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1OGV
Asym. Unit
Info
Asym.Unit (154 KB)
Biol.Unit 1 (144 KB)
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(1)
Title
:
LIPIDIC CUBIC PHASE CRYSTAL STRUCTURE OF THE PHOTOSYNTHETIC REACTION CENTRE FROM RHODOBACTER SPHAEROIDES
Authors
:
G. Katona, U. Andreasson, E. M. Landau, L. -E. Andreasson, R. Neutze
Date
:
13 May 03 (Deposition) - 05 Aug 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.35
Chains
:
Asym. Unit : H,L,M
Biol. Unit 1: H,L,M (1x)
Keywords
:
Reaction Centre, Photosynthesis, Charge Separation, Integral Membrane Protein, Lipid, Electron Transport, Bacteriochlorophyll, Transmembrane
(Keyword Search:
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)
Reference
:
G. Katona, U. Andreasson, E. M. Landau, L. -E. Andreasson, R. Neutze
Lipidic Cubic Phase Crystal Structure Of The Photosynthetic Reaction Centre From Rhodobacter Sphaeroides At 2. 35 A Resolution
J. Mol. Biol. V. 331 681 2003
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Hetero Components
(6, 10)
Info
All Hetero Components
1a: BACTERIOCHLOROPHYLL A (BCLa)
1b: BACTERIOCHLOROPHYLL A (BCLb)
1c: BACTERIOCHLOROPHYLL A (BCLc)
1d: BACTERIOCHLOROPHYLL A (BCLd)
2a: BACTERIOPHEOPHYTIN A (BPHa)
2b: BACTERIOPHEOPHYTIN A (BPHb)
3a: CARDIOLIPIN (CDLa)
4a: CHLORIDE ION (CLa)
5a: FE (II) ION (FE2a)
6a: UBIQUINONE-10 (U10a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BCL
4
Ligand/Ion
BACTERIOCHLOROPHYLL A
2
BPH
2
Ligand/Ion
BACTERIOPHEOPHYTIN A
3
CDL
1
Ligand/Ion
CARDIOLIPIN
4
CL
1
Ligand/Ion
CHLORIDE ION
5
FE2
1
Ligand/Ion
FE (II) ION
6
U10
1
Ligand/Ion
UBIQUINONE-10
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Sites
(10, 10)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS L:190 , HIS L:230 , HIS M:219 , GLU M:234 , HIS M:266
BINDING SITE FOR RESIDUE FE2 M1307
02
AC2
SOFTWARE
GLY M:56 , ARG M:132
BINDING SITE FOR RESIDUE CL M1308
03
AC3
SOFTWARE
PHE L:97 , ALA L:124 , ALA L:127 , LEU L:131 , VAL L:157 , THR L:160 , TYR L:162 , ASN L:166 , HIS L:168 , HIS L:173 , ILE L:177 , PHE L:180 , SER L:244 , CYS L:247 , MET L:248 , BCL L:1283 , BPH L:1284 , BCL M:1302 , BCL M:1303
BINDING SITE FOR RESIDUE BCL L1282
04
AC4
SOFTWARE
ILE L:49 , TYR L:128 , PHE L:146 , ILE L:150 , HIS L:153 , LEU L:154 , BCL L:1282 , BPH L:1284 , PHE M:197 , GLY M:203 , ILE M:206 , ALA M:207 , TYR M:210 , GLY M:211 , LEU M:214 , BCL M:1303 , HOH M:2023
BINDING SITE FOR RESIDUE BCL L1283
05
AC5
SOFTWARE
GLY L:45 , PHE L:97 , TRP L:100 , GLU L:104 , ILE L:117 , PHE L:121 , PHE L:123 , ALA L:124 , TYR L:148 , GLY L:149 , HIS L:153 , VAL L:241 , BCL L:1282 , BCL L:1283 , TYR M:210 , ALA M:213 , LEU M:214 , TRP M:252 , MET M:256
BINDING SITE FOR RESIDUE BPH L1284
06
AC6
SOFTWARE
HIS L:168 , MET L:174 , ILE L:177 , SER L:178 , THR L:182 , LEU L:185 , BCL L:1282 , HOH L:2027 , TRP M:157 , ILE M:179 , HIS M:182 , LEU M:183 , THR M:186 , BCL M:1303 , BPH M:1304
BINDING SITE FOR RESIDUE BCL M1302
07
AC7
SOFTWARE
VAL L:157 , TYR L:162 , PHE L:181 , BCL L:1282 , BCL L:1283 , ALA M:153 , LEU M:156 , LEU M:160 , THR M:186 , ASN M:187 , PHE M:189 , SER M:190 , LEU M:196 , PHE M:197 , HIS M:202 , SER M:205 , ILE M:206 , TYR M:210 , VAL M:276 , GLY M:280 , ILE M:284 , BCL M:1302 , BPH M:1304
BINDING SITE FOR RESIDUE BCL M1303
08
AC8
SOFTWARE
PHE L:181 , ALA L:184 , LEU L:185 , LEU L:189 , LEU L:219 , SER M:59 , GLY M:63 , ALA M:125 , TRP M:129 , THR M:146 , ALA M:149 , PHE M:150 , ALA M:153 , ALA M:273 , VAL M:274 , THR M:277 , BCL M:1302 , BCL M:1303
BINDING SITE FOR RESIDUE BPH M1304
09
AC9
SOFTWARE
TRP L:100 , HIS M:219 , THR M:222 , ALA M:248 , ALA M:249 , TRP M:252 , MET M:256 , PHE M:258 , ASN M:259 , ALA M:260 , THR M:261 , MET M:262 , ILE M:265 , TRP M:268 , MET M:272
BINDING SITE FOR RESIDUE U10 M1305
10
BC1
SOFTWARE
ILE H:22 , PHE H:23 , LEU H:27 , TYR H:30 , ASN L:199 , LYS L:202 , GLY M:143 , LYS M:144 , HIS M:145 , TRP M:148 , TRP M:155 , ARG M:267 , TRP M:271 , HOH M:2017
BINDING SITE FOR RESIDUE CDL M1306
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: REACTION_CENTER (L:166-192,L:166-192,M:195-221,M:19...)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
REACTION_CENTER
PS00244
Photosynthetic reaction center proteins signature.
RCEL_RHOS4
167-193
1
L:166-192
RCEL_RHOSH
167-193
1
L:166-192
RCEM_RHOS4
196-222
1
M:195-221
RCEM_RHOSH
196-222
1
M:195-221
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Exons
(0, 0)
Info
All Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(4, 4)
Info
All SCOP Domains
1a: SCOP_d1ogvh1 (H:36-247)
2a: SCOP_d1ogvl_ (L:)
3a: SCOP_d1ogvm_ (M:)
4a: SCOP_d1ogvh2 (H:11-35)
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Families
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
PRC-barrel domain
(113)
Superfamily
:
PRC-barrel domain
(113)
Family
:
Photosynthetic reaction centre, H-chain, cytoplasmic domain
(108)
Protein domain
:
Photosynthetic reaction centre
(98)
Rhodobacter sphaeroides [TaxId: 1063]
(82)
1a
d1ogvh1
H:36-247
Class
:
Membrane and cell surface proteins and peptides
(2046)
Fold
:
Bacterial photosystem II reaction centre, L and M subunits
(187)
Superfamily
:
Bacterial photosystem II reaction centre, L and M subunits
(187)
Family
:
Bacterial photosystem II reaction centre, L and M subunits
(187)
Protein domain
:
L (light) subunit
(70)
Rhodobacter sphaeroides [TaxId: 1063]
(59)
2a
d1ogvl_
L:
Protein domain
:
M (medium) subunit
(70)
Rhodobacter sphaeroides [TaxId: 1063]
(59)
3a
d1ogvm_
M:
Fold
:
Single transmembrane helix
(568)
Superfamily
:
Photosystem II reaction centre subunit H, transmembrane region
(108)
Family
:
Photosystem II reaction centre subunit H, transmembrane region
(98)
Protein domain
:
Photosystem II reaction centre subunit H, transmembrane region
(98)
Rhodobacter sphaeroides [TaxId: 1063]
(82)
4a
d1ogvh2
H:11-35
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CATH Domains
(3, 6)
Info
all CATH domains
1a: CATH_1ogvH02 (H:117-247)
2a: CATH_1ogvH01 (H:12-116)
3a: CATH_1ogvM01 (M:1-143)
3b: CATH_1ogvL01 (L:1-163)
3c: CATH_1ogvL02 (L:164-263)
3d: CATH_1ogvM02 (M:144-301)
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)
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Photosynthetic Reaction Center; Chain H, domain 2
(93)
Homologous Superfamily
:
Photosynthetic Reaction Center, subunit H, domain 2
(93)
Rhodobacter sphaeroides. Organism_taxid: 1063. Strain: r26. Rhodobacter sphaeroides. Organism_taxid: 1063. Strain: r26.
(5)
1a
1ogvH02
H:117-247
Class
:
Few Secondary Structures
(1120)
Architecture
:
Irregular
(1120)
Topology
:
Photosynthetic Reaction Center; Chain H, domain 1
(93)
Homologous Superfamily
:
Photosynthetic Reaction Center, subunit H, domain 1
(93)
Rhodobacter sphaeroides. Organism_taxid: 1063. Strain: r26. Rhodobacter sphaeroides. Organism_taxid: 1063. Strain: r26.
(5)
2a
1ogvH01
H:12-116
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Photosynthetic Reaction Center, subunit M; domain 1
(93)
Homologous Superfamily
:
Membrane spanning alpha-helix pairs
(93)
Rhodobacter sphaeroides. Organism_taxid: 1063. Strain: r26. Rhodobacter sphaeroides. Organism_taxid: 1063. Strain: r26.
(5)
3a
1ogvM01
M:1-143
3b
1ogvL01
L:1-163
3c
1ogvL02
L:164-263
3d
1ogvM02
M:144-301
[
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Pfam Domains
(3, 4)
Info
all PFAM domains
1a: PFAM_PRC_1ogvH01 (H:141-212)
2a: PFAM_PRCH_1ogvH02 (H:11-137)
3a: PFAM_Photo_RC_1ogvL01 (L:29-272)
3b: PFAM_Photo_RC_1ogvM01 (M:50-302)
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Clans
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Families
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(
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(
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)
Clan
:
PRC-barrel
(43)
Family
:
PRC
(42)
Rhodobacter sphaeroides (Rhodopseudomonas sphaeroides)
(39)
1a
PRC-1ogvH01
H:141-212
Clan
:
no clan defined [family: PRCH]
(40)
Family
:
PRCH
(40)
Rhodobacter sphaeroides (Rhodopseudomonas sphaeroides)
(39)
2a
PRCH-1ogvH02
H:11-137
Clan
:
no clan defined [family: Photo_RC]
(43)
Family
:
Photo_RC
(43)
Rhodobacter sphaeroides (Rhodopseudomonas sphaeroides)
(39)
3a
Photo_RC-1ogvL01
L:29-272
3b
Photo_RC-1ogvM01
M:50-302
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Asymmetric Unit 1
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