1E3D - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   [NIFE] HYDROGENASE FROM DESULFOVIBRIO DESULFURICANS ATCC 27774

Authors :   P. M. Matias, C. M. Soares, L. M. Saraiva, R. Coelho, J. Morais, J. Le Gall, M. A. Carrondo

Date :   14 Jun 00 (Deposition) - 14 Jun 01 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

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

Keywords :   Hydrogenase, Crystal Structure, Molecular Modelling, Electron Transfer (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. M. Matias, C. M. Soares, L. M. Saraiva, R. Coelho, J. Morais, J. Le Gall, M. A. Carrondo
[Nife] Hydrogenase From Desulfovibrio Desulfuricans Atcc 27774: Gene Sequencing, Three-Dimensional Structure Determination And Refinement At 1. 8 A And Modelling Studies Of Its Interaction With The Tetrahaem Cytochrome C3.
J. Biol. Inorg. Chem. V. 6 63 2001
PubMed-ID: 11191224 | Reference-DOI: 10.1007/S007750000167

Molecule 1 - [NIFE] HYDROGENASE SMALL SUBUNIT
	Atcc	:	27774
	Chains	:	A, C
	Organism Scientific	:	DESULFOVIBRIO DESULFURICANS
	Organism Taxid	:	876

Molecule 2 - [NIFE] HYDROGENASE LARGE SUBUNIT
	Atcc	:	27774
	Chains	:	B, D
	Organism Scientific	:	DESULFOVIBRIO DESULFURICANS
	Organism Taxid	:	876

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (6, 14)

No.	Name	Count	Type	Full Name
1	F3S	2	Ligand/Ion	FE3-S4 CLUSTER
2	FNE	2	Ligand/Ion	(MU-SULPHIDO)-BIS(MU-CYS,S)-[TRICARBONYLIRON-DI-(CYS,S)NICKEL(II)](FE-NI)
3	FSX	2	Ligand/Ion	BIS-(MU-2-OXO),[(MU-3--SULFIDO)-BIS(MU-2--SULFIDO)-TRIS(CYS-S)-TRI-IRON] (AQUA)(GLU-O)IRON(II)
4	H2S	4	Ligand/Ion	HYDROSULFURIC ACID
5	MG	2	Ligand/Ion	MAGNESIUM ION
6	SF4	2	Ligand/Ion	IRON/SULFUR CLUSTER

Biological Unit 1 (5, 6)

No.	Name	Count	Type	Full Name
1	F3S	1	Ligand/Ion	FE3-S4 CLUSTER
2	FNE	1	Ligand/Ion	(MU-SULPHIDO)-BIS(MU-CYS,S)-[TRICARBONYLIRON-DI-(CYS,S)NICKEL(II)](FE-NI)
3	FSX	1	Ligand/Ion	BIS-(MU-2-OXO),[(MU-3--SULFIDO)-BIS(MU-2--SULFIDO)-TRIS(CYS-S)-TRI-IRON] (AQUA)(GLU-O)IRON(II)
4	H2S	2	Ligand/Ion	HYDROSULFURIC ACID
5	MG	-1	Ligand/Ion	MAGNESIUM ION
6	SF4	1	Ligand/Ion	IRON/SULFUR CLUSTER

Biological Unit 2 (5, 6)

No.	Name	Count	Type	Full Name
1	F3S	1	Ligand/Ion	FE3-S4 CLUSTER
2	FNE	1	Ligand/Ion	(MU-SULPHIDO)-BIS(MU-CYS,S)-[TRICARBONYLIRON-DI-(CYS,S)NICKEL(II)](FE-NI)
3	FSX	1	Ligand/Ion	BIS-(MU-2-OXO),[(MU-3--SULFIDO)-BIS(MU-2--SULFIDO)-TRIS(CYS-S)-TRI-IRON] (AQUA)(GLU-O)IRON(II)
4	H2S	2	Ligand/Ion	HYDROSULFURIC ACID
5	MG	-1	Ligand/Ion	MAGNESIUM ION
6	SF4	1	Ligand/Ion	IRON/SULFUR CLUSTER

Asymmetric Unit (14, 14)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLU B:52 , LEU B:488 , HIS B:542 , HOH B:2070 , HOH B:2355 , HOH B:2358	BINDING SITE FOR RESIDUE MG B 901
02	AC2	SOFTWARE	GLU D:52 , LEU D:488 , HIS D:542 , HOH D:2043 , HOH D:2299 , HOH D:2300	BINDING SITE FOR RESIDUE MG D 901
03	AC3	SOFTWARE	ASN A:228 , CYS A:230 , PHE A:235 , TRP A:240 , PRO A:241 , CYS A:248 , ILE A:249 , CYS A:251 , LYS B:222 , GLN B:227	BINDING SITE FOR RESIDUE F3S A 267
04	AC4	SOFTWARE	HIS A:187 , CYS A:190 , ARG A:192 , ARG A:193 , CYS A:215 , LEU A:216 , CYS A:221	BINDING SITE FOR RESIDUE SF4 A 268
05	AC5	SOFTWARE	GLU A:16 , CYS A:17 , THR A:18 , GLY A:19 , CYS A:20 , GLU A:75 , THR A:113 , CYS A:114 , GLY A:149 , CYS A:150 , PRO A:151 , HOH A:2122 , HIS B:225	BINDING SITE FOR RESIDUE FSX A 269
06	AC6	SOFTWARE	CYS B:71 , CYS B:74 , HIS B:78 , VAL B:467 , SER B:468 , ARG B:469 , LEU B:472 , VAL B:490 , PRO B:491 , THR B:492 , CYS B:536 , CYS B:539	BINDING SITE FOR RESIDUE FNE B 543
07	AC7	SOFTWARE	THR C:226 , ASN C:228 , CYS C:230 , PHE C:235 , TRP C:240 , CYS C:248 , ILE C:249 , CYS C:251 , LYS D:222 , GLN D:227	BINDING SITE FOR RESIDUE F3S C 267
08	AC8	SOFTWARE	HIS C:187 , CYS C:190 , ARG C:192 , ARG C:193 , CYS C:215 , LEU C:216 , CYS C:221 , VAL C:242	BINDING SITE FOR RESIDUE SF4 C 268
09	AC9	SOFTWARE	GLU C:16 , CYS C:17 , THR C:18 , GLY C:19 , CYS C:20 , GLU C:75 , THR C:113 , CYS C:114 , GLY C:149 , CYS C:150 , PRO C:151 , HIS D:225	BINDING SITE FOR RESIDUE FSX C 269
10	BC1	SOFTWARE	CYS D:71 , CYS D:74 , HIS D:78 , VAL D:467 , ARG D:469 , LEU D:472 , VAL D:490 , PRO D:491 , THR D:492 , CYS D:536 , CYS D:539	BINDING SITE FOR RESIDUE FNE D 543
11	BC2	SOFTWARE	GLY A:119 , ASN A:255 , HOH A:2124	BINDING SITE FOR RESIDUE H2S A 904
12	BC3	SOFTWARE	TYR C:117 , GLY C:119 , ASN C:255 , HOH C:2101	BINDING SITE FOR RESIDUE H2S C 904
13	BC4	SOFTWARE	LEU D:106 , GLN D:109 , PHE D:110 , VAL D:467 , SER D:468	BINDING SITE FOR RESIDUE H2S D 904
14	BC5	SOFTWARE	LEU B:106 , PHE B:110 , VAL B:467 , SER B:468	BINDING SITE FOR RESIDUE H2S B 904

(no "SS Bond" information available for 1E3D)

Asymmetric Unit

No.	Residues
1	Gln A:29	-	Pro A:30
2	Lys A:124	-	Pro A:125
3	Cys A:150	-	Pro A:151
4	Thr A:261	-	Pro A:262
5	Asp B:18	-	Pro B:19
6	Asn B:223	-	Pro B:224
7	Gln C:29	-	Pro C:30
8	Lys C:124	-	Pro C:125
9	Cys C:150	-	Pro C:151
10	Thr C:261	-	Pro C:262
11	Asp D:18	-	Pro D:19
12	Asn D:223	-	Pro D:224

(no "SAP(SNP)/Variant" information available for 1E3D)

(no "PROSITE Motif" information available for 1E3D)

(no "Exon" information available for 1E3D)

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:262
 aligned with Q9L869_DESDE | Q9L869 from UniProtKB/TrEMBL  Length:266

    Alignment length:262
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264  
         Q9L869_DESDE     5 SRPSVVYLHAAECTGCSEALLRTYQPFIDTLILDTISLDYHETIMAAAGEAAEEALQAAVNGPDGFICLVEGAIPTGMDNKYGYIAGHTMYDICKNILPKAKAVVSIGTCACYGGIQAAKPNPTAAKGINDCYADLGVKAINVPGCPPNPLNMVGTLVAFLKGQKIELDEVGRPVMFFGQSVHDLCERRKHFDAGEFAPSFNSEEARKGWCLYDVGCKGPETYNNCPKVLFNETNWPVAAGHPCIGCSEPNFWDDMTPFYQN 266
               SCOP domains d1e3da_ A: Nickel-iron hydrogenase, small subunit                                                                                                                                                                                                                      SCOP domains
               CATH domains 1e3dA01 A:5-181  [code=3.40.50.700, no name defined]                                                                                                                             1e3dA02 A:182-266 Cytochrome-c3 Hydrogenase, chain A, domain 2                        CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee....hhhhhhhhh....hhhhhhhh.eeeee.......hhhhhhhhhhhhhh.....eeeee.....hhhhh........hhhhhhhhhhhh.eeeeehhhhhhhhhhhh........hhhhhhhhhh...eee.....hhhhhhhhhhhhhh...........hhhhhh.hhhhhh.hhhhhhh........hhhhhh...hhhhh.hhhhh..hhhhhh......hhhhh.........hhhhhh...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1e3d A   5 SRPSVVYLHAAECTGCSEALLRTYQPFIDTLILDTISLDYHETIMAAAGEAAEEALQAAVNGPDGFICLVEGAIPTGMDNKYGYIAGHTMYDICKNILPKAKAVVSIGTCACYGGIQAAKPNPTAAKGINDCYADLGVKAINVPGCPPNPLNMVGTLVAFLKGQKIELDEVGRPVMFFGQSVHDLCERRKHFDAGEFAPSFNSEEARKGWCLYDVGCKGPETYNNCPKVLFNETNWPVAAGHPCIGCSEPNFWDDMTPFYQN 266
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264

Chain B from PDB  Type:PROTEIN  Length:537
 aligned with Q9L868_DESDE | Q9L868 from UniProtKB/TrEMBL  Length:543

    Alignment length:537
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       
         Q9L868_DESDE     7 TPRSNYTGPIVVDPLTRIEGHLRIEVEVEGGVIKEARSCATLFRGIETILKGRDPRDAQHFTQRTCGVCTYTHALASTRCLEDAINKPIPANATYIRNLVLGNQFMHDHLVHFYHLHALDFVDVTSALLADPAKAAKLANSISPRKATTEEFAAVQAKLKTFVASGQLGPFTNAYFLGGHEGYYMDPEANLVCTAHYLQALRAQVEVAKGMAVFGAKNPHTQFTVAGGVTCYEALTPERIKQFRELYVKARAFIEEVYIPDLLLVASYYKDWGKIGGTNNFMAFGEFPAPGGERDLNSRWYKPGVIYDRKVGSVQPFDPSKIEEHVRHSWYEGKARAPFEGETNPHFTFMGDTDKYSWNKAPRYDGHAVETGPLAQMLVAYGHNHKTIKPTIDAVLGKLNLGPEALFSTLGRTAARGIQTLVIAQQMENWLNEYENNIVKDKQIVEDYAVPTSARGVGFADVSRGGLSHWMTIEDGKIDNFQLVVPTTWNLGPRDDKGVPSAAEAALVGTPVADPKRPVEILRTIHSFDPCIACSTH 543
               SCOP domains d1e3db_ B: Nickel-iron hydrogenase, large subunit                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains 1e3dB00 B:6-542 Cytochrome-c3 Hydrogenase, chain B                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeee.........eeeeeeee..eeeeeeeee....hhhhhhh..hhhhhhhhhhh......hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh..hhhhh.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eee...........hhhhh....eee...hhhhh...hhh.eeee...........hhhhh...................eeee.......hhhhhhhhhhhh...hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...............eeeeeeeee..eeeeeeeeee..eeeeeeeehhhhhhh.........hhhhhhhh.........hhhhhhhhhhh..hhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1e3d B   6 TPRSNYTGPIVVDPLTRIEGHLRIEVEVEGGVIKEARSCATLFRGIETILKGRDPRDAQHFTQRTCGVCTYTHALASTRCLEDAINKPIPANATYIRNLVLGNQFMHDHLVHFYHLHALDFVDVTSALLADPAKAAKLANSISPRKATTEEFAAVQAKLKTFVASGQLGPFTNAYFLGGHEGYYMDPEANLVCTAHYLQALRAQVEVAKGMAVFGAKNPHTQFTVAGGVTCYEALTPERIKQFRELYVKARAFIEEVYIPDLLLVASYYKDWGKIGGTNNFMAFGEFPAPGGERDLNSRWYKPGVIYDRKVGSVQPFDPSKIEEHVRHSWYEGKARAPFEGETNPHFTFMGDTDKYSWNKAPRYDGHAVETGPLAQMLVAYGHNHKTIKPTIDAVLGKLNLGPEALFSTLGRTAARGIQTLVIAQQMENWLNEYENNIVKDKQIVEDYAVPTSARGVGFADVSRGGLSHWMTIEDGKIDNFQLVVPTTWNLGPRDDKGVPSAAEAALVGTPVADPKRPVEILRTIHSFDPCIACSTH 542
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535

Chain C from PDB  Type:PROTEIN  Length:262
 aligned with Q9L869_DESDE | Q9L869 from UniProtKB/TrEMBL  Length:266

    Alignment length:262
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264  
         Q9L869_DESDE     5 SRPSVVYLHAAECTGCSEALLRTYQPFIDTLILDTISLDYHETIMAAAGEAAEEALQAAVNGPDGFICLVEGAIPTGMDNKYGYIAGHTMYDICKNILPKAKAVVSIGTCACYGGIQAAKPNPTAAKGINDCYADLGVKAINVPGCPPNPLNMVGTLVAFLKGQKIELDEVGRPVMFFGQSVHDLCERRKHFDAGEFAPSFNSEEARKGWCLYDVGCKGPETYNNCPKVLFNETNWPVAAGHPCIGCSEPNFWDDMTPFYQN 266
               SCOP domains d1e3dc_ C: Nickel-iron hydrogenase, small subunit                                                                                                                                                                                                                      SCOP domains
               CATH domains 1e3dC01 C:5-181  [code=3.40.50.700, no name defined]                                                                                                                             1e3dC02 C:182-266 Cytochrome-c3 Hydrogenase, chain A, domain 2                        CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee....hhhhhhhhh....hhhhhhhh.eeeee.......hhhhhhhhhhhhhh.....eeeee.....hhhhh........hhhhhhhhhhhh.eeeeehhhhhhhhhhhh........hhhhhhhhhh...eee.....hhhhhhhhhhhhhh...........hhhhhh.hhhhhh.hhhhhhhh.......hhhhhh...hhhhh.hhhhh..hhhhhh......hhhhh.........hhhhhh...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1e3d C   5 SRPSVVYLHAAECTGCSEALLRTYQPFIDTLILDTISLDYHETIMAAAGEAAEEALQAAVNGPDGFICLVEGAIPTGMDNKYGYIAGHTMYDICKNILPKAKAVVSIGTCACYGGIQAAKPNPTAAKGINDCYADLGVKAINVPGCPPNPLNMVGTLVAFLKGQKIELDEVGRPVMFFGQSVHDLCERRKHFDAGEFAPSFNSEEARKGWCLYDVGCKGPETYNNCPKVLFNETNWPVAAGHPCIGCSEPNFWDDMTPFYQN 266
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264

Chain D from PDB  Type:PROTEIN  Length:537
 aligned with Q9L868_DESDE | Q9L868 from UniProtKB/TrEMBL  Length:543

    Alignment length:537
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       
         Q9L868_DESDE     7 TPRSNYTGPIVVDPLTRIEGHLRIEVEVEGGVIKEARSCATLFRGIETILKGRDPRDAQHFTQRTCGVCTYTHALASTRCLEDAINKPIPANATYIRNLVLGNQFMHDHLVHFYHLHALDFVDVTSALLADPAKAAKLANSISPRKATTEEFAAVQAKLKTFVASGQLGPFTNAYFLGGHEGYYMDPEANLVCTAHYLQALRAQVEVAKGMAVFGAKNPHTQFTVAGGVTCYEALTPERIKQFRELYVKARAFIEEVYIPDLLLVASYYKDWGKIGGTNNFMAFGEFPAPGGERDLNSRWYKPGVIYDRKVGSVQPFDPSKIEEHVRHSWYEGKARAPFEGETNPHFTFMGDTDKYSWNKAPRYDGHAVETGPLAQMLVAYGHNHKTIKPTIDAVLGKLNLGPEALFSTLGRTAARGIQTLVIAQQMENWLNEYENNIVKDKQIVEDYAVPTSARGVGFADVSRGGLSHWMTIEDGKIDNFQLVVPTTWNLGPRDDKGVPSAAEAALVGTPVADPKRPVEILRTIHSFDPCIACSTH 543
               SCOP domains d1e3dd_ D: Nickel-iron hydrogenase, large subunit                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains 1e3dD00 D:6-542 Cytochrome-c3 Hydrogenase, chain B                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeee.........eeeeeeee..eeeeeeeee....hhhhhhh..hhhhhhhhhhh......hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh..hhhhh.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eee...........hhh......eee...hhhhh...hhh.eeee...........hhhhh...................eeee.......hhhhhhhhhhhh...hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..............eeeeeeeeee..eeeeeeeeee..eeeeeeeehhhhhhh.........hhhhhhh..........hhhhhhhhhhh..hhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1e3d D   6 TPRSNYTGPIVVDPLTRIEGHLRIEVEVEGGVIKEARSCATLFRGIETILKGRDPRDAQHFTQRTCGVCTYTHALASTRCLEDAINKPIPANATYIRNLVLGNQFMHDHLVHFYHLHALDFVDVTSALLADPAKAAKLANSISPRKATTEEFAAVQAKLKTFVASGQLGPFTNAYFLGGHEGYYMDPEANLVCTAHYLQALRAQVEVAKGMAVFGAKNPHTQFTVAGGVTCYEALTPERIKQFRELYVKARAFIEEVYIPDLLLVASYYKDWGKIGGTNNFMAFGEFPAPGGERDLNSRWYKPGVIYDRKVGSVQPFDPSKIEEHVRHSWYEGKARAPFEGETNPHFTFMGDTDKYSWNKAPRYDGHAVETGPLAQMLVAYGHNHKTIKPTIDAVLGKLNLGPEALFSTLGRTAARGIQTLVIAQQMENWLNEYENNIVKDKQIVEDYAVPTSARGVGFADVSRGGLSHWMTIEDGKIDNFQLVVPTTWNLGPRDDKGVPSAAEAALVGTPVADPKRPVEILRTIHSFDPCIACSTH 542
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535

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 '\|'

(no "Pfam Domain" information available for 1E3D)

Asymmetric Unit(hide GO term definitions)

Chain A,C (Q9L869_DESDE | Q9L869)

molecular function
	GO:0051538	3 iron, 4 sulfur cluster binding	Interacting selectively and non-covalently with a 3 iron, 4 sulfur (3Fe-4S) cluster; this cluster consists of three iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands. It is essentially a 4Fe-4S cluster with one iron missing.
	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:0008901	ferredoxin hydrogenase activity	Catalysis of the reaction: 2 reduced ferredoxin + 2 H+ = 2 oxidized ferredoxin + H2.
	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.
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.
cellular component
	GO:0009375	ferredoxin hydrogenase complex	An enzyme complex that catalyzes the oxidation of reduced ferredoxin. Hydrogenase contains iron-sulfur clusters, and some contain nickel; it can use molecular hydrogen for the reduction of a variety of substances.

Chain B,D (Q9L868_DESDE | Q9L868)

molecular function
	GO:0008901	ferredoxin hydrogenase activity	Catalysis of the reaction: 2 reduced ferredoxin + 2 H+ = 2 oxidized ferredoxin + H2.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0016151	nickel cation binding	Interacting selectively and non-covalently with nickel (Ni) cations.
	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: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.

Asymmetric Unit
	Complete Structure
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	Ligands, Modified Residues, Ions
		F3S	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		FNE	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		FSX	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		H2S	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		MG	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		SF4	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
		AC5	[ RasMol ]	+environment [ RasMol ]
		AC6	[ RasMol ]	+environment [ RasMol ]
		AC7	[ RasMol ]	+environment [ RasMol ]
		AC8	[ RasMol ]	+environment [ RasMol ]
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		BC2	[ RasMol ]	+environment [ RasMol ]
		BC3	[ RasMol ]	+environment [ RasMol ]
		BC4	[ RasMol ]	+environment [ RasMol ]
		BC5	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Asn B:223 - Pro B:224	[ RasMol ]
		Asn D:223 - Pro D:224	[ RasMol ]
		Asp B:18 - Pro B:19	[ RasMol ]
		Asp D:18 - Pro D:19	[ RasMol ]
		Cys A:150 - Pro A:151	[ RasMol ]
		Cys C:150 - Pro C:151	[ RasMol ]
		Gln A:29 - Pro A:30	[ RasMol ]
		Gln C:29 - Pro C:30	[ RasMol ]
		Lys A:124 - Pro A:125	[ RasMol ]
		Lys C:124 - Pro C:125	[ RasMol ]
		Thr A:261 - Pro A:262	[ RasMol ]
		Thr C:261 - Pro C:262	[ RasMol ]

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym. Unit PNG format \| Asym. Unit - sites PNG format \| Biol. Unit 1 PNG format \| Biol. Unit 1 - sites PNG format \| Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

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	1e3d
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	Q9L869_DESDE \| Q9L869
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	Q9L869_DESDE \| Q9L869
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(no "Entries Sharing at Least One Protein Chain" available for 1E3D)

1frv	CRYSTAL STRUCTURE OF THE OXIDIZED FORM OF NI-FE HYDROGENASE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (6, 14)

Sites (14, 14)

SS Bonds (0, 0)

Cis Peptide Bonds (12, 12)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (2, 4)

CATH Domains (3, 6)

Pfam Domains (0, 0)

Gene Ontology (9, 12)

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Databases

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File