4A1R - JenaLib

Title :   THE STRUCTURE OF SERRATIA MARCESCENS LIP, A MEMBRANE BOUND COMPONENT OF THE TYPE VI SECRETION SYSTEM.

Authors :   V. A. Rao, S. M. Shepherd, G. English, S. J. Coulthurst, W. N. Hunter

Date :   19 Sep 11 (Deposition) - 05 Oct 11 (Release) - 20 Mar 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.92

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)
Biol. Unit 5: A,B  (1x)
Biol. Unit 6: C,D  (1x)

Keywords :   Membrane Protein, T6Ss, Beta-Sandwich (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   V. A. Rao, S. M. Shepherd, G. English, S. J. Coulthurst, W. N. Hunter
The Structure Of Serratia Marcescens Lip, A Membrane-Bound Component Of The Type Vi Secretion System
Acta Crystallogr. , Sect. F V. 67 1065 2011
PubMed-ID: 22120744 | Reference-DOI: 10.1107/S0907444911046300

Compounds

Molecule 1 - LIP
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET15BTEV_SMLIP
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Variant	:	PLYSS
	Organism Scientific	:	SERRATIA MARCESCENS
	Organism Taxid	:	615
	Strain	:	DB10

Structural Features

Chains, Units

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D
Biological Unit 5 (1x)	:	A	B
Biological Unit 6 (1x)	:			C	D

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (2, 2)

Asymmetric Unit (2, 2)

No.	Name	Count	Type	Full Name
1	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
2	NA	1	Ligand/Ion	SODIUM ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	EDO	-1	Ligand/Ion	1,2-ETHANEDIOL
2	NA	-1	Ligand/Ion	SODIUM ION

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	EDO	-1	Ligand/Ion	1,2-ETHANEDIOL
2	NA	-1	Ligand/Ion	SODIUM ION

Biological Unit 3 (0, 0)

No.	Name	Count	Type	Full Name
1	EDO	-1	Ligand/Ion	1,2-ETHANEDIOL
2	NA	-1	Ligand/Ion	SODIUM ION

Biological Unit 4 (1, 1)

No.	Name	Count	Type	Full Name
1	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
2	NA	-1	Ligand/Ion	SODIUM ION

Biological Unit 5 (0, 0)

No.	Name	Count	Type	Full Name
1	EDO	-1	Ligand/Ion	1,2-ETHANEDIOL
2	NA	-1	Ligand/Ion	SODIUM ION

Biological Unit 6 (1, 1)

No.	Name	Count	Type	Full Name
1	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
2	NA	-1	Ligand/Ion	SODIUM ION

Sites (2, 2)

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LYS A:106 , HOH A:2079 , HOH A:2082 , HOH A:2088 , SER C:94 , ASP C:95 , HOH C:2028	BINDING SITE FOR RESIDUE NA C1176
2	AC2	SOFTWARE	ARG D:36 , PRO D:155 , ASP D:156	BINDING SITE FOR RESIDUE EDO D1176

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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:142
 aligned with G5EA77_SERMA | G5EA77 from UniProtKB/TrEMBL  Length:149

    Alignment length:142
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144  
         G5EA77_SERMA     5 SVPSRYSLVFDADRQVNAAAGAQPAPIKIRVLLLRSDAEFMDADFFSLQNDAKSVLGNSLLDSDQFFLTPGQTGKKLGGQSALDARYIGVIAEYQNLDGKTWRISLPLPEPTETNFYKVWQFSPDELEAHIVAGVSGLRPVK 146
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeee..............eeeeeeee..hhhhhhhhhhhhhhhhhhhhh..eeeeeeeee......eeeeee......eeeeee..........eeeee..hhhhhhhhh.......eeeeeeeee..eeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4a1r A  32 SVPSRYSLVFDADRQVNAAAGAQPAPIKIRVLLLRSDAEFMDADFFSLQNDAKSVLGNSLLDSDQFFLTPGQTGKKLGGQSALDARYIGVIAEYQNLDGKTWRISLPLPEPTETNFYKVWQFSPDELEAHIVAGVSGLRPVK 173
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171

Chain B from PDB  Type:PROTEIN  Length:140
 aligned with G5EA77_SERMA | G5EA77 from UniProtKB/TrEMBL  Length:149

    Alignment length:144
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145    
         G5EA77_SERMA     6 VPSRYSLVFDADRQVNAAAGAQPAPIKIRVLLLRSDAEFMDADFFSLQNDAKSVLGNSLLDSDQFFLTPGQTGKKLGGQSALDARYIGVIAEYQNLDGKTWRISLPLPEPTETNFYKVWQFSPDELEAHIVAGVSGLRPVKKVD 149
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeeeee..............eeeeeeee.........hhhhhhhhhhhhhh..eeeeeeeee......eeeeee......eeeeee..........eeeee....----.....ee...eeeeeeeee..eeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4a1r B  33 VPSRYSLVFDADRQVNAAAGAQPAPIKIRVLLLRSDAEFMDADFFSLQNDAKSVLGNSLLDSDQFFLTPGQTGKKLGGQSALDARYIGVIAEYQNLDGKTWRISLPLPEP----FYKVWQFSPDELEAHIVAGVSGLRPVKKVD 176
                                    42        52        62        72        82        92       102       112       122       132       142    |  152       162       172    
                                                                                                                                       142  147

Chain C from PDB  Type:PROTEIN  Length:137
 aligned with G5EA77_SERMA | G5EA77 from UniProtKB/TrEMBL  Length:149

    Alignment length:142
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146  
         G5EA77_SERMA     7 PSRYSLVFDADRQVNAAAGAQPAPIKIRVLLLRSDAEFMDADFFSLQNDAKSVLGNSLLDSDQFFLTPGQTGKKLGGQSALDARYIGVIAEYQNLDGKTWRISLPLPEPTETNFYKVWQFSPDELEAHIVAGVSGLRPVKKV 148
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeee.......--.....eeeeeeee..hhhhhhhhhhhhhhhhhhhhh..eeeeeeeee......eeeeee......eeeeee..........eeeee.....---..........eeeeeeeee..eeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4a1r C  34 PSRYSLVFDADRQVNAA--AQPAPIKIRVLLLRSDAEFMDADFFSLQNDAKSVLGNSLLDSDQFFLTPGQTGKKLGGQSALDARYIGVIAEYQNLDGKTWRISLPLPEPT---FYKVWQFSPDELEAHIVAGVSGLRPVKKV 175
                                    43      | 53        63        73        83        93       103       113       123       133       143   |   153       163       173  
                                           50 53                                                                                       143 147

Chain D from PDB  Type:PROTEIN  Length:139
 aligned with G5EA77_SERMA | G5EA77 from UniProtKB/TrEMBL  Length:149

    Alignment length:143
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145   
         G5EA77_SERMA     6 VPSRYSLVFDADRQVNAAAGAQPAPIKIRVLLLRSDAEFMDADFFSLQNDAKSVLGNSLLDSDQFFLTPGQTGKKLGGQSALDARYIGVIAEYQNLDGKTWRISLPLPEPTETNFYKVWQFSPDELEAHIVAGVSGLRPVKKV 148
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeee.......----...eeeeeeee..hhhhhhhhhhhhhhhhhhhh...eeeeeeeee......eeeeee......eeeeeee.........eeeee.......hhhhh......eeeeeeeee..eeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4a1r D  33 VPSRYSLVFDADRQVNAA----PAPIKIRVLLLRSDAEFMDADFFSLQNDAKSVLGNSLLDSDQFFLTPGQTGKKLGGQSALDARYIGVIAEYQNLDGKTWRISLPLPEPTETNFYKVWQFSPDELEAHIVAGVSGLRPVKKV 175
                                    42       | -  |     62        72        82        92       102       112       122       132       142       152       162       172   
                                            50   55

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 '\|'

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (0, 0)

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