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Title :   CRYSTAL STRUCTURE OF LIGAND-FREE R7-2 STREPTAVIDIN

Authors :   V. N Malashkevich, M. Magalhaes, C. M. Czecster, R. Guan, M. Levy, S. C.

Date :   02 Apr 11 (Deposition) - 06 Jul 11 (Release) - 06 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.10

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

Keywords :   Streptavidin Variants, Improved Desthiobiotin Binding, Opened Loop Destabilization, Biotin Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. L. Magalhaes, C. M. Czekster, R. Guan, V. N. Malashkevich, S. C. Almo M. Levy
Evolved Streptavidin Mutants Reveal Key Role Of Loop Residu In High-Affinity Binding.
Protein Sci. V. 20 1145 2011
PubMed-ID: 21520321 | Reference-DOI: 10.1002/PRO.642

Molecule 1 - STREPTAVIDIN
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PCR2.1-TOPO
	Expression System Strain	:	BL21(DE3)CODON+RIL
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Fragment	:	UNP RESIDUES 37-164
	Mutation	:	YES
	Organism Scientific	:	STREPTOMYCES AVIDINII
	Organism Taxid	:	1895

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 1)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL

Biological Unit 2 (1, 2)

No.	Name	Count	Type	Full Name
1	GOL	2	Ligand/Ion	GLYCEROL

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN B:23 , SER B:27 , TYR B:43 , THR B:110 , ASP B:128	BINDING SITE FOR RESIDUE GOL B 300

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

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

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

Asymmetric Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	AVIDIN_2	PS51326	Avidin-like domain profile.	SAV_STRAV	37-159	2	A:13-134 B:13-135
2	AVIDIN_1	PS00577	Avidin-like domain signature.	SAV_STRAV	142-156	2	A:118-132 B:118-132

Biological Unit 1 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	AVIDIN_2	PS51326	Avidin-like domain profile.	SAV_STRAV	37-159	2	A:13-134 B:13-135
2	AVIDIN_1	PS00577	Avidin-like domain signature.	SAV_STRAV	142-156	2	A:118-132 B:118-132

Biological Unit 2 (2, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	AVIDIN_2	PS51326	Avidin-like domain profile.	SAV_STRAV	37-159	4	A:13-134 B:13-135
2	AVIDIN_1	PS00577	Avidin-like domain signature.	SAV_STRAV	142-156	4	A:118-132 B:118-132

(no "Exon" information available for 3RDX)

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
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Chain A from PDB  Type:PROTEIN  Length:124
 aligned with SAV_STRAV | P22629 from UniProtKB/Swiss-Prot  Length:183

    Alignment length:124
                                    44        54        64        74        84        94       104       114       124       134       144       154    
            SAV_STRAV    35 SAAEAGITGTWYNQLGSTFIVTAGADGALTGTYESAVGNAESRYVLTGRYDSAPATDGSGTALGWTVAWKNNYRNAHSATTWSGQYVGGAEARINTQWLLTSGTTEANAWKSTLVGHDTFTKVK 158
               SCOP domains d3rdxa_ A: automated matches                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhheeeee....eeeeee....eeeeeee.........eeeeeee..........eeeeeeeeee....eeeeeeeeeeeee.....eeeeeeeeee.....hhhh.eeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --AVIDIN_2  PDB: A:13-134 UniProt: 37-159                                                                                    PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------------------------------------AVIDIN_1       -- PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 3rdx A  11 MTAEAGITGTWYNQLGSTLIVTAGADGALTGTYESAVGNAEGSYVLTGRYDSAPATDGSGTALGWTVAWKNNYRNAHSASTWSGQYVGGAEARINTQVLTTSGTTEANAWKSTLVGHDTFTKVK 134
                                    20        30        40        50        60        70        80        90       100       110       120       130

Chain B from PDB  Type:PROTEIN  Length:125
 aligned with SAV_STRAV | P22629 from UniProtKB/Swiss-Prot  Length:183

    Alignment length:125
                                    44        54        64        74        84        94       104       114       124       134       144       154     
            SAV_STRAV    35 SAAEAGITGTWYNQLGSTFIVTAGADGALTGTYESAVGNAESRYVLTGRYDSAPATDGSGTALGWTVAWKNNYRNAHSATTWSGQYVGGAEARINTQWLLTSGTTEANAWKSTLVGHDTFTKVKP 159
               SCOP domains d3rdxb_ B: automated matches                                                                                                  SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ----Avidin-3rdxB01 B:15-132                                                                                               --- Pfam domains (1)
           Pfam domains (2) ----Avidin-3rdxB02 B:15-132                                                                                               --- Pfam domains (2)
         Sec.struct. author .hhhhhhheeeee....eeeeee....eeeeeee........eeeeeeee..........eeeeeeeeee....eeeeeeeeeeeee.....eeeeeeeeee..hhhhhhh.eeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --AVIDIN_2  PDB: B:13-135 UniProt: 37-159                                                                                     PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------------------------------------AVIDIN_1       --- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 3rdx B  11 MTAEAGITGTWYNQLGSTLIVTAGADGALTGTYESAVGNAEGSYVLTGRYDSAPATDGSGTALGWTVAWKNNYRNAHSASTWSGQYVGGAEARINTQVLTTSGTTEANAWKSTLVGHDTFTKVKP 135
                                    20        30        40        50        60        70        80        90       100       110       120       130

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: Streptavidin-like (225)

Superfamily: Avidin/streptavidin (197)

Family: Avidin/streptavidin (181)

Protein domain: automated matches (50)

Streptomyces avidinii [TaxId: 1895] (27)

1a	d3rdxa_	A:
1b	d3rdxb_	B:

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

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: Avidin] (113)

Family: Avidin (113)

Streptomyces avidinii (97)

1a	Avidin-3rdxB01	B:15-132
1b	Avidin-3rdxB02	B:15-132

Asymmetric Unit(hide GO term definitions)

Chain A,B (SAV_STRAV | P22629)

cellular component
	GO:0005576		extracellular region		The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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		Biological Unit 2	[ Jena3D ]

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