3T24 - JenaLib

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Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

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Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF PSEUDOMONAS AERUGINOSA OPDQ

Authors :   B. Van Den Berg, E. Eren

Date :   22 Jul 11 (Deposition) - 08 Feb 12 (Release) - 08 Feb 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.40

Chains :   Asym. Unit : A,B,C
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: A (1x),B (1x),C (1x)

Keywords :   Beta-Barrel, Channel, Bacterial Outer Membrane, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   E. Eren, J. Vijayaraghavan, J. Liu, B. R. Cheneke, D. S. Touw, B. W. Lepore, M. Indic, L. Movileanu, B. Van Den Berg
Substrate Specificity Within A Family Of Outer Membrane Carboxylate Channels.
Plos Biol. V. 10 01242 2012
PubMed-ID: 22272184 | Reference-DOI: 10.1371/JOURNAL.PBIO.1001242

Molecule 1 - PORIN
	Chains	:	A, B, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	UNP RESIDUES 28-421
	Gene	:	PA3038
	Organism Scientific	:	PSEUDOMONAS AERUGINOSA
	Organism Taxid	:	287

		1	2	3
Asymmetric Unit	:	A	B	C
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:	A (1x)	B (1x)	C (1x)

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 24)

No.	Name	Count	Type	Full Name
1	C8E	12	Ligand/Ion	(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE
2	SO4	12	Ligand/Ion	SULFATE ION

Biological Unit 1 (2, 11)

No.	Name	Count	Type	Full Name
1	C8E	5	Ligand/Ion	(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE
2	SO4	6	Ligand/Ion	SULFATE ION

Biological Unit 2 (2, 8)

No.	Name	Count	Type	Full Name
1	C8E	5	Ligand/Ion	(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE
2	SO4	3	Ligand/Ion	SULFATE ION

Biological Unit 3 (2, 5)

No.	Name	Count	Type	Full Name
1	C8E	2	Ligand/Ion	(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE
2	SO4	3	Ligand/Ion	SULFATE ION

Biological Unit 4 (0, 0)

No.	Name	Count	Type	Full Name
1	C8E	-1	Ligand/Ion	(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE
2	SO4	-1	Ligand/Ion	SULFATE ION

Asymmetric Unit (23, 23)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ARG A:22 , GLU A:24 , GLY A:25 , ARG A:373 , TRP C:345 , ARG C:373	BINDING SITE FOR RESIDUE SO4 A 395
02	AC2	SOFTWARE	ARG A:177 , SER A:178 , HOH A:461 , HOH A:496 , LYS B:250	BINDING SITE FOR RESIDUE SO4 A 396
03	AC3	SOFTWARE	SER A:123 , ARG A:124 , ARG A:156 , ARG A:384	BINDING SITE FOR RESIDUE SO4 A 397
04	AC4	SOFTWARE	ARG A:22 , ALA A:26 , SER A:27 , HOH A:438 , HOH A:454	BINDING SITE FOR RESIDUE SO4 A 398
05	AC5	SOFTWARE	TYR A:46 , LYS A:98 , LYS A:107 , HOH A:520	BINDING SITE FOR RESIDUE SO4 A 399
06	AC6	SOFTWARE	ARG A:308 , ARG A:326 , ARG A:368	BINDING SITE FOR RESIDUE SO4 A 400
07	AC7	SOFTWARE	GLY A:148 , PHE A:187 , TYR A:202 , TYR A:204 , C8E A:404	BINDING SITE FOR RESIDUE C8E A 401
08	AC8	SOFTWARE	TRP A:194 , THR A:195 , ASN A:197 , LEU A:198 , HIS A:220	BINDING SITE FOR RESIDUE C8E A 403
09	AC9	SOFTWARE	THR A:200 , C8E A:401	BINDING SITE FOR RESIDUE C8E A 404
10	BC1	SOFTWARE	LEU A:40 , GLY A:59 , ALA A:93 , ILE B:140	BINDING SITE FOR RESIDUE C8E A 405
11	BC2	SOFTWARE	ARG A:19 , ARG A:124 , ARG B:177 , SER B:178	BINDING SITE FOR RESIDUE SO4 B 395
12	BC3	SOFTWARE	ARG B:308 , ARG B:326 , ASP B:350 , LYS B:366 , ARG B:368	BINDING SITE FOR RESIDUE SO4 B 396
13	BC4	SOFTWARE	LYS A:171 , THR A:337 , HOH A:508 , LYS B:206 , LYS B:212 , ASP B:242 , C8E B:399	BINDING SITE FOR RESIDUE SO4 B 397
14	BC5	SOFTWARE	THR B:200	BINDING SITE FOR RESIDUE C8E B 398
15	BC6	SOFTWARE	ILE A:3 , GLY B:148 , ARG B:149 , TYR B:204 , SO4 B:397	BINDING SITE FOR RESIDUE C8E B 399
16	BC7	SOFTWARE	LEU B:61 , TYR B:90 , GLY B:91 , GLU B:92	BINDING SITE FOR RESIDUE C8E B 400
17	BC8	SOFTWARE	GLY B:132 , GLY B:133	BINDING SITE FOR RESIDUE C8E B 401
18	BC9	SOFTWARE	LEU A:40 , LEU A:60 , TYR A:90 , GLY A:91 , SER B:104 , GLU B:139	BINDING SITE FOR RESIDUE C8E B 402
19	CC1	SOFTWARE	TRP A:345 , ARG A:373 , HOH A:497 , HOH A:519 , ARG C:22 , GLY C:25 , ARG C:373	BINDING SITE FOR RESIDUE SO4 C 395
20	CC2	SOFTWARE	LYS A:343 , ASN A:375 , ALA C:26 , SER C:27	BINDING SITE FOR RESIDUE SO4 C 396
21	CC3	SOFTWARE	SER C:123 , ARG C:124 , ARG C:156 , ARG C:384	BINDING SITE FOR RESIDUE SO4 C 397
22	CC4	SOFTWARE	SER C:104 , SER C:137 , GLU C:139 , LEU C:145	BINDING SITE FOR RESIDUE C8E C 398
23	CC5	SOFTWARE	GLY C:190 , THR C:200	BINDING SITE FOR RESIDUE C8E C 399

(no "SS Bond" information available for 3T24)

Asymmetric Unit

No.	Residues
1	Asp A:226	-	Lys A:227
2	Lys B:4	-	Asp B:5

(no "SAP(SNP)/Variant" information available for 3T24)

(no "PROSITE Motif" information available for 3T24)

(no "Exon" information available for 3T24)

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:377
 aligned with Q9HZH0_PSEAE | Q9HZH0 from UniProtKB/TrEMBL  Length:421

    Alignment length:396
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415      
         Q9HZH0_PSEAE    26 HAEFIKDSKASIELRNFYFNRDFRQEGASQSKAEEWAQGFLLRYESGYTEGTIGFGVDAIGLLGVKLDSSPDRSGTGLLKRDRETGRAQDDYGEAGITAKLRASKSTLKIGTLTPKLPVIMPNDSRLLPQTFQGGALNSMEIDGLTLDAGRLKKVNQRDSSDNEDMTITGGGKRNIVVRSGLTSDKFDFAGGSYKWTDNLSTSYHYGKLDNFYKQHYLGLVHTLPIADKQSLKSDIRWARSTDDGSSNVDNKALNAMFTYSLGYHAFGVGYQKMSGDTGFAYINGADPYLVNFIQIGDFANKDEKSWQARYDYNFAGVGIPGLTFMTRYVKGDNIDLLTTSGEGKEWERDMDIAYVFQSGPLKNLGVKWRNATMRTNYTNDYDENRLIVSYTLPLW 421
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhh.eeeeeeeeeeeeeeeee..eeeeeeeeeeeeeeeeee..............eeeeeeeee.-------------------..eeeeeeeeeeeee..eeeeeeee.................eeeeeeeee............eeeeeeeeeeee.......................eeeeeeeeeee..eeeeeeeeee...eeeeeeeeeeeeeee..eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee..eeeeeeeeeee.............................eeeeeeeeee.hhh....eeeeeeeeeeeeee......eeeeeeeeeeeeee.........eeeeeeeeeee....eeeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3t24 A  -1 QSEFIKDSKASIELRNFYFNRDFRQEGASQSKAEEWAQGFLLRYESGYTEGTIGFGVDAIGLLGVKLDS-------------------QDDYGEAGITAKLRASKSTLKIGTLTPKLPVIMPNDSRLLPQTFQGGALNSMEIDGLTLDAGRLKKVNQRDSSDNEDMTITGGGKRQIVVRSGLTSDKFDFAGGSYKWTDNLSTSYHYGKLDNFYKQHYLGLVHTLPIADKQSLKSDIRWARSTDDGSSNVDNKALNAMFTYSLGYHAFGVGYQKMSGDTGFAYINGADPYLVNFIQIGDFANKDEKSWQARYDYNFAGVGIPGLTFMTRYVKGDNIDLLTTSGEGKEWERDMDIAYVFQSGPLKNLGVKWRNATMRTNYTNDYDENRLIVSYTLPLW 394
                                     8        18        28        38        48        58        |-         -        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388      
                                                                                               67                  87

Chain B from PDB  Type:PROTEIN  Length:368
 aligned with Q9HZH0_PSEAE | Q9HZH0 from UniProtKB/TrEMBL  Length:421

    Alignment length:392
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419  
         Q9HZH0_PSEAE    30 IKDSKASIELRNFYFNRDFRQEGASQSKAEEWAQGFLLRYESGYTEGTIGFGVDAIGLLGVKLDSSPDRSGTGLLKRDRETGRAQDDYGEAGITAKLRASKSTLKIGTLTPKLPVIMPNDSRLLPQTFQGGALNSMEIDGLTLDAGRLKKVNQRDSSDNEDMTITGGGKRNIVVRSGLTSDKFDFAGGSYKWTDNLSTSYHYGKLDNFYKQHYLGLVHTLPIADKQSLKSDIRWARSTDDGSSNVDNKALNAMFTYSLGYHAFGVGYQKMSGDTGFAYINGADPYLVNFIQIGDFANKDEKSWQARYDYNFAGVGIPGLTFMTRYVKGDNIDLLTTSGEGKEWERDMDIAYVFQSGPLKNLGVKWRNATMRTNYTNDYDENRLIVSYTLPLW 421
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeeeeeeeeee----..eeeeeeeeeeeeeee..............eeeeeeeee.-------------------.eeeeeeeeeeeeee..eeeeeeee.................eeeeeeeee............eeeeeeee-eee.......................eeeeeeeeeee..eeeeeeeeee...eeeeeeeeeeeee....eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee..eeeeeeeeeee.............................eeeeeeeeee........eeeeeeeeeeeee........eeeeeeeeeeeee.........eeeeeeeeeee....eeeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3t24 B   3 IKDSKASIELRNFYFNRDFR----SQSKAEEWAQGFLLRYESGYTEGTIGFGVDAIGLLGVKLDS-------------------QDDYGEAGITAKLRASKSTLKIGTLTPKLPVIMPNDSRLLPQTFQGGALNSMEIDGLTLDAGRLKKVNQRD-SDNEDMTITGGGKRQIVVRSGLTSDKFDFAGGSYKWTDNLSTSYHYGKLDNFYKQHYLGLVHTLPIADKQSLKSDIRWARSTDDGSSNVDNKALNAMFTYSLGYHAFGVGYQKMSGDTGFAYINGADPYLVNFIQIGDFANKDEKSWQARYDYNFAGVGIPGLTFMTRYVKGDNIDLLTTSGEGKEWERDMDIAYVFQSGPLKNLGVKWRNATMRTNYTNDYDENRLIVSYTLPLW 394
                                    12        22    |   32        42        52        62    |    -         -    |   92       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  
                                              22   27                                      67                  87                                                                   157 |                                                                                                                                                                                                                                           
                                                                                                                                                                                      159

Chain C from PDB  Type:PROTEIN  Length:367
 aligned with Q9HZH0_PSEAE | Q9HZH0 from UniProtKB/TrEMBL  Length:421

    Alignment length:395
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416     
         Q9HZH0_PSEAE    27 AEFIKDSKASIELRNFYFNRDFRQEGASQSKAEEWAQGFLLRYESGYTEGTIGFGVDAIGLLGVKLDSSPDRSGTGLLKRDRETGRAQDDYGEAGITAKLRASKSTLKIGTLTPKLPVIMPNDSRLLPQTFQGGALNSMEIDGLTLDAGRLKKVNQRDSSDNEDMTITGGGKRNIVVRSGLTSDKFDFAGGSYKWTDNLSTSYHYGKLDNFYKQHYLGLVHTLPIADKQSLKSDIRWARSTDDGSSNVDNKALNAMFTYSLGYHAFGVGYQKMSGDTGFAYINGADPYLVNFIQIGDFANKDEKSWQARYDYNFAGVGIPGLTFMTRYVKGDNIDLLTTSGEGKEWERDMDIAYVFQSGPLKNLGVKWRNATMRTNYTNDYDENRLIVSYTLPLW 421
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh.eeeeeeeeeeeeeeeee..ee....eeeeeeeeeeee..............eeee.--------------------------..eeeeeeeeeee..eeeeeeee.................eeeeeeeee............eeeeeeeeeeee.......................eeeeeeeee....eeeeeeeeee...eeeeeeeeeeeeeee..eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee..eeeeeeeeeee.............................eeeeeeeeee.hhh....eeeeeeeeeeeeee......eeeeeeeeeeeeee.....--..eeeeeeeeeee....eeeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3t24 C   0 SEFIKDSKASIELRNFYFNRDFRQEGASQSKAEEWAQGFLLRYESGYTEGTIGFGVDAIGLLG--------------------------DYGEAGITAKLRASKSTLKIGTLTPKLPVIMPNDSRLLPQTFQGGALNSMEIDGLTLDAGRLKKVNQRDSSDNEDMTITGGGKRQIVVRSGLTSDKFDFAGGSYKWTDNLSTSYHYGKLDNFYKQHYLGLVHTLPIADKQSLKSDIRWARSTDDGSSNVDNKALNAMFTYSLGYHAFGVGYQKMSGDTGFAYINGADPYLVNFIQIGDFANKDEKSWQARYDYNFAGVGIPGLTFMTRYVKGDNIDLLTTSGEGKEWERDMDIAYVFQSGP--NLGVKWRNATMRTNYTNDYDENRLIVSYTLPLW 394
                                     9        19        29        39        49        59  |      -         -        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359  |    369       379       389     
                                                                                         62                         89                                                                                                                                                                                                                                                                           359  |                                
                                                                                                                                                                                                                                                                                                                                                                                                    362

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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 "SCOP Domain" information available for 3T24)

(no "CATH Domain" information available for 3T24)

(no "Pfam Domain" information available for 3T24)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (Q9HZH0_PSEAE | Q9HZH0)

molecular function
	GO:0015288	porin activity	Catalysis of the transfer of substances, sized less than 1000 Da, from one side of the membrane to the other. The transmembrane portions of porins consist exclusively of beta-strands which form a beta-barrel. They are found in the outer membranes of Gram-negative bacteria, mitochondria, plastids and possibly acid-fast Gram-positive bacteria.
biological process
	GO:0055085	transmembrane transport	The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other
	GO:0006810	transport	The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
	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.

Asymmetric Unit
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	Cis Peptide Bonds
		Asp A:226 - Lys A:227	[ RasMol ]
		Lys B:4 - Asp B:5	[ RasMol ]

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	3t24
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 24)

Sites (23, 23)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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