Structure of PDB 3a6p Chain A

Receptor sequence

>3a6pA (length=1072) Species: 9606 (Homo sapiens)

AMDQVNALCEQLVKAVTVMMDPNSTQRYRLEALKFCEEFKEKCPICVPCG
LRLAEKTQVAIVRHFGLQILEHVVKFRWNGMSRLEKVYLKNSVMELIANG
TLNILEEENHIKDALSRIVVEMIKREWPQHWPDMLIELDTLSKQGETQTE
LVMFILLRLAEDVVTFQTLPPQRRRDIQQTLTQNMERIFSFLLNTLQENV
NKYQQVKTDTSQESKAQANCRVGVAALNTLAGYIDWVSMSHITAENCKLL
EILCLLLNEQELQLGAAECLLIAVSRKGKLEDRKPLMVLFGDVAMHYILS
AAQTADGGGLVEKHYVFLKRLCQVLCALGNQLCALLGADSDVETPSNFGK
YLESFLAFTTHPSQFLRSSTQMTWGALFRHEILSRDPLLLAIIPKYLRAS
MTNLVKMGFPSKTDSPSCEYSRFDFDSDEDFNAFFNSSRAQQGEVMRLAC
RLDPKTSFQMAGEWLKYQLSTFSLCSVFSPSFVQWEAMTLFLESVITQMF
RTLNREEIPVNDGIELLQMVLNFDTKDPLILSCVLTNVSALFPFVTYRPE
FLPQVFSKLFSSVTFETVEESKAPRTRAVRNVRRHACSSIIKMCRDYPQL
VLPNFDMLYNHVKQLLSNELLLTQMEKCALMEALVLISNQFKNYERQKVF
LEELMAPVASIWLSQDMHRVLSDVDAFIAYVGTDQKDPGLEDPCGLNRAR
MSFCVYSILGVVKRTCWPTDLEEAKAGGFVVGYTSSGNPIFRNPCTEQIL
KLLDNLLALIRTHNTLYAPEMLAKMAEPFTKALDMLDAEKSAILGLPQPL
LELNDSPVFKTVLERMQRFFSTLYENCFHILGKAGPSMQQDFYTVEDLAT
QLLSSAFVNLNNIPDYRLRPMLRVFVKPLVLFCPPEHYEALVSPILGPLF
TYLHMRLSQKWQVINQRESQEMLEEQLVRMLTREVMDLITVCCVSELTDL
GKCLMKHEDVCTALLITAFNSLAWKDTLSCQRTTSQLCWPLLKQVLSGTL
LADAVTWLFTSVLKGLQMHGQHDGCMASLVHLAFQIYEALRPRYLEIRAV
MEQIPEIQKDSLDQFDCKLLNP

3D structure

• PDB: 3a6p A high-resolution structure of the pre-microRNA nuclear export machinery
• Chain: A
• Resolution: 2.92 Å

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	peptide	A	F1098 I1118 I1121	F1034 I1054 I1057
BS02	rna	A	R380 S606 I609 R734 R893 D1087 A1091	R379 S588 I591 R714 R873 D1023 A1027
BS03	rna	A	K278 A441 E445 R448 R593 R602 T641 Q642 M643 G715 R718 K830 R835 R838 L1042 Q1045 R1046 H1086	K277 A440 E444 R447 R575 R584 T623 Q624 M625 G695 R698 K810 R815 R818 L978 Q981 R982 H1022

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003723 RNA binding
• GO:0003729 mRNA binding
• GO:0005049 nuclear export signal receptor activity
• GO:0005515 protein binding
• GO:0031267 small GTPase binding
• GO:0070883 pre-miRNA binding
• GO:1905172 RISC complex binding

Biological Process

• GO:0006405 RNA export from nucleus
• GO:0006611 protein export from nucleus
• GO:0006886 intracellular protein transport
• GO:0010586 miRNA metabolic process
• GO:0015031 protein transport
• GO:0031047 regulatory ncRNA-mediated gene silencing
• GO:0035281 pre-miRNA export from nucleus

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0016442 RISC complex
• GO:0042565 RNA nuclear export complex

External links

• PDB: RCSB:3a6p, PDBe:3a6p, PDBj:3a6p
• PDBsum: 3a6p
• PubMed: 19965479
• UniProt: Q9HAV4|XPO5_HUMAN Exportin-5 (Gene Name=XPO5)