Structure of PDB 1h2t Chain Z Binding Site BS01
Receptor Information
>1h2t Chain Z (length=146) Species:
9606
(Homo sapiens) [
Search protein sequence
] [
Download receptor structure
] [
Download structure with residue number starting from 1
] [
View receptor structure
]
LLKALRSDSYVELSQYRDQHFRGDNEEQEKLLKKSCTLYVGNLSFYTTEE
QIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGT
RLDDRIIRTDWDAGFKEGRQYGRGRSGGQVRDEYRQDYDAGRGGYG
Ligand information
Ligand ID
GDP
InChI
InChI=1S/C10H15N5O11P2/c11-10-13-7-4(8(18)14-10)12-2-15(7)9-6(17)5(16)3(25-9)1-24-28(22,23)26-27(19,20)21/h2-3,5-6,9,16-17H,1H2,(H,22,23)(H2,19,20,21)(H3,11,13,14,18)/t3-,5-,6-,9-/m1/s1
InChIKey
QGWNDRXFNXRZMB-UUOKFMHZSA-N
SMILES
Software
SMILES
OpenEye OEToolkits 1.7.6
c1nc2c(n1C3C(C(C(O3)COP(=O)(O)OP(=O)(O)O)O)O)N=C(NC2=O)N
CACTVS 3.385
NC1=Nc2n(cnc2C(=O)N1)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O
CACTVS 3.385
NC1=Nc2n(cnc2C(=O)N1)[CH]3O[CH](CO[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]3O
ACDLabs 12.01
O=P(O)(O)OP(=O)(O)OCC3OC(n2cnc1c2N=C(N)NC1=O)C(O)C3O
OpenEye OEToolkits 1.7.6
c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)OP(=O)(O)O)O)O)N=C(NC2=O)N
Formula
C10 H15 N5 O11 P2
Name
GUANOSINE-5'-DIPHOSPHATE
ChEMBL
CHEMBL384759
DrugBank
DB04315
ZINC
ZINC000008215481
PDB chain
1h2t Chain Z Residue 1151 [
Download ligand structure
] [
Download structure with residue number starting from 1
] [
View ligand structure
]
Receptor-Ligand Complex Structure
Global view
Local view
Structure summary
[
Spin on
] [
Spin off
] [
Reset
]
[
High quality
] [
Low quality
]
[
White background
] [
Black background
]
[
Spin on
] [
Spin off
] [
Reset
]
[
High quality
] [
Low quality
]
[
White background
] [
Black background
]
PDB
1h2t
Large-Scale Induced Fit Recognition of an M(7)Gpppg CAP Analogue by the Human Nuclear CAP-Binding Complex
Resolution
2.1 Å
Binding residue
(original residue number in PDB)
Y20 R127 V134 Y138
Binding residue
(residue number reindexed from 1)
Y16 R123 V130 Y134
Annotation score
4
Binding affinity
PDBbind-CN
: -logKd/Ki=7.89,Kd=13nM
Enzymatic activity
Enzyme Commision number
?
Gene Ontology
Molecular Function
GO:0000339
RNA cap binding
GO:0000340
RNA 7-methylguanosine cap binding
GO:0003676
nucleic acid binding
GO:0003677
DNA binding
GO:0003723
RNA binding
GO:0003729
mRNA binding
GO:0005515
protein binding
GO:0017069
snRNA binding
Biological Process
GO:0000184
nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
GO:0000380
alternative mRNA splicing, via spliceosome
GO:0000398
mRNA splicing, via spliceosome
GO:0002191
cap-dependent translational initiation
GO:0006397
mRNA processing
GO:0006406
mRNA export from nucleus
GO:0006408
snRNA export from nucleus
GO:0006417
regulation of translation
GO:0006446
regulation of translational initiation
GO:0008334
histone mRNA metabolic process
GO:0008380
RNA splicing
GO:0016071
mRNA metabolic process
GO:0031047
regulatory ncRNA-mediated gene silencing
GO:0031053
primary miRNA processing
GO:0031124
mRNA 3'-end processing
GO:0031442
positive regulation of mRNA 3'-end processing
GO:0032968
positive regulation of transcription elongation by RNA polymerase II
GO:0035194
regulatory ncRNA-mediated post-transcriptional gene silencing
GO:0035195
miRNA-mediated post-transcriptional gene silencing
GO:0042789
mRNA transcription by RNA polymerase II
GO:0045292
mRNA cis splicing, via spliceosome
GO:0046833
positive regulation of RNA export from nucleus
GO:0051028
mRNA transport
Cellular Component
GO:0005634
nucleus
GO:0005654
nucleoplasm
GO:0005737
cytoplasm
GO:0005829
cytosol
GO:0005846
nuclear cap binding complex
GO:0034518
RNA cap binding complex
View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB
RCSB:1h2t
,
PDBe:1h2t
,
PDBj:1h2t
PDBsum
1h2t
PubMed
12374755
UniProt
P52298
|NCBP2_HUMAN Nuclear cap-binding protein subunit 2 (Gene Name=NCBP2)
[
Back to BioLiP
]