8WAW

De novo transcribing complex 13 (TC13), the early elongation complex with Pol II positioned 13nt downstream of TSS

Functional Information from GO Data

Chain	GOid	namespace	contents
o	0001172	biological_process	RNA-templated transcription
o	0003676	molecular_function	nucleic acid binding
o	0003677	molecular_function	DNA binding
o	0003899	molecular_function	DNA-directed RNA polymerase activity
o	0003968	molecular_function	RNA-directed RNA polymerase activity
o	0005634	cellular_component	nucleus
o	0005654	cellular_component	nucleoplasm
o	0005694	cellular_component	chromosome
o	0005737	cellular_component	cytoplasm
o	0006351	biological_process	DNA-templated transcription
o	0006366	biological_process	transcription by RNA polymerase II
p	0000781	cellular_component	chromosome, telomeric region
p	0001172	biological_process	RNA-templated transcription
p	0003677	molecular_function	DNA binding
p	0003682	molecular_function	chromatin binding
p	0003899	molecular_function	DNA-directed RNA polymerase activity
p	0003968	molecular_function	RNA-directed RNA polymerase activity
p	0005634	cellular_component	nucleus
p	0005654	cellular_component	nucleoplasm
p	0005665	cellular_component	RNA polymerase II, core complex
p	0006351	biological_process	DNA-templated transcription
p	0006354	biological_process	DNA-templated transcription elongation
p	0006366	biological_process	transcription by RNA polymerase II
p	0006367	biological_process	transcription initiation at RNA polymerase II promoter
p	0006368	biological_process	transcription elongation by RNA polymerase II
p	0032549	molecular_function	ribonucleoside binding
p	0034062	molecular_function	5'-3' RNA polymerase activity
q	0003677	molecular_function	DNA binding
q	0003899	molecular_function	DNA-directed RNA polymerase activity
q	0005634	cellular_component	nucleus
q	0005654	cellular_component	nucleoplasm
q	0005665	cellular_component	RNA polymerase II, core complex
q	0006351	biological_process	DNA-templated transcription
q	0006366	biological_process	transcription by RNA polymerase II
q	0006367	biological_process	transcription initiation at RNA polymerase II promoter
q	0006368	biological_process	transcription elongation by RNA polymerase II
q	0046983	molecular_function	protein dimerization activity
r	0000166	molecular_function	nucleotide binding
r	0005634	cellular_component	nucleus
r	0005665	cellular_component	RNA polymerase II, core complex
r	0006352	biological_process	DNA-templated transcription initiation
r	0030880	cellular_component	RNA polymerase complex
s	0003677	molecular_function	DNA binding
s	0003899	molecular_function	DNA-directed RNA polymerase activity
s	0005634	cellular_component	nucleus
s	0005665	cellular_component	RNA polymerase II, core complex
s	0005666	cellular_component	RNA polymerase III complex
s	0005736	cellular_component	RNA polymerase I complex
s	0006351	biological_process	DNA-templated transcription
s	0006362	biological_process	transcription elongation by RNA polymerase I
s	0006366	biological_process	transcription by RNA polymerase II
s	0042797	biological_process	tRNA transcription by RNA polymerase III
S	0001091	molecular_function	RNA polymerase II general transcription initiation factor binding
S	0001096	molecular_function	TFIIF-class transcription factor complex binding
S	0003677	molecular_function	DNA binding
S	0003723	molecular_function	RNA binding
S	0005515	molecular_function	protein binding
S	0005634	cellular_component	nucleus
S	0005654	cellular_component	nucleoplasm
S	0005669	cellular_component	transcription factor TFIID complex
S	0005674	cellular_component	transcription factor TFIIF complex
S	0006366	biological_process	transcription by RNA polymerase II
S	0006367	biological_process	transcription initiation at RNA polymerase II promoter
S	0006368	biological_process	transcription elongation by RNA polymerase II
S	0009615	biological_process	response to virus
S	0016251	molecular_function	RNA polymerase II general transcription initiation factor activity
S	0019211	molecular_function	phosphatase activator activity
S	0019903	molecular_function	protein phosphatase binding
S	0019904	molecular_function	protein domain specific binding
S	0032091	biological_process	negative regulation of protein binding
S	0032968	biological_process	positive regulation of transcription elongation by RNA polymerase II
S	0032991	cellular_component	protein-containing complex
S	0045944	biological_process	positive regulation of transcription by RNA polymerase II
S	1990841	molecular_function	promoter-specific chromatin binding
t	0001650	cellular_component	fibrillar center
t	0003677	molecular_function	DNA binding
t	0003899	molecular_function	DNA-directed RNA polymerase activity
t	0005634	cellular_component	nucleus
t	0005654	cellular_component	nucleoplasm
t	0005665	cellular_component	RNA polymerase II, core complex
t	0005666	cellular_component	RNA polymerase III complex
t	0005736	cellular_component	RNA polymerase I complex
t	0006351	biological_process	DNA-templated transcription
t	0006360	biological_process	transcription by RNA polymerase I
t	0006362	biological_process	transcription elongation by RNA polymerase I
t	0006366	biological_process	transcription by RNA polymerase II
t	0006367	biological_process	transcription initiation at RNA polymerase II promoter
t	0006368	biological_process	transcription elongation by RNA polymerase II
t	0006383	biological_process	transcription by RNA polymerase III
t	0006384	biological_process	transcription initiation at RNA polymerase III promoter
t	0006386	biological_process	termination of RNA polymerase III transcription
t	0042797	biological_process	tRNA transcription by RNA polymerase III
T	0005515	molecular_function	protein binding
T	0005634	cellular_component	nucleus
T	0005654	cellular_component	nucleoplasm
T	0005674	cellular_component	transcription factor TFIIF complex
T	0006366	biological_process	transcription by RNA polymerase II
T	0006367	biological_process	transcription initiation at RNA polymerase II promoter
T	0006368	biological_process	transcription elongation by RNA polymerase II
T	0015630	cellular_component	microtubule cytoskeleton
T	0016251	molecular_function	RNA polymerase II general transcription initiation factor activity
T	0045944	biological_process	positive regulation of transcription by RNA polymerase II
u	0003676	molecular_function	nucleic acid binding
u	0005634	cellular_component	nucleus
u	0006351	biological_process	DNA-templated transcription
u	0006352	biological_process	DNA-templated transcription initiation
u	0055029	cellular_component	nuclear DNA-directed RNA polymerase complex
v	0003899	molecular_function	DNA-directed RNA polymerase activity
v	0005634	cellular_component	nucleus
v	0005654	cellular_component	nucleoplasm
v	0005665	cellular_component	RNA polymerase II, core complex
v	0005666	cellular_component	RNA polymerase III complex
v	0005736	cellular_component	RNA polymerase I complex
v	0006351	biological_process	DNA-templated transcription
w	0001193	biological_process	maintenance of transcriptional fidelity during transcription elongation by RNA polymerase II
w	0003676	molecular_function	nucleic acid binding
w	0003899	molecular_function	DNA-directed RNA polymerase activity
w	0005634	cellular_component	nucleus
w	0005654	cellular_component	nucleoplasm
w	0005665	cellular_component	RNA polymerase II, core complex
w	0005730	cellular_component	nucleolus
w	0006283	biological_process	transcription-coupled nucleotide-excision repair
w	0006351	biological_process	DNA-templated transcription
w	0006366	biological_process	transcription by RNA polymerase II
w	0006367	biological_process	transcription initiation at RNA polymerase II promoter
w	0006368	biological_process	transcription elongation by RNA polymerase II
w	0008270	molecular_function	zinc ion binding
x	0003677	molecular_function	DNA binding
x	0003899	molecular_function	DNA-directed RNA polymerase activity
x	0005634	cellular_component	nucleus
x	0005665	cellular_component	RNA polymerase II, core complex
x	0005666	cellular_component	RNA polymerase III complex
x	0005736	cellular_component	RNA polymerase I complex
x	0006351	biological_process	DNA-templated transcription
x	0006360	biological_process	transcription by RNA polymerase I
x	0006366	biological_process	transcription by RNA polymerase II
x	0008270	molecular_function	zinc ion binding
x	0042797	biological_process	tRNA transcription by RNA polymerase III
y	0003677	molecular_function	DNA binding
y	0003899	molecular_function	DNA-directed RNA polymerase activity
y	0005634	cellular_component	nucleus
y	0005665	cellular_component	RNA polymerase II, core complex
y	0006351	biological_process	DNA-templated transcription
y	0006366	biological_process	transcription by RNA polymerase II
y	0046983	molecular_function	protein dimerization activity
z	0001650	cellular_component	fibrillar center
z	0003677	molecular_function	DNA binding
z	0003899	molecular_function	DNA-directed RNA polymerase activity
z	0005634	cellular_component	nucleus
z	0005654	cellular_component	nucleoplasm
z	0005665	cellular_component	RNA polymerase II, core complex
z	0005666	cellular_component	RNA polymerase III complex
z	0005730	cellular_component	nucleolus
z	0005736	cellular_component	RNA polymerase I complex
z	0006351	biological_process	DNA-templated transcription
z	0006362	biological_process	transcription elongation by RNA polymerase I
z	0006366	biological_process	transcription by RNA polymerase II
z	0006367	biological_process	transcription initiation at RNA polymerase II promoter
z	0006368	biological_process	transcription elongation by RNA polymerase II
z	0006383	biological_process	transcription by RNA polymerase III
z	0006384	biological_process	transcription initiation at RNA polymerase III promoter
z	0006386	biological_process	termination of RNA polymerase III transcription
z	0008270	molecular_function	zinc ion binding

Functional Information from PROSITE/UniProt

site_id	PS00018
Number of Residues	13
Details	EF_HAND_1 EF-hand calcium-binding domain. DNDPSDYVEqdDI

Chain	Residue	Details
q	ASP136-ILE148

---

site_id	PS00290
Number of Residues	7
Details	IG_MHC Immunoglobulins and major histocompatibility complex proteins signature. YVCTAPH

Chain	Residue	Details
w	TYR112-HIS118

---

site_id	PS00446
Number of Residues	41
Details	RNA_POL_D_30KD RNA polymerases D / 30 to 40 Kd subunits signature. NSIRRvfiaevpiiAidwVqidaNsSvlhDEfIAhRLGLIP

Chain	Residue	Details
q	ASN32-PRO72

---

site_id	PS00466
Number of Residues	38
Details	ZF_TFIIS_1 Zinc finger TFIIS-type signature. CqkCghkeavffqSHSARaEDAmrlyyvCtaph.CghrW

Chain	Residue	Details
w	CYS86-TRP123

---

site_id	PS01030
Number of Residues	27
Details	RNA_POL_M_15KD RNA polymerases M / 15 Kd subunits signature. FCQECNNMLypkedkenrillyaCrnC

Chain	Residue	Details
w	PHE16-CYS42

---

site_id	PS01110
Number of Residues	14
Details	RNA_POL_H_23KD RNA polymerases H / 23 Kd subunits signature. HELVPEHvvMtkEE

Chain	Residue	Details
s	HIS142-GLU155

---

site_id	PS01111
Number of Residues	15
Details	RNA_POL_K_14KD RNA polymerases K / 14 to 18 Kd subunits signature. TkYErARvLGtRAlQ

Chain	Residue	Details
t	THR58-GLN72

---

site_id	PS01112
Number of Residues	10
Details	RNA_POL_N_8KD RNA polymerases N / 8 Kd subunits signature. IIPVrCFTCG

Chain	Residue	Details
x	ILE2-GLY11

---

site_id	PS01154
Number of Residues	32
Details	RNA_POL_L_13KD RNA polymerases L / 13 to 16 Kd subunits signature. InkEdHTLgNiIksqLlkdpqVlfagYkvpHP

Chain	Residue	Details
y	ILE35-PRO66

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	1
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	1
Details	Modified residue: {"description":"N-acetylalanine","evidences":[{"source":"PubMed","id":"19413330","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	2
Details	Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI34
Number of Residues	25
Details	Zinc finger: {"description":"C4-type","evidences":[{"evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI35
Number of Residues	42
Details	Zinc finger: {"description":"TFIIS-type","evidences":[{"source":"PROSITE-ProRule","id":"PRU00472","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI36
Number of Residues	4
Details	Binding site: {"evidences":[{"source":"PROSITE-ProRule","id":"PRU10145","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI37
Number of Residues	4
Details	Binding site: {"evidences":[{"source":"PROSITE-ProRule","id":"PRU00472","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---