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2J07
Biol. Unit 1
Info
Asym.Unit (85 KB)
Biol.Unit 1 (78 KB)
Biol.Unit 2 (153 KB)
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(1)
Title
:
THERMUS DNA PHOTOLYASE WITH 8-HDF ANTENNA CHROMOPHORE
Authors
:
T. Klar, G. Kaiser, U. Hennecke, T. Carell, A. Batschauer, L. -O. Essen
Date
:
01 Aug 06 (Deposition) - 01 May 07 (Release) - 05 Jul 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.95
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Biol. Unit 2: A (2x)
Keywords
:
Lyase, Flavoprotein, Nucleotide-Binding, Dna Repair
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. Klar, G. Kaiser, U. Hennecke, T. Carell, A. Batschauer, L. -O. Essen
Natural And Non-Natural Antenna Chromophores In The Dna Photolyase From Thermus Thermophilus
Chembiochem V. 7 1798 2006
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Hetero Components
(3, 3)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
2a: FLAVIN-ADENINE DINUCLEOTIDE (FADa)
3a: 8-HYDROXY-10-(D-RIBO-2,3,4,5-TETRA... (HDFa)
4a: PHOSPHATE ION (PO4a)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
FAD
1
Ligand/Ion
FLAVIN-ADENINE DINUCLEOTIDE
3
HDF
1
Ligand/Ion
8-HYDROXY-10-(D-RIBO-2,3,4,5-TETRAHYDROXYPENTYL)-5-DEAZAISOALLOXAZINE
4
PO4
1
Ligand/Ion
PHOSPHATE ION
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ARG A:46 , ARG A:336 , HOH A:2312
BINDING SITE FOR RESIDUE CL A1423
2
AC2
SOFTWARE
HIS A:117 , HOH A:2144 , HOH A:2147 , HOH A:2148
BINDING SITE FOR RESIDUE CL A1424
3
AC3
SOFTWARE
PRO A:148 , HOH A:2019 , HOH A:2180
BINDING SITE FOR RESIDUE CL A1425
4
AC4
SOFTWARE
VAL A:135 , TYR A:136 , THR A:137 , ARG A:167 , ASP A:360 , HOH A:2199 , HOH A:2353 , HOH A:2354 , HOH A:2355 , HOH A:2356
BINDING SITE FOR RESIDUE PO4 A1426
5
AC5
SOFTWARE
TYR A:197 , GLY A:209 , SER A:210 , ARG A:211 , LEU A:212 , SER A:213 , PHE A:216 , TRP A:241 , GLU A:244 , LEU A:245 , TRP A:247 , ARG A:248 , PHE A:307 , LEU A:308 , ASN A:310 , ARG A:313 , ALA A:317 , LEU A:339 , ASP A:341 , GLY A:342 , ASP A:343 , VAL A:346 , ASN A:347 , GLN A:349 , GLY A:350 , HOH A:2316 , HOH A:2341 , HOH A:2342 , HOH A:2343 , HOH A:2344 , HOH A:2346
BINDING SITE FOR RESIDUE FAD A1421
6
AC6
SOFTWARE
ARG A:9 , VAL A:34 , LEU A:35 , ASP A:36 , ASN A:39 , LEU A:40 , ARG A:46 , PHE A:50 , SER A:96 , ARG A:104 , LEU A:218 , HOH A:2003 , HOH A:2347 , HOH A:2348 , HOH A:2349 , HOH A:2350
BINDING SITE FOR RESIDUE HDF A1422
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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Sorry, no Info available
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PROSITE Patterns/Profiles
(3, 3)
Info
All PROSITE Patterns/Profiles
1: PHR_CRY_ALPHA_BETA (A:2-124)
2: DNA_PHOTOLYASES_1_1 (A:290-302)
3: DNA_PHOTOLYASES_1_2 (A:310-329)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PHR_CRY_ALPHA_BETA
PS51645
Photolyase/cryptochrome alpha/beta domain profile.
PHR_THET8
2-124
1
A:2-124
2
DNA_PHOTOLYASES_1_1
PS00394
DNA photolyases class 1 signature 1.
PHR_THET8
290-302
1
A:290-302
3
DNA_PHOTOLYASES_1_2
PS00691
DNA photolyases class 1 signature 2.
PHR_THET8
310-329
1
A:310-329
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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
(2, 2)
Info
All SCOP Domains
1a: SCOP_d2j07a1 (A:172-420)
2a: SCOP_d2j07a2 (A:2-171)
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Classes
(
)
(
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Folds
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)
(
)
Superfamilies
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)
(
)
Families
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Cryptochrome/photolyase FAD-binding domain
(26)
Superfamily
:
Cryptochrome/photolyase FAD-binding domain
(26)
Family
:
Cryptochrome/photolyase FAD-binding domain
(20)
Protein domain
:
C-terminal domain of DNA photolyase
(13)
Thermus thermophilus [TaxId: 274]
(5)
1a
d2j07a1
A:172-420
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Cryptochrome/photolyase, N-terminal domain
(27)
Superfamily
:
Cryptochrome/photolyase, N-terminal domain
(27)
Family
:
Cryptochrome/photolyase, N-terminal domain
(17)
Protein domain
:
DNA photolyase
(13)
Thermus thermophilus [TaxId: 274]
(5)
2a
d2j07a2
A:2-171
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CATH Domains
(3, 3)
Info
all CATH domains
1a: CATH_2j07A01 (A:2-121)
2a: CATH_2j07A02 (A:122-149,A:179-258)
3a: CATH_2j07A03 (A:259-420)
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Topologies
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)
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
Tyrosyl-Transfer RNA Synthetase , subunit E, domain 1
(328)
Thermus thermophilus. Organism_taxid: 300852. Strain: hb8.
(4)
1a
2j07A01
A:2-121
Class
:
Mainly Alpha
(13335)
Architecture
:
Alpha Horseshoe
(399)
Topology
:
Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
(320)
Homologous Superfamily
:
[code=1.25.40.80, no name defined]
(16)
Thermus thermophilus. Organism_taxid: 300852. Strain: hb8.
(3)
2a
2j07A02
A:122-149,A:179-258
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
DNA Cyclobutane Dipyrimidine Photolyase, subunit A; domain 3
(16)
Homologous Superfamily
:
DNA Cyclobutane Dipyrimidine Photolyase, subunit A, domain 3
(16)
Thermus thermophilus. Organism_taxid: 300852. Strain: hb8.
(3)
3a
2j07A03
A:259-420
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Chain A
Asymmetric Unit 1
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (85 KB)
Header - Asym.Unit
Biol.Unit 1 (78 KB)
Header - Biol.Unit 1
Biol.Unit 2 (153 KB)
Header - Biol.Unit 2
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