                       27C|                                                                                                                                                                                          
                                                        27D

Chain S from PDB  Type:PROTEIN  Length:138
 aligned with NUC_STAAU | P00644 from UniProtKB/Swiss-Prot  Length:231

    Alignment length:138
                                    95       105       115       125       135       145       155       165       175       185       195       205       215        
            NUC_STAAU    86 TKKLHKEPATLIKAIDGDTVKLMYKGQPMTFRLLLVDTPETKHPKKGVEKYGPEASAFTKKMVENAKKIEVEFDKGQRTDKYGRGLAYIYADGKMVNEALVRQGLAKVAYVYKPNNTHEQHLRKSEAQAKKEKLNIWS 223
               SCOP domains d1nsns_ S: Staphylococcal nuclease                                                                                                         SCOP domains
               CATH domains 1nsnS00 S:4-141  [code=2.40.50.90, no name defined]                                                                                        CATH domains
               Pfam domains -----------------------------SNase-1nsnS01 S:33-141                                                                                        Pfam domains
         Sec.struct. author .....eeeeeeeee....eeeeee...eeeeee..................hhhhhhhhhhhhh.....eee............eee........hhhhhhh................hhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) ----TNASE_3  PDB: S:8-141 UniProt: 90-224                                                                                                  PROSITE (1)
                PROSITE (2) ---------------TNASE_1  PDB: S:19-43    ---------------------------------------TNASE_2    ------------------------------------------------ PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1nsn S   4 TKKLHKEPATLIKAIDGDTVKLMYKGQPMTFRLLLVDTPETKHPKKGVEKYGPEASAFTKKMVENAKKIEVEFDKGQRTDKYGRGLAYIYADGKMVNEALVRQGLAKVAYVYKPNNTHEQHLRKSEAQAKKEKLNIWS 141
                                    13        23        33        43        53        63        73        83        93       103       113       123       133

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: Mainly Beta (13760)

Architecture: Beta Barrel (4804)

Topology: OB fold (Dihydrolipoamide Acetyltransferase, E2P) (1040)

Homologous Superfamily: [code=2.40.50.90, no name defined] (101)

House mouse (Mus musculus) (1)

1nsnS00

S:4-141

Architecture: Sandwich (5577)

Topology: Immunoglobulin-like (3897)

Homologous Superfamily: Immunoglobulins (2282)

House mouse (Mus musculus) (616)

2a	1nsnL02	L:109-211
2b	1nsnL01	L:1-108
2c	1nsnH02	H:114-223
2d	1nsnH01	H:1-113

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: SNase] (72)

Family: SNase (72)

Staphylococcus aureus (67)

SNase-1nsnS01

S:33-141

Asymmetric/Biological Unit(hide GO term definitions)

Chain S (NUC_STAAU | P00644)

molecular function
	GO:0004519	endonuclease activity	Catalysis of the hydrolysis of ester linkages within nucleic acids by creating internal breaks.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0004518	nuclease activity	Catalysis of the hydrolysis of ester linkages within nucleic acids.
	GO:0003676	nucleic acid binding	Interacting selectively and non-covalently with any nucleic acid.
biological process
	GO:0090305	nucleic acid phosphodiester bond hydrolysis	The nucleic acid metabolic process in which the phosphodiester bonds between nucleotides are cleaved by hydrolysis.
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.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
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	Sites
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	Cis Peptide Bonds
		Arg H:200 - Pro H:202	[ RasMol ]
		Glu H:150 - Pro H:151	[ RasMol ]
		Ile L:94 - Pro L:95	[ RasMol ]
		Lys S:116 - Pro S:117	[ RasMol ]
		Phe H:148 - Pro H:149	[ RasMol ]
		Ser L:7 - Pro L:8	[ RasMol ]

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SS Bonds (4, 4)

Cis Peptide Bonds (6, 6)

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