3FJ1 - JenaLib

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Title :   CRYSTAL STRUCTURE OF PUTATIVE PHOSPHOSUGAR ISOMERASE (YP_167080.1) FROM SILICIBACTER POMEROYI DSS-3 AT 1.75 A RESOLUTION

Authors :   Joint Center For Structural Genomics (Jcsg)

Date :   12 Dec 08 (Deposition) - 20 Jan 09 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.75

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

Keywords :   Yp_167080. 1, Putative Phosphosugar Isomerase, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Unknown Function, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Putative Phosphosugar Isomerase (Yp_167080. 1) From Silicibacter Pomeroyi Dss-3 At 1. 75 A Resolution
To Be Published
PubMed: search

Molecule 1 - PUTATIVE PHOSPHOSUGAR ISOMERASE
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	SPEEDET
	Expression System Strain	:	HK100
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	SPO1843, YP_167080.1
	Organism Scientific	:	SILICIBACTER POMEROYI DSS-3
	Organism Taxid	:	246200
	Synonym	:	SIS DOMAIN PROTEIN

		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 (3, 34)

No.	Name	Count	Type	Full Name
1	CL	11	Ligand/Ion	CHLORIDE ION
2	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
3	MSE	22	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (2, 12)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
3	MSE	11	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (1, 11)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	EDO	-1	Ligand/Ion	1,2-ETHANEDIOL
3	MSE	11	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (12, 12)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ARG A:50 , SER A:98 , HOH A:622	BINDING SITE FOR RESIDUE CL A 344
02	AC2	SOFTWARE	ARG A:212 , GLY A:213 , SER A:238	BINDING SITE FOR RESIDUE CL A 345
03	AC3	SOFTWARE	ARG B:50 , SER B:98	BINDING SITE FOR RESIDUE CL B 344
04	AC4	SOFTWARE	ARG B:212 , GLY B:213 , SER B:238	BINDING SITE FOR RESIDUE CL B 345
05	AC5	SOFTWARE	TRP B:194 , GLU B:196	BINDING SITE FOR RESIDUE CL B 346
06	AC6	SOFTWARE	SER A:74 , LEU A:75 , GLY A:76 , SER B:61 , TYR B:62 , GLU B:65 , HOH B:401 , HOH B:529	BINDING SITE FOR RESIDUE EDO B 347
07	AC7	SOFTWARE	ARG C:50 , SER C:98 , HOH C:376	BINDING SITE FOR RESIDUE CL C 344
08	AC8	SOFTWARE	ARG C:212 , GLY C:213 , SER C:238 , HOH D:410	BINDING SITE FOR RESIDUE CL C 345
09	AC9	SOFTWARE	TRP C:194 , PRO C:195 , GLU C:196 , HOH C:379	BINDING SITE FOR RESIDUE CL C 346
10	BC1	SOFTWARE	ARG D:50 , SER D:98 , HOH D:347 , HOH D:380	BINDING SITE FOR RESIDUE CL D 344
11	BC2	SOFTWARE	ARG D:212 , GLY D:213 , SER D:238 , HOH D:402	BINDING SITE FOR RESIDUE CL D 345
12	BC3	SOFTWARE	TRP D:194 , PRO D:195 , GLU D:196 , HOH D:858 , HOH D:1079	BINDING SITE FOR RESIDUE CL D 346

(no "SS Bond" information available for 3FJ1)

(no "Cis Peptide Bond" information available for 3FJ1)

(no "SAP(SNP)/Variant" information available for 3FJ1)

(no "PROSITE Motif" information available for 3FJ1)

(no "Exon" information available for 3FJ1)

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
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	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:332
 aligned with Q5LSC5_RUEPO | Q5LSC5 from UniProtKB/TrEMBL  Length:343

    Alignment length:332
                             1                                                                                                                                                                                                                                                                                                                                          
                             |       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       259       269       279       289       299       309       319       329  
         Q5LSC5_RUEPO     - -MTQHITRMRREIDEIPEAVQRLLDHGAQDVARVAAVLRLRDPSFVATVARGSSDHVCTYLSYAAELLLGLPVASLGPSVASVYDARLRLDRALCLAVSQSGKSPDIVAMTRNAGRDGALCVALTNDAASPLAGVSAHTIDIHAGPELSVAATKTFVTSAVAGLMLLADWAEDDGLRAALGNLPETLAAASRIDWPEMRVAIGARPSLFTLGRGTSLAVSNEAALKFKETCQLHAESYSSAEVLHGPVSIVEEGFPVLGFAAGDAAEAPLAEIADQIAAKGATVFATTGRVTRARVLEHVRSGHALTDPLSLIVSFYSMVEAFASERGIDPD 331
               SCOP domains d3fj1a_ A: automated matches                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhhhhhh..eee..hhhhhh.........eeeeeee....hhhhhhhhhhhhhh..eeeeee....hhhhhh..eeee..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhh..eeeeehhhhhhhhhhhhhhhhhhhh..eeeee..hhhhh..hhhhhh..eee......hhhhhhhhhhhhhhh...eee........ee..........hhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3fj1 A   0 GmTQHITRmRREIDEIPEAVQRLLDHGAQDVARVAAVLRLRDPSFVATVARGSSDHVCTYLSYAAELLLGLPVASLGPSVASVYDARLRLDRALCLAVSQSGKSPDIVAmTRNAGRDGALCVALTNDAASPLAGVSAHTIDIHAGPELSVAATKTFVTSAVAGLmLLADWAEDDGLRAALGNLPETLAAASRIDWPEmRVAIGARPSLFTLGRGTSLAVSNEAALKFKETCQLHAESYSSAEVLHGPVSIVEEGFPVLGFAAGDAAEAPLAEIADQIAAKGATVFATTGRVTRARVLEHVRSGHALTDPLSLIVSFYSmVEAFASERGIDPD 331
                             |      |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       259       269       279       289       299       309       319       329  
                             |      8-MSE                                                                                              109-MSE                                                164-MSE                          197-MSE                                                                                                                  318-MSE         
                             1-MSE

Chain B from PDB  Type:PROTEIN  Length:328
 aligned with Q5LSC5_RUEPO | Q5LSC5 from UniProtKB/TrEMBL  Length:343

    Alignment length:328
                                    13        23        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        
         Q5LSC5_RUEPO     4 HITRMRREIDEIPEAVQRLLDHGAQDVARVAAVLRLRDPSFVATVARGSSDHVCTYLSYAAELLLGLPVASLGPSVASVYDARLRLDRALCLAVSQSGKSPDIVAMTRNAGRDGALCVALTNDAASPLAGVSAHTIDIHAGPELSVAATKTFVTSAVAGLMLLADWAEDDGLRAALGNLPETLAAASRIDWPEMRVAIGARPSLFTLGRGTSLAVSNEAALKFKETCQLHAESYSSAEVLHGPVSIVEEGFPVLGFAAGDAAEAPLAEIADQIAAKGATVFATTGRVTRARVLEHVRSGHALTDPLSLIVSFYSMVEAFASERGIDPD 331
               SCOP domains d3fj1b_ B: automated matches                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee.hhhhhhhhhhhhhhhhhhhh..eee..hhhhhh..........eeeeee....hhhhhhhhhhhhhh..eeeeee....hhhhhh..eeee..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh..eeeeehhhhhhhhhhhhhhhhhhhh..eeeee..hhhhh..hhhhhh..eee......hhhhhhhhhhhhhhh...eee........ee..........hhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3fj1 B   4 HITRmRREIDEIPEAVQRLLDHGAQDVARVAAVLRLRDPSFVATVARGSSDHVCTYLSYAAELLLGLPVASLGPSVASVYDARLRLDRALCLAVSQSGKSPDIVAmTRNAGRDGALCVALTNDAASPLAGVSAHTIDIHAGPELSVAATKTFVTSAVAGLmLLADWAEDDGLRAALGNLPETLAAASRIDWPEmRVAIGARPSLFTLGRGTSLAVSNEAALKFKETCQLHAESYSSAEVLHGPVSIVEEGFPVLGFAAGDAAEAPLAEIADQIAAKGATVFATTGRVTRARVLEHVRSGHALTDPLSLIVSFYSmVEAFASERGIDPD 331
                                |   13        23        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        
                                8-MSE                                                                                              109-MSE                                                164-MSE                          197-MSE                                                                                                                  318-MSE

Chain C from PDB  Type:PROTEIN  Length:327
 aligned with Q5LSC5_RUEPO | Q5LSC5 from UniProtKB/TrEMBL  Length:343

    Alignment length:327
                                    14        24        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       
         Q5LSC5_RUEPO     5 ITRMRREIDEIPEAVQRLLDHGAQDVARVAAVLRLRDPSFVATVARGSSDHVCTYLSYAAELLLGLPVASLGPSVASVYDARLRLDRALCLAVSQSGKSPDIVAMTRNAGRDGALCVALTNDAASPLAGVSAHTIDIHAGPELSVAATKTFVTSAVAGLMLLADWAEDDGLRAALGNLPETLAAASRIDWPEMRVAIGARPSLFTLGRGTSLAVSNEAALKFKETCQLHAESYSSAEVLHGPVSIVEEGFPVLGFAAGDAAEAPLAEIADQIAAKGATVFATTGRVTRARVLEHVRSGHALTDPLSLIVSFYSMVEAFASERGIDPD 331
               SCOP domains d3fj1c_ C: automated matches                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhhhhhhhh..eee..hhhhhh.........eeeeeee....hhhhhhhhhhhhhh..eeeeee....hhhhhh..eeee..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh..eeeeehhhhhhhhhhhhhhhhhhhh..eeeee.........hhhhhh..eee......hhhhhhhhhhhhhhh...eee........ee..........hhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3fj1 C   5 ITRmRREIDEIPEAVQRLLDHGAQDVARVAAVLRLRDPSFVATVARGSSDHVCTYLSYAAELLLGLPVASLGPSVASVYDARLRLDRALCLAVSQSGKSPDIVAmTRNAGRDGALCVALTNDAASPLAGVSAHTIDIHAGPELSVAATKTFVTSAVAGLmLLADWAEDDGLRAALGNLPETLAAASRIDWPEmRVAIGARPSLFTLGRGTSLAVSNEAALKFKETCQLHAESYSSAEVLHGPVSIVEEGFPVLGFAAGDAAEAPLAEIADQIAAKGATVFATTGRVTRARVLEHVRSGHALTDPLSLIVSFYSmVEAFASERGIDPD 331
                               |    14        24        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       
                               8-MSE                                                                                              109-MSE                                                164-MSE                          197-MSE                                                                                                                  318-MSE

Chain D from PDB  Type:PROTEIN  Length:332
 aligned with Q5LSC5_RUEPO | Q5LSC5 from UniProtKB/TrEMBL  Length:343

    Alignment length:332
                                    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  
         Q5LSC5_RUEPO     1 MTQHITRMRREIDEIPEAVQRLLDHGAQDVARVAAVLRLRDPSFVATVARGSSDHVCTYLSYAAELLLGLPVASLGPSVASVYDARLRLDRALCLAVSQSGKSPDIVAMTRNAGRDGALCVALTNDAASPLAGVSAHTIDIHAGPELSVAATKTFVTSAVAGLMLLADWAEDDGLRAALGNLPETLAAASRIDWPEMRVAIGARPSLFTLGRGTSLAVSNEAALKFKETCQLHAESYSSAEVLHGPVSIVEEGFPVLGFAAGDAAEAPLAEIADQIAAKGATVFATTGRVTRARVLEHVRSGHALTDPLSLIVSFYSMVEAFASERGIDPDA 332
               SCOP domains d3fj1d_ D: automated matches                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhhhhhhhh..eee..hhhhhh.........eeeeee.....hhhhhhhhhhhhhh..eeeeee....hhhhhh..eeee..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhhhhh..eeeee..hhhhh..hhhhhh..eee......hhhhhhhhhhhhhhh...eee........ee.......hhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3fj1 D   1 mTQHITRmRREIDEIPEAVQRLLDHGAQDVARVAAVLRLRDPSFVATVARGSSDHVCTYLSYAAELLLGLPVASLGPSVASVYDARLRLDRALCLAVSQSGKSPDIVAmTRNAGRDGALCVALTNDAASPLAGVSAHTIDIHAGPELSVAATKTFVTSAVAGLmLLADWAEDDGLRAALGNLPETLAAASRIDWPEmRVAIGARPSLFTLGRGTSLAVSNEAALKFKETCQLHAESYSSAEVLHGPVSIVEEGFPVLGFAAGDAAEAPLAEIADQIAAKGATVFATTGRVTRARVLEHVRSGHALTDPLSLIVSFYSmVEAFASERGIDPDA 332
                            |      |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  
                            1-MSE  8-MSE                                                                                              109-MSE                                                164-MSE                          197-MSE                                                                                                                  318-MSE

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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 '\|'

Asymmetric Unit

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Class: Alpha and beta proteins (a/b) (23833)

Fold: SIS domain (85)

Superfamily: SIS domain (85)

Family: automated matches (22)

Protein domain: automated matches (22)

Silicibacter pomeroyi [TaxId: 246200] (1)

1a	d3fj1a_	A:
1b	d3fj1b_	B:
1c	d3fj1c_	C:
1d	d3fj1d_	D:

(no "CATH Domain" information available for 3FJ1)

(no "Pfam Domain" information available for 3FJ1)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (Q5LSC5_RUEPO | Q5LSC5)

molecular function
	GO:0030246	carbohydrate binding	Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
	GO:0003674	molecular_function	Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.
biological process
	GO:0008150	biological_process	Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
	GO:0005975	carbohydrate metabolic process	The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.

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