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2HJ6
Asym. Unit
Info
Asym.Unit (168 KB)
Biol.Unit 1 (156 KB)
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(1)
Title
:
REACTION CENTRE FROM RHODOBACTER SPHAEROIDES STRAIN R-26.1 COMPLEXED WITH DIBROMINATED PHOSPHATIDYLSERINE
Authors
:
A. W. Roszak, A. T. Gardiner, N. W. Isaacs, R. J. Cogdell
Date
:
30 Jun 06 (Deposition) - 27 Mar 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : H,L,M
Biol. Unit 1: H,L,M (1x)
Keywords
:
Photosynthesis, Photosynthetic Reaction Center, Lipid Binding Sites, Brominated Lipids, Membrane Protein, Photosynthesis-Membrane Protein Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. W. Roszak, A. T. Gardiner, N. W. Isaacs, R. J. Cogdell
Brominated Lipids Identify Lipid Binding Sites On The Surface Of The Reaction Center From Rhodobacter Sphaeroides
Biochemistry V. 46 2909 2007
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Hetero Components
(11, 25)
Info
All Hetero Components
01a: BACTERIOCHLOROPHYLL A (BCLa)
01b: BACTERIOCHLOROPHYLL A (BCLb)
01c: BACTERIOCHLOROPHYLL A (BCLc)
01d: BACTERIOCHLOROPHYLL A (BCLd)
02a: BACTERIOPHEOPHYTIN A (BPHa)
02b: BACTERIOPHEOPHYTIN A (BPHb)
03a: CARDIOLIPIN (CDLa)
04a: FE (III) ION (FEa)
05a: GLYCEROL (GOLa)
05b: GLYCEROL (GOLb)
06a: HEPTANE-1,2,3-TRIOL (HTOa)
07a: POTASSIUM ION (Ka)
08a: LAURYL DIMETHYLAMINE-N-OXIDE (LDAa)
08b: LAURYL DIMETHYLAMINE-N-OXIDE (LDAb)
08c: LAURYL DIMETHYLAMINE-N-OXIDE (LDAc)
08d: LAURYL DIMETHYLAMINE-N-OXIDE (LDAd)
08e: LAURYL DIMETHYLAMINE-N-OXIDE (LDAe)
08f: LAURYL DIMETHYLAMINE-N-OXIDE (LDAf)
08g: LAURYL DIMETHYLAMINE-N-OXIDE (LDAg)
08h: LAURYL DIMETHYLAMINE-N-OXIDE (LDAh)
09a: PHOSPHATE ION (PO4a)
09b: PHOSPHATE ION (PO4b)
10a: O-[{[(2R)-2-{[(9S,10S)-9,10-DIBROM... (PS2a)
11a: UBIQUINONE-10 (U10a)
11b: UBIQUINONE-10 (U10b)
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
FE
1
Ligand/Ion
FE (III) ION
5
GOL
2
Ligand/Ion
GLYCEROL
6
HTO
1
Ligand/Ion
HEPTANE-1,2,3-TRIOL
7
K
1
Ligand/Ion
POTASSIUM ION
8
LDA
8
Ligand/Ion
LAURYL DIMETHYLAMINE-N-OXIDE
9
PO4
2
Ligand/Ion
PHOSPHATE ION
10
PS2
1
Ligand/Ion
O-[{[(2R)-2-{[(9S,10S)-9,10-DIBROMOOCTADECANOYL]OXY}-3-(PALMITOYLOXY)PROPYL]OXY}(HYDROXY)PHOSPHORYL]-L-SERINE
11
U10
2
Ligand/Ion
UBIQUINONE-10
[
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Sites
(25, 25)
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)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (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 FE M 500
02
AC2
SOFTWARE
MET H:134 , ALA H:137 , PHE H:140
BINDING SITE FOR RESIDUE K H 700
03
AC3
SOFTWARE
ASN M:28 , GLY M:53 , SER M:54 , HOH M:1284
BINDING SITE FOR RESIDUE PO4 M 701
04
AC4
SOFTWARE
GLN M:138
BINDING SITE FOR RESIDUE PO4 M 702
05
AC5
SOFTWARE
HIS L:168 , MET L:174 , ILE L:177 , SER L:178 , THR L:182 , BCL L:312 , MET M:122 , HIS M:182 , LEU M:183 , THR M:186 , BCL M:313 , BPH M:401 , PS2 M:802 , LDA M:920 , HOH M:1006
BINDING SITE FOR RESIDUE BCL M 311
06
AC6
SOFTWARE
PHE L:97 , ALA L:124 , ILE L:125 , ALA L:127 , TYR L:128 , LEU L:131 , VAL L:157 , TYR L:162 , HIS L:168 , HIS L:173 , ALA L:176 , ILE L:177 , PHE L:180 , SER L:244 , CYS L:247 , MET L:248 , BCL L:314 , BPH L:402 , TYR M:210 , BCL M:311 , BCL M:313
BINDING SITE FOR RESIDUE BCL L 312
07
AC7
SOFTWARE
TYR L:162 , BCL L:312 , TRP M:66 , LEU M:156 , 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 , LEU M:209 , VAL M:276 , GLY M:280 , ILE M:284 , BCL M:311 , BPH M:401 , LDA M:920
BINDING SITE FOR RESIDUE BCL M 313
08
AC8
SOFTWARE
ILE L:46 , TYR L:128 , LEU L:131 , PHE L:146 , ILE L:150 , HIS L:153 , LEU L:154 , BCL L:312 , BPH L:402 , PHE M:197 , ILE M:206 , ALA M:207 , TYR M:210 , LEU M:214 , U10 M:501 , LDA M:903 , HOH M:1022
BINDING SITE FOR RESIDUE BCL L 314
09
AC9
SOFTWARE
PHE L:181 , ALA L:184 , LEU L:185 , LEU L:189 , LEU L:219 , SER M:59 , LEU M:60 , GLY M:63 , LEU M:64 , PHE M:67 , ALA M:125 , VAL M:126 , TRP M:129 , THR M:133 , THR M:146 , ALA M:149 , PHE M:150 , ALA M:153 , ALA M:273 , VAL M:274 , THR M:277 , BCL M:311 , BCL M:313
BINDING SITE FOR RESIDUE BPH M 401
10
BC1
SOFTWARE
PHE L:97 , TRP L:100 , GLU L:104 , ILE L:117 , ALA L:120 , PHE L:121 , ALA L:124 , TYR L:148 , GLY L:149 , VAL L:241 , BCL L:312 , BCL L:314 , TYR M:210 , ALA M:213 , LEU M:214 , TRP M:252 , MET M:256
BINDING SITE FOR RESIDUE BPH L 402
11
BC2
SOFTWARE
TRP L:100 , BCL L:314 , MET M:218 , HIS M:219 , THR M:222 , ALA M:248 , ALA M:249 , TRP M:252 , MET M:256 , ASN M:259 , ALA M:260 , ILE M:265 , TRP M:268
BINDING SITE FOR RESIDUE U10 M 501
12
BC3
SOFTWARE
SER L:178 , THR L:182 , HIS L:190 , LEU L:193 , GLU L:212 , ASP L:213 , PHE L:216 , TYR L:222 , SER L:223 , ILE L:224 , GLY L:225 , THR L:226 , ILE L:229 , PS2 M:802
BINDING SITE FOR RESIDUE U10 L 502
13
BC4
SOFTWARE
PHE M:123 , TRP M:127
BINDING SITE FOR RESIDUE HTO M 703
14
BC5
SOFTWARE
GLY H:26 , TYR H:30 , ASN L:199 , PRO L:200 , GLY M:143 , LYS M:144 , HIS M:145 , TRP M:148 , ARG M:267 , ILE M:270 , TRP M:271
BINDING SITE FOR RESIDUE CDL M 800
15
BC6
SOFTWARE
VAL L:220 , U10 L:502 , ALA M:27 , ARG M:29 , GLY M:31 , LEU M:47 , TRP M:129 , BCL M:311
BINDING SITE FOR RESIDUE PS2 M 802
16
BC7
SOFTWARE
GLN H:32 , TYR H:40 , GLN H:53 , LDA H:902 , ARG M:253 , LDA M:903
BINDING SITE FOR RESIDUE LDA M 901
17
BC8
SOFTWARE
ASN H:52 , LDA M:901
BINDING SITE FOR RESIDUE LDA H 902
18
BC9
SOFTWARE
LDA H:905 , BCL L:314 , LDA M:901
BINDING SITE FOR RESIDUE LDA M 903
19
CC1
SOFTWARE
ALA H:25
BINDING SITE FOR RESIDUE LDA H 904
20
CC2
SOFTWARE
TYR H:18 , LDA M:903
BINDING SITE FOR RESIDUE LDA H 905
21
CC3
SOFTWARE
GLN M:4 , GOL M:704
BINDING SITE FOR RESIDUE LDA M 906
22
CC4
SOFTWARE
TRP M:41
BINDING SITE FOR RESIDUE LDA M 907
23
CC5
SOFTWARE
ILE M:70 , TRP M:115 , GLY M:161 , ALA M:174 , VAL M:175 , ILE M:179 , BCL M:311 , BCL M:313
BINDING SITE FOR RESIDUE LDA M 920
24
CC6
SOFTWARE
ILE L:113 , GLY L:114 , TYR L:115 , GLU M:2 , GLN M:4 , ARG M:228 , LDA M:906
BINDING SITE FOR RESIDUE GOL M 704
25
CC7
SOFTWARE
ASN H:201 , ARG H:202
BINDING SITE FOR RESIDUE GOL H 705
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: REACTION_CENTER (L:166-192,M:195-221)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
REACTION_CENTER
PS00244
Photosynthetic reaction center proteins signature.
RCEL_RHOSH
167-193
1
L:166-192
RCEM_RHOSH
196-222
1
M:195-221
[
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]
Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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
(3, 4)
Info
All SCOP Domains
1a: SCOP_d2hj6h2 (H:36-251)
2a: SCOP_d2hj6l_ (L:)
2b: SCOP_d2hj6m_ (M:)
3a: SCOP_d2hj6h1 (H:11-35)
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Classes
(
)
(
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Folds
(
)
(
)
Superfamilies
(
)
(
)
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
:
automated matches
(10)
Rhodobacter sphaeroides [TaxId: 1063]
(6)
1a
d2hj6h2
H:36-251
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
:
automated matches
(44)
Rhodobacter sphaeroides [TaxId: 1063]
(31)
2a
d2hj6l_
L:
2b
d2hj6m_
M:
Fold
:
Single transmembrane helix
(568)
Superfamily
:
Photosystem II reaction centre subunit H, transmembrane region
(108)
Family
:
automated matches
(10)
Protein domain
:
automated matches
(10)
Rhodobacter sphaeroides [TaxId: 1063]
(6)
3a
d2hj6h1
H:11-35
[
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]
CATH Domains
(3, 6)
Info
all CATH domains
1a: CATH_2hj6H02 (H:117-249)
2a: CATH_2hj6H01 (H:12-116)
3a: CATH_2hj6M01 (M:1-143)
3b: CATH_2hj6M02 (M:144-302)
3c: CATH_2hj6L01 (L:1-163)
3d: CATH_2hj6L02 (L:164-263)
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(
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(
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(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
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: r26.1.
(6)
1a
2hj6H02
H:117-249
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: r26.1.
(6)
2a
2hj6H01
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: r26.1.
(6)
3a
2hj6M01
M:1-143
3b
2hj6M02
M:144-302
3c
2hj6L01
L:1-163
3d
2hj6L02
L:164-263
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Chain M
Asymmetric Unit 1
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Asym.Unit (168 KB)
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