1FRV - 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 :   CRYSTAL STRUCTURE OF THE OXIDIZED FORM OF NI-FE HYDROGENASE

Authors :   A. Volbeda, M. Frey, J. C. Fontecilla-Camps

Date :   28 Mar 96 (Deposition) - 08 Nov 96 (Release) - 24 Mar 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.85

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

Keywords :   Ni-Fe Hydrogenase, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Volbeda, M. H. Charon, C. Piras, E. C. Hatchikian, M. Frey, J. C. Fontecilla-Camps
Crystal Structure Of The Nickel-Iron Hydrogenase From Desulfovibrio Gigas.
Nature V. 373 580 1995
PubMed-ID: 7854413 | Reference-DOI: 10.1038/373580A0
(for further references see the PDB file header)

Molecule 1 - HYDROGENASE
	Atcc	:	19364
	Chains	:	A, C
	EC Number	:	1.12.2.1
	Organism Scientific	:	DESULFOVIBRIO GIGAS
	Organism Taxid	:	879
	Synonym	:	CYTOCHROME-C3 HYDROGENASE

Molecule 2 - HYDROGENASE
	Atcc	:	19364
	Chains	:	B, D
	EC Number	:	1.12.2.1
	Organism Scientific	:	DESULFOVIBRIO GIGAS
	Organism Taxid	:	879
	Synonym	:	CYTOCHROME-C3 HYDROGENASE

		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 (4, 10)

No.	Name	Count	Type	Full Name
1	F3S	2	Ligand/Ion	FE3-S4 CLUSTER
2	FEL	2	Ligand/Ion	HYDRATED FE
3	NI	2	Ligand/Ion	NICKEL (II) ION
4	SF4	4	Ligand/Ion	IRON/SULFUR CLUSTER

Biological Unit 1 (3, 4)

No.	Name	Count	Type	Full Name
1	F3S	1	Ligand/Ion	FE3-S4 CLUSTER
2	FEL	1	Ligand/Ion	HYDRATED FE
3	NI	-1	Ligand/Ion	NICKEL (II) ION
4	SF4	2	Ligand/Ion	IRON/SULFUR CLUSTER

Biological Unit 2 (3, 4)

No.	Name	Count	Type	Full Name
1	F3S	1	Ligand/Ion	FE3-S4 CLUSTER
2	FEL	1	Ligand/Ion	HYDRATED FE
3	NI	-1	Ligand/Ion	NICKEL (II) ION
4	SF4	2	Ligand/Ion	IRON/SULFUR CLUSTER

Asymmetric Unit (12, 12)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	CYS B:65 , VAL B:67 , CYS B:68 , CYS B:530 , CYS B:533 , FEL B:537	BINDING SITE FOR RESIDUE NI B 538
02	AC2	SOFTWARE	CYS D:65 , CYS D:68 , CYS D:530 , CYS D:533 , FEL D:537	BINDING SITE FOR RESIDUE NI D 538
03	AC3	SOFTWARE	VAL A:184 , HIS A:185 , CYS A:188 , ARG A:190 , CYS A:213 , LEU A:214 , CYS A:219 , GLY A:221 , VAL A:240	BINDING SITE FOR RESIDUE SF4 A 265
04	AC4	SOFTWARE	THR A:224 , ASN A:226 , CYS A:228 , PHE A:233 , TRP A:238 , PRO A:239 , CYS A:246 , ILE A:247 , CYS A:249 , LYS B:216 , GLN B:221	BINDING SITE FOR RESIDUE F3S A 266
05	AC5	SOFTWARE	CYS A:17 , GLY A:19 , CYS A:20 , GLY A:110 , THR A:111 , CYS A:112 , CYS A:148 , PRO A:149 , HIS B:219	BINDING SITE FOR RESIDUE SF4 A 267
06	AC6	SOFTWARE	CYS B:68 , HIS B:72 , ARG B:463 , VAL B:484 , SER B:486 , CYS B:533 , NI B:538	BINDING SITE FOR RESIDUE FEL B 537
07	AC7	SOFTWARE	HIS C:185 , CYS C:188 , ARG C:190 , LEU C:191 , CYS C:213 , LEU C:214 , CYS C:219	BINDING SITE FOR RESIDUE SF4 C 265
08	AC8	SOFTWARE	VAL C:184 , THR C:224 , ASN C:226 , CYS C:228 , PHE C:233 , TRP C:238 , CYS C:246 , ILE C:247 , CYS C:249 , GLN D:221	BINDING SITE FOR RESIDUE F3S C 266
09	AC9	SOFTWARE	CYS C:17 , CYS C:20 , THR C:111 , CYS C:112 , CYS C:148 , PRO C:149 , ARG D:63 , HIS D:219	BINDING SITE FOR RESIDUE SF4 C 267
10	BC1	SOFTWARE	CYS D:68 , VAL D:71 , HIS D:72 , ALA D:461 , VAL D:484 , SER D:486 , CYS D:533 , NI D:538	BINDING SITE FOR RESIDUE FEL D 537
11	CT1	UNKNOWN	CYS B:65 , CYS B:68 , CYS B:530 , CYS B:533 , FEL B:537 , NI B:538	THE ACTIVE SITE CONTAINS TWO METALS: NI AND (PROBABLY) FE. THE LATTER ASSIGNMENT HAS BEEN CONFIRMED BY AN ANOMALOUS DIFFERENCE MAP AND BY A METAL ANALYSIS. THE PUTATIVE FE HAS 3 NON-PROTEIN LIGANDS (L) OF YET UNKNOWN IDENTITY. THESE LIGANDS WERE MODELED AS WATER DURING REFINEMENT. THE USED CRYSTALS MOST LIKELY CONTAIN A MIXTURE OF SEVERAL ACTIVE SITE REDOX STATES (SEE NATURE PUBLICATION). THE ACTUAL OXIDATION STATE OF THE NI AND PUTATIVE FE IN EACH OF THESE STATES IS STILL A MATTER OF INVESTIGATION. THE RESIDUES OF THE ACTIVE SITE ARE LISTED IN THE SITE RECORDS BELOW.
12	CT2	UNKNOWN	CYS D:65 , CYS D:68 , CYS D:530 , CYS D:533 , FEL D:537 , NI D:538	THE ACTIVE SITE CONTAINS TWO METALS: NI AND (PROBABLY) FE. THE LATTER ASSIGNMENT HAS BEEN CONFIRMED BY AN ANOMALOUS DIFFERENCE MAP AND BY A METAL ANALYSIS. THE PUTATIVE FE HAS 3 NON-PROTEIN LIGANDS (L) OF YET UNKNOWN IDENTITY. THESE LIGANDS WERE MODELED AS WATER DURING REFINEMENT. THE USED CRYSTALS MOST LIKELY CONTAIN A MIXTURE OF SEVERAL ACTIVE SITE REDOX STATES (SEE NATURE PUBLICATION). THE ACTUAL OXIDATION STATE OF THE NI AND PUTATIVE FE IN EACH OF THESE STATES IS STILL A MATTER OF INVESTIGATION. THE RESIDUES OF THE ACTIVE SITE ARE LISTED IN THE SITE RECORDS BELOW.

Asymmetric Unit

No.	Residues
1	D:65	-	D:530
2	D:68	-	D:533

Asymmetric Unit

No.	Residues
1	Lys A:122	-	Pro A:123
2	Cys A:148	-	Pro A:149
3	Ser A:259	-	Pro A:260
4	Asp B:12	-	Pro B:13
5	Asn B:217	-	Pro B:218
6	Lys C:122	-	Pro C:123
7	Cys C:148	-	Pro C:149
8	Ser C:259	-	Pro C:260
9	Asp D:12	-	Pro D:13
10	Asn D:217	-	Pro D:218

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

Asymmetric Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	NI_HGENASE_L_1	PS00507	Nickel-dependent hydrogenases large subunit signature 1.	PHNL_DESGI	43-68	2	B:43-68 D:43-68
2	NI_HGENASE_L_2	PS00508	Nickel-dependent hydrogenases large subunit signature 2.	PHNL_DESGI	527-536	2	B:527-536 D:527-536

Biological Unit 1 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	NI_HGENASE_L_1	PS00507	Nickel-dependent hydrogenases large subunit signature 1.	PHNL_DESGI	43-68	1	B:43-68 -
2	NI_HGENASE_L_2	PS00508	Nickel-dependent hydrogenases large subunit signature 2.	PHNL_DESGI	527-536	1	B:527-536 -

Biological Unit 2 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	NI_HGENASE_L_1	PS00507	Nickel-dependent hydrogenases large subunit signature 1.	PHNL_DESGI	43-68	1	- D:43-68
2	NI_HGENASE_L_2	PS00508	Nickel-dependent hydrogenases large subunit signature 2.	PHNL_DESGI	527-536	1	- D:527-536

(no "Exon" information available for 1FRV)

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 PHNS_DESGI | P12943 from UniProtKB/Swiss-Prot  Length:288

    Alignment length:262
                                    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  
           PHNS_DESGI    27 AKKRPSVVYLHNAECTGCSESLLRTVDPYVDELILDVISMDYHETLMAGAGHAVEEALHEAIKGDFVCVIEGGIPMGDGGYWGKVGRRNMYDICAEVAPKAKAVIAIGTCATYGGVQAAKPNPTGTVGVNEALGKLGVKAINIAGCPPNPMNFVGTVVHLLTKGMPELDKQGRPVMFFGETVHDNCPRLKHFEAGEFATSFGSPEAKKGYCLYELGCKGPDTYNNCPKQLFNQVNWPVQAGHPCIACSEPNFWDLYSPFYSA 288
               SCOP domains d1frva_ A: Nickel-iron hydrogenase, small subunit                                                                                                                                                                                                                      SCOP domains
               CATH domains 1frvA01 A:3-179  [code=3.40.50.700, no name defined]                                                                                                                             1frvA02 A:180-264 Cytochrome-c3 Hydrogenase, chain A, domain 2                        CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeee.....hhhhhh.......hhhhh.....eeee.......hhhhhhhhhhhhh..eeeeee..................hhhhhhhhhhh..eeeeehhhhh...hhh..........hhh.........eee......hhhhhhhhhhh..............hhhh....hhh.hhhhhhhh.........hhhhh..........hhh.........hhh............................. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1frv A   3 AKKRPSVVYLHNAECTGCSESLLRTVDPYVDELILDVISMDYHETLMAGAGHAVEEALHEAIKGDFVCVIEGGIPMGDGGYWGKVGRRNMYDICAEVAPKAKAVIAIGTCATYGGVQAAKPNPTGTVGVNEALGKLGVKAINIAGCPPNPMNFVGTVVHLLTKGMPELDKQGRPVMFFGETVHDNCPRLKHFEAGEFATSFGSPEAKKGYCLYELGCKGPDTYNNCPKQLFNQVNWPVQAGHPCIACSEPNFWDLYSPFYSA 264
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262

Chain B from PDB  Type:PROTEIN  Length:530
 aligned with PHNL_DESGI | P12944 from UniProtKB/Swiss-Prot  Length:551

    Alignment length:530
                                    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
           PHNL_DESGI     7 NKIVVDPITRIEGHLRIEVEVEGGKIKNAWSMSTLFRGLEMILKGRDPRDAQHFTQRACGVCTYVHALASVRAVDNCVGVKIPENATLMRNLTMGAQYMHDHLVHFYHLHALDWVNVANALNADPAKAARLANDLSPRKTTTESLKAVQAKVKALVESGQLGIFTNAYFLGGHPAYVLPAEVDLIATAHYLEALRVQVKAARAMAIFGAKNPHTQFTVVGGCTNYDSLRPERIAEFRKLYKEVREFIEQVYITDLLAVAGFYKNWAGIGKTSNFLTCGEFPTDEYDLNSRYTPQGVIWGNDLSKVDDFNPDLIEEHVKYSWYEGADAHHPYKGVTKPKWTEFHGEDRYSWMKAPRYKGEAFEVGPLASVLVAYAKKHEPTVKAVDLVLKTLGVGPEALFSTLGRTAARGIQCLTAAQEVEVWLDKLEANVKAGKDDLYTDWQYPTESQGVGFVNAPRGMLSHWIVQRGGKIENFQHVVPSTWNLGPRCAERKLSAVEQALIGTPIADPKRPVEILRTVHSYDPCIACGVH 536
               SCOP domains d1frvb_ B: Nickel-iron hydrogenase, large subunit                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains 1frvB00 B:7-536 Cytochrome-c3 Hydrogenase, chain B                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee.........eeeeee.........eeee.....hhhhh....hhhhhhhhhhh......hhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhh...hhhhhhhhhhh......hhhhhhhhhhhhhh........................hhhhhhhhhhh..hhhhhhhhhhhhhhhh.................hhh.hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh.hhhhh......eee..........hhh.....eee................................hhh...........hhh..................hhhhhhhhhhh..hhhhhhhhhhhhhh...hhh...hhhhhhhhhhh......hhhhhhhhhhhhhhh.............eeeeeeeeee..eeeeeeeeee..eeeeeeee.hhhhh...........hhhhhh.......hhh.hhhhhhh......hhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------NI_HGENASE_L_1            --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------NI_HGENASE PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1frv B   7 NKIVVDPITRIEGHLRIEVEVEGGKIKNAWSMSTLFRGLEMILKGRDPRDAQHFTQRACGVCTYVHALASVRAVDNCVGVKIPENATLMRNLTMGAQYMHDHLVHFYHLHALDWVNVANALNADPAKAARLANDLSPRKTTTESLKAVQAKVKALVESGQLGIFTNAYFLGGHPAYVLPAEVDLIATAHYLEALRVQVKAARAMAIFGAKNPHTQFTVVGGCTNYDSLRPERIAEFRKLYKEVREFIEQVYITDLLAVAGFYKNWAGIGKTSNFLTCGEFPTDEYDLNSRYTPQGVIWGNDLSKVDDFNPDLIEEHVKYSWYEGADAHHPYKGVTKPKWTEFHGEDRYSWMKAPRYKGEAFEVGPLASVLVAYAKKHEPTVKAVDLVLKTLGVGPEALFSTLGRTAARGIQCLTAAQEVEVWLDKLEANVKAGKDDLYTDWQYPTESQGVGFVNAPRGMLSHWIVQRGGKIENFQHVVPSTWNLGPRCAERKLSAVEQALIGTPIADPKRPVEILRTVHSYDPCIACGVH 536
                                    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

Chain C from PDB  Type:PROTEIN  Length:262
 aligned with PHNS_DESGI | P12943 from UniProtKB/Swiss-Prot  Length:288

    Alignment length:262
                                    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  
           PHNS_DESGI    27 AKKRPSVVYLHNAECTGCSESLLRTVDPYVDELILDVISMDYHETLMAGAGHAVEEALHEAIKGDFVCVIEGGIPMGDGGYWGKVGRRNMYDICAEVAPKAKAVIAIGTCATYGGVQAAKPNPTGTVGVNEALGKLGVKAINIAGCPPNPMNFVGTVVHLLTKGMPELDKQGRPVMFFGETVHDNCPRLKHFEAGEFATSFGSPEAKKGYCLYELGCKGPDTYNNCPKQLFNQVNWPVQAGHPCIACSEPNFWDLYSPFYSA 288
               SCOP domains d1frvc_ C: Nickel-iron hydrogenase, small subunit                                                                                                                                                                                                                      SCOP domains
               CATH domains 1frvC01 C:3-179  [code=3.40.50.700, no name defined]                                                                                                                             1frvC02 C:180-264 Cytochrome-c3 Hydrogenase, chain A, domain 2                        CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeee.....hhhhhhhh.....hhhhhhh..............hhhhhhhhhhhh....eeeee..................hhhhhhhh.....eeeee.hhhhh...............hhhh........eee......hhhhhhhhhhhhh...................hhhh.hhhhhhhh.........hhhh.....hhh...hhh....hhhh......................hhhh....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1frv C   3 AKKRPSVVYLHNAECTGCSESLLRTVDPYVDELILDVISMDYHETLMAGAGHAVEEALHEAIKGDFVCVIEGGIPMGDGGYWGKVGRRNMYDICAEVAPKAKAVIAIGTCATYGGVQAAKPNPTGTVGVNEALGKLGVKAINIAGCPPNPMNFVGTVVHLLTKGMPELDKQGRPVMFFGETVHDNCPRLKHFEAGEFATSFGSPEAKKGYCLYELGCKGPDTYNNCPKQLFNQVNWPVQAGHPCIACSEPNFWDLYSPFYSA 264
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262

Chain D from PDB  Type:PROTEIN  Length:530
 aligned with PHNL_DESGI | P12944 from UniProtKB/Swiss-Prot  Length:551

    Alignment length:530
                                    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
           PHNL_DESGI     7 NKIVVDPITRIEGHLRIEVEVEGGKIKNAWSMSTLFRGLEMILKGRDPRDAQHFTQRACGVCTYVHALASVRAVDNCVGVKIPENATLMRNLTMGAQYMHDHLVHFYHLHALDWVNVANALNADPAKAARLANDLSPRKTTTESLKAVQAKVKALVESGQLGIFTNAYFLGGHPAYVLPAEVDLIATAHYLEALRVQVKAARAMAIFGAKNPHTQFTVVGGCTNYDSLRPERIAEFRKLYKEVREFIEQVYITDLLAVAGFYKNWAGIGKTSNFLTCGEFPTDEYDLNSRYTPQGVIWGNDLSKVDDFNPDLIEEHVKYSWYEGADAHHPYKGVTKPKWTEFHGEDRYSWMKAPRYKGEAFEVGPLASVLVAYAKKHEPTVKAVDLVLKTLGVGPEALFSTLGRTAARGIQCLTAAQEVEVWLDKLEANVKAGKDDLYTDWQYPTESQGVGFVNAPRGMLSHWIVQRGGKIENFQHVVPSTWNLGPRCAERKLSAVEQALIGTPIADPKRPVEILRTVHSYDPCIACGVH 536
               SCOP domains d1frvd_ D: Nickel-iron hydrogenase, large subunit                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains 1frvD00 D:7-536 Cytochrome-c3 Hydrogenase, chain B                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee.........eeeeee.........eeee.....hhhh.....hhhhhhhhhhh......hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh....hhh...hhhhh...hhhhhhhhhhh......hhhhhhhhhhhhhhhhh.....................hhhhhhhhhhhhhhhhh.hhhhhhhhhhh.................hhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eee..........hhh.....eee............hhh.eee.............hhh...........hhh......eee.........hhhhhhhhh....hhhhhhhhhhhhhh.....hhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.............eeeeeeeeee..eeeeeeeeee..eeeeeeee.hhh.............hhhhhh...........hhhhhhhhhh...hhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------NI_HGENASE_L_1            --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------NI_HGENASE PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1frv D   7 NKIVVDPITRIEGHLRIEVEVEGGKIKNAWSMSTLFRGLEMILKGRDPRDAQHFTQRACGVCTYVHALASVRAVDNCVGVKIPENATLMRNLTMGAQYMHDHLVHFYHLHALDWVNVANALNADPAKAARLANDLSPRKTTTESLKAVQAKVKALVESGQLGIFTNAYFLGGHPAYVLPAEVDLIATAHYLEALRVQVKAARAMAIFGAKNPHTQFTVVGGCTNYDSLRPERIAEFRKLYKEVREFIEQVYITDLLAVAGFYKNWAGIGKTSNFLTCGEFPTDEYDLNSRYTPQGVIWGNDLSKVDDFNPDLIEEHVKYSWYEGADAHHPYKGVTKPKWTEFHGEDRYSWMKAPRYKGEAFEVGPLASVLVAYAKKHEPTVKAVDLVLKTLGVGPEALFSTLGRTAARGIQCLTAAQEVEVWLDKLEANVKAGKDDLYTDWQYPTESQGVGFVNAPRGMLSHWIVQRGGKIENFQHVVPSTWNLGPRCAERKLSAVEQALIGTPIADPKRPVEILRTVHSYDPCIACGVH 536
                                    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

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 1FRV)

Asymmetric Unit(hide GO term definitions)

Chain A,C (PHNS_DESGI | P12943)

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:0047806	cytochrome-c3 hydrogenase activity	Catalysis of the reaction: 2 H2 + ferricytochrome c3 = 4 H+ + ferrocytochrome c3.
	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.
	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.
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.
	GO:0042597	periplasmic space	The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

Chain B,D (PHNL_DESGI | P12944)

molecular function
	GO:0047806	cytochrome-c3 hydrogenase activity	Catalysis of the reaction: 2 H2 + ferricytochrome c3 = 4 H+ + ferrocytochrome c3.
	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.
cellular component
	GO:0042597	periplasmic space	The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

Asymmetric Unit
	Complete Structure
		Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
		WebMol \| AstexViewer[tm]@PDBe (Java Applets, require no local installation except for Java; loading may be slow)
		STRAP (Java WebStart application, automatic local installation, requires Java; full application with system access!)
		RasMol (require local installation)
		Molscript (VRML) (requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)

	Ligands, Modified Residues, Ions
		F3S	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		FEL	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		NI	[ 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 ]
		AC9	[ RasMol ]	+environment [ RasMol ]
		BC1	[ RasMol ]	+environment [ RasMol ]
		CT1	[ RasMol ]	+environment [ RasMol ]
		CT2	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Asn B:217 - Pro B:218	[ RasMol ]
		Asn D:217 - Pro D:218	[ RasMol ]
		Asp B:12 - Pro B:13	[ RasMol ]
		Asp D:12 - Pro D:13	[ RasMol ]
		Cys A:148 - Pro A:149	[ RasMol ]
		Cys C:148 - Pro C:149	[ RasMol ]
		Lys A:122 - Pro A:123	[ RasMol ]
		Lys C:122 - Pro C:123	[ RasMol ]
		Ser A:259 - Pro A:260	[ RasMol ]
		Ser C:259 - Pro C:260	[ 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)

Access by PDB/NDB ID
	1frv
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
		Structural Genomics	:	GeneCensus
		Structural Neighbours	:	CE \| VAST
		Structure Classification	:	CATH \| Dali \| SCOP
		Validation and Original Data	:	BMRB Data View \| BMRB Restraints Grid \| EDS \| PROCHECK \| RECOORD \| WHAT_CHECK

Access by UniProt ID/Accession number
	PHNL_DESGI \| P12944
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt
	PHNS_DESGI \| P12943
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

Access by Enzyme Classificator (EC Number)
	1.12.2.1
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

Access by Disease Identifier (MIM ID)
	(no 'MIM ID' available)
		Disease Information	:	OMIM

Access by GenAge ID
	(no 'GenAge ID' available)
		Age Related Information	:	GenAge

Access by PDB/NDB ID
		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
		Ligand-protein Contacts	:	LPC
		Protein Cavities	:	castP
		Sequence and Secondary Structure	:	PDBCartoon
		Structure Alignment	:	STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
		Structure and Sequence Browser	:	STING

Access by UniProt ID/Accession number
	PHNL_DESGI \| P12944
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)
	PHNS_DESGI \| P12943
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	PHNL_DESGI \| P12944	:	1yq9 2frv
	PHNS_DESGI \| P12943	:	1yq9 2frv

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

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 10)

Sites (12, 12)

SS Bonds (2, 2)

Cis Peptide Bonds (10, 10)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 4)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (2, 4)

CATH Domains (3, 6)

Pfam Domains (0, 0)

Gene Ontology (11, 17)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File