Crystal structure of a virus like photosystem I from the cyanobacterium Synechocystis PCC 6803


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
BSCOP2B SuperfamilyPhotosystem I subunits PsaA/PsaB 8074462 3000850 SCOP2B (2022-06-29)
S [auth 2]SCOP2B SuperfamilyPhotosystem I subunits PsaA/PsaB 8074462 3000850 SCOP2B (2022-06-29)
J [auth b]SCOP2B SuperfamilyPhotosystem I subunits PsaA/PsaB 8074462 3000850 SCOP2B (2022-06-29)
X [auth 9]SCOP2B SuperfamilySubunit VIII of photosystem I reaction centre, PsaI 8074504 3000819 SCOP2B (2022-06-29)
O [auth i]SCOP2B SuperfamilySubunit VIII of photosystem I reaction centre, PsaI 8074504 3000819 SCOP2B (2022-06-29)
BA [auth I]SCOP2B SuperfamilySubunit VIII of photosystem I reaction centre, PsaI 8074504 3000819 SCOP2B (2022-06-29)
H [auth M]SCOP2B SuperfamilySubunit XII of photosystem I reaction centre, PsaM 8074450 3000829 SCOP2B (2022-06-29)
Q [auth m]SCOP2B SuperfamilySubunit XII of photosystem I reaction centre, PsaM 8074450 3000829 SCOP2B (2022-06-29)
Z [auth 7]SCOP2 FamilySubunit XII of photosystem I reaction centre, PsaM 8074449 4002104 SCOP2 (2022-06-29)
Z [auth 7]SCOP2 SuperfamilySubunit XII of photosystem I reaction centre, PsaM 8074450 3000829 SCOP2 (2022-06-29)
P [auth l]SCOP2B SuperfamilyPhotosystem I reaction center subunit XI, PsaL 8087170 3000870 SCOP2B (2022-06-29)
Y [auth 8]SCOP2B SuperfamilyPhotosystem I reaction center subunit XI, PsaL 8087170 3000870 SCOP2B (2022-06-29)
G [auth L]SCOP2B SuperfamilyPhotosystem I reaction center subunit XI, PsaL 8087170 3000870 SCOP2B (2022-06-29)
N [auth f]SCOP2B SuperfamilySubunit IX of photosystem I reaction centre, PsaJ 8074512 3000824 SCOP2B (2022-06-29)
W [auth 6]SCOP2B SuperfamilySubunit IX of photosystem I reaction centre, PsaJ 8074512 3000824 SCOP2B (2022-06-29)
FSCOP2B SuperfamilySubunit IX of photosystem I reaction centre, PsaJ 8074512 3000824 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyElectron transport accessory proteins 8044474 3000325 SCOP2B (2022-06-29)
M [auth e]SCOP2B SuperfamilyElectron transport accessory proteins 8044474 3000325 SCOP2B (2022-06-29)
V [auth 5]SCOP2B SuperfamilyElectron transport accessory proteins 8044474 3000325 SCOP2B (2022-06-29)
DSCOP2B SuperfamilyPhotosystem I subunit PsaD 8074480 3000951 SCOP2B (2022-06-29)
U [auth 4]SCOP2B SuperfamilyPhotosystem I subunit PsaD 8074480 3000951 SCOP2B (2022-06-29)
L [auth d]SCOP2B SuperfamilyPhotosystem I subunit PsaD 8074480 3000951 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyPhotosystem I subunits PsaA/PsaB 8074454 3000850 SCOP2B (2022-06-29)
R [auth 1]SCOP2B SuperfamilyPhotosystem I subunits PsaA/PsaB 8074454 3000850 SCOP2B (2022-06-29)
I [auth a]SCOP2B SuperfamilyPhotosystem I subunits PsaA/PsaB 8074454 3000850 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
BS-AdoMet_synt_Me4l6vB1 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
S [auth 2]S-AdoMet_synt_Me4l6v21 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
J [auth b]S-AdoMet_synt_Me4l6vb1 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
X [auth 9]S-AdoMet_synt_Me4l6v91 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
O [auth i]Acylphosphatasee4l6vi1 A: beta barrelsX: FAD-linked reductases, C-terminal domain-likeH: FAD-linked reductases-CT: FAD-linked reductases-CF: AcylphosphataseECOD (v294.2)
BA [auth I]S-AdoMet_synt_Me4l6vI1 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
H [auth M]Acylphosphatasee4l6vM1 A: beta barrelsX: FAD-linked reductases, C-terminal domain-likeH: FAD-linked reductases-CT: FAD-linked reductases-CF: AcylphosphataseECOD (v294.2)
Q [auth m]S-AdoMet_synt_Me4l6vm1 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
Z [auth 7]S-AdoMet_synt_Me4l6v71 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
P [auth l]S-AdoMet_synt_Me4l6vl1 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
Y [auth 8]S-AdoMet_synt_Me4l6v81 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
G [auth L]Acylphosphatasee4l6vL1 A: beta barrelsX: FAD-linked reductases, C-terminal domain-likeH: FAD-linked reductases-CT: FAD-linked reductases-CF: AcylphosphataseECOD (v294.2)
N [auth f]AAA_23e4l6vf1 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: AAA_23ECOD (v294.2)
W [auth 6]AAA_23e4l6v61 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: AAA_23ECOD (v294.2)
FAcylphosphatasee4l6vF1 A: beta barrelsX: FAD-linked reductases, C-terminal domain-likeH: FAD-linked reductases-CT: FAD-linked reductases-CF: AcylphosphataseECOD (v294.2)
ES-AdoMet_synt_Me4l6vE1 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
M [auth e]S-AdoMet_synt_Me4l6ve1 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
V [auth 5]S-AdoMet_synt_Me4l6v51 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
DS-AdoMet_synt_Me4l6vD1 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
U [auth 4]S-AdoMet_synt_Me4l6v41 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
L [auth d]S-AdoMet_synt_Me4l6vd1 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
CS-AdoMet_synt_Me4l6vC1 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
K [auth c]S-AdoMet_synt_Me4l6vc1 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
T [auth 3]S-AdoMet_synt_Me4l6v31 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
AA [auth K]Acylphosphatasee4l6vK1 A: beta barrelsX: FAD-linked reductases, C-terminal domain-likeH: FAD-linked reductases-CT: FAD-linked reductases-CF: AcylphosphataseECOD (v294.2)
DA [auth 0]Glu_cyclase_2e4l6v01 A: beta barrelsX: Outer membrane meander beta-barrelsH: PorinsT: PorinF: Glu_cyclase_2ECOD (v294.2)
CA [auth k]S-AdoMet_synt_Me4l6vk1 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
AS-AdoMet_synt_Me4l6vA1 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
R [auth 1]S-AdoMet_synt_Me4l6v11 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)
I [auth a]S-AdoMet_synt_Me4l6va1 A: beta barrelsX: DEATH domainH: HTHT: winged helix domainF: S-AdoMet_synt_MECOD (v294.2)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
B1.20.1130.10 Mainly Alpha Up-down Bundle Photosystem I p700 chlorophyll A apoprotein A1 Photosystem I PsaA/PsaBCATH (4.3.0)
S [auth 2]1.20.1130.10 Mainly Alpha Up-down Bundle Photosystem I p700 chlorophyll A apoprotein A1 Photosystem I PsaA/PsaBCATH (4.3.0)
J [auth b]1.20.1130.10 Mainly Alpha Up-down Bundle Photosystem I p700 chlorophyll A apoprotein A1 Photosystem I PsaA/PsaBCATH (4.3.0)
P [auth l]1.20.1240.10 Mainly Alpha Up-down Bundle Photosystem 1 Reaction Centre Subunit Xi Chain: LCATH (4.3.0)
Y [auth 8]1.20.1240.10 Mainly Alpha Up-down Bundle Photosystem 1 Reaction Centre Subunit Xi Chain: LCATH (4.3.0)
G [auth L]1.20.1240.10 Mainly Alpha Up-down Bundle Photosystem 1 Reaction Centre Subunit Xi Chain: LCATH (4.3.0)
N [auth f]1.10.8.110 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein domain 3CATH (4.3.0)
W [auth 6]1.10.8.110 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein domain 3CATH (4.3.0)
F1.10.8.110 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein domain 3CATH (4.3.0)
E2.30.30.50 Mainly Beta Roll SH3 type barrels. CATH (4.3.0)
M [auth e]2.30.30.50 Mainly Beta Roll SH3 type barrels. CATH (4.3.0)
V [auth 5]2.30.30.50 Mainly Beta Roll SH3 type barrels. CATH (4.3.0)
D3.30.1470.10 Alpha Beta 2-Layer Sandwich Photosystem 1 Reaction Centre Subunit Ii Chain: DCATH (4.3.0)
U [auth 4]3.30.1470.10 Alpha Beta 2-Layer Sandwich Photosystem 1 Reaction Centre Subunit Ii Chain: DCATH (4.3.0)
L [auth d]3.30.1470.10 Alpha Beta 2-Layer Sandwich Photosystem 1 Reaction Centre Subunit Ii Chain: DCATH (4.3.0)
C3.30.70.20 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits CATH (4.3.0)
K [auth c]3.30.70.20 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits CATH (4.3.0)
T [auth 3]3.30.70.20 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits CATH (4.3.0)
A1.20.1130.10 Mainly Alpha Up-down Bundle Photosystem I p700 chlorophyll A apoprotein A1 Photosystem I PsaA/PsaBCATH (4.3.0)
R [auth 1]1.20.1130.10 Mainly Alpha Up-down Bundle Photosystem I p700 chlorophyll A apoprotein A1 Photosystem I PsaA/PsaBCATH (4.3.0)
I [auth a]1.20.1130.10 Mainly Alpha Up-down Bundle Photosystem I p700 chlorophyll A apoprotein A1 Photosystem I PsaA/PsaBCATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
B,
J [auth b],
S [auth 2]
PF00223Photosystem I psaA/psaB protein (PsaA_PsaB)Photosystem I psaA/psaB protein- Family
BA [auth I],
O [auth i],
X [auth 9]
PF00796Photosystem I reaction centre subunit VIII (PSI_8)Photosystem I reaction centre subunit VIII- Family
H [auth M],
Q [auth m],
Z [auth 7]
PF07465Photosystem I protein M (PsaM) (PsaM)Photosystem I protein M (PsaM)- Family
G [auth L],
P [auth l],
Y [auth 8]
PF02605Photosystem I reaction centre subunit XI (PsaL)Photosystem I reaction centre subunit XI- Family
F,
N [auth f],
W [auth 6]
PF01701Photosystem I reaction centre subunit IX / PsaJ (PSI_PsaJ)Photosystem I reaction centre subunit IX / PsaJ- Family
F,
N [auth f],
W [auth 6]
PF02507Photosystem I reaction centre subunit III (PSI_PsaF)Photosystem I reaction centre subunit III- Family
E,
M [auth e],
V [auth 5]
PF02427Photosystem I reaction centre subunit IV / PsaE (PSI_PsaE)Photosystem I reaction centre subunit IV / PsaEPsaE is a 69 amino acid polypeptide from photosystem I present on the stromal side of the thylakoid membrane [1]. The structure is comprised of a well-defined five-stranded beta-sheet similar to SH3 domains [1]. Domain
D,
L [auth d],
U [auth 4]
PF02531PsaD (PsaD)PsaD- Family
C,
K [auth c],
T [auth 3]
PF128384Fe-4S dicluster domain (Fer4_7)4Fe-4S dicluster domainSuperfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Domain contai ...Superfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Domain contains two 4Fe4S clusters.
Domain
AA [auth K],
CA [auth k],
DA [auth 0]
PF01241Photosystem I psaG / psaK (PSI_PSAK)Photosystem I psaG / psaK- Family
A,
I [auth a],
R [auth 1]
PF00223Photosystem I psaA/psaB protein (PsaA_PsaB)Photosystem I psaA/psaB protein- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
B,
J [auth b],
S [auth 2]
Photosystem I P700 chlorophyll a apoprotein A2
BA [auth I],
O [auth i],
X [auth 9]
Photosystem I subunit III-
H [auth M],
Q [auth m],
Z [auth 7]
Photosystem I reaction center subunit XII-
G [auth L],
P [auth l],
Y [auth 8]
Photosystem I reaction center subunit XI-
F,
N [auth f],
W [auth 6]
Fusion protein of Photosystem I subunit III and subunit IX-
E,
M [auth e],
V [auth 5]
Photosystem I reaction center subunit IV-
D,
L [auth d],
U [auth 4]
Photosystem I subunit II-
C,
K [auth c],
T [auth 3]
Photosystem I iron-sulfur center
AA [auth K],
CA [auth k],
DA [auth 0]
Photosystem I reaction center subunit VIII-
A,
I [auth a],
R [auth 1]
Photosystem I P700 chlorophyll a apoprotein A1

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
B,
J [auth b],
S [auth 2]
IPR036408Photosystem I PsaA/PsaB superfamilyHomologous Superfamily
B,
J [auth b],
S [auth 2]
IPR001280Photosystem I PsaA/PsaBFamily
B,
J [auth b],
S [auth 2]
IPR006244Photosystem I PsaBFamily
B,
J [auth b],
S [auth 2]
IPR020586Photosystem I PsaA/PsaB, conserved siteConserved Site
BA [auth I],
O [auth i],
X [auth 9]
IPR036357Photosystem I reaction centre subunit VIII superfamilyHomologous Superfamily
BA [auth I],
O [auth i],
X [auth 9]
IPR001302Photosystem I reaction centre subunit VIIIFamily
H [auth M],
Q [auth m],
Z [auth 7]
IPR010010Photosystem I PsaM, reaction centreFamily
H [auth M],
Q [auth m],
Z [auth 7]
IPR037279Photosystem I PsaM, reaction centre superfamilyHomologous Superfamily
G [auth L],
P [auth l],
Y [auth 8]
IPR003757Photosystem I PsaL, reaction centre subunit XIDomain
G [auth L],
P [auth l],
Y [auth 8]
IPR022980Photosystem I, reaction centre subunit XIFamily
G [auth L],
P [auth l],
Y [auth 8]
IPR036592Photosystem I PsaL, reaction centre subunit XI superfamilyHomologous Superfamily
F,
N [auth f],
W [auth 6]
IPR036577Photosystem I PsaF, reaction centre subunit III superfamilyHomologous Superfamily
F,
N [auth f],
W [auth 6]
IPR003666Photosystem I PsaF, reaction centre subunit IIIFamily
F,
N [auth f],
W [auth 6]
IPR002615Photosystem I PsaJ, reaction centre subunit IXFamily
F,
N [auth f],
W [auth 6]
IPR036062Photosystem I PsaJ, reaction centre subunit IX superfamilyHomologous Superfamily
E,
M [auth e],
V [auth 5]
IPR008990Electron transport accessory-like domain superfamilyHomologous Superfamily
E,
M [auth e],
V [auth 5]
IPR003375Photosystem I PsaE, reaction centre subunit IVFamily
D,
L [auth d],
U [auth 4]
IPR003685Photosystem I PsaDFamily
D,
L [auth d],
U [auth 4]
IPR036579Photosystem I, reaction centre subunit PsaD superfamilyHomologous Superfamily
C,
K [auth c],
T [auth 3]
IPR0179004Fe-4S ferredoxin, iron-sulphur binding, conserved siteConserved Site
C,
K [auth c],
T [auth 3]
IPR050157Photosystem I iron-sulfur centerFamily
C,
K [auth c],
T [auth 3]
IPR0178964Fe-4S ferredoxin-type, iron-sulphur binding domainDomain
C,
K [auth c],
T [auth 3]
IPR017491Photosystem I protein PsaCFamily
AA [auth K],
CA [auth k],
DA [auth 0]
IPR037101Photosystem I reaction centre subunit PsaKHomologous Superfamily
AA [auth K],
CA [auth k],
DA [auth 0]
IPR000549Photosystem I reaction center subunit V/PsaKFamily
AA [auth K],
CA [auth k],
DA [auth 0]
IPR035982Photosystem I reaction centre subunit PsaK superfamilyHomologous Superfamily
AA [auth K],
CA [auth k],
DA [auth 0]
IPR017492Photosystem I reaction center subunit PsaKFamily
A,
I [auth a],
R [auth 1]
IPR036408Photosystem I PsaA/PsaB superfamilyHomologous Superfamily
A,
I [auth a],
R [auth 1]
IPR001280Photosystem I PsaA/PsaBFamily
A,
I [auth a],
R [auth 1]
IPR006243Photosystem I PsaAFamily
A,
I [auth a],
R [auth 1]
IPR020586Photosystem I PsaA/PsaB, conserved siteConserved Site