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3ER9
Asym. Unit
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Asym.Unit (136 KB)
Biol.Unit 1 (130 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE HETERODIMERIC VACCINIA VIRUS MRNA POLYADENYLATE POLYMERASE COMPLEX WITH UU AND 3'-DEOXY ATP
Authors
:
C. Li, H Li, S. Zhou, T. L. Poulos, P. D. Gershon
Date
:
01 Oct 08 (Deposition) - 16 Jun 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.06
Chains
:
Asym. Unit : A,B,D
Biol. Unit 1: A,B,D (1x)
Keywords
:
Polyadenylate Polymerase, Translocation, Single Tranded Rna Poly(A) Polymerase, Rna Protein Complex, Processivity, Heterodimer, Nucleotidyltransferase, Poxvirus; Methyltransferase, Mrna Capping, Mrna Processing, S-Adenosyl-L-Methionine, Transcription, Transferase, Transferase-Rna Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. Li, H. Li, S. Zhou, E. Sun, J. Yoshizawa, T. L. Poulos, P. D. Gershon
Polymerase Translocation With Respect To Single-Stranded Nucleic Acid: Looping Or Wrapping Of Primer Around A Poly(A Polymerase
Structure V. 17 680 2009
(for further references see the
PDB file header
)
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Hetero Components
(3, 6)
Info
All Hetero Components
1a: 3'-DEOXYADENOSINE-5'-TRIPHOSPHATE (3ATa)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
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No.
Name
Count
Type
Full Name
1
3AT
1
Ligand/Ion
3'-DEOXYADENOSINE-5'-TRIPHOSPHATE
2
CA
2
Ligand/Ion
CALCIUM ION
3
GOL
3
Ligand/Ion
GLYCEROL
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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)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
SER B:188 , GLY B:201 , ASP B:202 , ASP B:204 , GLN B:281 , ASN B:284 , MET B:288 , ARG B:294 , LYS B:304 , ARG B:308 , ASN B:402 , CA B:901 , HOH B:1066 , HOH B:1210 , HOH B:1235 , HOH B:1250 , HOH B:1298 , HOH B:1310
BINDING SITE FOR RESIDUE 3AT B 800
2
AC2
SOFTWARE
ASP B:202 , ASP B:204 , 3AT B:800 , HOH B:1066 , HOH B:1310
BINDING SITE FOR RESIDUE CA B 901
3
AC3
SOFTWARE
ASP B:202 , ASP B:204 , HOH B:1308 , HOH B:1310 , HOH B:1311
BINDING SITE FOR RESIDUE CA B 902
4
AC4
SOFTWARE
PHE A:251 , ASP A:252 , TYR A:264 , HOH A:1085 , HOH A:1306
BINDING SITE FOR RESIDUE GOL A 880
5
AC5
SOFTWARE
TYR A:77 , HIS A:81 , ASN A:84 , HOH A:1204 , HOH A:1303
BINDING SITE FOR RESIDUE GOL A 890
6
AC6
SOFTWARE
THR A:279
BINDING SITE FOR RESIDUE GOL A 900
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: SAM_MT_2O_PK (A:4-262)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SAM_MT_2O_PK
PS51612
Poxvirus/kinetoplastid-type ribose 2'-O-methyltransferase (EC 2.1.1.57) family profile.
MCE_VACCW
4-262
1
A:4-262
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d3er9a_ (A:)
2a: SCOP_d3er9b_ (B:)
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Protein Domains
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
S-adenosyl-L-methionine-dependent methyltransferases
(533)
Superfamily
:
S-adenosyl-L-methionine-dependent methyltransferases
(533)
Family
:
mRNA cap methylase
(41)
Protein domain
:
Polymerase regulatory subunit VP39
(19)
Vaccinia virus wr [TaxId: 10254]
(2)
1a
d3er9a_
A:
Class
:
Multi-domain proteins (alpha and beta)
(2421)
Fold
:
Poly(A) polymerase catalytic subunit-like
(5)
Superfamily
:
Poly(A) polymerase catalytic subunit-like
(5)
Family
:
Poxvirus poly(A) polymerase catalytic subunit-like
(5)
Protein domain
:
automated matches
(3)
Vaccinia virus wr [TaxId: 10254]
(3)
2a
d3er9b_
B:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_3er9A00 (A:1-297)
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Organisms
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(
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Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
Vaccinia Virus protein VP39
(378)
Vaccinia virus wr. Organism_taxid: 10254. Strain: western reserve / wr.
(3)
1a
3er9A00
A:1-297
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Pfam Domains
(0, 0)
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Asymmetric Unit 1
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Asym.Unit (136 KB)
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