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Asym./Biol. Unit (Jmol Viewer)

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Title :   NITROGENASE IRON PROTEIN FROM CLOSTRIDIUM PASTEURIANUM

Authors :   J. L. Schlessman, D. Woo, L. Joshua-Tor, J. B. Howard, D. C. Rees

Date :   11 May 98 (Deposition) - 04 Nov 98 (Release) - 24 Mar 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.93

Chains :   Asym./Biol. Unit : A,B

Keywords :   Oxidoreductase, Nitrogenase Iron Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. L. Schlessman, D. Woo, L. Joshua-Tor, J. B. Howard, D. C. Rees
Conformational Variability In Structures Of The Nitrogenase Iron Proteins From Azotobacter Vinelandii And Clostridium Pasteurianum.
J. Mol. Biol. V. 280 669 1998
PubMed-ID: 9677296 | Reference-DOI: 10.1006/JMBI.1998.1898
(for further references see the PDB file header)

Molecule 1 - NITROGENASE IRON PROTEIN
	Atcc	:	ATCC 6013
	Cell Line	:	W5
	Chains	:	A, B
	Collection	:	ATCC 6013
	EC Number	:	1.18.6.1
	Organism Scientific	:	CLOSTRIDIUM PASTEURIANUM
	Organism Taxid	:	1501
	Other Details	:	COVALENT BRIDGE BETWEEN CYS 94 AND CYS 129 GAMMA SULFURS AND THE FE'S OF 4FE4S CLUSTER
	Synonym	:	CP2

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 1)

No.	Name	Count	Type	Full Name
1	SF4	1	Ligand/Ion	IRON/SULFUR CLUSTER

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	CYS A:94 , CYS A:129 , GLY A:131 , CYS B:94 , ALA B:95 , CYS B:129 , GLY B:131 , HOH B:346	BINDING SITE FOR RESIDUE SF4 B 290
2	FES	AUTHOR	CYS A:94 , CYS A:129 , CYS B:94 , CYS B:129	THE FS4 IS COVALENTLY BONDED THROUGH ITS FE ATOMS TO THE GAMMA SULFURS OF CYS 94 AND CYS 129 OF EACH SUBUNIT.
3	WMA	AUTHOR	GLY A:8 , LYS A:9 , GLY A:10 , GLY A:11 , ILE A:12 , GLY A:13 , LYS A:14 , SER A:15 , GLY B:8 , LYS B:9 , GLY B:10 , GLY B:11 , ILE B:12 , GLY B:13 , LYS B:14 , SER B:15	WALKER A MOTIF
4	WMB	AUTHOR	ASP A:122 , ASP B:122	WALKER B MOTIF

(no "SS Bond" information available for 1CP2)

(no "Cis Peptide Bond" information available for 1CP2)

(no "SAP(SNP)/Variant" information available for 1CP2)

Asymmetric/Biological Unit (3, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	NIFH_FRXC_3	PS51026	NIFH_FRXC family profile.	NIFH1_CLOPA	1-271	2	A:1-269 B:1-269
2	NIFH_FRXC_1	PS00746	NifH/frxC family signature 1.	NIFH1_CLOPA	84-96	2	A:84-96 B:84-96
3	NIFH_FRXC_2	PS00692	NifH/frxC family signature 2.	NIFH1_CLOPA	122-135	2	A:122-135 B:122-135

(no "Exon" information available for 1CP2)

Asymmetric/Biological 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:269
 aligned with NIFH1_CLOPA | P00456 from UniProtKB/Swiss-Prot  Length:273

    Alignment length:269
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260         
          NIFH1_CLOPA     1 MRQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPKADSTRLLLGGLAQKSVLDTLREEGEDVELDSILKEGYGGIRCVESGGPEPGVGCAGRGIITSINMLEQLGAYTDDLDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASGEMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVANEYELLDAFAKELGSQLIHFVPRSPMVTKAEINKQTVIEYDPTCEQAEEYRELARKVDANELFVIPKPMTQERLEEILMQYG 269
               SCOP domains d1cp2a_ A: Nitrogenase iron protein                                                                                                                                                                                                                                           SCOP domains
               CATH domains 1cp2A00 A:1-269 P-loop containing nucleotide triphosphate hydrolases                                                                                                                                                                                                          CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.....hhhhhhhhhhhhhhh...eeeeee.......hhhh.......hhhhhhhhhhh..hhhh....hhh.eeee..........hhhhhhhhhhhhhh.........eeeeeee.........hhhh.....eeeeee...hhhhhhhhhhhhhhhhh......eeeeeeee.......hhhhhhhhhh....eeeee...hhhhhhhh....hhhh....hhhhhhhhhhhhhhh...........hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) NIFH_FRXC_3  PDB: A:1-269 UniProt: 1-271                                                                                                                                                                                                                                      PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------------NIFH_FRXC_1  -------------------------NIFH_FRXC_2   -------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1cp2 A   1 MRQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPKADSTRLLLGGLAQKSVLDTLREEGEDVELDSILKEGYGGIRCVESGGPEPGVGCAGRGIITSINMLEQLGAYTDDLDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASGEMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVANEYELLDAFAKELGSQLIHFVPRSPMVTKAEINKQTVIEYDPTCEQAEEYRELARKVDANELFVIPKPMTQERLEEILMQYG 269
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260

Chain B from PDB  Type:PROTEIN  Length:269
 aligned with NIFH1_CLOPA | P00456 from UniProtKB/Swiss-Prot  Length:273

    Alignment length:269
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260         
          NIFH1_CLOPA     1 MRQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPKADSTRLLLGGLAQKSVLDTLREEGEDVELDSILKEGYGGIRCVESGGPEPGVGCAGRGIITSINMLEQLGAYTDDLDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASGEMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVANEYELLDAFAKELGSQLIHFVPRSPMVTKAEINKQTVIEYDPTCEQAEEYRELARKVDANELFVIPKPMTQERLEEILMQYG 269
               SCOP domains d1cp2b_ B: Nitrogenase iron protein                                                                                                                                                                                                                                           SCOP domains
               CATH domains 1cp2B00 B:1-269 P-loop containing nucleotide triphosphate hydrolases                                                                                                                                                                                                          CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.....hhhhhhhhhhhhhhh...eeeeee..................hhhhhhhh.....hhhh....hhh.eeee..........hhhhhhhhhhhhhh.........eeeeeee.......hhhhhh.....eeeeee...hhhhhhhhhhhhhhhhhh.....eeeeeeee......hhhhhhhhhhh....eeeee...hhhhhhhhh...........hhhhhhhhhhhhhh............hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) NIFH_FRXC_3  PDB: B:1-269 UniProt: 1-271                                                                                                                                                                                                                                      PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------------NIFH_FRXC_1  -------------------------NIFH_FRXC_2   -------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1cp2 B   1 MRQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPKADSTRLLLGGLAQKSVLDTLREEGEDVELDSILKEGYGGIRCVESGGPEPGVGCAGRGIITSINMLEQLGAYTDDLDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASGEMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVANEYELLDAFAKELGSQLIHFVPRSPMVTKAEINKQTVIEYDPTCEQAEEYRELARKVDANELFVIPKPMTQERLEEILMQYG 269
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260

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/Biological Unit

Classes(

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Folds(

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Superfamilies( (-)

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Families(

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Protein Domains( (-)

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Organisms( (-)

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

Fold: P-loop containing nucleoside triphosphate hydrolases (2083)

Superfamily: P-loop containing nucleoside triphosphate hydrolases (2083)

Family: Nitrogenase iron protein-like (152)

Protein domain: Nitrogenase iron protein (21)

Clostridium pasteurianum [TaxId: 1501] (1)

1a	d1cp2a_	A:
1b	d1cp2b_	B:

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

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Topologies( (-)

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Homologous Superfamilies( (-)

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Organisms( (-)

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Class: Alpha Beta (26913)

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

Topology: Rossmann fold (7312)

Homologous Superfamily: P-loop containing nucleotide triphosphate hydrolases (1378)

Clostridium pasteurianum. Organism_taxid: 1501. Cell_line: w5. (1)

1a	1cp2A00	A:1-269
1b	1cp2B00	B:1-269

(no "Pfam Domain" information available for 1CP2)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (NIFH1_CLOPA | P00456)

molecular function
	GO:0051539	4 iron, 4 sulfur cluster binding	Interacting selectively and non-covalently with a 4 iron, 4 sulfur (4Fe-4S) cluster; this cluster consists of four iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands.
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0018697	carbonyl sulfide nitrogenase activity	Catalysis of the reaction: carbonyl sulfide + 2 H+ + 2 e- = hydrogen sulfide + carbon monoxide.
	GO:0051536	iron-sulfur cluster binding	Interacting selectively and non-covalently with an iron-sulfur cluster, a combination of iron and sulfur atoms.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0016163	nitrogenase activity	Catalysis of the reaction: 8 reduced ferredoxin + 8 H+ + nitrogen + 16 ATP = 8 oxidized ferredoxin + 2 NH3 + 16 ADP + 16 phosphate.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	GO:0016491	oxidoreductase activity	Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
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.
cellular component
	GO:0016612	molybdenum-iron nitrogenase complex	An enzyme complex containing a molybdenum-iron cluster found in many species. It is composed of two proteins, dinitrogenase and nitrogenase reductase; dinitrogenase, the molybdenum-iron protein, is tetrameric with an alpha2-beta2 structure, and nitrogenase reductase is a homodimer.

Asymmetric/Biological Unit
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