Macromolecule Annotations for the Entities in PDB 1I3Q

Domain Annotation: SCOP Classification SCOP Database (version: 1.75) Homepage

Chains Domain Info Class Fold Superfamily Family Domain Species
A d1i3qa_ Multi-domain proteins (alpha and beta) beta and beta-prime subunits of DNA dependent RNA- polymerase beta and beta-prime subunits of DNA dependent RNA- polymerase RNA-polymerase beta-prime RBP1 Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
B d1i3qb_ Multi-domain proteins (alpha and beta) beta and beta-prime subunits of DNA dependent RNA- polymerase beta and beta-prime subunits of DNA dependent RNA- polymerase RNA-polymerase beta RBP2 Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
C3-41,C173-268 d1i3qc1 Alpha and beta proteins (a+b) DCoH-like RBP11-like subunits of RNA polymerase RNA polymerase alpha subunit dimerisation domain RPB3 Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
C42-172 d1i3qc2 Alpha and beta proteins (a+b) Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit Insert subdomain of RNA polymerase alpha subunit RPB3 Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
E1-143 d1i3qe1 Alpha and beta proteins (a/b) Restriction endonuclease-like Eukaryotic RPB5 N-terminal domain Eukaryotic RPB5 N-terminal domain Eukaryotic RPB5 N-terminal domain Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
E144-215 d1i3qe2 Alpha and beta proteins (a+b) RPB5-like RNA polymerase subunit RPB5-like RNA polymerase subunit RPB5 Eukaryotic RPB5 C-terminal domain Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
F d1i3qf_ All alpha proteins RPB6/omega subunit-like RPB6/omega subunit-like RPB6 RPB6 Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
H d1i3qh_ All beta proteins OB-fold Nucleic acid-binding proteins RNA polymerase subunit RBP8 RNA polymerase subunit RBP8 Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
I1-49 d1i3qi1 Small proteins Rubredoxin-like Zinc beta-ribbon Transcriptional factor domain RBP9 subunit of RNA polymerase II Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
I50-122 d1i3qi2 Small proteins Rubredoxin-like Zinc beta-ribbon Transcriptional factor domain RBP9 subunit of RNA polymerase II Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
J d1i3qj_ All alpha proteins DNA/RNA-binding 3-helical bundle RNA polymerase subunit RPB10 RNA polymerase subunit RPB10 RNA polymerase subunit RPB10 Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
K d1i3qk_ Alpha and beta proteins (a+b) DCoH-like RBP11-like subunits of RNA polymerase RBP11/RpoL RPB11 Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
L d1i3ql_ Small proteins Rubredoxin-like RNA polymerase subunits RBP12 subunit of RNA polymerase II RBP12 subunit of RNA polymerase II Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Domain Annotation: CATH CATH Database (version 4.0.0) Homepage

Chains Domain Class Architecture Topology Homology
A3 1i3qA03 Mainly Beta Beta Barrel Barwin-like endoglucanases
A4 1i3qA04 Alpha Beta 2-Layer Sandwich Dna Ligase; domain 1 RNA polymerase ii
B4 1i3qB04 Alpha Beta Alpha-Beta Complex Dna-directed Rna Polymerase Ii 140kd Polypeptide; Chain: B; domain 3
B6 1i3qB06 Mainly Beta Beta Barrel Dna-directed Rna Polymerase Ii 140kd Polypeptide; Chain: B; Domain 6
B7 1i3qB07 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P)
B8 1i3qB08 Alpha Beta Alpha-Beta Complex DCoH-like RNA polymerase alpha subunit dimerisation domain
C1 1i3qC01 Mainly Beta Beta Complex RNA Polymerase Alpha Subunit; Chain A, domain 2 RNA Polymerase Alpha Subunit; Chain A, domain 2
C2 1i3qC02 Alpha Beta 2-Layer Sandwich Gyrase A; domain 2
E1 1i3qE01 Alpha Beta 3-Layer(aba) Sandwich Dna-directed Rna Polymerases I, Ii, And Iii 27 Kd Polypeptide; Chain: A; domain 1
E2 1i3qE02 Alpha Beta Alpha-Beta Complex Eukaryotic RPB6 RNA polymerase subunit
F 1i3qF00 Alpha Beta Alpha-Beta Complex Eukaryotic RPB6 RNA polymerase subunit
H 1i3qH00 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P) Nucleic acid-binding proteins
I1 1i3qI01 Mainly Beta Single Sheet N-terminal domain of TfIIb
I2 1i3qI02 Mainly Beta Single Sheet N-terminal domain of TfIIb
J 1i3qJ00 Mainly Alpha Orthogonal Bundle Arc Repressor Mutant, subunit A Homeodomain-like
K 1i3qK00 Alpha Beta 2-Layer Sandwich Gyrase A; domain 2
L 1i3qL00 Mainly Beta Single Sheet Rubrerythrin, domain 2 RNA polymerase ii, chain L

Protein Family Annotation Pfam Database Homepage

Chains Pfam Accession Pfam Identifier Pfam Description Type Source

Gene Product Annotation Gene Ontology Consortium Homepage

Chains Polymer Molecular Function Biological Process Cellular Component
A DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT (1I3Q:A)
B DNA-DIRECTED RNA POLYMERASE II 140KD POLYPEPTIDE (1I3Q:B)
C DNA-DIRECTED RNA POLYMERASE II 45KD POLYPEPTIDE (1I3Q:C)
E DNA-DIRECTED RNA POLYMERASE II 27KD POLYPEPTIDE (1I3Q:E)
F DNA-DIRECTED RNA POLYMERASE II 23KD POLYPEPTIDE (1I3Q:F)
H DNA-DIRECTED RNA POLYMERASE II 14.5KD POLYPEPTIDE (1I3Q:H)
I DNA-DIRECTED RNA POLYMERASE II 14.2KD POLYPEPTIDE (1I3Q:I)
J DNA-DIRECTED RNA POLYMERASE II 8.3KD POLYPEPTIDE (1I3Q:J)
K DNA-DIRECTED RNA POLYMERASE II 13.6KD POLYPEPTIDE (1I3Q:K)
L DNA-DIRECTED RNA POLYMERASE II 7.7KD POLYPEPTIDE (1I3Q:L)

Protein Modification Annotation

Type PDB Residue Nr. Description