1CQX - JenaLib

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Title :   CRYSTAL STRUCTURE OF THE FLAVOHEMOGLOBIN FROM ALCALIGENES EUTROPHUS AT 1.75 A RESOLUTION

Authors :   U. Ermler, R. A. Siddiqui, R. Cramm, B. Friedrich

Date :   12 Aug 99 (Deposition) - 31 Aug 99 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.75

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: A,B  (1x)

Keywords :   Globin Fold, Six-Stranded Antiparallel Beta Sheet, Helix-Flanked Five-Stranded Parallel Beta Sheet, Lipid Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   U. Ermler, R. A. Siddiqui, R. Cramm, B. Friedrich
Crystal Structure Of The Flavohemoglobin From Alcaligenes Eutrophus At 1. 75 A Resolution.
Embo J. V. 14 6067 1995
PubMed-ID: 8557026
(for further references see the PDB file header)

Molecule 1 - FLAVOHEMOPROTEIN
	Chains	:	A, B
	Organism Scientific	:	CUPRIAVIDUS NECATOR
	Organism Taxid	:	106590

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 7)

No.	Name	Count	Type	Full Name
1	DGG	2	Ligand/Ion	1-[GLYCEROLYLPHOSPHONYL]-2-[8-(2-HEXYL-CYCLOPROPYL)-OCTANAL-1-YL]-3-[HEXADECANAL-1-YL]-GLYCEROL
2	FAD	2	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE
3	HEM	2	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
4	NA	1	Ligand/Ion	SODIUM ION

Biological Unit 1 (3, 3)

No.	Name	Count	Type	Full Name
1	DGG	1	Ligand/Ion	1-[GLYCEROLYLPHOSPHONYL]-2-[8-(2-HEXYL-CYCLOPROPYL)-OCTANAL-1-YL]-3-[HEXADECANAL-1-YL]-GLYCEROL
2	FAD	1	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE
3	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
4	NA	-1	Ligand/Ion	SODIUM ION

Biological Unit 2 (3, 3)

No.	Name	Count	Type	Full Name
1	DGG	1	Ligand/Ion	1-[GLYCEROLYLPHOSPHONYL]-2-[8-(2-HEXYL-CYCLOPROPYL)-OCTANAL-1-YL]-3-[HEXADECANAL-1-YL]-GLYCEROL
2	FAD	1	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE
3	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
4	NA	-1	Ligand/Ion	SODIUM ION

Biological Unit 3 (3, 6)

No.	Name	Count	Type	Full Name
1	DGG	2	Ligand/Ion	1-[GLYCEROLYLPHOSPHONYL]-2-[8-(2-HEXYL-CYCLOPROPYL)-OCTANAL-1-YL]-3-[HEXADECANAL-1-YL]-GLYCEROL
2	FAD	2	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE
3	HEM	2	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
4	NA	-1	Ligand/Ion	SODIUM ION

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	PRO A:96 , GLU A:100 , PRO B:96 , GLU B:100	BINDING SITE FOR RESIDUE NA A 490
2	AC2	SOFTWARE	TYR A:29 , VAL A:42 , PHE A:43 , ASN A:44 , ASN A:80 , ILE A:81 , HIS A:85 , LEU A:88 , TYR A:95 , VAL A:98 , TYR A:126 , LEU A:129 , ALA A:130 , DGG A:406 , HOH A:505 , HOH A:579	BINDING SITE FOR RESIDUE HEM A 404
3	AC3	SOFTWARE	ASN A:44 , ALA A:46 , HIS A:47 , TYR A:190 , ARG A:206 , GLN A:207 , TYR A:208 , SER A:209 , SER A:222 , VAL A:223 , LYS A:224 , GLU A:226 , GLY A:227 , GLN A:231 , PRO A:232 , GLY A:234 , TYR A:235 , VAL A:236 , SER A:237 , VAL A:395 , GLY A:397 , PRO A:398 , HOH A:518 , HOH A:519 , HOH A:536 , HOH A:539 , HOH A:623 , HOH A:624 , HOH A:649 , HOH A:650	BINDING SITE FOR RESIDUE FAD A 405
4	AC4	SOFTWARE	TYR A:29 , PHE A:43 , ALA A:56 , ALA A:60 , LEU A:102 , LEU A:129 , ARG A:375 , TYR A:393 , HEM A:404 , HOH A:687 , HOH A:771	BINDING SITE FOR RESIDUE DGG A 406
5	AC5	SOFTWARE	TYR B:29 , VAL B:42 , PHE B:43 , ASN B:44 , ASN B:80 , LYS B:84 , HIS B:85 , LEU B:88 , VAL B:90 , TYR B:95 , VAL B:98 , TYR B:126 , ALA B:130 , DGG B:406 , HOH B:732 , HOH B:1504 , HOH B:1691 , HOH B:1705	BINDING SITE FOR RESIDUE HEM B 404
6	AC6	SOFTWARE	ASN B:44 , ALA B:46 , HIS B:47 , TYR B:190 , ARG B:206 , GLN B:207 , TYR B:208 , SER B:209 , SER B:222 , VAL B:223 , LYS B:224 , GLU B:226 , GLY B:227 , GLN B:231 , PRO B:232 , GLY B:234 , TYR B:235 , VAL B:236 , SER B:237 , VAL B:395 , GLY B:397 , PRO B:398 , HOH B:1508 , HOH B:1521 , HOH B:1526 , HOH B:1542 , HOH B:1545 , HOH B:1553 , HOH B:1648	BINDING SITE FOR RESIDUE FAD B 405
7	AC7	SOFTWARE	PHE B:28 , TYR B:29 , ALA B:56 , ALA B:60 , ALA B:63 , ILE B:81 , VAL B:98 , ARG B:375 , TYR B:393 , HEM B:404 , HOH B:732 , HOH B:1681 , HOH B:1706 , HOH B:1816	BINDING SITE FOR RESIDUE DGG B 406

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

Asymmetric Unit

No.	Residues
1	Thr A:279	-	Pro A:280
2	Ala A:291	-	Pro A:292
3	Thr B:279	-	Pro B:280
4	Ala B:291	-	Pro B:292

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

Asymmetric Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLOBIN	PS01033	Globin family profile.	HMP_CUPNH	9-133	2	A:9-133 B:9-133
2	FAD_FR	PS51384	Ferredoxin reductase-type FAD binding domain profile.	HMP_CUPNH	152-262	2	A:152-262 B:152-262

Biological Unit 1 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLOBIN	PS01033	Globin family profile.	HMP_CUPNH	9-133	1	A:9-133 -
2	FAD_FR	PS51384	Ferredoxin reductase-type FAD binding domain profile.	HMP_CUPNH	152-262	1	A:152-262 -

Biological Unit 2 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLOBIN	PS01033	Globin family profile.	HMP_CUPNH	9-133	1	- B:9-133
2	FAD_FR	PS51384	Ferredoxin reductase-type FAD binding domain profile.	HMP_CUPNH	152-262	1	- B:152-262

Biological Unit 3 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLOBIN	PS01033	Globin family profile.	HMP_CUPNH	9-133	2	A:9-133 B:9-133
2	FAD_FR	PS51384	Ferredoxin reductase-type FAD binding domain profile.	HMP_CUPNH	152-262	2	A:152-262 B:152-262

(no "Exon" information available for 1CQX)

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
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	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
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Chain A from PDB  Type:PROTEIN  Length:403
 aligned with HMP_CUPNH | P39662 from UniProtKB/Swiss-Prot  Length:403

    Alignment length:403
                                    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       270       280       290       300       310       320       330       340       350       360       370       380       390       400   
            HMP_CUPNH     1 MLTQKTKDIVKATAPVLAEHGYDIIKCFYQRMFEAHPELKNVFNMAHQEQGQQQQALARAVYAYAENIEDPNSLMAVLKNIANKHASLGVKPEQYPIVGEHLLAAIKEVLGNAATDDIISAWAQAYGNLADVLMGMESELYERSAEQPGGWKGWRTFVIREKRPESDVITSFILEPADGGPVVNFEPGQYTSVAIDVPALGLQQIRQYSLSDMPNGRSYRISVKREGGGPQPPGYVSNLLHDHVNVGDQVKLAAPYGSFHIDVDAKTPIVLISGGVGLTPMVSMLKVALQAPPRQVVFVHGARNSAVHAMRDRLREAAKTYENLDLFVFYDQPLPEDVQGRDYDYPGLVDVKQIEKSILLPDADYYICGPIPFMRMQHDALKNLGIHEARIHYEVFGPDLFAE 403
               SCOP domains d1cqxa1 A:1-150 Flavohemoglobin, N-terminal domain                                                                                                    d1cqxa2 A:151-261 Flavohemoglobin, central domain                                                              d1cqxa3 A:262-403 Flavohemoglobin, C-terminal domain                                                                                           SCOP domains
               CATH domains 1cqxA01 A:1-150 Globins                                                                                                                               1cqxA02 A:151-261 Translation factors                                                                          1cqxA03 A:262-403 Nucleotide-binding domain of ferredoxin-NADP reductase (FNR) module                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........eeeeeeeeee....eeeeeeee.............eeeeeee......eeeeeee.........eeeeee.........hhhhhhhhhhh....eeee................eeeee...hhhhhhhhhhhhh......eeeeeee.....hhhhhhhhhhhhhh..eeeeeee..............ee...hhhhhhhhhh....eeeee.hhhhhhhhhhhhhhh..hhh.eee.......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------GLOBIN  PDB: A:9-133 UniProt: 9-133                                                                                          ------------------FAD_FR  PDB: A:152-262 UniProt: 152-262                                                                        --------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1cqx A   1 MLTQKTKDIVKATAPVLAEHGYDIIKCFYQRMFEAHPELKNVFNMAHQEQGQQQQALARAVYAYAENIEDPNSLMAVLKNIANKHASLGVKPEQYPIVGEHLLAAIKEVLGNAATDDIISAWAQAYGNLADVLMGMESELYERSAEQPGGWKGWRTFVIREKRPESDVITSFILEPADGGPVVNFEPGQYTSVAIDVPALGLQQIRQYSLSDMPNGRTYRISVKREGGGPQPPGYVSNLLHDHVNVGDQVKLAAPYGSFHIDVDAKTPIVLISGGVGLTPMVSMLKVALQAPPRQVVFVHGARNSAVHAMRDRLREAAKTYENLDLFVFYDQPLPEDVQGRDYDYPGLVDVKQIEKSILLPDADYYICGPIPFMRMQHDALKNLGIHEARIHYEVFGPDLFAE 403
                                    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       270       280       290       300       310       320       330       340       350       360       370       380       390       400

Chain B from PDB  Type:PROTEIN  Length:403
 aligned with HMP_CUPNH | P39662 from UniProtKB/Swiss-Prot  Length:403

    Alignment length:403
                                    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       270       280       290       300       310       320       330       340       350       360       370       380       390       400   
            HMP_CUPNH     1 MLTQKTKDIVKATAPVLAEHGYDIIKCFYQRMFEAHPELKNVFNMAHQEQGQQQQALARAVYAYAENIEDPNSLMAVLKNIANKHASLGVKPEQYPIVGEHLLAAIKEVLGNAATDDIISAWAQAYGNLADVLMGMESELYERSAEQPGGWKGWRTFVIREKRPESDVITSFILEPADGGPVVNFEPGQYTSVAIDVPALGLQQIRQYSLSDMPNGRSYRISVKREGGGPQPPGYVSNLLHDHVNVGDQVKLAAPYGSFHIDVDAKTPIVLISGGVGLTPMVSMLKVALQAPPRQVVFVHGARNSAVHAMRDRLREAAKTYENLDLFVFYDQPLPEDVQGRDYDYPGLVDVKQIEKSILLPDADYYICGPIPFMRMQHDALKNLGIHEARIHYEVFGPDLFAE 403
               SCOP domains d1cqxb1 B:1-150 Flavohemoglobin, N-terminal domain                                                                                                    d1cqxb2 B:151-261 Flavohemoglobin, central domain                                                              d1cqxb3 B:262-403 Flavohemoglobin, C-terminal domain                                                                                           SCOP domains
               CATH domains 1cqxB01 B:1-150 Globins                                                                                                                               1cqxB02 B:151-261 Translation factors                                                                          1cqxB03 B:262-403 Nucleotide-binding domain of ferredoxin-NADP reductase (FNR) module                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......eeeeeeeeee....eeeeeeee.............eeeeeee......eeeeeee.........eeeeee.........hhhhhhhhhhh....eeee................eeeee...hhhhhhhhhhhhh......eeeeeee.....hhhhhhhhhhhhhh..eeeeeee..............ee.......hhhhhh....eeeee.hhhhhhhhhhhhhh...hhh.eee.......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------GLOBIN  PDB: B:9-133 UniProt: 9-133                                                                                          ------------------FAD_FR  PDB: B:152-262 UniProt: 152-262                                                                        --------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1cqx B   1 MLTQKTKDIVKATAPVLAEHGYDIIKCFYQRMFEAHPELKNVFNMAHQEQGQQQQALARAVYAYAENIEDPNSLMAVLKNIANKHASLGVKPEQYPIVGEHLLAAIKEVLGNAATDDIISAWAQAYGNLADVLMGMESELYERSAEQPGGWKGWRTFVIREKRPESDVITSFILEPADGGPVVNFEPGQYTSVAIDVPALGLQQIRQYSLSDMPNGRTYRISVKREGGGPQPPGYVSNLLHDHVNVGDQVKLAAPYGSFHIDVDAKTPIVLISGGVGLTPMVSMLKVALQAPPRQVVFVHGARNSAVHAMRDRLREAAKTYENLDLFVFYDQPLPEDVQGRDYDYPGLVDVKQIEKSILLPDADYYICGPIPFMRMQHDALKNLGIHEARIHYEVFGPDLFAE 403
                                    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       270       280       290       300       310       320       330       340       350       360       370       380       390       400

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 '\|'

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

Asymmetric Unit(hide GO term definitions)

Chain A,B (HMP_CUPNH | P39662)

molecular function
	GO:0071949	FAD binding	Interacting selectively and non-covalently with the oxidized form, FAD, of flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
	GO:0020037	heme binding	Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0008941	nitric oxide dioxygenase activity	Catalysis of the reaction: 2 NO + 2 O2 + NADPH + H+ = 2 nitrate + NADP+.
	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.
	GO:0019825	oxygen binding	Interacting selectively and non-covalently with oxygen (O2).
	GO:0005344	oxygen transporter activity	Enables the directed movement of oxygen into, out of or within a cell, or between cells.
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.
	GO:0015671	oxygen transport	The directed movement of oxygen (O2) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0051409	response to nitrosative stress	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a nitrosative stress stimulus. Nitrosative stress is a state often resulting from exposure to high levels of nitric oxide (NO) or the highly reactive oxidant peroxynitrite, which is produced following interaction of NO with superoxide anions.
	GO:0009636	response to toxic substance	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a toxic stimulus.
	GO:0006810	transport	The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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	Cis Peptide Bonds
		Ala A:291 - Pro A:292	[ RasMol ]
		Ala B:291 - Pro B:292	[ RasMol ]
		Thr A:279 - Pro A:280	[ RasMol ]
		Thr B:279 - Pro B:280	[ RasMol ]

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	1cqx
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	HMP_CUPNH \| P39662	:	3ozu 3ozv 3ozw

(no "Related Entries Specified in the PDB File" available for 1CQX)

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Ligands, Modified Residues, Ions (4, 7)

Sites (7, 7)

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