4RYU - JenaLib

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Title :   CRYSTAL STRUCTURE OF C2 FORM OF E112A MUTANT OF STATIONARY PHASE SURVIVAL PROTEIN (SURE) FROM SALMONELLA TYPHIMURIUM

Authors :   Y. K. Mathiharan, M. R. N. Murthy

Date :   17 Dec 14 (Deposition) - 09 Sep 15 (Release) - 09 Sep 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.04

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

Keywords :   Stationary Phase Survival Protein, Domain Swapping, Rossmann Fold Like, Phosphatase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. K. Mathiharan, H. S. Savithri, M. R. N. Murthy
Insights Into Stabilizing Interactions In The Distorted Domain-Swapped Dimer Of Salmonella Typhimurium Survival Protein
Acta Crystallogr. , Sect. D V. D71 1812 2015
PubMed: search | Reference-DOI: 10.1107/S1399004715011992

Molecule 1 - 5'/3'-NUCLEOTIDASE SURE
	Chains	:	A, B, C, D
	EC Number	:	3.1.3.5, 3.1.3.6
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PRSETC
	Expression System Strain	:	BL21-PLYSS
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Gene	:	AV66_15865, SURE
	Mutation	:	YES
	Organism Scientific	:	SALMONELLA ENTERICA SUBSP. ENTERICA SEROVAR ENTERITIDIS
	Organism Taxid	:	1412588
	Strain	:	EC20130345
	Synonym	:	EXOPOLYPHOSPHATASE, NUCLEOSIDE MONOPHOSPHATE PHOSPHOHYDROLASE

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 21)

No.	Name	Count	Type	Full Name
1	GOL	4	Ligand/Ion	GLYCEROL
2	MG	4	Ligand/Ion	MAGNESIUM ION
3	MPD	5	Ligand/Ion	(4S)-2-METHYL-2,4-PENTANEDIOL
4	PO4	8	Ligand/Ion	PHOSPHATE ION

Biological Unit 1 (3, 10)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	MPD	3	Ligand/Ion	(4S)-2-METHYL-2,4-PENTANEDIOL
4	PO4	6	Ligand/Ion	PHOSPHATE ION

Biological Unit 2 (3, 7)

No.	Name	Count	Type	Full Name
1	GOL	3	Ligand/Ion	GLYCEROL
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	MPD	2	Ligand/Ion	(4S)-2-METHYL-2,4-PENTANEDIOL
4	PO4	2	Ligand/Ion	PHOSPHATE ION

Asymmetric Unit (21, 21)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASN A:96 , ASP A:100 , HOH A:413 , HOH A:414 , HOH A:434 , HOH A:580	BINDING SITE FOR RESIDUE PO4 A 301
02	AC2	SOFTWARE	ALA A:182 , ILE A:199 , GLY A:200 , PRO A:201 , PRO A:202 , HOH A:615 , HOH A:638 , LEU B:45 , TYR B:73	BINDING SITE FOR RESIDUE PO4 A 302
03	AC3	SOFTWARE	TYR A:73 , ALA A:112 , HOH A:582 , HOH A:611 , HOH A:686 , TYR B:103	BINDING SITE FOR RESIDUE PO4 A 303
04	AC4	SOFTWARE	ALA A:78 , TYR A:206 , TYR B:197	BINDING SITE FOR RESIDUE PO4 A 304
05	AC5	SOFTWARE	HIS A:12 , GLN A:17 , ASN A:58 , ASP A:60 , HOH A:435	BINDING SITE FOR RESIDUE PO4 A 305
06	AC6	SOFTWARE	ASP A:8 , ASP A:9 , SER A:39 , ASN A:92 , HOH A:414 , HOH A:416	BINDING SITE FOR RESIDUE MG A 306
07	AC7	SOFTWARE	ASN B:96 , ASP B:100 , MPD B:305 , HOH B:419 , HOH B:432 , HOH B:559 , HOH B:663 , HOH B:664	BINDING SITE FOR RESIDUE PO4 B 301
08	AC8	SOFTWARE	ASP B:8 , ASP B:9 , SER B:39 , ASN B:92 , HOH B:417 , HOH B:419	BINDING SITE FOR RESIDUE MG B 302
09	AC9	SOFTWARE	GLY B:200 , PRO B:201 , HOH B:659 , ARG D:192	BINDING SITE FOR RESIDUE GOL B 303
10	BC1	SOFTWARE	ARG B:192 , HOH B:660 , HOH B:661 , ILE D:199 , GLY D:200	BINDING SITE FOR RESIDUE MPD B 304
11	BC2	SOFTWARE	ASP B:100 , TYR B:103 , ILE B:199 , GLY B:200 , PRO B:202 , PO4 B:301 , HOH B:450 , HOH B:492 , HOH B:659 , HOH B:665	BINDING SITE FOR RESIDUE MPD B 305
12	BC3	SOFTWARE	TYR A:103 , ALA A:182 , HOH A:562 , TYR B:73 , VAL B:76 , ASN B:77 , ALA B:112 , HOH B:486	BINDING SITE FOR RESIDUE MPD B 306
13	BC4	SOFTWARE	ASN C:96 , ASP C:100 , MPD C:305 , HOH C:460 , HOH C:495 , HOH C:507 , HOH C:528	BINDING SITE FOR RESIDUE PO4 C 301
14	BC5	SOFTWARE	ASP C:8 , ASP C:9 , SER C:39 , ASN C:92 , HOH C:507 , HOH C:565	BINDING SITE FOR RESIDUE MG C 302
15	BC6	SOFTWARE	TYR C:73 , ASN C:77 , ALA C:112 , HOH C:458 , TYR D:103 , ALA D:182	BINDING SITE FOR RESIDUE GOL C 303
16	BC7	SOFTWARE	TYR C:103 , ALA C:182 , HOH C:452 , ASN D:77 , ALA D:112	BINDING SITE FOR RESIDUE GOL C 304
17	BC8	SOFTWARE	ASP C:100 , TYR C:103 , PRO C:202 , PO4 C:301 , HOH C:435 , HOH C:576	BINDING SITE FOR RESIDUE MPD C 305
18	BC9	SOFTWARE	LEU C:47 , ASN D:96 , ASP D:100 , HOH D:418 , HOH D:421 , HOH D:574 , HOH D:595 , HOH D:601	BINDING SITE FOR RESIDUE PO4 D 301
19	CC1	SOFTWARE	ASP D:8 , ASP D:9 , SER D:39 , ASN D:92 , HOH D:417 , HOH D:418	BINDING SITE FOR RESIDUE MG D 302
20	CC2	SOFTWARE	HIS D:12 , ASN D:58 , ASP D:60 , HOH D:513	BINDING SITE FOR RESIDUE GOL D 303
21	CC3	SOFTWARE	TYR C:73 , ASP D:100 , ALA D:182 , ILE D:199 , GLY D:200 , PRO D:201 , PRO D:202 , HOH D:405	BINDING SITE FOR RESIDUE MPD D 304

(no "SS Bond" information available for 4RYU)

Asymmetric Unit

No.	Residues
1	Arg A:81	-	Pro A:82
2	Gly A:90	-	Ile A:91
3	Arg B:81	-	Pro B:82
4	Gly B:90	-	Ile B:91
5	Arg C:81	-	Pro C:82
6	Gly C:90	-	Ile C:91
7	Arg D:81	-	Pro D:82
8	Gly D:90	-	Ile D:91

(no "SAP(SNP)/Variant" information available for 4RYU)

(no "PROSITE Motif" information available for 4RYU)

(no "Exon" information available for 4RYU)

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:258
                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......eeeee......hhhhhhhhhhhh...eeeeeee.................eeee.....eeee..hhhhhhhhhhhh.......eeeeeeee...hhhhhhhhhhhhhhhhh......eeeeee....hhhhhhhhhhhhhhhhhhh......eeeeee...hhhhh.eeee....ee.....eeeee.....eeeee.....eee....hhhhhhhh.eeeeeee.....hhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4ryu A  -4 HGMASMRILLSNDDGVHAPGIQTLAKALREFADVQVVAPDRNRSGASNSLTLESSLRTFTFDNGDIAVQMGTPTDCVYLGVNALMRPRPDIVVSGINAGPNLGDDVIYSGTVAAAMAGRHLGFPALAVSLNGYQHYDTAAAVTCALLRGLSREPLRTGRILNVNVPDLPLAQVKGIRVTRCGSRHPADKVIPQEDPRGNTLYWIGPPGDKYDAGPDTDFAAVDEGYVSVTPLHVDLTAHSAHDVVSDWLDSVGVGTQW 253
                                     5        15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245

Chain B from PDB  Type:PROTEIN  Length:255
                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee......hhhhhhhhhhhhh..eeeeeee.................eeee.....eeee..hhhhhhhhhhhh.......eeeeeeee...hhhhhhhhhhhhhhhh.......eeeeeee...hhhhhhhhhhhhhhhhhhh......eeeeeee..hhhhh..eee....ee......eeee.....eeee......eee....hhhhhhhh..eeeeee.....hhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ryu B  -1 ASMRILLSNDDGVHAPGIQTLAKALREFADVQVVAPDRNRSGASNSLTLESSLRTFTFDNGDIAVQMGTPTDCVYLGVNALMRPRPDIVVSGINAGPNLGDDVIYSGTVAAAMAGRHLGFPALAVSLNGYQHYDTAAAVTCALLRGLSREPLRTGRILNVNVPDLPLAQVKGIRVTRCGSRHPADKVIPQEDPRGNTLYWIGPPGDKYDAGPDTDFAAVDEGYVSVTPLHVDLTAHSAHDVVSDWLDSVGVGTQW 253
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248

Chain C from PDB  Type:PROTEIN  Length:254
                                                                                                                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee......hhhhhhhhhhhh..eeeeeeee.................eeee.....eeee..hhhhhhhhhhhh.......eeeeeeee...hhhhhhhhhhhhhhhhh......eeeeee....hhhhhhhhhhhhhhhhhhh......eeeeee...hhhhh..eee....ee.....eeeee.....eeeee.....eee....hhhhhhhh..eeeeee.....hhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ryu C   0 SMRILLSNDDGVHAPGIQTLAKALREFADVQVVAPDRNRSGASNSLTLESSLRTFTFDNGDIAVQMGTPTDCVYLGVNALMRPRPDIVVSGINAGPNLGDDVIYSGTVAAAMAGRHLGFPALAVSLNGYQHYDTAAAVTCALLRGLSREPLRTGRILNVNVPDLPLAQVKGIRVTRCGSRHPADKVIPQEDPRGNTLYWIGPPGDKYDAGPDTDFAAVDEGYVSVTPLHVDLTAHSAHDVVSDWLDSVGVGTQW 253
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249

Chain D from PDB  Type:PROTEIN  Length:254
                                                                                                                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee......hhhhhhhhhhhhh..eeeeeee.................eeee.....eeee..hhhhhhhhhhhh.......eeeeeeee...hhhhhhhhhhhhhhhh.......eeeeee....hhhhhhhhhhhhhhhhhhh......eeeeee...hhhhh.eeee....ee.....eeeee.....eeeee.....eee....hhhhhhhh.eeeeeee.....hhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ryu D   0 SMRILLSNDDGVHAPGIQTLAKALREFADVQVVAPDRNRSGASNSLTLESSLRTFTFDNGDIAVQMGTPTDCVYLGVNALMRPRPDIVVSGINAGPNLGDDVIYSGTVAAAMAGRHLGFPALAVSLNGYQHYDTAAAVTCALLRGLSREPLRTGRILNVNVPDLPLAQVKGIRVTRCGSRHPADKVIPQEDPRGNTLYWIGPPGDKYDAGPDTDFAAVDEGYVSVTPLHVDLTAHSAHDVVSDWLDSVGVGTQW 253
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249

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 "SCOP Domain" information available for 4RYU)

(no "CATH Domain" information available for 4RYU)

(no "Pfam Domain" information available for 4RYU)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Cis Peptide Bonds
		Arg A:81 - Pro A:82	[ RasMol ]
		Arg B:81 - Pro B:82	[ RasMol ]
		Arg C:81 - Pro C:82	[ RasMol ]
		Arg D:81 - Pro D:82	[ RasMol ]
		Gly A:90 - Ile A:91	[ RasMol ]
		Gly B:90 - Ile B:91	[ RasMol ]
		Gly C:90 - Ile C:91	[ RasMol ]
		Gly D:90 - Ile D:91	[ RasMol ]

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	4ryu
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		Orientation in Membranes	:	OPM
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	3.1.3.5
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	3.1.3.6
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	SURE_SALTY \| P66881	:	2v4n 2v4o 4g9o 4gad 4ryt 4xep 4xer 4xgb 4xgp 4xh8 4xj7

2v4n	CRYSTAL STRUCTURE OF SALMONELLA TYPHIMURIUM SURE AT 1.7 ANGSTROM RESOLUTION IN ORTHORHOMBIC FORM
2v4o	CRYSTAL STRUCTURE OF SALMONELLA TYPHIMURIUM SURE AT 2.75 ANGSTROM RESOLUTION IN MONOCLINIC FORM.
4g9o	CRYSTAL STRUCTURE OF H234A MUTANT OF STATIONARY PHASE SURVIVAL PROTEIN (SURE) FROM SALMONELLA TYPHIMURIUM
4gad	CRYSTAL STRUCTURE OF D230A/H234A MUTANT OF STATIONARY PHASE SURVIVAL PROTEIN (SURE) FROM SALMONELLA TYPHIMURIUM
4ryt	CRYSTAL STRUCTURE OF F222 FORM OF E112A MUTANT OF STATIONARY PHASE SURVIVAL PROTEIN (SURE) FROM SALMONELLA TYPHIMURIUM

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 21)

Sites (21, 21)

SS Bonds (0, 0)

Cis Peptide Bonds (8, 8)

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Gene Ontology (9, 9)

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