6DHF
RT XFEL structure of the one-flash state of Photosystem II (1F, S2-rich) at 2.08 Angstrom resolution
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A | SCOP2B Superfamily | Bacterial photosystem II reaction centre L and M subunits | 8032741 | 3000736 | SCOP2B (2021-05-27) |
U [auth a] | SCOP2B Superfamily | Bacterial photosystem II reaction centre L and M subunits | 8032741 | 3000736 | SCOP2B (2021-05-27) |
DA [auth k] | SCOP2B Superfamily | Photosystem II reaction center protein K PsbK | 8032757 | 3001585 | SCOP2B (2021-05-27) |
J [auth K] | SCOP2B Superfamily | Photosystem II reaction center protein K PsbK | 8032757 | 3001585 | SCOP2B (2021-05-27) |
K [auth L] | SCOP2B Superfamily | Photosystem II reaction center protein L PsbL | 8032759 | 3001523 | SCOP2B (2021-05-27) |
EA [auth l] | SCOP2B Superfamily | Photosystem II reaction center protein L PsbL | 8032759 | 3001523 | SCOP2B (2021-05-27) |
FA [auth m] | SCOP2B Superfamily | Photosystem II reaction center protein M PsbM | 8032762 | 3001573 | SCOP2B (2021-05-27) |
L [auth M] | SCOP2B Superfamily | Photosystem II reaction center protein M PsbM | 8032762 | 3001573 | SCOP2B (2021-05-27) |
M [auth O] | SCOP2B Superfamily | OMPA barrel-like | 8032765 | 3000208 | SCOP2B (2021-05-27) |
GA [auth o] | SCOP2B Superfamily | OMPA barrel-like | 8032765 | 3000208 | SCOP2B (2021-05-27) |
HA [auth t] | SCOP2B Superfamily | Photosystem II reaction center protein T PsbT | 8032769 | 3001561 | SCOP2B (2021-05-27) |
N [auth T] | SCOP2B Superfamily | Photosystem II reaction center protein T PsbT | 8032769 | 3001561 | SCOP2B (2021-05-27) |
O [auth U] | SCOP2B Superfamily | PsbU/PolX domain-like | 8032768 | 3000893 | SCOP2B (2021-05-27) |
IA [auth u] | SCOP2B Superfamily | PsbU/PolX domain-like | 8032768 | 3000893 | SCOP2B (2021-05-27) |
P [auth V] | SCOP2B Superfamily | Cytochrome c | 8036565 | 3000815 | SCOP2B (2021-05-27) |
JA [auth v] | SCOP2B Superfamily | Cytochrome c | 8036565 | 3000815 | SCOP2B (2021-05-27) |
KA [auth y] | SCOP2B Superfamily | Photosystem II reaction center protein Ycf12 | 8093136 | 3002680 | SCOP2B (2021-05-27) |
Q [auth Y] | SCOP2B Superfamily | Photosystem II reaction center protein Ycf12 | 8093136 | 3002680 | SCOP2B (2021-05-27) |
MA [auth z] | SCOP2B Superfamily | PsbZ-like | 8032770 | 3001624 | SCOP2B (2021-05-27) |
S [auth Z] | SCOP2B Superfamily | PsbZ-like | 8032770 | 3001624 | SCOP2B (2021-05-27) |
B | SCOP2B Superfamily | Photosystem II antenna protein-like | 8032743 | 3001674 | SCOP2B (2021-05-27) |
V [auth b] | SCOP2B Superfamily | Photosystem II antenna protein-like | 8032743 | 3001674 | SCOP2B (2021-05-27) |
W [auth c] | SCOP2B Superfamily | Photosystem II antenna protein-like | 8032746 | 3001674 | SCOP2B (2021-05-27) |
C | SCOP2B Superfamily | Photosystem II antenna protein-like | 8032746 | 3001674 | SCOP2B (2021-05-27) |
D | SCOP2B Superfamily | Bacterial photosystem II reaction centre L and M subunits | 8032750 | 3000736 | SCOP2B (2021-05-27) |
X [auth d] | SCOP2B Superfamily | Bacterial photosystem II reaction centre L and M subunits | 8032750 | 3000736 | SCOP2B (2021-05-27) |
E | SCOP2B Superfamily | Cytochrome b559 subunits | 8032749 | 3001602 | SCOP2B (2021-05-27) |
Y [auth e] | SCOP2B Superfamily | Cytochrome b559 subunits | 8032749 | 3001602 | SCOP2B (2021-05-27) |
F | SCOP2B Superfamily | Cytochrome b559 subunits | 8032752 | 3001602 | SCOP2B (2021-05-27) |
Z [auth f] | SCOP2B Superfamily | Cytochrome b559 subunits | 8032752 | 3001602 | SCOP2B (2021-05-27) |
AA [auth h] | SCOP2B Superfamily | Photosystem II 10 kDa phosphoprotein PsbH | 8032753 | 3001547 | SCOP2B (2021-05-27) |
G [auth H] | SCOP2B Superfamily | Photosystem II 10 kDa phosphoprotein PsbH | 8032753 | 3001547 | SCOP2B (2021-05-27) |
BA [auth i] | SCOP2B Superfamily | Photosystem II reaction center protein I PsbI | 8032754 | 3001590 | SCOP2B (2021-05-27) |
H [auth I] | SCOP2B Superfamily | Photosystem II reaction center protein I PsbI | 8032754 | 3001590 | SCOP2B (2021-05-27) |
CA [auth j] | SCOP2B Superfamily | Photosystem II reaction center protein J PsbJ | 8032755 | 3001534 | SCOP2B (2021-05-27) |
I [auth J] | SCOP2B Superfamily | Photosystem II reaction center protein J PsbJ | 8032755 | 3001534 | SCOP2B (2021-05-27) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | PF00124 | e6dhfA1 | A: alpha bundles | X: Bacterial photosystem II reaction centre L and M subunits-like (From Topology) | H: Bacterial photosystem II reaction centre L and M subunits-like (From Topology) | T: Bacterial photosystem II reaction centre L and M subunits-like | F: PF00124 | ECOD (1.6) |
U [auth a] | PF00124 | e6dhfa1 | A: alpha bundles | X: Bacterial photosystem II reaction centre L and M subunits-like (From Topology) | H: Bacterial photosystem II reaction centre L and M subunits-like (From Topology) | T: Bacterial photosystem II reaction centre L and M subunits-like | F: PF00124 | ECOD (1.6) |
DA [auth k] | PF02533 | e6dhfk1 | A: extended segments | X: Photosystem II reaction center protein K, PsbK (From Topology) | H: Photosystem II reaction center protein K, PsbK (From Topology) | T: Photosystem II reaction center protein K, PsbK | F: PF02533 | ECOD (1.6) |
J [auth K] | PF02533 | e6dhfK1 | A: extended segments | X: Photosystem II reaction center protein K, PsbK (From Topology) | H: Photosystem II reaction center protein K, PsbK (From Topology) | T: Photosystem II reaction center protein K, PsbK | F: PF02533 | ECOD (1.6) |
K [auth L] | PF02419 | e6dhfL1 | A: extended segments | X: Photosystem II reaction center protein L, PsbL (From Topology) | H: Photosystem II reaction center protein L, PsbL (From Topology) | T: Photosystem II reaction center protein L, PsbL | F: PF02419 | ECOD (1.6) |
EA [auth l] | PF02419 | e6dhfl1 | A: extended segments | X: Photosystem II reaction center protein L, PsbL (From Topology) | H: Photosystem II reaction center protein L, PsbL (From Topology) | T: Photosystem II reaction center protein L, PsbL | F: PF02419 | ECOD (1.6) |
FA [auth m] | PF05151 | e6dhfm1 | A: extended segments | X: Photosystem II reaction center protein M, PsbM (From Topology) | H: Photosystem II reaction center protein M, PsbM (From Topology) | T: Photosystem II reaction center protein M, PsbM | F: PF05151 | ECOD (1.6) |
L [auth M] | PF05151 | e6dhfM1 | A: extended segments | X: Photosystem II reaction center protein M, PsbM (From Topology) | H: Photosystem II reaction center protein M, PsbM (From Topology) | T: Photosystem II reaction center protein M, PsbM | F: PF05151 | ECOD (1.6) |
M [auth O] | PF01716 | e6dhfO1 | A: beta barrels | X: Outer membrane meander beta-barrels | H: OMPA-like (From Topology) | T: OMPA-like | F: PF01716 | ECOD (1.6) |
GA [auth o] | PF01716 | e6dhfo1 | A: beta barrels | X: Outer membrane meander beta-barrels | H: OMPA-like (From Topology) | T: OMPA-like | F: PF01716 | ECOD (1.6) |
HA [auth t] | PF01405 | e6dhft1 | A: extended segments | X: Photosystem II reaction center protein T, PsbT (From Topology) | H: Photosystem II reaction center protein T, PsbT (From Topology) | T: Photosystem II reaction center protein T, PsbT | F: PF01405 | ECOD (1.6) |
N [auth T] | PF01405 | e6dhfT1 | A: extended segments | X: Photosystem II reaction center protein T, PsbT (From Topology) | H: Photosystem II reaction center protein T, PsbT (From Topology) | T: Photosystem II reaction center protein T, PsbT | F: PF01405 | ECOD (1.6) |
O [auth U] | PF06514 | e6dhfU1 | A: alpha arrays | X: HhH/H2TH | H: SAM/DNA-glycosylase | T: SAM domain-like | F: PF06514 | ECOD (1.6) |
IA [auth u] | PF06514 | e6dhfu1 | A: alpha arrays | X: HhH/H2TH | H: SAM/DNA-glycosylase | T: SAM domain-like | F: PF06514 | ECOD (1.6) |
P [auth V] | PF14495 | e6dhfV1 | A: alpha arrays | X: Cytochrome c-like | H: Cytochrome c (From Topology) | T: Cytochrome c | F: PF14495 | ECOD (1.6) |
JA [auth v] | PF14495 | e6dhfv1 | A: alpha arrays | X: Cytochrome c-like | H: Cytochrome c (From Topology) | T: Cytochrome c | F: PF14495 | ECOD (1.6) |
KA [auth y] | PF05969 | e6dhfy1 | A: extended segments | X: Photosystem II reaction center protein ycf12 (From Topology) | H: Photosystem II reaction center protein ycf12 (From Topology) | T: Photosystem II reaction center protein ycf12 | F: PF05969 | ECOD (1.6) |
Q [auth Y] | PF05969 | e6dhfY1 | A: extended segments | X: Photosystem II reaction center protein ycf12 (From Topology) | H: Photosystem II reaction center protein ycf12 (From Topology) | T: Photosystem II reaction center protein ycf12 | F: PF05969 | ECOD (1.6) |
R [auth X] | PF06596 | e6dhfX1 | A: extended segments | X: Photosystem II PsbX protein (From Topology) | H: Photosystem II PsbX protein (From Topology) | T: Photosystem II PsbX protein | F: PF06596 | ECOD (1.6) |
LA [auth x] | PF06596 | e6dhfx1 | A: extended segments | X: Photosystem II PsbX protein (From Topology) | H: Photosystem II PsbX protein (From Topology) | T: Photosystem II PsbX protein | F: PF06596 | ECOD (1.6) |
MA [auth z] | PF01737 | e6dhfz1 | A: extended segments | X: PsbZ-like (From Topology) | H: PsbZ-like (From Topology) | T: PsbZ-like | F: PF01737 | ECOD (1.6) |
S [auth Z] | PF01737 | e6dhfZ1 | A: extended segments | X: PsbZ-like (From Topology) | H: PsbZ-like (From Topology) | T: PsbZ-like | F: PF01737 | ECOD (1.6) |
B | PF00421 | e6dhfB2 | A: alpha bundles | X: Photosystem II antenna protein-like (From Topology) | H: Photosystem II antenna protein-like (From Topology) | T: Photosystem II antenna protein-like | F: PF00421 | ECOD (1.6) |
B | PF00421 | e6dhfB1 | A: a+b two layers | X: Photosystem II antenna protein PsbB insertion domain (From Topology) | H: Photosystem II antenna protein PsbB insertion domain (From Topology) | T: Photosystem II antenna protein PsbB insertion domain | F: PF00421 | ECOD (1.6) |
V [auth b] | PF00421 | e6dhfb1 | A: alpha bundles | X: Photosystem II antenna protein-like (From Topology) | H: Photosystem II antenna protein-like (From Topology) | T: Photosystem II antenna protein-like | F: PF00421 | ECOD (1.6) |
V [auth b] | PF00421 | e6dhfb2 | A: a+b two layers | X: Photosystem II antenna protein PsbB insertion domain (From Topology) | H: Photosystem II antenna protein PsbB insertion domain (From Topology) | T: Photosystem II antenna protein PsbB insertion domain | F: PF00421 | ECOD (1.6) |
NA [auth r] | PF06298 | e6dhfr1 | A: extended segments | X: Photosystem II protein Y, psbY (From Topology) | H: Photosystem II protein Y, psbY (From Topology) | T: Photosystem II protein Y, psbY | F: PF06298 | ECOD (1.6) |
T [auth R] | PF06298 | e6dhfR1 | A: extended segments | X: Photosystem II protein Y, psbY (From Topology) | H: Photosystem II protein Y, psbY (From Topology) | T: Photosystem II protein Y, psbY | F: PF06298 | ECOD (1.6) |
W [auth c] | PF00421 | e6dhfc1 | A: alpha bundles | X: Photosystem II antenna protein-like (From Topology) | H: Photosystem II antenna protein-like (From Topology) | T: Photosystem II antenna protein-like | F: PF00421 | ECOD (1.6) |
C | PF00421 | e6dhfC1 | A: alpha bundles | X: Photosystem II antenna protein-like (From Topology) | H: Photosystem II antenna protein-like (From Topology) | T: Photosystem II antenna protein-like | F: PF00421 | ECOD (1.6) |
D | PF00124 | e6dhfD1 | A: alpha bundles | X: Bacterial photosystem II reaction centre L and M subunits-like (From Topology) | H: Bacterial photosystem II reaction centre L and M subunits-like (From Topology) | T: Bacterial photosystem II reaction centre L and M subunits-like | F: PF00124 | ECOD (1.6) |
X [auth d] | PF00124 | e6dhfd1 | A: alpha bundles | X: Bacterial photosystem II reaction centre L and M subunits-like (From Topology) | H: Bacterial photosystem II reaction centre L and M subunits-like (From Topology) | T: Bacterial photosystem II reaction centre L and M subunits-like | F: PF00124 | ECOD (1.6) |
E | PF00283,PF00284 | e6dhfE1 | A: extended segments | X: Cytochrome b559 subunits (From Topology) | H: Cytochrome b559 subunits (From Topology) | T: Cytochrome b559 subunits | F: PF00283,PF00284 | ECOD (1.6) |
Y [auth e] | PF00283,PF00284 | e6dhfe1 | A: extended segments | X: Cytochrome b559 subunits (From Topology) | H: Cytochrome b559 subunits (From Topology) | T: Cytochrome b559 subunits | F: PF00283,PF00284 | ECOD (1.6) |
F | PF00283 | e6dhfF1 | A: extended segments | X: Cytochrome b559 subunits (From Topology) | H: Cytochrome b559 subunits (From Topology) | T: Cytochrome b559 subunits | F: PF00283 | ECOD (1.6) |
Z [auth f] | PF00283 | e6dhff1 | A: extended segments | X: Cytochrome b559 subunits (From Topology) | H: Cytochrome b559 subunits (From Topology) | T: Cytochrome b559 subunits | F: PF00283 | ECOD (1.6) |
AA [auth h] | PF00737 | e6dhfh1 | A: extended segments | X: Photosystem II 10 kDa phosphoprotein PsbH (From Topology) | H: Photosystem II 10 kDa phosphoprotein PsbH (From Topology) | T: Photosystem II 10 kDa phosphoprotein PsbH | F: PF00737 | ECOD (1.6) |
G [auth H] | PF00737 | e6dhfH1 | A: extended segments | X: Photosystem II 10 kDa phosphoprotein PsbH (From Topology) | H: Photosystem II 10 kDa phosphoprotein PsbH (From Topology) | T: Photosystem II 10 kDa phosphoprotein PsbH | F: PF00737 | ECOD (1.6) |
BA [auth i] | PF02532 | e6dhfi1 | A: extended segments | X: Photosystem II reaction center protein I, PsbI (From Topology) | H: Photosystem II reaction center protein I, PsbI (From Topology) | T: Photosystem II reaction center protein I, PsbI | F: PF02532 | ECOD (1.6) |
H [auth I] | PF02532 | e6dhfI1 | A: extended segments | X: Photosystem II reaction center protein I, PsbI (From Topology) | H: Photosystem II reaction center protein I, PsbI (From Topology) | T: Photosystem II reaction center protein I, PsbI | F: PF02532 | ECOD (1.6) |
CA [auth j] | PF01788 | e6dhfj1 | A: extended segments | X: Photosystem II reaction center protein J, PsbJ (From Topology) | H: Photosystem II reaction center protein J, PsbJ (From Topology) | T: Photosystem II reaction center protein J, PsbJ | F: PF01788 | ECOD (1.6) |
I [auth J] | PF01788 | e6dhfJ1 | A: extended segments | X: Photosystem II reaction center protein J, PsbJ (From Topology) | H: Photosystem II reaction center protein J, PsbJ (From Topology) | T: Photosystem II reaction center protein J, PsbJ | F: PF01788 | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Protein Modification Annotation
Modified Residue(s) | ||
---|---|---|
Chain | Residue(s) | Description |
FA [auth m], L [auth M] | FME | Parent Component: MET :  AA0021 , AA0566 :  N-formyl-L-methionine residue MOD:00030 , N-formyl-L-methionine (Met) MOD:00482 , N-[(L-histidin-1'-yl)methyl]-L-methionine (fMet) MOD:01890 , N-[(L-histidin-1'-yl)methyl]-L-methionine (Met) MOD:01891 |
HA [auth t], N [auth T] | FME | Parent Component: MET :  AA0021 , AA0566 , AA0021 , AA0566 :  N-formyl-L-methionine residue MOD:00030 , N-formyl-L-methionine (Met) MOD:00482 , N-[(L-histidin-1'-yl)methyl]-L-methionine (fMet) MOD:01890 , N-[(L-histidin-1'-yl)methyl]-L-methionine (Met) MOD:01891 , N-formyl-L-methionine residue MOD:00030 , N-formyl-L-methionine (Met) MOD:00482 , N-[(L-histidin-1'-yl)methyl]-L-methionine (fMet) MOD:01890 , N-[(L-histidin-1'-yl)methyl]-L-methionine (Met) MOD:01891 |
BA [auth i], H [auth I] | FME | Parent Component: MET :  AA0021 , AA0566 , AA0021 , AA0566 , AA0021 , AA0566 :  N-formyl-L-methionine residue MOD:00030 , N-formyl-L-methionine (Met) MOD:00482 , N-[(L-histidin-1'-yl)methyl]-L-methionine (fMet) MOD:01890 , N-[(L-histidin-1'-yl)methyl]-L-methionine (Met) MOD:01891 , N-formyl-L-methionine residue MOD:00030 , N-formyl-L-methionine (Met) MOD:00482 , N-[(L-histidin-1'-yl)methyl]-L-methionine (fMet) MOD:01890 , N-[(L-histidin-1'-yl)methyl]-L-methionine (Met) MOD:01891 , N-formyl-L-methionine residue MOD:00030 , N-formyl-L-methionine (Met) MOD:00482 , N-[(L-histidin-1'-yl)methyl]-L-methionine (fMet) MOD:01890 , N-[(L-histidin-1'-yl)methyl]-L-methionine (Met) MOD:01891 |