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Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE PROAEROLYSIN MUTANT Y221G AT 2.2 A

Authors :   L. Pernot, M. Schiltz, S. Thurnheer, S. E. Burr, G. Van Der Goot

Date :   21 Jan 08 (Deposition) - 12 Feb 08 (Release) - 02 Oct 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

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

Keywords :   Toxin, Cytolytic Toxin, Pore-Forming Toxin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. T. Degiacomi, I. Iacovache, L. Pernot, M. Chami, M. Kudryashev, H. Stahlberg, F. G. Van Der Goot, M. Dal Peraro
Molecular Assembly Of The Aerolysin Pore Reveals A Swirling Membrane-Insertion Mechanism.
Nat. Chem. Biol. V. 9 623 2013
PubMed-ID: 23912165 | Reference-DOI: 10.1038/NCHEMBIO.1312
(for further references see the PDB file header)

Molecule 1 - AEROLYSIN
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	AEROMONAS SALMONICIDA
	Expression System Plasmid	:	PMMB66EH
	Expression System Strain	:	CD3
	Expression System Taxid	:	645
	Expression System Vector Type	:	PLASMID
	Gene	:	AERA
	Mutation	:	YES
	Organism Scientific	:	AEROMONAS HYDROPHILA
	Organism Taxid	:	644
	Synonym	:	PROAEROLYSIN

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

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 3C0N)

(no "Site" information available for 3C0N)

Asymmetric Unit

No.	Residues
1	A:19	-	A:75
2	A:159	-	A:164
3	B:19	-	B:75
4	B:159	-	B:164

(no "Cis Peptide Bond" information available for 3C0N)

(no "SAP(SNP)/Variant" information available for 3C0N)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	AEROLYSIN	PS00274	Aerolysin type toxins signature.	AERA_AERHY	246-255	2	A:223-232 B:223-232

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	AEROLYSIN	PS00274	Aerolysin type toxins signature.	AERA_AERHY	246-255	1	A:223-232 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	AEROLYSIN	PS00274	Aerolysin type toxins signature.	AERA_AERHY	246-255	1	- B:223-232

(no "Exon" information available for 3C0N)

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:450
 aligned with AERA_AERHY | P09167 from UniProtKB/Swiss-Prot  Length:493

    Alignment length:467
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       
           AERA_AERHY    25 EPVYPDQLRLFSLGQGVCGDKYRPVNREEAQSVKSNIVGMMGQWQISGLANGWVIMGPGYNGEIKPGTASNTWCYPTNPVTGEIPTLSALDIPDGDEVDVQWRLVHDSANFIKPTSYLAHYLGYAWVGGNHSQYVGEDMDVTRDGDGWVIRGNNDGGCDGYRCGDKTAIKVSNFAYNLDPDSFKHGDVTQSDRQLVKTVVGWAVNDSDTPQSGYDVTLRYDTATNWSKTNTYGLSEKVTTKNKFKWPLVGETELSIEIAANQSWASQNGGSTTTSLSQSVRPTVPARSKIPVKIELYKADISYPYEFKADVSYDLTLSGFLRWGGNAWYTHPDNRPNWNHTFVIGPYKDKASSIRYQWDKRYIPGEVKWWDWNWTIQQNGLSTMQNNLARVLRPVRAGITGDFSAESQFAGNIEIGAPVPLAADSKVRRARSVDGAGQGLRLEIPLDAQELSGLGFNNVSLSVTPAA 491
               SCOP domains d3c0na1 A:2-84 Proaerolysin, N-terminal domain                                     d3c0na2 A:85-468 (Pro)aerolysin, pore-forming lobe                                                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 3c0nA01 A:2-90 Pertussis Toxin, subunit B, domain 1                                      3c0nA02 A:91-176,A:311-397 Proaerolysin, chain A, domain 2                            3c0nA03 A:177-310,A:398-468 Proaerolysin, chain A, domain 3                                                                           3c0nA02 A:91-176,A:311-397 Proaerolysin, chain A, domain 2                             3c0nA03 A:177-310,A:398-4                 68 Proaerolysin, chain A, dom CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhheee..........eee.hhhhhhhhhhhhhh......eeee...eeee.hhhh..eee.....eeeee.............eee...hhhhhhhhhhh....hhhhhhhhhhhhh...............eeeee....eeeee...............eeeeeeeeeeeeeeeeee....eeeeeeeeeeeeeeee........eeeeeeeeeeeeeee....hhhhh......ee...........ee....hhhhh.eeeeeeee..ee.......eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee................eeeeeeee........hhhhhhhh..hhhhh...hhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeeeeeeee...ee...ee.-----------------..eee...hhhhhhhh..eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AEROLYSIN -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3c0n A   2 EPVYPDQLRLFSLGQGVCGDKYRPVNREEAQSVKSNIVGMMGQWQISGLANGWVIMGPGYNGEIKPGTASNTWCYPTNPVTGEIPTLSALDIPDGDEVDVQWRLVHDSANFIKPTSYLAHYLGYAWVGGNHSQYVGEDMDVTRDGDGWVIRGNNDGGCDGYRCGDKTAIKVSNFAYNLDPDSFKHGDVTQSDRQLVKTVVGWAVNDSDTPQSGYDVTLRGDTATNWSKTNTYGLSEKVTTKNKFKWPLVGETELSIEIAANQSWASQNGGSTTTSLSQSVRPTVPARSKIPVKIELYKADISYPYEFKADVSYDLTLSGFLRWGGNAWYTHPDNRPNWNHTFVIGPYKDKASSIRYQWDKRYIPGEVKWWDWNWTIQQNGLSTMQNNLARVLRPVRAGITGDFSAESQFAGNIEIGAPVPL-----------------GLRLEIPLDAQELSGLGFNNVSLSVTPAA 468
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421|        -       441       451       461       
                                                                                                                                                                                                                                                                                                                                                                                                                                                              422               440

Chain B from PDB  Type:PROTEIN  Length:450
 aligned with AERA_AERHY | P09167 from UniProtKB/Swiss-Prot  Length:493

    Alignment length:468
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483        
           AERA_AERHY    24 AEPVYPDQLRLFSLGQGVCGDKYRPVNREEAQSVKSNIVGMMGQWQISGLANGWVIMGPGYNGEIKPGTASNTWCYPTNPVTGEIPTLSALDIPDGDEVDVQWRLVHDSANFIKPTSYLAHYLGYAWVGGNHSQYVGEDMDVTRDGDGWVIRGNNDGGCDGYRCGDKTAIKVSNFAYNLDPDSFKHGDVTQSDRQLVKTVVGWAVNDSDTPQSGYDVTLRYDTATNWSKTNTYGLSEKVTTKNKFKWPLVGETELSIEIAANQSWASQNGGSTTTSLSQSVRPTVPARSKIPVKIELYKADISYPYEFKADVSYDLTLSGFLRWGGNAWYTHPDNRPNWNHTFVIGPYKDKASSIRYQWDKRYIPGEVKWWDWNWTIQQNGLSTMQNNLARVLRPVRAGITGDFSAESQFAGNIEIGAPVPLAADSKVRRARSVDGAGQGLRLEIPLDAQELSGLGFNNVSLSVTPAA 491
               SCOP domains d3c0nb1 B:1-84 Proaerolysin, N-terminal domain                                      d3c0nb2 B:85-468 (Pro)aerolysin, pore-forming lobe                                                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 3c0nB01 B:1-90 Pertussis Toxin, subunit B, domain 1                                       3c0nB02 B:91-176,B:311-397 Proaerolysin, chain A, domain 2                            3c0nB03 B:177-310,B:398-468 Proaerolysin, chain A, domain 3                                                                           3c0nB02 B:91-176,B:311-397 Proaerolysin, chain A, domain 2                             3c0nB03 B:177-310,B:398-4                  68 Proaerolysin, chain A, do CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....hhhhheee..........eee.hhhhhhhhhhhhhh......eeee...eeee.hhhh..eee.....eeeee.............eee...hhhhhhhhhhh....hhhhhhhhhhhh................eeeeee..eeeeee...............eeeeeeeeeeeeeeeeee....eeeeeeeeeeeeeeee........eeeeeeeeeeeeeee....hhhh.ee....ee...........ee....hhhhh.eeeeeeeeeeee.......eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee................eeeeeeee........hhhhhhhh..hhhhh...hhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeeeeeeeeeeeee...ee.------------------.eee...hhhhhhhhh.eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AEROLYSIN -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3c0n B   1 AEPVYPDQLRLFSLGQGVCGDKYRPVNREEAQSVKSNIVGMMGQWQISGLANGWVIMGPGYNGEIKPGTASNTWCYPTNPVTGEIPTLSALDIPDGDEVDVQWRLVHDSANFIKPTSYLAHYLGYAWVGGNHSQYVGEDMDVTRDGDGWVIRGNNDGGCDGYRCGDKTAIKVSNFAYNLDPDSFKHGDVTQSDRQLVKTVVGWAVNDSDTPQSGYDVTLRGDTATNWSKTNTYGLSEKVTTKNKFKWPLVGETELSIEIAANQSWASQNGGSTTTSLSQSVRPTVPARSKIPVKIELYKADISYPYEFKADVSYDLTLSGFLRWGGNAWYTHPDNRPNWNHTFVIGPYKDKASSIRYQWDKRYIPGEVKWWDWNWTIQQNGLSTMQNNLARVLRPVRAGITGDFSAESQFAGNIEIGAPVPL------------------LRLEIPLDAQELSGLGFNNVSLSVTPAA 468
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420 |       -         -|      450       460        
                                                                                                                                                                                                                                                                                                                                                                                                                                                               422                441

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 '\|'

(no "Pfam Domain" information available for 3C0N)

Asymmetric Unit(hide GO term definitions)

Chain A,B (AERA_AERHY | P09167)

biological process
	GO:0009405	pathogenesis	The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
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:0033644	host cell membrane	Double layer of lipid molecules as it encloses host cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins. The host is defined as the larger of the organisms involved in a symbiotic interaction.
	GO:0020002	host cell plasma membrane	The plasma membrane surrounding a host cell.
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

Asymmetric Unit
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	Ligands, Modified Residues, Ions
(no "Ligands, Modified Residues, Ions" information available for 3c0n)

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(no "Sites" information available for 3c0n)

	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 3c0n)

Biological Units
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	3c0n
		Family and Domain Information	:	ProDom \| SYSTERS
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	AERA_AERHY \| P09167	:	1pre 1z52 3c0m 3c0o 3g4n 3g4o 5jzh 5jzt 5jzw

1pre	WILD-TYPE PROAEROLYSIN
3c0m	CRYSTAL STRUCTURE OF THE PROAEROLYSIN MUTANT Y221G AT 2.9 A
3c0o	CRYSTAL STRUCTURE OF THE PROAEROLYSIN MUTANT Y221G COMPLEXED WITH MANNOSE-6-PHOSPHATE

Description

Compounds

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Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (4, 4)

Cis Peptide Bonds (0, 0)

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