2Q66

Structure of Yeast Poly(A) Polymerase with ATP and oligo(A)

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000166	molecular_function	nucleotide binding
A	0000287	molecular_function	magnesium ion binding
A	0003723	molecular_function	RNA binding
A	0005515	molecular_function	protein binding
A	0005524	molecular_function	ATP binding
A	0005634	cellular_component	nucleus
A	0005847	cellular_component	mRNA cleavage and polyadenylation specificity factor complex
A	0006378	biological_process	obsolete mRNA polyadenylation
A	0006397	biological_process	mRNA processing
A	0016740	molecular_function	transferase activity
A	0016779	molecular_function	nucleotidyltransferase activity
A	0030846	biological_process	termination of RNA polymerase II transcription, poly(A)-coupled
A	0031123	biological_process	RNA 3'-end processing
A	0031124	biological_process	mRNA 3'-end processing
A	0031126	biological_process	sno(s)RNA 3'-end processing
A	0043631	biological_process	obsolete RNA polyadenylation
A	0046872	molecular_function	metal ion binding
A	1990817	molecular_function	poly(A) RNA polymerase activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG A 602

Chain	Residue
A	ASP100
A	ASP102
A	ATP605
A	HOH1097

---

site_id	AC2
Number of Residues	26
Details	BINDING SITE FOR RESIDUE ATP A 605

Chain	Residue
A	GLY190
A	LYS215
A	TYR224
A	ASN226
A	GLY233
A	VAL234
A	MET310
A	ALA312
A	MG602
A	HOH727
A	HOH817
A	HOH872
A	HOH880
A	HOH896
A	HOH919
A	HOH920
A	HOH966
A	HOH1000
A	HOH1088
A	HOH1097
X	A5
A	TYR87
A	GLY88
A	SER89
A	ASP100
A	ASP102

---

site_id	AC3
Number of Residues	9
Details	BINDING SITE FOR RESIDUE EDO A 701

Chain	Residue
A	LYS53
A	GLN56
A	GLU57
A	GLN60
A	TYR247
A	ARG258
A	ILE262
A	HOH827
A	HOH1142

---

site_id	AC4
Number of Residues	6
Details	BINDING SITE FOR RESIDUE EDO A 702

Chain	Residue
A	VAL16
A	ALA250
A	ARG258
A	HOH820
A	HOH911
A	HOH980

---

site_id	AC5
Number of Residues	5
Details	BINDING SITE FOR RESIDUE EDO A 703

Chain	Residue
A	LYS34
A	PHE39
A	GLU418
A	HOH733
A	HOH755

---

site_id	AC6
Number of Residues	5
Details	BINDING SITE FOR RESIDUE EDO A 704

Chain	Residue
A	ASN23
A	ASN26
A	ASP27
A	CYS251
A	HOH805

---

site_id	AC7
Number of Residues	5
Details	BINDING SITE FOR RESIDUE EDO A 705

Chain	Residue
A	SER28
A	SER344
A	TRP345
A	HOH921
A	HOH1013

---

site_id	AC8
Number of Residues	4
Details	BINDING SITE FOR RESIDUE EDO A 706

Chain	Residue
A	PRO276
A	ILE277
A	HOH746
A	HOH764

---

site_id	AC9
Number of Residues	5
Details	BINDING SITE FOR RESIDUE EDO A 707

Chain	Residue
A	GLU132
A	ILE146
A	LYS147
A	HOH731
A	HOH768

---

site_id	BC1
Number of Residues	4
Details	BINDING SITE FOR RESIDUE EDO A 708

Chain	Residue
A	GLN60
A	TYR64
A	ARG78
A	GLY81

---

site_id	BC2
Number of Residues	1
Details	BINDING SITE FOR RESIDUE EDO X 709

Chain	Residue
X	A2

---

site_id	BC3
Number of Residues	7
Details	BINDING SITE FOR RESIDUE EDO A 710

Chain	Residue
A	LYS351
A	LYS407
A	PHE409
A	VAL521
A	ASP523
A	HOH960
A	HOH1018

---

site_id	BC4
Number of Residues	4
Details	BINDING SITE FOR RESIDUE EDO A 711

Chain	Residue
A	ARG221
A	LYS351
A	ASP353
A	HOH1071

---

site_id	BC5
Number of Residues	6
Details	BINDING SITE FOR RESIDUE EDO A 712

Chain	Residue
A	GLU32
A	GLU36
A	ARG220
A	ALA346
A	PHE349
A	GLU350

---

site_id	BC6
Number of Residues	4
Details	BINDING SITE FOR RESIDUE EDO A 713

Chain	Residue
A	VAL16
A	GLY17
A	ALA18
A	ASP455

---

site_id	BC7
Number of Residues	7
Details	BINDING SITE FOR RESIDUE EDO A 714

Chain	Residue
A	HOH791
A	HOH810
A	HOH925
A	VAL49
A	LYS53
A	GLU265
A	ASN267

---

site_id	BC8
Number of Residues	4
Details	BINDING SITE FOR RESIDUE EDO X 715

Chain	Residue
A	ALA139
A	PHE140
A	HOH1054
X	A4

---

site_id	BC9
Number of Residues	4
Details	BINDING SITE FOR RESIDUE EDO A 716

Chain	Residue
A	PHE470
A	LYS478
A	VAL479
X	A1

---

site_id	CC1
Number of Residues	4
Details	BINDING SITE FOR RESIDUE EDO A 717

Chain	Residue
A	SER168
A	VAL329
A	HOH765
A	HOH944

---

Functional Information from PROSITE/UniProt

site_id	PS00430
Number of Residues	105
Details	TONB_DEPENDENT_REC_1 TonB-dependent receptor (TBDR) proteins signature 1. kvfgitgpvstvgataaenklndsliqelkkegsfeteqetanrvqvlkilqelaqrfvyevskkknmsdgmardaggkiftygsyrlgvhgpgsdi..................DTLVVVPK

Chain	Residue	Details
A	LYS5-LYS109

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	5
Details	BINDING: BINDING => ECO:0000269|PubMed:17850751

Chain	Residue	Details
A	TYR87
A	SER99
A	LYS215
A	TYR224
A	GLY233

---

site_id	SWS_FT_FI2
Number of Residues	3
Details	BINDING:

Chain	Residue	Details
A	ASP100
A	ASP102
A	ALA154

---

site_id	SWS_FT_FI3
Number of Residues	8
Details	SITE: Interaction with RNA

Chain	Residue	Details
A	PHE140
A	LYS145
A	GLN294
A	HIS314
A	ASN315
A	ARG387
A	LYS392
A	GLU487

---

site_id	SWS_FT_FI4
Number of Residues	1
Details	MOD_RES: Phosphoserine => ECO:0007744|PubMed:18407956

Chain	Residue	Details
A	SER452

---

Catalytic Information from CSA

site_id	MCSA1
Number of Residues	6
Details	M-CSA 796

Chain	Residue	Details
A	SER89	electrostatic stabiliser, polar interaction
A	ASP100	metal ligand
A	ASP102	metal ligand
A	ALA154	metal ligand
A	LYS215	electrostatic stabiliser, polar interaction
A	TYR224	electrostatic stabiliser, polar interaction

---