1OBO - JenaLib

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Biological Unit 1 (Jmol Viewer)

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Biological Unit 2 (Jmol Viewer)

Title :   W57L FLAVODOXIN FROM ANABAENA

Authors :   A. Romero, A. Ramon, C. Fernandez-Cabrera, M. P. Irun, J. Sancho

Date :   31 Jan 03 (Deposition) - 24 Apr 03 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.20

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

Keywords :   Electron Transfer, Flavoprotein, Electron Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Lostao, F. Daoudi, M. P. Irun, A. Ramon, C. Fernandez-Cabrera, A. Romero, J. Sancho
How Fmn Binds To Anabaena Apoflavodoxin: A Hydrophobic Encounter At An Open Binding Site
J. Biol. Chem. V. 278 24053 2003
PubMed-ID: 12682068 | Reference-DOI: 10.1074/JBC.M301049200
(for further references see the PDB file header)

Molecule 1 - FLAVODOXIN
	Cell Line	:	E.COLI JM109
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PTRC99A
	Expression System Strain	:	TG1
	Expression System Taxid	:	562
	Mutation	:	YES
	Organism Scientific	:	ANABAENA SP.
	Organism Taxid	:	1168
	Strain	:	PCC 7119

		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 (2, 3)

No.	Name	Count	Type	Full Name
1	FMN	2	Ligand/Ion	FLAVIN MONONUCLEOTIDE
2	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	FMN	1	Ligand/Ion	FLAVIN MONONUCLEOTIDE
2	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	FMN	1	Ligand/Ion	FLAVIN MONONUCLEOTIDE
2	SO4	-1	Ligand/Ion	SULFATE ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:1121 , LYS A:1137 , HOH A:2111 , HOH A:2114 , HOH A:2152 , HOH A:2153 , FMN B:2170	BINDING SITE FOR RESIDUE SO4 A1171
2	AC2	SOFTWARE	THR A:1010 , GLN A:1011 , THR A:1012 , GLY A:1013 , LYS A:1014 , THR A:1015 , PRO A:1055 , THR A:1056 , ASN A:1058 , ILE A:1059 , GLY A:1060 , THR A:1088 , GLY A:1089 , ASP A:1090 , TYR A:1094 , ASN A:1097 , PHE A:1098 , GLN A:1099 , ASP A:1146 , HOH A:2073 , HOH A:2149 , HOH A:2150 , HOH A:2151 , ASP B:2024 , GLU B:2025	BINDING SITE FOR RESIDUE FMN A1170
3	AC3	SOFTWARE	SO4 A:1171 , THR B:2010 , GLN B:2011 , THR B:2012 , GLY B:2013 , LYS B:2014 , THR B:2015 , PRO B:2055 , THR B:2056 , ASN B:2058 , ILE B:2059 , GLY B:2060 , THR B:2088 , GLY B:2089 , ASP B:2090 , TYR B:2094 , ASN B:2097 , PHE B:2098 , GLN B:2099 , ASP B:2146 , HOH B:5030 , HOH B:5128 , HOH B:5157	BINDING SITE FOR RESIDUE FMN B2170

(no "SS Bond" information available for 1OBO)

(no "Cis Peptide Bond" information available for 1OBO)

(no "SAP(SNP)/Variant" information available for 1OBO)

Asymmetric Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FLAVODOXIN_LIKE	PS50902	Flavodoxin-like domain profile.	FLAV_NOSS1	5-165	2	A:1004-1164 B:2004-2164
1	FLAVODOXIN_LIKE	PS50902	Flavodoxin-like domain profile.	FLAV_NOSSO	5-165	2	A:1004-1164 B:2004-2164
2	FLAVODOXIN	PS00201	Flavodoxin signature.	FLAV_NOSS1	7-23	2	A:1006-1022 B:2006-2022
2	FLAVODOXIN	PS00201	Flavodoxin signature.	FLAV_NOSSO	7-23	2	A:1006-1022 B:2006-2022

Biological Unit 1 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FLAVODOXIN_LIKE	PS50902	Flavodoxin-like domain profile.	FLAV_NOSS1	5-165	1	A:1004-1164 -
1	FLAVODOXIN_LIKE	PS50902	Flavodoxin-like domain profile.	FLAV_NOSSO	5-165	1	A:1004-1164 -
2	FLAVODOXIN	PS00201	Flavodoxin signature.	FLAV_NOSS1	7-23	1	A:1006-1022 -
2	FLAVODOXIN	PS00201	Flavodoxin signature.	FLAV_NOSSO	7-23	1	A:1006-1022 -

Biological Unit 2 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FLAVODOXIN_LIKE	PS50902	Flavodoxin-like domain profile.	FLAV_NOSS1	5-165	1	- B:2004-2164
1	FLAVODOXIN_LIKE	PS50902	Flavodoxin-like domain profile.	FLAV_NOSSO	5-165	1	- B:2004-2164
2	FLAVODOXIN	PS00201	Flavodoxin signature.	FLAV_NOSS1	7-23	1	- B:2006-2022
2	FLAVODOXIN	PS00201	Flavodoxin signature.	FLAV_NOSSO	7-23	1	- B:2006-2022

(no "Exon" information available for 1OBO)

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:169
 aligned with FLAV_NOSS1 | P0A3D9 from UniProtKB/Swiss-Prot  Length:170

    Alignment length:169
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161         
          FLAV_NOSS1      2 SKKIGLFYGTQTGKTESVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTWNIGELQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGYADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL  170
               SCOP domains d1oboa_ A: Flavodoxin                                                                                                                                                     SCOP domains
               CATH domains 1oboA00 A:1001-1169  [code=3.40.50.360, no name defined]                                                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee....hhhhhhhhhhhhhhh...eeeee....hhhhhhhh.eeeeeeeee...eehhhhhhhhhhhhhh.....eeeeeee..........hhhhhhhhhhhhhh.......ee...........ee..ee.........hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) ---FLAVODOXIN_LIKE  PDB: A:1004-1164 UniProt: 5-165                                                                                                                 ----- PROSITE (2)
                PROSITE (3) -----FLAVODOXIN       --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1obo A 1001 AKKIGLFYGTQTGKTESVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTLNIGELQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGYADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL 1169
                                  1010      1020      1030      1040      1050      1060      1070      1080      1090      1100      1110      1120      1130      1140      1150      1160

Chain A from PDB  Type:PROTEIN  Length:169
 aligned with FLAV_NOSSO | P0A3E0 from UniProtKB/Swiss-Prot  Length:170

    Alignment length:169
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161         
          FLAV_NOSSO      2 SKKIGLFYGTQTGKTESVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTWNIGELQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGYADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL  170
               SCOP domains d1oboa_ A: Flavodoxin                                                                                                                                                     SCOP domains
               CATH domains 1oboA00 A:1001-1169  [code=3.40.50.360, no name defined]                                                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee....hhhhhhhhhhhhhhh...eeeee....hhhhhhhh.eeeeeeeee...eehhhhhhhhhhhhhh.....eeeeeee..........hhhhhhhhhhhhhh.......ee...........ee..ee.........hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---FLAVODOXIN_LIKE  PDB: A:1004-1164 UniProt: 5-165                                                                                                                 ----- PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) -----FLAVODOXIN       --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (4)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1obo A 1001 AKKIGLFYGTQTGKTESVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTLNIGELQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGYADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL 1169
                                  1010      1020      1030      1040      1050      1060      1070      1080      1090      1100      1110      1120      1130      1140      1150      1160

Chain B from PDB  Type:PROTEIN  Length:169
 aligned with FLAV_NOSS1 | P0A3D9 from UniProtKB/Swiss-Prot  Length:170

    Alignment length:169
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161         
          FLAV_NOSS1      2 SKKIGLFYGTQTGKTESVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTWNIGELQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGYADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL  170
               SCOP domains d1obob_ B: Flavodoxin                                                                                                                                                     SCOP domains
               CATH domains 1oboB00 B:2001-2169  [code=3.40.50.360, no name defined]                                                                                                                  CATH domains
           Pfam domains (1) -----Flavodoxin_1-1oboB01 B:2006-2159                                                                                                                          ---------- Pfam domains (1)
           Pfam domains (2) -----Flavodoxin_1-1oboB02 B:2006-2159                                                                                                                          ---------- Pfam domains (2)
         Sec.struct. author ...eeeee....hhhhhhhhhhhhhhh...eeeee....hhhhhh...eeeeeeeee...eehhhhhhhhhhhhhh.....eeeeeee..........hhhhhhhhhhhhhh....................ee..ee............hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) ---FLAVODOXIN_LIKE  PDB: B:2004-2164 UniProt: 5-165                                                                                                                 ----- PROSITE (2)
                PROSITE (3) -----FLAVODOXIN       --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1obo B 2001 AKKIGLFYGTQTGKTESVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTLNIGELQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGYADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL 2169
                                  2010      2020      2030      2040      2050      2060      2070      2080      2090      2100      2110      2120      2130      2140      2150      2160

Chain B from PDB  Type:PROTEIN  Length:169
 aligned with FLAV_NOSSO | P0A3E0 from UniProtKB/Swiss-Prot  Length:170

    Alignment length:169
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161         
          FLAV_NOSSO      2 SKKIGLFYGTQTGKTESVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTWNIGELQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGYADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL  170
               SCOP domains d1obob_ B: Flavodoxin                                                                                                                                                     SCOP domains
               CATH domains 1oboB00 B:2001-2169  [code=3.40.50.360, no name defined]                                                                                                                  CATH domains
           Pfam domains (1) -----Flavodoxin_1-1oboB01 B:2006-2159                                                                                                                          ---------- Pfam domains (1)
           Pfam domains (2) -----Flavodoxin_1-1oboB02 B:2006-2159                                                                                                                          ---------- Pfam domains (2)
         Sec.struct. author ...eeeee....hhhhhhhhhhhhhhh...eeeee....hhhhhh...eeeeeeeee...eehhhhhhhhhhhhhh.....eeeeeee..........hhhhhhhhhhhhhh....................ee..ee............hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---FLAVODOXIN_LIKE  PDB: B:2004-2164 UniProt: 5-165                                                                                                                 ----- PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) -----FLAVODOXIN       --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (4)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1obo B 2001 AKKIGLFYGTQTGKTESVAEIIRDEFGNDVVTLHDVSQAEVTDLNDYQYLIIGCPTLNIGELQSDWEGLYSELDDVDFNGKLVAYFGTGDQIGYADNFQDAIGILEEKISQRGGKTVGYWSTDGYDFNDSKALRNGKFVGLALDEDNQSDLTDDRIKSWVAQLKSEFGL 2169
                                  2010      2020      2030      2040      2050      2060      2070      2080      2090      2100      2110      2120      2130      2140      2150      2160

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) (23833)

Fold: Flavodoxin-like (1057)

Superfamily: Flavoproteins (208)

Family: Flavodoxin-related (81)

Protein domain: Flavodoxin (65)

Anabaena, pcc 7119 and 7120 [TaxId: 1163] (8)

1a	d1oboa_	A:
1b	d1obob_	B:

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. Cell_line: e.coli jm109. (2)

1a	1oboA00	A:1001-1169
1b	1oboB00	B:2001-2169

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Flavoprotein (71)

Family: Flavodoxin_1 (23)

Nostoc sp. (strain PCC 7120 / UTEX 2576) (3)

1a	Flavodoxin_1-1oboB01	B:2006-2159
1b	Flavodoxin_1-1oboB02	B:2006-2159

Asymmetric Unit(hide GO term definitions)

Chain A,B (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.

Chain A,B (FLAV_NOSS1 | P0A3D9)

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.
biological process
	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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UniProtKB/Swiss-Prot
	FLAV_NOSS1 \| P0A3D9	:	1dx9 1flv 1obv 1rcf
	FLAV_NOSSO \| P0A3E0	:	1dx9 1ftg 1obv 1qhe 2kqu 2v5u 2v5v 3esx 3esy 3esz

1dx9	W57A APOFLAVODOXIN FROM ANABAENA
1flv	FLAVODOXIN
1ftg	STRUCTURE OF APOFLAVODOXIN: CLOSURE OF A TYROSINE/TRYPTOPHAN AROMATIC GATE LEADS TO A COMPACT FOLD
1obv	Y49F FLAVODOXIN FROM ANABENA
1qhe	ENERGETICS OF A HYDROGEN BOND (CHARGED AND NEUTRAL) AND OF A CATION-PI INTERACTION IN APOFLAVODOXIN
1rcf	FLAVODOXIN COMPLEXED WITH FLAVIN MONONUCLEOTIDE (FMN)

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Ligands, Modified Residues, Ions (2, 3)

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