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1B33
Biol. Unit 1
Info
Asym.Unit (363 KB)
Biol.Unit 1 (179 KB)
Biol.Unit 2 (182 KB)
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(1)
Title
:
STRUCTURE OF LIGHT HARVESTING COMPLEX OF ALLOPHYCOCYANIN ALPHA AND BETA CHAINS/CORE-LINKER COMPLEX AP*LC7.8
Authors
:
W. Reuter, G. Wiegand, R. Huber, M. E. Than
Date
:
15 Dec 98 (Deposition) - 23 Feb 99 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D,E,F,H,I,J,K,L,M,N,O
Biol. Unit 1: A,B,C,D,E,F,N (1x)
Biol. Unit 2: H,I,J,K,L,M,O (1x)
Keywords
:
Light-Harvesting Protein, Cyanobacteria, Allophycocyanin, Linker Polypeptides, Complex Structure, Photosynthesis
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
W. Reuter, G. Wiegand, R. Huber, M. E. Than
Structural Analysis At 2. 2 A Of Orthorhombic Crystals Presents The Asymmetry Of The Allophycocyanin-Linker Complex, Ap. Lc7. 8, From Phycobilisomes Of Mastigocladus Laminosus.
Proc. Natl. Acad. Sci. Usa V. 96 1363 1999
(for further references see the
PDB file header
)
[
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Hetero Components
(4, 11)
Info
All Hetero Components
1a: BILIVERDINE IX ALPHA (BLAa)
1b: BILIVERDINE IX ALPHA (BLAb)
2a: BORATE ION (BO4a)
2b: BORATE ION (BO4b)
2c: BORATE ION (BO4c)
2d: BORATE ION (BO4d)
3a: PHYCOCYANOBILIN (CYCa)
3b: PHYCOCYANOBILIN (CYCb)
3c: PHYCOCYANOBILIN (CYCc)
3d: PHYCOCYANOBILIN (CYCd)
3e: PHYCOCYANOBILIN (CYCe)
3f: PHYCOCYANOBILIN (CYCf)
3g: PHYCOCYANOBILIN (CYCg)
3h: PHYCOCYANOBILIN (CYCh)
3i: PHYCOCYANOBILIN (CYCi)
3j: PHYCOCYANOBILIN (CYCj)
4a: N-METHYL ASPARAGINE (MENa)
4b: N-METHYL ASPARAGINE (MENb)
4c: N-METHYL ASPARAGINE (MENc)
4d: N-METHYL ASPARAGINE (MENd)
4e: N-METHYL ASPARAGINE (MENe)
4f: N-METHYL ASPARAGINE (MENf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BLA
2
Ligand/Ion
BILIVERDINE IX ALPHA
2
BO4
2
Ligand/Ion
BORATE ION
3
CYC
4
Ligand/Ion
PHYCOCYANOBILIN
4
MEN
3
Mod. Amino Acid
N-METHYL ASPARAGINE
[
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]
Sites
(9, 9)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: BC4 (SOFTWARE)
8: BC6 (SOFTWARE)
9: BC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
VAL A:64 , ASN A:70 , ALA A:71 , MET A:76 , THR A:79 , CYS A:80 , ARG A:82 , ASP A:83 , TYR A:86 , TYR A:87 , ILE A:106 , MET A:114 , LEU A:118 , PRO A:121 , ALA A:124 , HOH A:206 , HOH A:248 , HOH A:249 , HOH A:258 , LEU F:61 , TYR F:62 , THR F:66 , TYR F:73 , THR F:74 , TYR F:78
BINDING SITE FOR RESIDUE BLA A 201
2
AC2
SOFTWARE
LEU B:60 , ILE B:65 , MEN B:71 , ARG B:76 , ARG B:77 , ALA B:80 , CYS B:81 , ARG B:83 , ASP B:84 , LEU B:85 , TYR B:87 , TYR B:88 , TYR B:91 , ARG B:107 , LEU B:112 , TYR B:116 , LEU B:119 , VAL B:121 , PRO B:122 , ALA B:125 , THR B:126 , HOH B:251 , SER N:12 , ARG N:20 , GLU N:21 , LEU N:22 , THR N:25 , HOH N:127
BINDING SITE FOR RESIDUE BLA B 202
3
AC3
SOFTWARE
TYR B:62 , THR B:66 , TYR B:73 , THR B:74 , HOH B:203 , VAL C:64 , ASN C:70 , ALA C:71 , MET C:76 , THR C:79 , CYS C:80 , ARG C:82 , ASP C:83 , TYR C:86 , TYR C:87 , MET C:114 , TYR C:115 , LEU C:118 , THR C:120 , ALA C:124 , HOH C:2019 , HOH C:2021 , HOH C:2051
BINDING SITE FOR RESIDUE CYC C 203
4
AC4
SOFTWARE
LEU D:60 , ILE D:65 , MEN D:71 , MET D:72 , ARG D:76 , ARG D:77 , ALA D:80 , CYS D:81 , ARG D:83 , ASP D:84 , TYR D:87 , TYR D:88 , TYR D:91 , ARG D:107 , LEU D:112 , TYR D:116 , LEU D:119 , VAL D:121 , PRO D:122 , ALA D:125 , HOH D:209 , HOH D:226 , HOH D:285 , HOH D:344 , ARG N:2 , TYR N:33 , PHE N:37 , GLN N:40 , GLN N:44 , HOH N:86
BINDING SITE FOR RESIDUE CYC D 204
5
AC5
SOFTWARE
TYR D:62 , THR D:66 , TYR D:73 , THR D:74 , TYR D:78 , VAL E:64 , ASN E:70 , ALA E:71 , MET E:76 , THR E:79 , CYS E:80 , ARG E:82 , ASP E:83 , TYR E:86 , TYR E:87 , MET E:114 , TYR E:115 , LEU E:118 , PRO E:121 , ALA E:124 , VAL E:125 , HOH E:2007 , HOH E:2025 , HOH E:2031 , HOH E:2061 , HOH E:2102
BINDING SITE FOR RESIDUE CYC E 205
6
AC6
SOFTWARE
ILE F:65 , MEN F:71 , MET F:72 , ARG F:76 , ARG F:77 , ALA F:80 , CYS F:81 , ARG F:83 , ASP F:84 , TYR F:88 , ARG F:107 , TYR F:116 , LEU F:119 , VAL F:121 , PRO F:122 , ALA F:125 , HOH F:296
BINDING SITE FOR RESIDUE CYC F 206
7
BC4
SOFTWARE
GLY E:68 , SER L:18 , ARG L:24 , HOH L:2016 , HOH L:2035 , HOH L:2086
BINDING SITE FOR RESIDUE BO4 L 2001
8
BC6
SOFTWARE
SER C:18 , GLY C:20 , GLU C:21 , ARG C:24 , HOH C:2018
BINDING SITE FOR RESIDUE BO4 C 2003
9
BC7
SOFTWARE
SER E:18 , GLY E:20 , ARG E:24 , HOH E:2077
BINDING SITE FOR RESIDUE BO4 E 2004
[
close Site info
]
SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_PYC1_MASLA_001 (C9S, chain N, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_PYC1_MASLA_001
*
C
9
S
PYC1_MASLA
---
---
N
C
9
S
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: CPCD_LIKE (N:1-56)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CPCD_LIKE
PS51441
CpcD-like domain profile.
PYC1_MASLA
1-56
1
N:1-56
-
[
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(3, 14)
Info
All SCOP Domains
1a: SCOP_d1b33a_ (A:)
1b: SCOP_d1b33c_ (C:)
1c: SCOP_d1b33e_ (E:)
1d: SCOP_d1b33h_ (H:)
1e: SCOP_d1b33j_ (J:)
1f: SCOP_d1b33l_ (L:)
2a: SCOP_d1b33b_ (B:)
2b: SCOP_d1b33d_ (D:)
2c: SCOP_d1b33f_ (F:)
2d: SCOP_d1b33i_ (I:)
2e: SCOP_d1b33k_ (K:)
2f: SCOP_d1b33m_ (M:)
3a: SCOP_d1b33n_ (N:)
3b: SCOP_d1b33o_ (O:)
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)
(
)
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(
)
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)
(
)
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(
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Globin-like
(1351)
Superfamily
:
Globin-like
(1308)
Family
:
Phycocyanin-like phycobilisome proteins
(65)
Protein domain
:
Allophycocyanin alpha subunit
(3)
Mastigocladus laminosus [TaxId: 83541]
(1)
1a
d1b33a_
A:
1b
d1b33c_
C:
1c
d1b33e_
E:
1d
d1b33h_
H:
1e
d1b33j_
J:
1f
d1b33l_
L:
Protein domain
:
Allophycocyanin beta subunit
(3)
Mastigocladus laminosus [TaxId: 83541]
(1)
2a
d1b33b_
B:
2b
d1b33d_
D:
2c
d1b33f_
F:
2d
d1b33i_
I:
2e
d1b33k_
K:
2f
d1b33m_
M:
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Allophycocyanin linker chain (domain)
(1)
Superfamily
:
Allophycocyanin linker chain (domain)
(1)
Family
:
Allophycocyanin linker chain (domain)
(1)
Protein domain
:
Allophycocyanin linker chain (domain)
(1)
Mastigocladus laminosus [TaxId: 83541]
(1)
3a
d1b33n_
N:
3b
d1b33o_
O:
[
close SCOP info
]
CATH Domains
(2, 14)
Info
all CATH domains
1a: CATH_1b33N01 (N:1-55)
1b: CATH_1b33O01 (O:1-55)
2a: CATH_1b33B00 (B:1-161)
2b: CATH_1b33D00 (D:1-161)
2c: CATH_1b33J00 (J:1-160)
2d: CATH_1b33L00 (L:1-160)
2e: CATH_1b33F00 (F:1-161)
2f: CATH_1b33I00 (I:1-161)
2g: CATH_1b33K00 (K:1-161)
2h: CATH_1b33M00 (M:1-161)
2i: CATH_1b33A00 (A:1-160)
2j: CATH_1b33C00 (C:1-160)
2k: CATH_1b33E00 (E:1-160)
2l: CATH_1b33H00 (H:1-160)
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Topologies
(
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(
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Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Dna Ligase; domain 1
(375)
Homologous Superfamily
:
Phycocyanin-like phycobilisome proteins
(1)
Mastigocladus laminosus. Organism_taxid: 83541. Cell_line: pcc 7603.
(1)
1a
1b33N01
N:1-55
1b
1b33O01
O:1-55
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Globin-like
(786)
Homologous Superfamily
:
Phycocyanins
(32)
Mastigocladus laminosus. Organism_taxid: 83541. Cell_line: pcc 7603.
(1)
2a
1b33B00
B:1-161
2b
1b33D00
D:1-161
2c
1b33J00
J:1-160
2d
1b33L00
L:1-160
2e
1b33F00
F:1-161
2f
1b33I00
I:1-161
2g
1b33K00
K:1-161
2h
1b33M00
M:1-161
2i
1b33A00
A:1-160
2j
1b33C00
C:1-160
2k
1b33E00
E:1-160
2l
1b33H00
H:1-160
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Asymmetric Unit 1
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Asym.Unit (363 KB)
Header - Asym.Unit
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Header - Biol.Unit 1
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