3ESY - JenaLib

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Biological Unit 1 (Jmol Viewer)

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Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Title :   E16KE61K FLAVODOXIN FROM ANABAENA

Authors :   B. Herguedas, M. Martinez-Julvez, J. A. Hermoso, G. Goni, M. Medina

Date :   06 Oct 08 (Deposition) - 10 Feb 09 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.39

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 :   Alpha And Beta Protein, Electron Transport, Flavoprotein, Fmn, Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   G. Goni, B. Herguedas, M. Hervas, J. R. Peregrina, M. A. De La Rosa, C. Gomez-Moreno, J. A. Navarro, J. A. Hermoso, M. Martinez-Julvez, M. Medina
Flavodoxin: A Compromise Between Efficiency And Versatility In The Electron Transfer From Photosystem I To Ferredoxin-Nadp(+) Reductase
Biochim. Biophys. Acta V. 1787 144 2009
PubMed-ID: 19150326 | Reference-DOI: 10.1016/J.BBABIO.2008.12.006

Molecule 1 - FLAVODOXIN
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PTRC99A
	Expression System Strain	:	TG1
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Mutation	:	YES
	Organism Scientific	:	ANABAENA SP.
	Organism Taxid	:	1168
	Strain	:	PCC 7119

		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 (2, 6)

No.	Name	Count	Type	Full Name
1	FMN	4	Ligand/Ion	FLAVIN MONONUCLEOTIDE
2	GOL	2	Ligand/Ion	GLYCEROL

Biological Unit 1 (2, 2)

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

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	FMN	1	Ligand/Ion	FLAVIN MONONUCLEOTIDE
2	GOL	-1	Ligand/Ion	GLYCEROL

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	FMN	1	Ligand/Ion	FLAVIN MONONUCLEOTIDE
2	GOL	-1	Ligand/Ion	GLYCEROL

Biological Unit 4 (2, 2)

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

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR A:10 , GLN A:11 , THR A:12 , GLY A:13 , LYS A:14 , THR A:15 , TYR A:49 , PRO A:55 , THR A:56 , TRP A:57 , ASN A:58 , THR A:88 , GLY A:89 , ASP A:90 , TYR A:94 , ASN A:97 , PHE A:98 , GLN A:99 , ASP A:146 , HOH A:2466 , HOH A:2470 , HOH A:2481 , HOH A:2491	BINDING SITE FOR RESIDUE FMN A 170
2	AC2	SOFTWARE	THR A:12 , HOH A:2452	BINDING SITE FOR RESIDUE GOL A 2431
3	AC3	SOFTWARE	THR B:10 , GLN B:11 , THR B:12 , GLY B:13 , LYS B:14 , THR B:15 , PRO B:55 , THR B:56 , TRP B:57 , ASN B:58 , ILE B:59 , GLY B:60 , THR B:88 , GLY B:89 , ASP B:90 , TYR B:94 , ASN B:97 , PHE B:98 , GLN B:99 , ASP B:146 , HOH B:200 , GLU C:67	BINDING SITE FOR RESIDUE FMN B 170
4	AC4	SOFTWARE	THR C:10 , GLN C:11 , THR C:12 , GLY C:13 , LYS C:14 , THR C:15 , PRO C:55 , THR C:56 , TRP C:57 , ASN C:58 , ILE C:59 , GLY C:60 , THR C:88 , GLY C:89 , ASP C:90 , TYR C:94 , ASN C:97 , PHE C:98 , GLN C:99 , ASP C:146 , HOH C:188 , HOH C:196 , HOH C:315	BINDING SITE FOR RESIDUE FMN C 170
5	AC5	SOFTWARE	THR D:10 , GLN D:11 , THR D:12 , GLY D:13 , LYS D:14 , THR D:15 , PRO D:55 , THR D:56 , TRP D:57 , ASN D:58 , ILE D:59 , GLY D:60 , THR D:88 , GLY D:89 , ASP D:90 , TYR D:94 , ASN D:97 , PHE D:98 , GLN D:99 , ASP D:146 , HOH D:173 , HOH D:320	BINDING SITE FOR RESIDUE FMN D 170
6	AC6	SOFTWARE	THR C:116 , TYR C:119 , THR D:10 , GLN D:11 , HOH D:2445	BINDING SITE FOR RESIDUE GOL D 2432

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

Asymmetric Unit

No.	Residues
1	Asn A:58	-	Ile A:59

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

Asymmetric Unit (2, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FLAVODOXIN_LIKE	PS50902	Flavodoxin-like domain profile.	FLAV_NOSSO	5-165	4	A:4-164 B:4-164 C:4-164 D:4-164
2	FLAVODOXIN	PS00201	Flavodoxin signature.	FLAV_NOSSO	7-23	4	A:6-22 B:6-22 C:6-22 D:6-22

Biological Unit 1 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FLAVODOXIN_LIKE	PS50902	Flavodoxin-like domain profile.	FLAV_NOSSO	5-165	1	A:4-164 - - -
2	FLAVODOXIN	PS00201	Flavodoxin signature.	FLAV_NOSSO	7-23	1	A:6-22 - - -

Biological Unit 2 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FLAVODOXIN_LIKE	PS50902	Flavodoxin-like domain profile.	FLAV_NOSSO	5-165	1	- B:4-164 - -
2	FLAVODOXIN	PS00201	Flavodoxin signature.	FLAV_NOSSO	7-23	1	- B:6-22 - -

Biological Unit 3 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FLAVODOXIN_LIKE	PS50902	Flavodoxin-like domain profile.	FLAV_NOSSO	5-165	1	- - C:4-164 -
2	FLAVODOXIN	PS00201	Flavodoxin signature.	FLAV_NOSSO	7-23	1	- - C:6-22 -

Biological Unit 4 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FLAVODOXIN_LIKE	PS50902	Flavodoxin-like domain profile.	FLAV_NOSSO	5-165	1	- - - D:4-164
2	FLAVODOXIN	PS00201	Flavodoxin signature.	FLAV_NOSSO	7-23	1	- - - D:6-22

(no "Exon" information available for 3ESY)

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:168
 aligned with FLAV_NOSSO | P0A3E0 from UniProtKB/Swiss-Prot  Length:170

    Alignment length:168
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162        
           FLAV_NOSSO     3 KKIGLFYGTQTGKTESVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTWNIGELQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGYADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL 170
               SCOP domains d3esya_ A: automated matches                                                                                                                                             SCOP domains
               CATH domains 3esyA00 A:2-169  [code=3.40.50.360, no name defined]                                                                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeee....hhhhhhhhhhhhhhh...eeeee....hhhhhhhh.eeeee..ee...eehhhhhhhhhhhhhh.....eeeeeee..........hhhhhhhhhhhhhh..ee................ee..ee..eee....hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) --FLAVODOXIN_LIKE  PDB: A:4-164 UniProt: 5-165                                                                                                                     ----- PROSITE (1)
                PROSITE (2) ----FLAVODOXIN       --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3esy A   2 KKIGLFYGTQTGKTKSVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTWNIGKLQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGYADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL 169
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161

Chain B from PDB  Type:PROTEIN  Length:168
 aligned with FLAV_NOSSO | P0A3E0 from UniProtKB/Swiss-Prot  Length:170

    Alignment length:168
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162        
           FLAV_NOSSO     3 KKIGLFYGTQTGKTESVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTWNIGELQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGYADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL 170
               SCOP domains d3esyb_ B: automated matches                                                                                                                                             SCOP domains
               CATH domains 3esyB00 B:2-169  [code=3.40.50.360, no name defined]                                                                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeee....hhhhhhhhhhhhhhh...eeeee....hhhhhhhh.eeeee..ee...eehhhhhhhhhhhhhh.....eeeeeee..........hhhhhhhhhhhhhh..ee................ee..ee..eee.......hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) --FLAVODOXIN_LIKE  PDB: B:4-164 UniProt: 5-165                                                                                                                     ----- PROSITE (1)
                PROSITE (2) ----FLAVODOXIN       --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3esy B   2 KKIGLFYGTQTGKTKSVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTWNIGKLQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGYADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL 169
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161

Chain C from PDB  Type:PROTEIN  Length:168
 aligned with FLAV_NOSSO | P0A3E0 from UniProtKB/Swiss-Prot  Length:170

    Alignment length:168
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162        
           FLAV_NOSSO     3 KKIGLFYGTQTGKTESVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTWNIGELQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGYADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL 170
               SCOP domains d3esyc_ C: automated matches                                                                                                                                             SCOP domains
               CATH domains 3esyC00 C:2-169  [code=3.40.50.360, no name defined]                                                                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeee....hhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhh.eeeee..ee...eehhhhhhhhhhhhhh.....eeeeeee..........hhhhhhhhhhhhhh..ee...ee...........ee..ee..eee.......hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) --FLAVODOXIN_LIKE  PDB: C:4-164 UniProt: 5-165                                                                                                                     ----- PROSITE (1)
                PROSITE (2) ----FLAVODOXIN       --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3esy C   2 KKIGLFYGTQTGKTKSVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTWNIGKLQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGYADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL 169
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161

Chain D from PDB  Type:PROTEIN  Length:168
 aligned with FLAV_NOSSO | P0A3E0 from UniProtKB/Swiss-Prot  Length:170

    Alignment length:168
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162        
           FLAV_NOSSO     3 KKIGLFYGTQTGKTESVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTWNIGELQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGYADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL 170
               SCOP domains d3esyd_ D: automated matches                                                                                                                                             SCOP domains
               CATH domains 3esyD00 D:2-169  [code=3.40.50.360, no name defined]                                                                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeee....hhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhh.eeeee..ee...eehhhhhhhhhhhhhh.....eeeeeee..........hhhhhhhhhhhhhh..ee...ee...............ee..eee.......hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) --FLAVODOXIN_LIKE  PDB: D:4-164 UniProt: 5-165                                                                                                                     ----- PROSITE (1)
                PROSITE (2) ----FLAVODOXIN       --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3esy D   2 KKIGLFYGTQTGKTKSVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTWNIGKLQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGYADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL 169
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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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

Classes(

)

Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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

Fold: Flavodoxin-like (1057)

Superfamily: Flavoproteins (208)

Family: Flavodoxin-related (81)

Protein domain: automated matches (9)

Anabaena sp. [TaxId: 1168] (5)

1a	d3esya_	A:
1b	d3esyb_	B:
1c	d3esyc_	C:
1d	d3esyd_	D:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Rossmann fold (7312)

Homologous Superfamily: [code=3.40.50.360, no name defined] (150)

Anabaena sp.. Organism_taxid: 1168. Strain: pcc 7119. (5)

1a	3esyA00	A:2-169
1b	3esyC00	C:2-169
1c	3esyD00	D:2-169
1d	3esyB00	B:2-169

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

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (FLAV_NOSSO | P0A3E0)

molecular function
	GO:0010181	FMN binding	Interacting selectively and non-covalently with flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
	GO:0009055	electron carrier activity	Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
	GO:0010106	cellular response to iron ion starvation	Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of deprivation of iron ions.
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

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		Asn A:58 - Ile A:59	[ RasMol ]

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	3esy
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UniProtKB/Swiss-Prot
	FLAV_NOSSO \| P0A3E0	:	1dx9 1ftg 1obo 1obv 1qhe 2kqu 2v5u 2v5v 3esx 3esz

3esx	E16KE61KD126KD150K FLAVODOXIN FROM ANABAENA
3esz	K2AK3A FLAVODOXIN FROM ANABAENA

Description

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Ligands, Modified Residues, Ions (2, 6)

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SS Bonds (0, 0)

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