3MX3 - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF A SUSD HOMOLOG (BF0972) FROM BACTEROIDES FRAGILIS NCTC 9343 AT 2.00 A RESOLUTION

Authors :   Joint Center For Structural Genomics (Jcsg)

Date :   06 May 10 (Deposition) - 07 Jul 10 (Release) - 07 Jul 10 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

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

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

Reference :   Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of A Susd Homolog (Bf0972) From Bacteroides Fragilis Nctc 9343 At 2. 00 A Resolution
To Be Published
PubMed: search

Molecule 1 - SUSD HOMOLOG
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	SPEEDET
	Expression System Strain	:	HK100
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	BF0972
	Organism Scientific	:	BACTEROIDES FRAGILIS
	Organism Taxid	:	272559
	Strain	:	ATCC 25285 / NCTC 9343

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 46)

No.	Name	Count	Type	Full Name
1	CL	4	Ligand/Ion	CHLORIDE ION
2	EPE	2	Ligand/Ion	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
3	MG	2	Ligand/Ion	MAGNESIUM ION
4	MSE	38	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (2, 20)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	EPE	1	Ligand/Ion	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
3	MG	-1	Ligand/Ion	MAGNESIUM ION
4	MSE	19	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (2, 20)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	EPE	1	Ligand/Ion	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
3	MG	-1	Ligand/Ion	MAGNESIUM ION
4	MSE	19	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	PHE A:58 , ASP A:61 , GLU A:62 , HOH A:691 , HOH A:714 , HOH A:778	BINDING SITE FOR RESIDUE MG A 601
2	AC2	SOFTWARE	TYR A:60 , TYR A:77 , SER A:85 , GLU A:129 , TYR A:437 , HOH A:759 , HOH A:1045 , HOH A:1247 , HOH A:1475 , LYS B:474	BINDING SITE FOR RESIDUE EPE A 602
3	AC3	SOFTWARE	SER A:188 , LYS A:192	BINDING SITE FOR RESIDUE CL A 603
4	AC4	SOFTWARE	MSE A:74 , PHE A:312 , HOH A:1107	BINDING SITE FOR RESIDUE CL A 604
5	AC5	SOFTWARE	ASP A:61 , TYR A:437 , VAL A:439 , TYR A:440 , HOH A:662	BINDING SITE FOR RESIDUE CL A 606
6	AC6	SOFTWARE	PHE B:58 , ASP B:61 , GLU B:62 , HOH B:676 , HOH B:703 , HOH B:726	BINDING SITE FOR RESIDUE MG B 601
7	AC7	SOFTWARE	LYS A:474 , TYR B:60 , TYR B:77 , SER B:85 , GLU B:129 , TYR B:437 , HOH B:975 , HOH B:1010 , HOH B:1281	BINDING SITE FOR RESIDUE EPE B 602
8	AC8	SOFTWARE	SER B:52 , MSE B:239 , TYR B:241	BINDING SITE FOR RESIDUE CL B 605

(no "SS Bond" information available for 3MX3)

Asymmetric Unit

No.	Residues
1	Tyr A:448	-	Pro A:449
2	Tyr B:448	-	Pro B:449

(no "SAP(SNP)/Variant" information available for 3MX3)

(no "PROSITE Motif" information available for 3MX3)

(no "Exon" information available for 3MX3)

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:470
 aligned with Q5LGM6_BACFN | Q5LGM6 from UniProtKB/TrEMBL  Length:506

    Alignment length:472
                                    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       494       504  
         Q5LGM6_BACFN    35 KVTSSLLATGLLLDITSSSASKSFIYDELLAKQMAWGESMEDYQYNVFGRSGFGGYTTLINAQKMVESVSDDNVNAYDGLAHFIKAYKIFYMSMEMGDLPYEEALQGELGLVRPKYNTQKEVMNFILSDLETAYELFSTAKDFDGDPILGGSISKWKKATTAFQLKVLMHLSKKESDADLKVKERFARIVASGSLMESNEDNLQMKYADKANTVYPFHNTNTKHAGYAMLSTMLIDKFKATGDIRMFYYAKPAKAKLNEGVTADSWDAYIGTDPSLPFEQIEKAYATEQYSGFNARYTDYPSGEPVVRLGYAEQNFILAEAAVRGWISGDASAYYKKAIRAHMEFIASNTPDEEVYHHGHPITEEAIAAFLETPAIQLSGEKEADIEKILTQRYLASFMQHPYDVYYDYRRTGYPVLPINPATNRNTMNDRLPMRWMYPKSESDYNLEHQNEALERQFGGVDDVNKLMWILQ 506
               SCOP domains d3mx3a_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhh...hhhhhhhhhhh..eee....hhhhhh......hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhh........hhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh....hhhhheee...--.............hhh.eeehhhhhhhhhhhhhhhhhhhh..hhhhhhh.....hhhhh.......hhhhhhhhhhh..................eeeehhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh...hhhhhh....hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh.....hhhhhhhhhhh.........................hhhhhhhhhhhhhhhhhhhhh........hhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3mx3 A  35 KVTSSLLATGLLLDITSSSASKSFIYDELLAKQmAWGESmEDYQYNVFGRSGFGGYTTLINAQKmVESVSDDNVNAYDGLAHFIKAYKIFYmSmEmGDLPYEEALQGELGLVRPKYNTQKEVmNFILSDLETAYELFSTAKDFDGDPILGGSISKWKKATTAFQLKVLmHLSKKESDADLKVKERFARIVASGSLmESNEDNLQmKYA--ANTVYPFHNTNTKHAGYAmLSTmLIDKFKATGDIRmFYYAKPAKAKLNEGVTADSWDAYIGTDPSLPFEQIEKAYATEQYSGFNARYTDYPSGEPVVRLGYAEQNFILAEAAVRGWISGDASAYYKKAIRAHmEFIASNTPDEEVYHHGHPITEEAIAAFLETPAIQLSGEKEEDIEKILTQRYLASFmQHPYDVYYDYRRTGYPVLPINPATNRNTmNDRLPmRWmYPKSESDYNLEHQNEALERQFGGVDDVNKLmWILQ 506
                                    44        54        64   |    74        84        94    |  104       114       124 | | | 134       144       154  |    164       174       184       194       204       214       224     | 234    |  | -|      254       264  |    274     | 284       294       304       314       324       334       344       354       364       374  |    384       394       404       414       424       434       444       454       464   |  |474       484       494       504  
                                                            68-MSE |                       99-MSE                    126-MSE                        157-MSE                                       203-MSE                    230-MSE  239-MSE |               263-MSE          280-MSE                                                                                          377-MSE                                                 433-MSE                      462-MSE |  |                            502-MSE
                                                                  74-MSE                                               128-MSE                                                                                                           242  |                   267-MSE                                                                                                                                                                                                  468-MSE                                  
                                                                                                                         130-MSE                                                                                                            245                                                                                                                                                                                                                               471-MSE

Chain B from PDB  Type:PROTEIN  Length:470
 aligned with Q5LGM6_BACFN | Q5LGM6 from UniProtKB/TrEMBL  Length:506

    Alignment length:472
                                    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       494       504  
         Q5LGM6_BACFN    35 KVTSSLLATGLLLDITSSSASKSFIYDELLAKQMAWGESMEDYQYNVFGRSGFGGYTTLINAQKMVESVSDDNVNAYDGLAHFIKAYKIFYMSMEMGDLPYEEALQGELGLVRPKYNTQKEVMNFILSDLETAYELFSTAKDFDGDPILGGSISKWKKATTAFQLKVLMHLSKKESDADLKVKERFARIVASGSLMESNEDNLQMKYADKANTVYPFHNTNTKHAGYAMLSTMLIDKFKATGDIRMFYYAKPAKAKLNEGVTADSWDAYIGTDPSLPFEQIEKAYATEQYSGFNARYTDYPSGEPVVRLGYAEQNFILAEAAVRGWISGDASAYYKKAIRAHMEFIASNTPDEEVYHHGHPITEEAIAAFLETPAIQLSGEKEADIEKILTQRYLASFMQHPYDVYYDYRRTGYPVLPINPATNRNTMNDRLPMRWMYPKSESDYNLEHQNEALERQFGGVDDVNKLMWILQ 506
               SCOP domains d3mx3b_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) SusD-like_2-3mx3B01 B:35-506                                                                                                                                                                                                                                                                                                                                                                                                                                                             Pfam domains (1)
           Pfam domains (2) SusD-like_2-3mx3B02 B:35-506                                                                                                                                                                                                                                                                                                                                                                                                                                                             Pfam domains (2)
         Sec.struct. author ..hhhhhhhhhhhhhhh...hhhhhhhhhhh..eee................hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhh........hhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh....hhhhheee...--.............hhh.eeehhhhhhhhhhhh.hhhhhhh..hhhhhhh.....hhhhh.......hhhhhhhhhhh......hhhhhh......eeeehhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh...hhhhhh....hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh.....hhhhhhhhhhh.........................hhhhhhhhhhhhhhhhhhhhh........hhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3mx3 B  35 KVTSSLLATGLLLDITSSSASKSFIYDELLAKQmAWGESmEDYQYNVFGRSGFGGYTTLINAQKmVESVSDDNVNAYDGLAHFIKAYKIFYmSmEmGDLPYEEALQGELGLVRPKYNTQKEVmNFILSDLETAYELFSTAKDFDGDPILGGSISKWKKATTAFQLKVLmHLSKKESDADLKVKERFARIVASGSLmESNEDNLQmKYA--ANTVYPFHNTNTKHAGYAmLSTmLIDKFKATGDIRmFYYAKPAKAKLNEGVTADSWDAYIGTDPSLPFEQIEKAYATEQYSGFNARYTDYPSGEPVVRLGYAEQNFILAEAAVRGWISGDASAYYKKAIRAHmEFIASNTPDEEVYHHGHPITEEAIAAFLETPAIQLSGEKEEDIEKILTQRYLASFmQHPYDVYYDYRRTGYPVLPINPATNRNTmNDRLPmRWmYPKSESDYNLEHQNEALERQFGGVDDVNKLmWILQ 506
                                    44        54        64   |    74        84        94    |  104       114       124 | | | 134       144       154  |    164       174       184       194       204       214       224     | 234    |  | -|      254       264  |    274     | 284       294       304       314       324       334       344       354       364       374  |    384       394       404       414       424       434       444       454       464   |  |474       484       494       504  
                                                            68-MSE |                       99-MSE                    126-MSE                        157-MSE                                       203-MSE                    230-MSE  239-MSE |               263-MSE          280-MSE                                                                                          377-MSE                                                 433-MSE                      462-MSE |  |                            502-MSE
                                                                  74-MSE                                               128-MSE                                                                                                           242  |                   267-MSE                                                                                                                                                                                                  468-MSE                                  
                                                                                                                         130-MSE                                                                                                            245                                                                                                                                                                                                                               471-MSE

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 '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: alpha-alpha superhelix (690)

Superfamily: TPR-like (83)

Family: automated matches (13)

Protein domain: automated matches (13)

Bacteroides fragilis [TaxId: 272559] (2)

1a	d3mx3a_	A:
1b	d3mx3b_	B:

(no "CATH Domain" information available for 3MX3)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: TPR (230)

Family: SusD-like_2 (1)

Bacteroides fragilis (strain ATCC 25285 / NCTC 9343) (1)

1a	SusD-like_2-3mx3B01	B:35-506
1b	SusD-like_2-3mx3B02	B:35-506

Asymmetric Unit(hide GO term definitions)

Chain A,B (Q5LGM6_BACFN | Q5LGM6)

molecular function
	GO:0046872		metal ion binding		Interacting selectively and non-covalently with any metal ion.

Asymmetric Unit
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	Cis Peptide Bonds
		Tyr A:448 - Pro A:449	[ RasMol ]
		Tyr B:448 - Pro B:449	[ RasMol ]

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 46)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

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