3GMY - JenaLib

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Biological Unit 1 (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF BETA-LACTAMSE INHIBITORY PROTEIN-LIKE PROTEIN (BLP), SELENOMETHIONINE DERIVATIVE

Authors :   M. Gretes, N. C. J. Strynadka

Date :   15 Mar 09 (Deposition) - 31 Mar 09 (Release) - 02 Jun 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.70

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

Keywords :   2-Layer Alpha/Beta Sandwich, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Gretes, D. C. Lim, L. De Castro, S. E. Jensen, S. G. Kang, K. J. Lee, N. C. Strynadka
Insights Into Positive And Negative Requirements For Protein-Protein Interactions By Crystallographic Analysis Of The Beta-Lactamase Inhibitory Proteins Blip, Blip-I, And Blp.
J. Mol. Biol. V. 389 289 2009
PubMed-ID: 19332077 | Reference-DOI: 10.1016/J.JMB.2009.03.058
(for further references see the PDB file header)

Molecule 1 - BLP
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET26B
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	BLP
	Organism Scientific	:	STREPTOMYCES CLAVULIGERUS
	Organism Taxid	:	1901
	Strain	:	ATCC 27064

		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 (1, 8)

No.	Name	Count	Type	Full Name
1	MSE	8	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (1, 4)

No.	Name	Count	Type	Full Name
1	MSE	4	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (1, 4)

No.	Name	Count	Type	Full Name
1	MSE	4	Mod. Amino Acid	SELENOMETHIONINE

(no "Site" information available for 3GMY)

Asymmetric Unit

No.	Residues
1	A:31	-	A:40
2	A:103	-	A:125
3	B:31	-	B:40
4	B:103	-	B:125

Asymmetric Unit

No.	Residues
1	Trp A:113	-	Pro A:114
2	Trp B:113	-	Pro B:114

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

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

(no "Exon" information available for 3GMY)

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:154
 aligned with B5GLC0_STRC2 | B5GLC0 from UniProtKB/TrEMBL  Length:182

    Alignment length:154
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178    
         B5GLC0_STRC2    29 YTGFTPERYNKIQFGMDRTLVWQLAGADQSCSDQVERIICYNNPDHYGPQGHFFFNAADKLIHKRQMELFPAPKPTMRLATYNKTQTGMTEAQFWAAVPSDTCSALAEQYPNWPATNGNLREYVCPSKAERFAPSAYFTFTDGKLTSRSQSQLP 182
               SCOP domains d3gmya_ A: automated matches                                                                                                                               SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhh....hhhhhhhhhhhhhheee....eeee........eeeeee.....eeeeeee..........hhhhhh......hhhhhhhhhhhhhheeeeee..........eeeeeee........eeeeeee..eeeeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3gmy A   1 YTGFTPERYNKIQFGmDRTLVWQLAGADQSCSDQVERIICYNNPDHYGPQGHFFFNAADKLIHKRQmELFPAPKPTmRLATYNKTQTGmTEAQFWAAVPSDTCSALAEQYPNWPATNGNLREYVCPSKAERFAPSAYFTFTDGKLTSRSQSQLP 154
                                    10     |  20        30        40        50        60      | 70      | 80        90       100       110       120       130       140       150    
                                          16-MSE                                             67-MSE    77-MSE      89-MSE

Chain A from PDB  Type:PROTEIN  Length:154
 aligned with P97062_STRCL | P97062 from UniProtKB/TrEMBL  Length:182

    Alignment length:154
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178    
         P97062_STRCL    29 YTGFTPERYNKIQFGMDRTLVWQLAGADQSCSDQVERIICYNNPDHYGPQGHFFFNAADKLIHKRQMELFPAPKPTMRLATYNKTQTGMTEAQFWAAVPSDTCSALAEQYPNWPATNGNLREYVCPSKAERFAPSAYFTFTDGKLTSRSQSQLP 182
               SCOP domains d3gmya_ A: automated matches                                                                                                                               SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhh....hhhhhhhhhhhhhheee....eeee........eeeeee.....eeeeeee..........hhhhhh......hhhhhhhhhhhhhheeeeee..........eeeeeee........eeeeeee..eeeeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3gmy A   1 YTGFTPERYNKIQFGmDRTLVWQLAGADQSCSDQVERIICYNNPDHYGPQGHFFFNAADKLIHKRQmELFPAPKPTmRLATYNKTQTGmTEAQFWAAVPSDTCSALAEQYPNWPATNGNLREYVCPSKAERFAPSAYFTFTDGKLTSRSQSQLP 154
                                    10     |  20        30        40        50        60      | 70      | 80        90       100       110       120       130       140       150    
                                          16-MSE                                             67-MSE    77-MSE      89-MSE

Chain B from PDB  Type:PROTEIN  Length:154
 aligned with B5GLC0_STRC2 | B5GLC0 from UniProtKB/TrEMBL  Length:182

    Alignment length:154
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178    
         B5GLC0_STRC2    29 YTGFTPERYNKIQFGMDRTLVWQLAGADQSCSDQVERIICYNNPDHYGPQGHFFFNAADKLIHKRQMELFPAPKPTMRLATYNKTQTGMTEAQFWAAVPSDTCSALAEQYPNWPATNGNLREYVCPSKAERFAPSAYFTFTDGKLTSRSQSQLP 182
               SCOP domains d3gmyb_ B: automated matches                                                                                                                               SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhh....hhhhhhhhhhhhhheee....eeee........eeeeee.....eeeeeee..........hhhhhhh.....hhhhhhhhhhhhhheeeeee..........eeeeeee........eeeeeee..eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3gmy B   1 YTGFTPERYNKIQFGmDRTLVWQLAGADQSCSDQVERIICYNNPDHYGPQGHFFFNAADKLIHKRQmELFPAPKPTmRLATYNKTQTGmTEAQFWAAVPSDTCSALAEQYPNWPATNGNLREYVCPSKAERFAPSAYFTFTDGKLTSRSQSQLP 154
                                    10     |  20        30        40        50        60      | 70      | 80        90       100       110       120       130       140       150    
                                          16-MSE                                             67-MSE    77-MSE      89-MSE

Chain B from PDB  Type:PROTEIN  Length:154
 aligned with P97062_STRCL | P97062 from UniProtKB/TrEMBL  Length:182

    Alignment length:154
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178    
         P97062_STRCL    29 YTGFTPERYNKIQFGMDRTLVWQLAGADQSCSDQVERIICYNNPDHYGPQGHFFFNAADKLIHKRQMELFPAPKPTMRLATYNKTQTGMTEAQFWAAVPSDTCSALAEQYPNWPATNGNLREYVCPSKAERFAPSAYFTFTDGKLTSRSQSQLP 182
               SCOP domains d3gmyb_ B: automated matches                                                                                                                               SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhh....hhhhhhhhhhhhhheee....eeee........eeeeee.....eeeeeee..........hhhhhhh.....hhhhhhhhhhhhhheeeeee..........eeeeeee........eeeeeee..eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3gmy B   1 YTGFTPERYNKIQFGmDRTLVWQLAGADQSCSDQVERIICYNNPDHYGPQGHFFFNAADKLIHKRQmELFPAPKPTmRLATYNKTQTGmTEAQFWAAVPSDTCSALAEQYPNWPATNGNLREYVCPSKAERFAPSAYFTFTDGKLTSRSQSQLP 154
                                    10     |  20        30        40        50        60      | 70      | 80        90       100       110       120       130       140       150    
                                          16-MSE                                             67-MSE    77-MSE      89-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: Alpha and beta proteins (a+b) (23004)

Fold: BLIP-like (23)

Superfamily: beta-lactamase-inhibitor protein, BLIP (18)

Family: automated matches (4)

Protein domain: automated matches (4)

Streptomyces clavuligerus [TaxId: 1901] (2)

1a	d3gmya_	A:
1b	d3gmyb_	B:

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

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

Asymmetric Unit(hide GO term definitions)

(no "Gene Ontology" information available for 3GMY)

Asymmetric Unit
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	Ligands, Modified Residues, Ions
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	Sites
(no "Sites" information available for 3gmy)

	Cis Peptide Bonds
		Trp A:113 - Pro A:114	[ RasMol ]
		Trp B:113 - Pro B:114	[ RasMol ]

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]

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Access by PDB/NDB ID
	3gmy
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		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
		Structural Genomics	:	GeneCensus
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	B5GLC0_STRC2 \| B5GLC0
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		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/TrEMBL
	P97062_STRCL \| P97062
		Comparative Protein Structure Models	:	ModBase
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		Protein-protein Interaction	:	DIP
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		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
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	B5GLC0_STRC2 \| B5GLC0
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	P97062_STRCL \| P97062
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	P97062_STRCL \| P97062	:	3gmx
UniProtKB/TrEMBL
	B5GLC0_STRC2 \| B5GLC0	:	3gmx

3gmu	BETA-LACTAMASE INHIBITORY PROTEIN (BLIP) FROM STREPTOMYCES CLAVULIGERUS
3gmv	BETA-LACTAMASE INHIBITORY PROTEIN-I (BLIP-I) FROM STREPTOMYCES EXFOLIATUS
3gmw	BETA-LACTAMASE INHIBITORY PROTEIN-I (BLIP-I) FROM STREPTOMYCES EXFOLIATUS IN COMPLEX WITH TEM-1 BETA-LACTAMASE
3gmx	BLP NATIVE STRUCTURE AT 1.05 ANGSTROM RESOLUTION

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 8)

Sites (0, 0)

SS Bonds (4, 4)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (1, 2)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (0, 0)

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