2FBE - JenaLib

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Biological Unit 1 (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE PRYSPRY-DOMAIN

Authors :   C. Gruetter, C. Briand, G. Capitani, P. R. Mittl, M. G. Gruetter

Date :   09 Dec 05 (Deposition) - 10 Jan 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.52

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)

Keywords :   Dimer, Jellyroll Beta-Sandwich Fold, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Gruetter, C. Briand, G. Capitani, P. R. Mittl, S. Papin, J. Tschopp, M. G. Gruetter
Structure Of The Pryspry-Domain: Implications For Autoinflammatory Diseases
Febs Lett. V. 580 99 2006
PubMed-ID: 16364311 | Reference-DOI: 10.1016/J.FEBSLET.2005.11.076
(for further references see the PDB file header)

Molecule 1
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PGEX-6P1
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Fragment	:	PRYSPRY DOMAIN
	Gene	:	GENE 19Q13.4.1
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606

		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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 12)

No.	Name	Count	Type	Full Name
1	MSE	12	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (1, 3)

No.	Name	Count	Type	Full Name
1	MSE	3	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (1, 3)

No.	Name	Count	Type	Full Name
1	MSE	3	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 3 (1, 3)

No.	Name	Count	Type	Full Name
1	MSE	3	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 4 (1, 3)

No.	Name	Count	Type	Full Name
1	MSE	3	Mod. Amino Acid	SELENOMETHIONINE

(no "Site" information available for 2FBE)

(no "SS Bond" information available for 2FBE)

Asymmetric Unit

No.	Residues
1	Val A:116	-	Pro A:117
2	Val B:116	-	Pro B:117
3	Val C:116	-	Pro C:117
4	Val D:116	-	Pro D:117

(no "SAP(SNP)/Variant" information available for 2FBE)

Asymmetric Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	B302_SPRY	PS50188	B30.2/SPRY domain profile.	RFPLA_HUMAN	78-276	4	A:6-188 B:6-190 C:6-190 D:6-190

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	B302_SPRY	PS50188	B30.2/SPRY domain profile.	RFPLA_HUMAN	78-276	1	A:6-188 - - -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	B302_SPRY	PS50188	B30.2/SPRY domain profile.	RFPLA_HUMAN	78-276	1	- B:6-190 - -

Biological Unit 3 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	B302_SPRY	PS50188	B30.2/SPRY domain profile.	RFPLA_HUMAN	78-276	1	- - C:6-190 -

Biological Unit 4 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	B302_SPRY	PS50188	B30.2/SPRY domain profile.	RFPLA_HUMAN	78-276	1	- - - D:6-190

(no "Exon" information available for 2FBE)

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:188
 aligned with RFPLA_HUMAN | A6NLU0 from UniProtKB/Swiss-Prot  Length:287

    Alignment length:229
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265         
          RFPLA_HUMAN    46 GLLCRFCSVVSQKDDIKPKYKLRALVSIIKELEPKLKSVLTMNPRMRKFQVDMTFDVDTANNYLIISEDLRSFRSGDLSQNRKEQAERFDTALCVLGTPRFTSGRHYWEVDVGTSQVWDVGVCKESVNRQGKIVLSSEHGFLTVGCREGKVFAASTVPMTPLWVSPQLHRVGIFLDVGMRSIAFYNVSDGCHIYTFIEIPVCEPWRPFFAHKRGSQDDQSILSICSVIN 274
               SCOP domains d2fb                                      ea   1 A:1-188 Similar to Ret finger protein-like 1                                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....--------------------------------------hh---hhh.............eee.....eeee..................eee........eeeeeee.....eeeeeeee................eeeeeee...eeee.....eee.......eeeeeee....eeeeee.....eeeee........eeeeeeee.........eee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------B302_SPRY  PDB: A:6-188 UniProt: 78-276                                                                                                                                                               PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fbe A   1 GPLG--------------------------------------SP---EFQVDmTFDVDTANNYLIISEDLRSFRSGDLSQNRKEQAERFDTALCVLGTPRFTSGRHYWEVDVGTSQVWDVGVCKESVNRQGKIELSSEHGFLTVGCREGKVFAASTVPmTPLWVSPQLHRVGIFLDVGmRSIAFYNVSDGCHIYTFIEIPVCEPWRPFFAHKRGSQDDQSILSICSVIN 188
                               |     -         -         -         -  ||   | 9  |     19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179         
                               4                                      5|   7    |                                                                                                       118-MSE             138-MSE                                              
                                                                       6       12-MSE

Chain B from PDB  Type:PROTEIN  Length:198
 aligned with RFPLA_HUMAN | A6NLU0 from UniProtKB/Swiss-Prot  Length:287

    Alignment length:239
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275         
          RFPLA_HUMAN    46 GLLCRFCSVVSQKDDIKPKYKLRALVSIIKELEPKLKSVLTMNPRMRKFQVDMTFDVDTANNYLIISEDLRSFRSGDLSQNRKEQAERFDTALCVLGTPRFTSGRHYWEVDVGTSQVWDVGVCKESVNRQGKIVLSSEHGFLTVGCREGKVFAASTVPMTPLWVSPQLHRVGIFLDVGMRSIAFYNVSDGCHIYTFIEIPVCEPWRPFFAHKRGSQDDQSILSICSVINPSAASAPVSS 284
               SCOP domains d2fb                                      eb   _ B: Similar to Ret finger protein-like 1                                                                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....--------------------------------------..---................eee.....eeee..................eee........eeeeeee......eeeeeee...........hhhh.eeeeeee...eeee.....ee........eeeeeee....eeeeee....eeeeee........eeeeeee..........eeee...hhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------B302_SPRY  PDB: B:6-190 UniProt: 78-276                                                                                                                                                                -------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fbe B   1 GPLG--------------------------------------SP---EFQVDmTFDVDTANNYLIISEDLRSFRSGDLSQNRKEQAERFDTALCVLGTPRFTSGRHYWEVDVGTSQVWDVGVCKESVNRQGKIELSSEHGFLTVGCREGKVFAASTVPmTPLWVSPQLHRVGIFLDVGmRSIAFYNVSDGCHIYTFIEIPVCEPWRPFFAHKRGSQDDQSILSICSVINPSAASAPVSS 198
                               |     -         -         -         -  ||   | 9  |     19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189         
                               4                                      5|   7    |                                                                                                       118-MSE             138-MSE                                                        
                                                                       6       12-MSE

Chain C from PDB  Type:PROTEIN  Length:199
 aligned with RFPLA_HUMAN | A6NLU0 from UniProtKB/Swiss-Prot  Length:287

    Alignment length:240
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285
          RFPLA_HUMAN    46 GLLCRFCSVVSQKDDIKPKYKLRALVSIIKELEPKLKSVLTMNPRMRKFQVDMTFDVDTANNYLIISEDLRSFRSGDLSQNRKEQAERFDTALCVLGTPRFTSGRHYWEVDVGTSQVWDVGVCKESVNRQGKIVLSSEHGFLTVGCREGKVFAASTVPMTPLWVSPQLHRVGIFLDVGMRSIAFYNVSDGCHIYTFIEIPVCEPWRPFFAHKRGSQDDQSILSICSVINPSAASAPVSSE 285
               SCOP domains d2fb                                      ec   _ C: Similar to Ret finger protein-like 1                                                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....--------------------------------------..---................eee.....eeee..................eee........eeeeeee......eeeeeee...........hhhh.eeeeeee...eeee.....eee.......eeeeeee....eeeeee....eeeeee........eeeeee...........eeee...hhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------------------------------B302_SPRY  PDB: C:6-190 UniProt: 78-276                                                                                                                                                                --------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2fbe C   1 GPLG--------------------------------------SP---EFQVDmTFDVDTANNYLIISEDLRSFRSGDLSQNRKEQAERFDTALCVLGTPRFTSGRHYWEVDVGTSQVWDVGVCKESVNRQGKIELSSEHGFLTVGCREGKVFAASTVPmTPLWVSPQLHRVGIFLDVGmRSIAFYNVSDGCHIYTFIEIPVCEPWRPFFAHKRGSQDDQSILSICSVINPSAASAPVSSE 199
                               |     -         -         -         -  ||   | 9  |     19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199
                               4                                      5|   7    |                                                                                                       118-MSE             138-MSE                                                         
                                                                       6       12-MSE

Chain D from PDB  Type:PROTEIN  Length:190
 aligned with RFPLA_HUMAN | A6NLU0 from UniProtKB/Swiss-Prot  Length:287

    Alignment length:231
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275 
          RFPLA_HUMAN    46 GLLCRFCSVVSQKDDIKPKYKLRALVSIIKELEPKLKSVLTMNPRMRKFQVDMTFDVDTANNYLIISEDLRSFRSGDLSQNRKEQAERFDTALCVLGTPRFTSGRHYWEVDVGTSQVWDVGVCKESVNRQGKIVLSSEHGFLTVGCREGKVFAASTVPMTPLWVSPQLHRVGIFLDVGMRSIAFYNVSDGCHIYTFIEIPVCEPWRPFFAHKRGSQDDQSILSICSVINPS 276
               SCOP domains d2fb                                      ed   _ D: Similar to Ret finger protein-like 1                                                                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....--------------------------------------hh---hhh.............eee.....eeee..................eee........eeeeeee.....eeeeeeee...........hhhh.eeeeeee...eeee.....eee.......eeeeeee....eeeeee.....eeeee........eeeeeeee.........eee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------B302_SPRY  PDB: D:6-190 UniProt: 78-276                                                                                                                                                                 PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fbe D   1 GPLG--------------------------------------SP---EFQVDmTFDVDTANNYLIISEDLRSFRSGDLSQNRKEQAERFDTALCVLGTPRFTSGRHYWEVDVGTSQVWDVGVCKESVNRQGKIELSSEHGFLTVGCREGKVFAASTVPmTPLWVSPQLHRVGIFLDVGmRSIAFYNVSDGCHIYTFIEIPVCEPWRPFFAHKRGSQDDQSILSICSVINPS 190
                               |     -         -         -         -  ||   | 9  |     19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189 
                               4                                      5|   7    |                                                                                                       118-MSE             138-MSE                                                
                                                                       6       12-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 beta proteins (24004)

Fold: Concanavalin A-like lectins/glucanases (797)

Superfamily: Concanavalin A-like lectins/glucanases (797)

Family: SPRY domain (9)

Protein domain: Similar to Ret finger protein-like 1 (1)

Human (Homo sapiens) [TaxId: 9606] (1)

1a	d2fbea1	A:1-188
1b	d2fbeb_	B:
1c	d2fbec_	C:
1d	d2fbed_	D:

(no "CATH Domain" information available for 2FBE)

(no "Pfam Domain" information available for 2FBE)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (RFPLA_HUMAN | A6NLU0)

molecular function
	GO:0046872		metal ion binding		Interacting selectively and non-covalently with any metal ion.
	GO:0008270		zinc ion binding		Interacting selectively and non-covalently with zinc (Zn) ions.

Asymmetric Unit
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	Sites
(no "Sites" information available for 2fbe)

	Cis Peptide Bonds
		Val A:116 - Pro A:117	[ RasMol ]
		Val B:116 - Pro B:117	[ RasMol ]
		Val C:116 - Pro C:117	[ RasMol ]
		Val D:116 - Pro D:117	[ RasMol ]

Biological Units
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		Biological Unit 2	[ Jena3D ]
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		Biological Unit 4	[ Jena3D ]

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	2fbe
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Description

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Chains, Units

Ligands, Modified Residues, Ions (1, 12)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

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