2VKR - 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)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Biological Unit 5 (Jmol Viewer)

Biological Unit 6 (Jmol Viewer)

Biological Unit 7 (Jmol Viewer)

Title :   3FE-4S, 4FE-4S PLUS ZN ACIDIANUS AMBIVALENS FERREDOXIN

Authors :   C. Frazao, D. Aragao, R. Coelho, S. S. Leal, C. M. Gomes, M. Teixeira, M. A. Carrondo

Date :   23 Dec 07 (Deposition) - 04 Mar 08 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.01

Chains :   Asym. Unit : A,B,C,D,E,F,G
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)
Biol. Unit 5: E  (1x)
Biol. Unit 6: F  (1x)
Biol. Unit 7: G  (1x)

Keywords :   Zinc, Iron, 3Fe-4S, 4Fe-4S, Transport, Zn Center, Hemihedric Twinnig, Iron-Sulfur Protein, Ferredoxin, Methylation, Thermophile, Iron-Sulfur, Thermostable Protein, Metal-Binding, Protein Folding, Electron Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Frazao, D. Aragao, R. Coelho, S. S. Leal, C. M. Gomes, M. Teixeira, M. A. Carrondo
Crystallographic Analysis Of The Intact Metal Centres [3Fe-4S](1+/0) And [4Fe-4S](2+/1+) In A Zn(2+)-Containing Ferredoxin.
Febs Lett. V. 582 763 2008
PubMed-ID: 18258200 | Reference-DOI: 10.1016/J.FEBSLET.2008.01.041
(for further references see the PDB file header)

Molecule 1 - ZINC-CONTAINING FERREDOXIN
	Chains	:	A, B, C, D, E, F, G
	Organism Scientific	:	ACIDIANUS AMBIVALENS
	Organism Taxid	:	2283
	Synonym	:	SEVEN-IRON FERREDOXIN, FERREDOXIN

		1	2	3	4	5	6	7
Asymmetric Unit	:	A	B	C	D	E	F	G
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D
Biological Unit 5 (1x)	:					E
Biological Unit 6 (1x)	:						F
Biological Unit 7 (1x)	:							G

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 21)

No.	Name	Count	Type	Full Name
1	F3S	7	Ligand/Ion	FE3-S4 CLUSTER
2	SF4	7	Ligand/Ion	IRON/SULFUR CLUSTER
3	ZN	7	Ligand/Ion	ZINC ION

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	F3S	1	Ligand/Ion	FE3-S4 CLUSTER
2	SF4	1	Ligand/Ion	IRON/SULFUR CLUSTER
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	F3S	1	Ligand/Ion	FE3-S4 CLUSTER
2	SF4	1	Ligand/Ion	IRON/SULFUR CLUSTER
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 3 (2, 2)

No.	Name	Count	Type	Full Name
1	F3S	1	Ligand/Ion	FE3-S4 CLUSTER
2	SF4	1	Ligand/Ion	IRON/SULFUR CLUSTER
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 4 (2, 2)

No.	Name	Count	Type	Full Name
1	F3S	1	Ligand/Ion	FE3-S4 CLUSTER
2	SF4	1	Ligand/Ion	IRON/SULFUR CLUSTER
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 5 (2, 2)

No.	Name	Count	Type	Full Name
1	F3S	1	Ligand/Ion	FE3-S4 CLUSTER
2	SF4	1	Ligand/Ion	IRON/SULFUR CLUSTER
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 6 (2, 2)

No.	Name	Count	Type	Full Name
1	F3S	1	Ligand/Ion	FE3-S4 CLUSTER
2	SF4	1	Ligand/Ion	IRON/SULFUR CLUSTER
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 7 (2, 2)

No.	Name	Count	Type	Full Name
1	F3S	1	Ligand/Ion	FE3-S4 CLUSTER
2	SF4	1	Ligand/Ion	IRON/SULFUR CLUSTER
3	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (21, 21)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	CYS A:45 , ILE A:46 , ASP A:48 , GLY A:49 , SER A:50 , CYS A:51 , CYS A:93	BINDING SITE FOR RESIDUE F3S A 104
02	AC2	SOFTWARE	CYS A:55 , VAL A:59 , CYS A:83 , ILE A:84 , CYS A:86 , MET A:87 , CYS A:89	BINDING SITE FOR RESIDUE SF4 A 105
03	AC3	SOFTWARE	HIS A:16 , HIS A:19 , HIS A:34 , ASP A:76	BINDING SITE FOR RESIDUE ZN A 106
04	AC4	SOFTWARE	CYS B:45 , ILE B:46 , ALA B:47 , ASP B:48 , GLY B:49 , SER B:50 , CYS B:51 , CYS B:93	BINDING SITE FOR RESIDUE F3S B 104
05	AC5	SOFTWARE	CYS B:55 , VAL B:59 , CYS B:83 , CYS B:86 , MET B:87 , CYS B:89	BINDING SITE FOR RESIDUE SF4 B 105
06	AC6	SOFTWARE	HIS B:16 , HIS B:19 , HIS B:34 , ASP B:76	BINDING SITE FOR RESIDUE ZN B 106
07	AC7	SOFTWARE	CYS C:45 , ILE C:46 , ASP C:48 , GLY C:49 , SER C:50 , CYS C:51 , ALA C:75 , CYS C:93	BINDING SITE FOR RESIDUE F3S C 104
08	AC8	SOFTWARE	CYS C:55 , VAL C:59 , CYS C:83 , ILE C:84 , CYS C:86 , MET C:87 , CYS C:89	BINDING SITE FOR RESIDUE SF4 C 105
09	AC9	SOFTWARE	HIS C:16 , HIS C:19 , HIS C:34 , ASP C:76	BINDING SITE FOR RESIDUE ZN C 106
10	BC1	SOFTWARE	CYS D:45 , ILE D:46 , ALA D:47 , ASP D:48 , GLY D:49 , SER D:50 , CYS D:51 , ALA D:75 , CYS D:93	BINDING SITE FOR RESIDUE F3S D 104
11	BC2	SOFTWARE	CYS D:55 , VAL D:57 , PHE D:60 , CYS D:83 , ILE D:84 , CYS D:86 , MET D:87 , CYS D:89	BINDING SITE FOR RESIDUE SF4 D 105
12	BC3	SOFTWARE	HIS D:16 , HIS D:19 , HIS D:34 , ASP D:76	BINDING SITE FOR RESIDUE ZN D 106
13	BC4	SOFTWARE	CYS E:45 , ILE E:46 , ALA E:47 , ASP E:48 , GLY E:49 , SER E:50 , CYS E:51 , CYS E:93	BINDING SITE FOR RESIDUE F3S E 104
14	BC5	SOFTWARE	CYS E:55 , VAL E:59 , CYS E:83 , ILE E:84 , CYS E:86 , MET E:87 , CYS E:89	BINDING SITE FOR RESIDUE SF4 E 105
15	BC6	SOFTWARE	HIS E:16 , HIS E:19 , HIS E:34 , ASP E:76	BINDING SITE FOR RESIDUE ZN E 106
16	BC7	SOFTWARE	CYS F:45 , ILE F:46 , ALA F:47 , ASP F:48 , GLY F:49 , CYS F:51 , CYS F:93	BINDING SITE FOR RESIDUE F3S F 104
17	BC8	SOFTWARE	CYS F:55 , VAL F:59 , CYS F:83 , ILE F:84 , CYS F:86 , MET F:87 , CYS F:89	BINDING SITE FOR RESIDUE SF4 F 105
18	BC9	SOFTWARE	HIS F:16 , HIS F:19 , HIS F:34 , ASP F:76	BINDING SITE FOR RESIDUE ZN F 106
19	CC1	SOFTWARE	CYS G:45 , ILE G:46 , ASP G:48 , GLY G:49 , SER G:50 , CYS G:51 , ALA G:75 , CYS G:93	BINDING SITE FOR RESIDUE F3S G 104
20	CC2	SOFTWARE	CYS G:55 , VAL G:59 , CYS G:83 , ILE G:84 , CYS G:86 , MET G:87 , CYS G:89	BINDING SITE FOR RESIDUE SF4 G 105
21	CC3	SOFTWARE	HIS G:16 , HIS G:19 , HIS G:34 , ASP G:76	BINDING SITE FOR RESIDUE ZN G 106

(no "SS Bond" information available for 2VKR)

Asymmetric Unit

No.	Residues
1	Gly A:23	-	Pro A:24
2	Pro A:27	-	Pro A:28
3	Gly B:23	-	Pro B:24
4	Pro B:27	-	Pro B:28
5	Gly C:23	-	Pro C:24
6	Pro C:27	-	Pro C:28
7	Gly D:23	-	Pro D:24
8	Pro D:27	-	Pro D:28
9	Gly E:23	-	Pro E:24
10	Pro E:27	-	Pro E:28
11	Gly F:23	-	Pro F:24
12	Pro F:27	-	Pro F:28
13	Gly G:23	-	Pro G:24
14	Pro G:27	-	Pro G:28

(no "SAP(SNP)/Variant" information available for 2VKR)

Asymmetric Unit (2, 21)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	4FE4S_FER_2	PS51379	4Fe-4S ferredoxin-type iron-sulfur binding domain profile.	FER_ACIAM	35-65 74-103	14	A:35-65 B:35-65 C:35-65 D:35-65 E:35-65 F:35-65 G:35-65 A:74-103 B:74-103 C:74-103 D:74-103 E:74-103 F:74-103 G:74-103
2	4FE4S_FER_1	PS00198	4Fe-4S ferredoxin-type iron-sulfur binding region signature.	FER_ACIAM	83-94	7	A:83-94 B:83-94 C:83-94 D:83-94 E:83-94 F:83-94 G:83-94

Biological Unit 1 (2, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	4FE4S_FER_2	PS51379	4Fe-4S ferredoxin-type iron-sulfur binding domain profile.	FER_ACIAM	35-65 74-103	2	A:35-65 - - - - - - A:74-103 - - - - - -
2	4FE4S_FER_1	PS00198	4Fe-4S ferredoxin-type iron-sulfur binding region signature.	FER_ACIAM	83-94	1	A:83-94 - - - - - -

Biological Unit 2 (2, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	4FE4S_FER_2	PS51379	4Fe-4S ferredoxin-type iron-sulfur binding domain profile.	FER_ACIAM	35-65 74-103	2	- B:35-65 - - - - - - B:74-103 - - - - -
2	4FE4S_FER_1	PS00198	4Fe-4S ferredoxin-type iron-sulfur binding region signature.	FER_ACIAM	83-94	1	- B:83-94 - - - - -

Biological Unit 3 (2, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	4FE4S_FER_2	PS51379	4Fe-4S ferredoxin-type iron-sulfur binding domain profile.	FER_ACIAM	35-65 74-103	2	- - C:35-65 - - - - - - C:74-103 - - - -
2	4FE4S_FER_1	PS00198	4Fe-4S ferredoxin-type iron-sulfur binding region signature.	FER_ACIAM	83-94	1	- - C:83-94 - - - -

Biological Unit 4 (2, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	4FE4S_FER_2	PS51379	4Fe-4S ferredoxin-type iron-sulfur binding domain profile.	FER_ACIAM	35-65 74-103	2	- - - D:35-65 - - - - - - D:74-103 - - -
2	4FE4S_FER_1	PS00198	4Fe-4S ferredoxin-type iron-sulfur binding region signature.	FER_ACIAM	83-94	1	- - - D:83-94 - - -

Biological Unit 5 (2, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	4FE4S_FER_2	PS51379	4Fe-4S ferredoxin-type iron-sulfur binding domain profile.	FER_ACIAM	35-65 74-103	2	- - - - E:35-65 - - - - - - E:74-103 - -
2	4FE4S_FER_1	PS00198	4Fe-4S ferredoxin-type iron-sulfur binding region signature.	FER_ACIAM	83-94	1	- - - - E:83-94 - -

Biological Unit 6 (2, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	4FE4S_FER_2	PS51379	4Fe-4S ferredoxin-type iron-sulfur binding domain profile.	FER_ACIAM	35-65 74-103	2	- - - - - F:35-65 - - - - - - F:74-103 -
2	4FE4S_FER_1	PS00198	4Fe-4S ferredoxin-type iron-sulfur binding region signature.	FER_ACIAM	83-94	1	- - - - - F:83-94 -

Biological Unit 7 (2, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	4FE4S_FER_2	PS51379	4Fe-4S ferredoxin-type iron-sulfur binding domain profile.	FER_ACIAM	35-65 74-103	2	- - - - - - G:35-65 - - - - - - G:74-103
2	4FE4S_FER_1	PS00198	4Fe-4S ferredoxin-type iron-sulfur binding region signature.	FER_ACIAM	83-94	1	- - - - - - G:83-94

(no "Exon" information available for 2VKR)

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:103
 aligned with FER_ACIAM | P49949 from UniProtKB/Swiss-Prot  Length:103

    Alignment length:103
                                    10        20        30        40        50        60        70        80        90       100   
            FER_ACIAM     1 GIDPNYRTSRQVVGEHQGHKVYGPVDPPKVLGIHGTIVGVDFDLCIADGSCITACPVNVFQWYDTPGHPASEKKADPINEQACIFCMACVNVCPVAAIDVKPP 103
               SCOP domains d2vkra_ A: automated matches                                                                            SCOP domains
               CATH domains 2vkrA00 A:1-103  [code=3.30.70.20, no name defined]                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhh.eeeee..eeee..........ee...eeee.......hhhhhhh.....eeee........eeee..hhhhh...hhhhhhh....eee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----------------------------------4FE4S_FER_2  PDB: A:35-65      --------4FE4S_FER_2  PDB: A:74-103     PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------------4FE4S_FER_1 --------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 2vkr A   1 GIDPNYRTSRQVVGEHQGHKVYGPVDPPKVLGIHGTIVGVDFDLCIADGSCITACPVNVFQWYDTPGHPASEKKADPINEQACIFCMACVNVCPVAAIDVKPP 103
                                    10        20        30        40        50        60        70        80        90       100

Chain B from PDB  Type:PROTEIN  Length:103
 aligned with FER_ACIAM | P49949 from UniProtKB/Swiss-Prot  Length:103

    Alignment length:103
                                    10        20        30        40        50        60        70        80        90       100   
            FER_ACIAM     1 GIDPNYRTSRQVVGEHQGHKVYGPVDPPKVLGIHGTIVGVDFDLCIADGSCITACPVNVFQWYDTPGHPASEKKADPINEQACIFCMACVNVCPVAAIDVKPP 103
               SCOP domains d2vkrb_ B: automated matches                                                                            SCOP domains
               CATH domains 2vkrB00 B:1-103  [code=3.30.70.20, no name defined]                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhh.eeeee..eeee..........ee...eeee.......hhhhhhh.....eeee........eeee..hhhhh...hhhhhhh....eee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----------------------------------4FE4S_FER_2  PDB: B:35-65      --------4FE4S_FER_2  PDB: B:74-103     PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------------4FE4S_FER_1 --------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 2vkr B   1 GIDPNYRTSRQVVGEHQGHKVYGPVDPPKVLGIHGTIVGVDFDLCIADGSCITACPVNVFQWYDTPGHPASEKKADPINEQACIFCMACVNVCPVAAIDVKPP 103
                                    10        20        30        40        50        60        70        80        90       100

Chain C from PDB  Type:PROTEIN  Length:103
 aligned with FER_ACIAM | P49949 from UniProtKB/Swiss-Prot  Length:103

    Alignment length:103
                                    10        20        30        40        50        60        70        80        90       100   
            FER_ACIAM     1 GIDPNYRTSRQVVGEHQGHKVYGPVDPPKVLGIHGTIVGVDFDLCIADGSCITACPVNVFQWYDTPGHPASEKKADPINEQACIFCMACVNVCPVAAIDVKPP 103
               SCOP domains d2vkrc_ C: automated matches                                                                            SCOP domains
               CATH domains 2vkrC00 C:1-103  [code=3.30.70.20, no name defined]                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhh.eeeee..eeee..........ee...eeee.......hhhhhhh.....eeee........eeee..hhhhh...hhhhhhh....eee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----------------------------------4FE4S_FER_2  PDB: C:35-65      --------4FE4S_FER_2  PDB: C:74-103     PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------------4FE4S_FER_1 --------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 2vkr C   1 GIDPNYRTSRQVVGEHQGHKVYGPVDPPKVLGIHGTIVGVDFDLCIADGSCITACPVNVFQWYDTPGHPASEKKADPINEQACIFCMACVNVCPVAAIDVKPP 103
                                    10        20        30        40        50        60        70        80        90       100

Chain D from PDB  Type:PROTEIN  Length:103
 aligned with FER_ACIAM | P49949 from UniProtKB/Swiss-Prot  Length:103

    Alignment length:103
                                    10        20        30        40        50        60        70        80        90       100   
            FER_ACIAM     1 GIDPNYRTSRQVVGEHQGHKVYGPVDPPKVLGIHGTIVGVDFDLCIADGSCITACPVNVFQWYDTPGHPASEKKADPINEQACIFCMACVNVCPVAAIDVKPP 103
               SCOP domains d2vkrd_ D: automated matches                                                                            SCOP domains
               CATH domains 2vkrD00 D:1-103  [code=3.30.70.20, no name defined]                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhh.eeeee..eeee..........ee...eeee.......hhhhhhh.....eeee........eeee..hhhhh...hhhhhhh....eee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----------------------------------4FE4S_FER_2  PDB: D:35-65      --------4FE4S_FER_2  PDB: D:74-103     PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------------4FE4S_FER_1 --------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 2vkr D   1 GIDPNYRTSRQVVGEHQGHKVYGPVDPPKVLGIHGTIVGVDFDLCIADGSCITACPVNVFQWYDTPGHPASEKKADPINEQACIFCMACVNVCPVAAIDVKPP 103
                                    10        20        30        40        50        60        70        80        90       100

Chain E from PDB  Type:PROTEIN  Length:103
 aligned with FER_ACIAM | P49949 from UniProtKB/Swiss-Prot  Length:103

    Alignment length:103
                                    10        20        30        40        50        60        70        80        90       100   
            FER_ACIAM     1 GIDPNYRTSRQVVGEHQGHKVYGPVDPPKVLGIHGTIVGVDFDLCIADGSCITACPVNVFQWYDTPGHPASEKKADPINEQACIFCMACVNVCPVAAIDVKPP 103
               SCOP domains d2vkre_ E: automated matches                                                                            SCOP domains
               CATH domains 2vkrE00 E:1-103  [code=3.30.70.20, no name defined]                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhh.eeeee..eeee..........ee...eeee.......hhhhhhh.....eeee........eeee..hhhhh...hhhhhhh....eee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----------------------------------4FE4S_FER_2  PDB: E:35-65      --------4FE4S_FER_2  PDB: E:74-103     PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------------4FE4S_FER_1 --------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 2vkr E   1 GIDPNYRTSRQVVGEHQGHKVYGPVDPPKVLGIHGTIVGVDFDLCIADGSCITACPVNVFQWYDTPGHPASEKKADPINEQACIFCMACVNVCPVAAIDVKPP 103
                                    10        20        30        40        50        60        70        80        90       100

Chain F from PDB  Type:PROTEIN  Length:103
 aligned with FER_ACIAM | P49949 from UniProtKB/Swiss-Prot  Length:103

    Alignment length:103
                                    10        20        30        40        50        60        70        80        90       100   
            FER_ACIAM     1 GIDPNYRTSRQVVGEHQGHKVYGPVDPPKVLGIHGTIVGVDFDLCIADGSCITACPVNVFQWYDTPGHPASEKKADPINEQACIFCMACVNVCPVAAIDVKPP 103
               SCOP domains d2vkrf_ F: automated matches                                                                            SCOP domains
               CATH domains 2vkrF00 F:1-103  [code=3.30.70.20, no name defined]                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhh.eeeee..eeee..........ee...eeee.......hhhhhhh.....eeee........eeee..hhhhh...hhhhhhh....eee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----------------------------------4FE4S_FER_2  PDB: F:35-65      --------4FE4S_FER_2  PDB: F:74-103     PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------------4FE4S_FER_1 --------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 2vkr F   1 GIDPNYRTSRQVVGEHQGHKVYGPVDPPKVLGIHGTIVGVDFDLCIADGSCITACPVNVFQWYDTPGHPASEKKADPINEQACIFCMACVNVCPVAAIDVKPP 103
                                    10        20        30        40        50        60        70        80        90       100

Chain G from PDB  Type:PROTEIN  Length:103
 aligned with FER_ACIAM | P49949 from UniProtKB/Swiss-Prot  Length:103

    Alignment length:103
                                    10        20        30        40        50        60        70        80        90       100   
            FER_ACIAM     1 GIDPNYRTSRQVVGEHQGHKVYGPVDPPKVLGIHGTIVGVDFDLCIADGSCITACPVNVFQWYDTPGHPASEKKADPINEQACIFCMACVNVCPVAAIDVKPP 103
               SCOP domains d2vkrg_ G: automated matches                                                                            SCOP domains
               CATH domains 2vkrG00 G:1-103  [code=3.30.70.20, no name defined]                                                     CATH domains
           Pfam domains (1) -------------------------------------------Fer4_9-2vkrG01 G:44-98                                 ----- Pfam domains (1)
           Pfam domains (2) -------------------------------------------Fer4_9-2vkrG02 G:44-98                                 ----- Pfam domains (2)
           Pfam domains (3) -------------------------------------------Fer4_9-2vkrG03 G:44-98                                 ----- Pfam domains (3)
           Pfam domains (4) -------------------------------------------Fer4_9-2vkrG04 G:44-98                                 ----- Pfam domains (4)
           Pfam domains (5) -------------------------------------------Fer4_9-2vkrG05 G:44-98                                 ----- Pfam domains (5)
           Pfam domains (6) -------------------------------------------Fer4_9-2vkrG06 G:44-98                                 ----- Pfam domains (6)
           Pfam domains (7) -------------------------------------------Fer4_9-2vkrG07 G:44-98                                 ----- Pfam domains (7)
         Sec.struct. author ....hhhhhh.eeeee..eeee..........ee...eeee.......hhhhhhh.....eeee........eeee..hhhhh...hhhhhhh....eee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----------------------------------4FE4S_FER_2  PDB: G:35-65      --------4FE4S_FER_2  PDB: G:74-103     PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------------4FE4S_FER_1 --------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 2vkr G   1 GIDPNYRTSRQVVGEHQGHKVYGPVDPPKVLGIHGTIVGVDFDLCIADGSCITACPVNVFQWYDTPGHPASEKKADPINEQACIFCMACVNVCPVAAIDVKPP 103
                                    10        20        30        40        50        60        70        80        90       100

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 Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a+b) (23004)

Fold: Ferredoxin-like (1795)

Superfamily: 4Fe-4S ferredoxins (143)

Family: Archaeal ferredoxins (2)

Protein domain: automated matches (1)

Acidianus ambivalens [TaxId: 2283] (1)

1a	d2vkra_	A:
1b	d2vkrb_	B:
1c	d2vkrc_	C:
1d	d2vkrd_	D:
1e	d2vkre_	E:
1f	d2vkrf_	F:
1g	d2vkrg_	G:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Alpha-Beta Plaits (1688)

Homologous Superfamily: [code=3.30.70.20, no name defined] (120)

Acidianus ambivalens. Organism_taxid: 2283 (1)

1a	2vkrA00	A:1-103
1b	2vkrB00	B:1-103
1c	2vkrC00	C:1-103
1d	2vkrD00	D:1-103
1e	2vkrE00	E:1-103
1f	2vkrF00	F:1-103
1g	2vkrG00	G:1-103

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: 4Fe-4S (51)

Family: Fer4_9 (5)

Acidianus ambivalens (Desulfurolobus ambivalens) (1)

1a	Fer4_9-2vkrG01	G:44-98
1b	Fer4_9-2vkrG02	G:44-98
1c	Fer4_9-2vkrG03	G:44-98
1d	Fer4_9-2vkrG04	G:44-98
1e	Fer4_9-2vkrG05	G:44-98
1f	Fer4_9-2vkrG06	G:44-98
1g	Fer4_9-2vkrG07	G:44-98

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D,E,F,G (FER_ACIAM | P49949)

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:0009055	electron carrier activity	Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
	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:0008270	zinc ion binding	Interacting selectively and non-covalently with zinc (Zn) ions.
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
		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 ]
		SF4	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		ZN	[ 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 ]
		BC2	[ RasMol ]	+environment [ RasMol ]
		BC3	[ RasMol ]	+environment [ RasMol ]
		BC4	[ RasMol ]	+environment [ RasMol ]
		BC5	[ RasMol ]	+environment [ RasMol ]
		BC6	[ RasMol ]	+environment [ RasMol ]
		BC7	[ RasMol ]	+environment [ RasMol ]
		BC8	[ RasMol ]	+environment [ RasMol ]
		BC9	[ RasMol ]	+environment [ RasMol ]
		CC1	[ RasMol ]	+environment [ RasMol ]
		CC2	[ RasMol ]	+environment [ RasMol ]
		CC3	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Gly A:23 - Pro A:24	[ RasMol ]
		Gly B:23 - Pro B:24	[ RasMol ]
		Gly C:23 - Pro C:24	[ RasMol ]
		Gly D:23 - Pro D:24	[ RasMol ]
		Gly E:23 - Pro E:24	[ RasMol ]
		Gly F:23 - Pro F:24	[ RasMol ]
		Gly G:23 - Pro G:24	[ RasMol ]
		Pro A:27 - Pro A:28	[ RasMol ]
		Pro B:27 - Pro B:28	[ RasMol ]
		Pro C:27 - Pro C:28	[ RasMol ]
		Pro D:27 - Pro D:28	[ RasMol ]
		Pro E:27 - Pro E:28	[ RasMol ]
		Pro F:27 - Pro F:28	[ RasMol ]
		Pro G:27 - Pro G:28	[ RasMol ]

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]
		Biological Unit 3	[ Jena3D ]
		Biological Unit 4	[ Jena3D ]
		Biological Unit 5	[ Jena3D ]
		Biological Unit 6	[ Jena3D ]
		Biological Unit 7	[ 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 \| Biol. Unit 3 PNG format \| Biol. Unit 4 PNG format \| Biol. Unit 5 PNG format \| Biol. Unit 6 PNG format \| Biol. Unit 7 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
	2vkr
		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
	FER_ACIAM \| P49949
		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)
	(no 'Enzyme Classificator' available)
		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
	FER_ACIAM \| P49949
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

(no "Entries Sharing at Least One Protein Chain" available for 2VKR)

(no "Related Entries Specified in the PDB File" available for 2VKR)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 21)

Sites (21, 21)

SS Bonds (0, 0)

Cis Peptide Bonds (14, 14)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 21)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 7)

CATH Domains (1, 7)

Pfam Domains (1, 7)

Gene Ontology (7, 7)

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