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1R2C
Biol. Unit 1
Info
Asym.Unit (219 KB)
Biol.Unit 1 (207 KB)
Biol.Unit 2 (406 KB)
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(1)
Title
:
PHOTOSYNTHETIC REACTION CENTER BLASTOCHLORIS VIRIDIS (ATCC)
Authors
:
R. H. Baxter, N. Ponomarenko, R. Pahl, V. Srajer, K. Moffat, J. R. Norris
Date
:
26 Sep 03 (Deposition) - 27 Apr 04 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.86
Chains
:
Asym. Unit : C,H,L,M
Biol. Unit 1: C,H,L,M (1x)
Biol. Unit 2: C,H,L,M (2x)
Keywords
:
Photosynthetic Reaction Center, Secondary Quinone (Qb), Photosynthesis
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. H. Baxter, N. Ponomarenko, V. Srajer, R. Pahl, K. Moffat, J. R. Norri
Time-Resolved Crystallographic Studies Of Light-Induced Structural Changes In The Photosynthetic Reaction Center.
Proc. Natl. Acad. Sci. Usa V. 101 5982 2004
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Hetero Components
(10, 25)
Info
All Hetero Components
01a: BACTERIOCHLOROPHYLL B (BCBa)
01b: BACTERIOCHLOROPHYLL B (BCBb)
01c: BACTERIOCHLOROPHYLL B (BCBc)
01d: BACTERIOCHLOROPHYLL B (BCBd)
02a: BACTERIOPHEOPHYTIN B (BPBa)
02b: BACTERIOPHEOPHYTIN B (BPBb)
03a: FE (II) ION (FE2a)
04a: N-FORMYLMETHIONINE (FMEa)
05a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
05b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
05c: PROTOPORPHYRIN IX CONTAINING FE (HEMc)
05d: PROTOPORPHYRIN IX CONTAINING FE (HEMd)
06a: LAURYL DIMETHYLAMINE-N-OXIDE (LDAa)
06b: LAURYL DIMETHYLAMINE-N-OXIDE (LDAb)
06c: LAURYL DIMETHYLAMINE-N-OXIDE (LDAc)
06d: LAURYL DIMETHYLAMINE-N-OXIDE (LDAd)
06e: LAURYL DIMETHYLAMINE-N-OXIDE (LDAe)
06f: LAURYL DIMETHYLAMINE-N-OXIDE (LDAf)
07a: MENAQUINONE-7 (MQ7a)
08a: 15-CIS-1,2-DIHYDRONEUROSPORENE (NS5a)
09a: SULFATE ION (SO4a)
09b: SULFATE ION (SO4b)
09c: SULFATE ION (SO4c)
09d: SULFATE ION (SO4d)
10a: UBIQUINONE-2 (UQ2a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BCB
4
Ligand/Ion
BACTERIOCHLOROPHYLL B
2
BPB
2
Ligand/Ion
BACTERIOPHEOPHYTIN B
3
FE2
1
Ligand/Ion
FE (II) ION
4
FME
1
Mod. Amino Acid
N-FORMYLMETHIONINE
5
HEM
4
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
6
LDA
6
Ligand/Ion
LAURYL DIMETHYLAMINE-N-OXIDE
7
MQ7
1
Ligand/Ion
MENAQUINONE-7
8
NS5
1
Ligand/Ion
15-CIS-1,2-DIHYDRONEUROSPORENE
9
SO4
4
Ligand/Ion
SULFATE ION
10
UQ2
1
Ligand/Ion
UBIQUINONE-2
[
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Sites
(24, 24)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS L:190 , HIS L:230 , HIS M:217 , GLU M:232 , HIS M:264
BINDING SITE FOR RESIDUE FE2 M 500
02
AC2
SOFTWARE
ARG H:37 , TYR H:41 , ARG M:251
BINDING SITE FOR RESIDUE SO4 H 801
03
AC3
SOFTWARE
TYR H:31 , ASN L:199 , HIS M:143 , ARG M:265
BINDING SITE FOR RESIDUE SO4 M 802
04
AC4
SOFTWARE
THR H:211 , LEU H:246 , ALA M:1 , ASP M:2 , ARG M:226
BINDING SITE FOR RESIDUE SO4 M 803
05
AC5
SOFTWARE
TRP M:23 , TYR M:50 , GLY M:52 , ALA M:53 , SER M:54 , SER M:133 , LDA M:704
BINDING SITE FOR RESIDUE SO4 M 804
06
AC6
SOFTWARE
TYR C:56 , LYS C:57 , ASN C:58 , VAL C:59 , LYS C:60 , VAL C:61 , LEU C:62 , PHE C:70 , MET C:74 , ILE C:77 , THR C:78 , SER C:82 , CYS C:87 , CYS C:90 , HIS C:91 , LEU C:96 , ALA C:97 , TYR C:104 , ALA C:107 , ARG C:108 , VAL C:212
BINDING SITE FOR RESIDUE HEM C 1201
07
AC7
SOFTWARE
ILE C:77 , TYR C:89 , TYR C:102 , PRO C:103 , VAL C:106 , MET C:110 , LEU C:111 , MET C:113 , THR C:114 , CYS C:132 , CYS C:135 , HIS C:136 , PRO C:140 , LEU C:141 , PRO C:142 , LEU C:289 , ARG C:293 , PRO C:301
BINDING SITE FOR RESIDUE HEM C 1202
08
AC8
SOFTWARE
VAL C:201 , ARG C:202 , VAL C:203 , VAL C:204 , MET C:233 , SER C:237 , LEU C:240 , ASN C:243 , CYS C:244 , CYS C:247 , HIS C:248 , PHE C:253 , GLU C:254 , ARG C:264 , ALA C:267 , TRP C:268 , ILE C:271 , ARG C:272 , HEM C:1204 , TYR L:162 , ILE M:189
BINDING SITE FOR RESIDUE HEM C 1203
09
AC9
SOFTWARE
HIS C:124 , VAL C:125 , THR C:128 , GLY C:129 , ILE C:236 , GLN C:263 , ILE C:266 , GLY C:270 , ILE C:271 , MET C:273 , VAL C:274 , ASP C:304 , CYS C:305 , CYS C:308 , HIS C:309 , THR C:313 , LYS C:314 , PRO C:315 , HEM C:1203
BINDING SITE FOR RESIDUE HEM C 1204
10
BC1
SOFTWARE
MET L:174 , VAL L:177 , SER L:178 , PHE L:181 , VAL L:182 , MET L:185 , BCB L:302 , VAL M:155 , ILE M:158 , ILE M:177 , TRP M:178 , HIS M:180 , ILE M:181 , LEU M:184 , BPB M:401 , NS5 M:600 , BCB M:1303
BINDING SITE FOR RESIDUE BCB M 1301
11
BC2
SOFTWARE
PHE L:97 , MET L:127 , LEU L:131 , VAL L:157 , ASN L:158 , PHE L:160 , GLY L:161 , TYR L:162 , TRP L:167 , HIS L:168 , HIS L:173 , SER L:176 , VAL L:177 , PHE L:181 , ILE L:240 , PHE L:241 , GLY L:244 , THR L:248 , BCB L:304 , BPB L:402 , TYR M:195 , TYR M:208 , BCB M:1301 , BCB M:1303
BINDING SITE FOR RESIDUE BCB L 302
12
BC3
SOFTWARE
VAL L:157 , TYR L:162 , PHE L:181 , BCB L:302 , BCB L:304 , ILE M:66 , ILE M:69 , LEU M:124 , PHE M:148 , PHE M:154 , VAL M:155 , LEU M:184 , THR M:185 , PHE M:187 , SER M:188 , PHE M:194 , TYR M:195 , HIS M:200 , SER M:203 , ILE M:204 , TYR M:208 , MET M:275 , ALA M:278 , ILE M:282 , BPB M:401 , BCB M:1301
BINDING SITE FOR RESIDUE BCB M 1303
13
BC4
SOFTWARE
PHE L:128 , PHE L:146 , ILE L:150 , HIS L:153 , LEU L:154 , VAL L:157 , BCB L:302 , BPB L:402 , TYR M:195 , GLY M:201 , ILE M:204 , GLY M:205 , TYR M:208 , GLY M:209 , BCB M:1303
BINDING SITE FOR RESIDUE BCB L 304
14
BC5
SOFTWARE
PHE L:181 , MET L:185 , LEU L:189 , PHE M:59 , ILE M:66 , SER M:123 , LEU M:124 , TRP M:127 , VAL M:131 , ILE M:144 , ASN M:147 , PHE M:148 , SER M:271 , BCB M:1301 , BCB M:1303
BINDING SITE FOR RESIDUE BPB M 401
15
BC6
SOFTWARE
ILE L:42 , PHE L:97 , TRP L:100 , GLU L:104 , VAL L:117 , PHE L:121 , TYR L:148 , ALA L:237 , PHE L:241 , BCB L:302 , BCB L:304 , TYR M:208 , LEU M:212 , TRP M:250 , ILE M:254 , MQ7 M:501
BINDING SITE FOR RESIDUE BPB L 402
16
BC7
SOFTWARE
TYR L:29 , GLY L:35 , ILE L:39 , ILE L:42 , TRP L:100 , BPB L:402 , LEU M:212 , HIS M:217 , THR M:220 , ALA M:246 , TRP M:250 , ILE M:254 , ASN M:257 , ALA M:258 , ILE M:260 , VAL M:263 , TRP M:266 , PHE M:270
BINDING SITE FOR RESIDUE MQ7 M 501
17
BC8
SOFTWARE
HIS L:190 , LEU L:193 , GLU L:212 , ASN L:213 , PHE L:216 , VAL L:220 , TYR L:222 , SER L:223 , ILE L:224 , GLY L:225 , ALA L:226 , ILE L:229
BINDING SITE FOR RESIDUE UQ2 L 502
18
BC9
SOFTWARE
ILE M:69 , GLY M:117 , MET M:120 , THR M:121 , GLY M:159 , CYS M:160 , VAL M:173 , PHE M:175 , GLY M:176 , HIS M:180 , BCB M:1301
BINDING SITE FOR RESIDUE NS5 M 600
19
CC1
SOFTWARE
LEU H:29 , ARG H:33 , ASP H:56 , LDA L:705 , PHE M:256
BINDING SITE FOR RESIDUE LDA M 701
20
CC2
SOFTWARE
GLN H:14 , TYR H:18 , PRO M:198 , HIS M:299 , ALA M:301
BINDING SITE FOR RESIDUE LDA M 702
21
CC3
SOFTWARE
ARG H:34 , VAL H:59 , TYR H:60 , LEU H:62 , TYR H:64 , PRO H:65
BINDING SITE FOR RESIDUE LDA H 703
22
CC4
SOFTWARE
ALA M:53 , SER M:126 , SO4 M:804
BINDING SITE FOR RESIDUE LDA M 704
23
CC5
SOFTWARE
TYR L:29 , GLY M:255 , LDA M:701
BINDING SITE FOR RESIDUE LDA L 705
24
CC6
SOFTWARE
PHE M:71 , ASN M:72 , HIS M:108
BINDING SITE FOR RESIDUE LDA M 706
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
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Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(2, 3)
Info
All PROSITE Patterns/Profiles
1: MULTIHEME_CYTC (C:82-314)
2: REACTION_CENTER (M:193-219)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
MULTIHEME_CYTC
PS51008
Multiheme cytochrome c family profile.
CYCR_BLAVI
102-334
1
C:82-314
2
REACTION_CENTER
PS00244
Photosynthetic reaction center proteins signature.
RCEL_BLAVI
167-193
1
L:166-192
RCEM_BLAVI
194-220
1
M:193-219
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(5, 5)
Info
All SCOP Domains
1a: SCOP_d1r2cc_ (C:)
2a: SCOP_d1r2ch1 (H:37-258)
3a: SCOP_d1r2cl_ (L:)
4a: SCOP_d1r2cm_ (M:)
5a: SCOP_d1r2ch2 (H:1-36)
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)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Multiheme cytochromes
(149)
Superfamily
:
Multiheme cytochromes
(149)
Family
:
Photosynthetic reaction centre (cytochrome subunit)
(20)
Protein domain
:
Photosynthetic reaction centre (cytochrome subunit)
(19)
Rhodopseudomonas viridis [TaxId: 1079]
(18)
1a
d1r2cc_
C:
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)
Rhodopseudomonas viridis [TaxId: 1079]
(15)
2a
d1r2ch1
H:37-258
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)
Rhodopseudomonas viridis [TaxId: 1079]
(10)
3a
d1r2cl_
L:
Protein domain
:
M (medium) subunit
(70)
Rhodopseudomonas viridis [TaxId: 1079]
(10)
4a
d1r2cm_
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)
Rhodopseudomonas viridis [TaxId: 1079]
(15)
5a
d1r2ch2
H:1-36
[
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]
CATH Domains
(4, 8)
Info
all CATH domains
1a: CATH_1r2cH02 (H:120-258)
2a: CATH_1r2cH01 (H:2-119)
3a: CATH_1r2cC02 (C:143-313)
3b: CATH_1r2cC01 (C:1-142,C:314-332)
4a: CATH_1r2cM01 (M:1-143)
4b: CATH_1r2cL02 (L:164-263)
4c: CATH_1r2cM02 (M:144-302)
4d: CATH_1r2cL01 (L:1-163)
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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)
Blastochloris viridis. Organism_taxid: 1079. Blastochloris viridis. Organism_taxid: 1079. Blastochloris viridis. Organism_taxid: 1079.
(3)
1a
1r2cH02
H:120-258
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)
Blastochloris viridis. Organism_taxid: 1079. Blastochloris viridis. Organism_taxid: 1079. Blastochloris viridis. Organism_taxid: 1079.
(3)
2a
1r2cH01
H:2-119
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Photosynthetic Reaction Center, subunit C; domain 2
(18)
Homologous Superfamily
:
Photosynthetic Reaction Center, subunit C, domain 2
(18)
Blastochloris viridis. Organism_taxid: 1079. Blastochloris viridis. Organism_taxid: 1079. Blastochloris viridis. Organism_taxid: 1079.
(3)
3a
1r2cC02
C:143-313
3b
1r2cC01
C:1-142,C:314-332
Architecture
:
Up-down Bundle
(3216)
Topology
:
Photosynthetic Reaction Center, subunit M; domain 1
(93)
Homologous Superfamily
:
Membrane spanning alpha-helix pairs
(93)
Blastochloris viridis. Organism_taxid: 1079. Blastochloris viridis. Organism_taxid: 1079. Blastochloris viridis. Organism_taxid: 1079.
(3)
4a
1r2cM01
M:1-143
4b
1r2cL02
L:164-263
4c
1r2cM02
M:144-302
4d
1r2cL01
L:1-163
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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