1YOB - JenaLib

Title :   C69A FLAVODOXIN II FROM AZOTOBACTER VINELANDII

Authors :   S. Alagaratnam, G. Van Pouderoyen, T. Pijning, B. W. Dijkstra, D. Cavazzini, G. L. Rossi, G. W. Canters

Date :   27 Jan 05 (Deposition) - 18 Oct 05 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.25

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

Keywords :   Flavodoxin Ii, Azotobacter Vinelandii, Alpha-Beta Fold, Non- Covalently Bound Fmn, Electron Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. Alagaratnam, G. Van Pouderoyen, T. Pijning, B. W. Dijkstra, D. Cavazzini, G. L. Rossi, W. M. Van Dongen, C. P. Van Mierlo, W. J. Van Berkel, G. W. Canters
A Crystallographic Study Of Cys69Ala Flavodoxin Ii From Azotobacter Vinelandii: Structural Determinants Of Redox Potential
Protein Sci. V. 14 2284 2005
PubMed-ID: 16131657 | Reference-DOI: 10.1110/PS.051582605
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 8)

Sites (8, 8)

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	VAL B:125 , GLY B:126 , SER B:127 , HOH B:2257	BINDING SITE FOR RESIDUE SO4 B 701
2	AC2	SOFTWARE	VAL A:125 , GLY A:126 , SER A:127 , GLN A:170 , HOH A:1262 , HOH A:1293	BINDING SITE FOR RESIDUE SO4 A 702
3	AC3	SOFTWARE	PHE A:7 , ARG A:15 , ASN A:35 , ARG A:38 , HOH A:1274 , HOH A:1289	BINDING SITE FOR RESIDUE SO4 A 703
4	AC4	SOFTWARE	ARG A:38 , SER A:129 , HOH A:1232 , HOH A:1257 , HOH A:1300	BINDING SITE FOR RESIDUE SO4 A 704
5	AC5	SOFTWARE	ASP B:27 , ASN B:35 , ARG B:38 , HOH B:2249	BINDING SITE FOR RESIDUE SO4 B 705
6	AC6	SOFTWARE	LYS A:23 , HOH A:1295 , GLN B:156	BINDING SITE FOR RESIDUE SO4 A 706
7	AC7	SOFTWARE	SER A:9 , ASN A:10 , THR A:11 , GLY A:12 , LYS A:13 , THR A:14 , PRO A:55 , THR A:56 , GLY A:58 , GLY A:60 , GLY A:97 , ASP A:98 , TYR A:102 , ASN A:105 , TYR A:106 , LEU A:107 , ASP A:154 , HOH A:1201 , HOH A:1213 , HOH A:1217	BINDING SITE FOR RESIDUE FMN A 1200
8	AC8	SOFTWARE	SER B:9 , ASN B:10 , THR B:11 , GLY B:12 , LYS B:13 , THR B:14 , PRO B:55 , THR B:56 , LEU B:57 , GLY B:58 , GLU B:59 , GLY B:60 , GLY B:97 , ASP B:98 , TYR B:102 , ASN B:105 , TYR B:106 , LEU B:107 , ASP B:154 , HOH B:2201 , HOH B:2209 , HOH B:2272	BINDING SITE FOR RESIDUE FMN B 2200

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 4)

Exons (0, 0)

Sequences/Alignments

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:179
 aligned with FLAV_AZOVI | P00324 from UniProtKB/Swiss-Prot  Length:180

    Alignment length:179
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171         
           FLAV_AZOVI     2 AKIGLFFGSNTGKTRKVAKSIKKRFDDETMSDALNVNRVSAEDFAQYQFLILGTPTLGEGELPGLSSDCENESWEEFLPKIEGLDFSGKTVALFGLGDQVGYPENYLDALGELYSFFKDRGAKIVGSWSTDGYEFESSEAVVDGKFVGLALDLDNQSGKTDERVAAWLAQIAPEFGLSL 180
               SCOP domains d1yoba1 A:1-179 Flavodoxin                                                                                                                                                          SCOP domains
               CATH domains 1yobA00 A:1-179  [code=3.40.50.360, no name defined]                                                                                                                                CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee....hhhhhhhhhhhh..........ee.hhhhhhhhhh..eeeeeee........hhhhh....hhhhhhhhhh.......eeeeeee..........hhhhhhhhhhhhh...eee.......................eee....hhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --FLAVODOXIN_LIKE  PDB: A:3-172 UniProt: 4-173                                                                                                                              ------- PROSITE (1)
                PROSITE (2) ----FLAVODOXIN       -------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1yob A   1 AKIGLFFGSNTGKTRKVAKSIKKRFDDETMSDALNVNRVSAEDFAQYQFLILGTPTLGEGELPGLSSDAENESWEEFLPKIEGLDFSGKTVALFGLGDQVGYPENYLDALGELYSFFKDRGAKIVGSWSTDGYEFESSEAVVDGKFVGLALDLDNQSGKTDERVAAWLAQIAPEFGLSL 179
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170

Chain B from PDB  Type:PROTEIN  Length:179
 aligned with FLAV_AZOVI | P00324 from UniProtKB/Swiss-Prot  Length:180

    Alignment length:179
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171         
           FLAV_AZOVI     2 AKIGLFFGSNTGKTRKVAKSIKKRFDDETMSDALNVNRVSAEDFAQYQFLILGTPTLGEGELPGLSSDCENESWEEFLPKIEGLDFSGKTVALFGLGDQVGYPENYLDALGELYSFFKDRGAKIVGSWSTDGYEFESSEAVVDGKFVGLALDLDNQSGKTDERVAAWLAQIAPEFGLSL 180
               SCOP domains d1yobb_ B: automated matches                                                                                                                                                        SCOP domains
               CATH domains 1yobB00 B:1-179  [code=3.40.50.360, no name defined]                                                                                                                                CATH domains
           Pfam domains (1) ----Flavodoxin_1-1yobB01 B:5-167                                                                                                                                       ------------ Pfam domains (1)
           Pfam domains (2) ----Flavodoxin_1-1yobB02 B:5-167                                                                                                                                       ------------ Pfam domains (2)
         Sec.struct. author ..eeeee....hhhhhhhhhhhh..........ee....hhhhhhh..eeeeee..................hhhhhhhhhh.......eeeeeee..........hhhhhhhhhhhhh...eee..ee...........ee..ee..eee....hhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --FLAVODOXIN_LIKE  PDB: B:3-172 UniProt: 4-173                                                                                                                              ------- PROSITE (1)
                PROSITE (2) ----FLAVODOXIN       -------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1yob B   1 AKIGLFFGSNTGKTRKVAKSIKKRFDDETMSDALNVNRVSAEDFAQYQFLILGTPTLGEGELPGLSSDAENESWEEFLPKIEGLDFSGKTVALFGLGDQVGYPENYLDALGELYSFFKDRGAKIVGSWSTDGYEFESSEAVVDGKFVGLALDLDNQSGKTDERVAAWLAQIAPEFGLSL 179
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170

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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Classification and Annotation

SCOP Domains (2, 2)

CATH Domains (1, 2)

Pfam Domains (1, 2)

Gene Ontology (4, 4)

Asymmetric Unit(hide GO term definitions)

Chain A,B (FLAV_AZOVI | P00324)

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:0009399	nitrogen fixation	The process in which nitrogen is taken from its relatively inert molecular form (N2) in the atmosphere and converted into nitrogen compounds useful for other chemical processes, such as ammonia, nitrate and nitrogen dioxide.
	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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