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1UMX
Asym. Unit
Info
Asym.Unit (155 KB)
Biol.Unit 1 (143 KB)
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(1)
Title
:
PHOTOSYNTHETIC REACTION CENTER MUTANT WITH ARG M267 REPLACED WITH LEU (CHAIN M, R267L)
Authors
:
P. K. Fyfe, N. W. Isaacs, R. J. Cogdell, M. R. Jones
Date
:
02 Sep 03 (Deposition) - 29 Jun 04 (Release) - 01 Feb 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : H,L,M
Biol. Unit 1: H,L,M (1x)
Keywords
:
Photosynthetic Reaction Center, Transmembrane, Electron Transport, Photosynthesis, Cardiolipin, Membrane Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. K. Fyfe, N. W. Isaacs, R. J. Cogdell, M. R. Jones
Disruption Of A Specific Molecular Interaction With A Bound Lipid Affects The Thermal Stability Of The Purple Bacterial Reaction Centre
Biochim. Biophys. Acta V. 1608 11 2004
(for further references see the
PDB file header
)
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Hetero Components
(7, 12)
Info
All Hetero Components
1a: BACTERIOCHLOROPHYLL A (BCLa)
1b: BACTERIOCHLOROPHYLL A (BCLb)
1c: BACTERIOCHLOROPHYLL A (BCLc)
1d: BACTERIOCHLOROPHYLL A (BCLd)
2a: BACTERIOPHEOPHYTIN B (BPBa)
2b: BACTERIOPHEOPHYTIN B (BPBb)
3a: FE (III) ION (FEa)
4a: LAURYL DIMETHYLAMINE-N-OXIDE (LDAa)
4b: LAURYL DIMETHYLAMINE-N-OXIDE (LDAb)
5a: PHOSPHATE ION (PO4a)
6a: SPEROIDENONE (SPNa)
7a: UBIQUINONE-10 (U10a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BCL
4
Ligand/Ion
BACTERIOCHLOROPHYLL A
2
BPB
2
Ligand/Ion
BACTERIOPHEOPHYTIN B
3
FE
1
Ligand/Ion
FE (III) ION
4
LDA
2
Ligand/Ion
LAURYL DIMETHYLAMINE-N-OXIDE
5
PO4
1
Ligand/Ion
PHOSPHATE ION
6
SPN
1
Ligand/Ion
SPEROIDENONE
7
U10
1
Ligand/Ion
UBIQUINONE-10
[
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Sites
(12, 12)
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)
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 M1306
02
AC2
SOFTWARE
TYR H:30 , HIS M:145 , TRP M:271
BINDING SITE FOR RESIDUE PO4 M1310
03
AC3
SOFTWARE
GLN H:32 , MET H:36 , TYR H:40 , LDA M:1305
BINDING SITE FOR RESIDUE LDA H1251
04
AC4
SOFTWARE
PHE L:97 , ALA L:124 , ALA L:127 , TYR L:128 , LEU L:131 , VAL L:157 , PHE L:167 , HIS L:168 , HIS L:173 , ILE L:177 , PHE L:180 , SER L:244 , CYS L:247 , MET L:248 , BCL L:1283 , BPB L:1284 , BCL M:1303 , BCL M:1304
BINDING SITE FOR RESIDUE BCL L1282
05
AC5
SOFTWARE
ILE L:150 , HIS L:153 , BCL L:1282 , BPB L:1284 , GLY M:203 , ILE M:206 , ALA M:207 , TYR M:210 , BCL M:1304 , LDA M:1305
BINDING SITE FOR RESIDUE BCL L1283
06
AC6
SOFTWARE
PHE L:41 , ALA L:96 , PHE L:97 , TRP L:100 , GLU L:104 , ALA L:120 , PHE L:121 , TYR L:148 , 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 BPB L1284
07
AC7
SOFTWARE
HIS L:168 , MET L:174 , ILE L:177 , SER L:178 , THR L:182 , BCL L:1282 , HOH L:2005 , ILE M:179 , HIS M:182 , LEU M:183 , THR M:186 , BCL M:1304 , BPB M:1307 , SPN M:1308
BINDING SITE FOR RESIDUE BCL M1303
08
AC8
SOFTWARE
PHE L:181 , BCL L:1282 , BCL L:1283 , LEU M:156 , TRP M:157 , THR M:186 , PHE M:189 , SER M:190 , LEU M:196 , PHE M:197 , HIS M:202 , SER M:205 , ILE M:206 , TYR M:210 , GLY M:280 , ILE M:284 , BCL M:1303 , BPB M:1307
BINDING SITE FOR RESIDUE BCL M1304
09
AC9
SOFTWARE
LDA H:1251 , BCL L:1283 , PRO M:200 , MET M:272
BINDING SITE FOR RESIDUE LDA M1305
10
BC1
SOFTWARE
PHE L:181 , LEU L:185 , LEU L:189 , GLY M:63 , TRP M:66 , PHE M:67 , TRP M:129 , THR M:146 , PHE M:150 , ALA M:273 , THR M:277 , BCL M:1303 , BCL M:1304
BINDING SITE FOR RESIDUE BPB M1307
11
BC2
SOFTWARE
PHE M:68 , ILE M:70 , GLY M:71 , PHE M:74 , TRP M:75 , SER M:119 , TRP M:157 , GLY M:161 , ILE M:179 , BCL M:1303
BINDING SITE FOR RESIDUE SPN M1308
12
BC3
SOFTWARE
THR L:38 , TRP L:100 , MET M:218 , HIS M:219 , THR M:222 , ALA M:249 , TRP M:252 , ASN M:259 , ALA M:260 , THR M:261 , TRP M:268
BINDING SITE FOR RESIDUE U10 M1309
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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:
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_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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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
(4, 4)
Info
All SCOP Domains
1a: SCOP_d1umxh1 (H:36-250)
2a: SCOP_d1umxl_ (L:)
3a: SCOP_d1umxm_ (M:)
4a: SCOP_d1umxh2 (H:11-35)
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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
d1umxh1
H:36-250
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
d1umxl_
L:
Protein domain
:
M (medium) subunit
(70)
Rhodobacter sphaeroides [TaxId: 1063]
(59)
3a
d1umxm_
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
d1umxh2
H:11-35
[
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CATH Domains
(3, 6)
Info
all CATH domains
1a: CATH_1umxH02 (H:117-247)
2a: CATH_1umxH01 (H:12-116)
3a: CATH_1umxM01 (M:1-143)
3b: CATH_1umxM02 (M:144-302)
3c: CATH_1umxL01 (L:1-163)
3d: CATH_1umxL02 (L:164-263)
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)
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)
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: rm267l.
(1)
1a
1umxH02
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: rm267l.
(1)
2a
1umxH01
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: rm267l.
(1)
3a
1umxM01
M:1-143
3b
1umxM02
M:144-302
3c
1umxL01
L:1-163
3d
1umxL02
L:164-263
[
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Pfam Domains
(3, 4)
Info
all PFAM domains
1a: PFAM_PRC_1umxH01 (H:141-212)
2a: PFAM_PRCH_1umxH02 (H:11-137)
3a: PFAM_Photo_RC_1umxL01 (L:29-272)
3b: PFAM_Photo_RC_1umxM01 (M:50-303)
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Clans
(
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(
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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-1umxH01
H:141-212
Clan
:
no clan defined [family: PRCH]
(40)
Family
:
PRCH
(40)
Rhodobacter sphaeroides (Rhodopseudomonas sphaeroides)
(39)
2a
PRCH-1umxH02
H:11-137
Clan
:
no clan defined [family: Photo_RC]
(43)
Family
:
Photo_RC
(43)
Rhodobacter sphaeroides (Rhodopseudomonas sphaeroides)
(39)
3a
Photo_RC-1umxL01
L:29-272
3b
Photo_RC-1umxM01
M:50-303
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Atom Selection
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Protein
Nucleic
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All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain H
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Chain M
Asymmetric Unit 1
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