6F40: RNA Polymerase III open complex

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PDB ID: 6F40Download
MMDB ID: 158424
PDB Deposition Date: 2017/11/29
Updated in MMDB: 2019/12
Experimental Method:
electron microscopy
Resolution: 3.7  Å
Source Organism:
Similar Structures:
Biological Unit for 6F40: 22-meric; determined by software (PISA)
Molecular Graphic ?
6F40: RNA Polymerase III open complex
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Interactions?
AA: DNA-directed RNA polymerase III subunit RPC1BB: DNA-directed RNA polymerase III subunit RPC2CC: DNA-directed RNA polymerases I and III subunit RPAC1DD: DNA-directed RNA polymerase III subunit RPC9EE: DNA-directed RNA polymerases I, II, and III subunit RPABC1FF: DNA-directed RNA polymerases I, II, and III subunit RPABC2GG: DNA-directed RNA polymerase III subunit RPC8HH: DNA-directed RNA polymerases I, II, and III subunit RPABC3II: DNA-directed RNA polymerase III subunit RPC10JJ: DNA-directed RNA polymerases I, II, and III subunit RPABC5KK: DNA-directed RNA polymerases I and III subunit RPAC2LL: DNA-directed RNA polymerases I, II, and III subunit RPABC4MM: DNA-directed RNA polymerase III subunit RPC5NN: DNA-directed RNA polymerase III subunit RPC4OO: DNA-directed RNA polymerase III subunit RPC3PP: DNA-directed RNA polymerase III subunit RPC6QQ: DNA-directed RNA polymerase III subunit RPC7UU: TATA-box-binding proteinVV: Transcription factor IIIB 70 kDa subunitWW: Transcription factor TFIIIB component B''XX: Non-Template DNAYY: Template DNA1ZN: ZINC ION1ZN: ZINC ION1ZN: ZINC ION1ZN: ZINC ION1ZN: ZINC ION1ZN: ZINC ION1ZN: ZINC ION
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Molecular Components in 6F40
Label Count Molecule
Proteins (20 molecules)
1
DNA-directed RNA Polymerase III Subunit Rpc1
(Gene symbol: RPO31)
1 Protein
SS Diagram
3D Domains
12505007501000125014601460 residues, click to see VAST similar structures.helix 96-105helix 142-150helix 192-201helix 224-231helix 285-305helix 313-325helix 413-421helix 525-533helix 558-566helix 573-581helix 676-683helix 688-703helix 722-741helix 761-781helix 789-797helix 803-810helix 863-873helix 879-893helix 935-946helix 959-966helix 1000-1026helix 1051-1059helix 1064-1080helix 1089-1097helix 1123-1130helix 1155-1162helix 1205-1212helix 1256-1266helix 1319-1326helix 1329-1343helix 1353-1361helix 1394-1402strand 14-19strand 80-86strand 162-167strand 177-182strand 259-265strand 380-385strand 390-396strand 402-408strand 431-436strand 441-444strand 459-466strand 470-476strand 484-489strand 490-494strand 497-502strand 517-521strand 541-545strand 546-550strand 569-572strand 596-599strand 600-606strand 624-630strand 650-656strand 657-661strand 895-900strand 901-907strand 912-915strand 1139-1144strand 1171-1175strand 1182-1188strand 1228-1234strand 1277-1285strand 1291-1298strand 1314-1317strand 1403-1408Domain 1 (1-49): click to see VAST similar structures1Domain 2 (50-91): click to see VAST similar structures2Domain 3 (92-187): click to see VAST similar structures3Domain 2 (246-352): click to see VAST similar structures2Domain 4 (353-399): click to see VAST similar structures4Domain 5 (400-468): click to see VAST similar structures5Domain 4 (469-537): click to see VAST similar structures4Domain 6 (538-554): click to see VAST similar structures6Domain 7 (555-615): click to see VAST similar structures7Domain 8 (616-668): click to see VAST similar structures8Domain 9 (713-836): click to see VAST similar structures9Domain 6 (877-925): click to see VAST similar structures6Domain 10 (926-1084): click to see VAST similar structures10Domain 6 (1085-1110): click to see VAST similar structures6Domain 11 (1111-1134): click to see VAST similar structures11Domain 12 (1135-1166): click to see VAST similar structures12Domain 13 (1167-1271): click to see VAST similar structures13Domain 12 (1272-1318): click to see VAST similar structures12Domain 11 (1319-1377): click to see VAST similar structures11Domain 1 (1378-1460): click to see VAST similar structures1
1
DNA-directed RNA Polymerase III Subunit Rpc2
(Gene symbol: RET1)
1 Protein
SS Diagram
3D Domains
1250500750100011491149 residues, click to see VAST similar structures.helix 47-54helix 60-70helix 73-80helix 114-121helix 168-175helix 254-261helix 266-273helix 321-331helix 346-361helix 382-407helix 428-439helix 463-470helix 527-535helix 569-581helix 625-632helix 699-706helix 956-970helix 988-995helix 1063-1070helix 1076-1084helix 1123-1134strand 81-84strand 92-101strand 126-138strand 139-146strand 147-153strand 184-188strand 189-195strand 196-200strand 205-211strand 213-223strand 227-237strand 238-244strand 250-253strand 375-379strand 440-446strand 447-453strand 454-457strand 471-476strand 502-505strand 506-509strand 510-514strand 518-523strand 538-541strand 552-558strand 560-566strand 588-592strand 597-603strand 604-609strand 610-615strand 645-650strand 658-661strand 671-674strand 689-692strand 723-729strand 735-739strand 752-760strand 769-776strand 784-795strand 796-799strand 801-804strand 834-837strand 843-847strand 867-871strand 878-890strand 892-905strand 910-915strand 917-923strand 924-928strand 930-934strand 941-945strand 973-979strand 1004-1008strand 1018-1027strand 1089-1097strand 1098-1102strand 1115-1122Domain 1 (1-57): click to see VAST similar structures1Domain 2 (58-179): click to see VAST similar structures2Domain 3 (180-202): click to see VAST similar structures3Domain 4 (203-368): click to see VAST similar structures4Domain 3 (369-380): click to see VAST similar structures3Domain 5 (381-453): click to see VAST similar structures5Domain 3 (454-516): click to see VAST similar structures3Domain 1 (517-525): click to see VAST similar structures1Domain 6 (526-603): click to see VAST similar structures6Domain 1 (604-681): click to see VAST similar structures1Domain 7 (682-780): click to see VAST similar structures7Domain 8 (781-907): click to see VAST similar structures8Domain 7 (908-1045): click to see VAST similar structures7Domain 9 (1074-1149): click to see VAST similar structures9
1
DNA-directed RNA Polymerases I and III Subunit Rpac1
(Gene symbol: RPC40)
1 Protein
SS Diagram
3D Domains
1250335335 residues, click to see VAST similar structures.helix 62-71helix 94-101helix 243-250helix 311-326strand 3-9strand 10-14strand 40-46strand 50-58strand 76-84strand 131-143strand 156-159strand 160-164strand 167-170strand 191-196strand 200-208strand 209-212strand 223-237strand 255-259strand 264-268strand 288-295strand 296-304Domain 1 (1-73): click to see VAST similar structures1Domain 2 (74-217): click to see VAST similar structures2Domain 1 (218-335): click to see VAST similar structures1
1
DNA-directed RNA Polymerase III Subunit Rpc9
(Gene symbol: RPC17)
1 Protein
SS Diagram
1100161161 residues, click to see VAST similar structures.helix 15-26helix 57-71helix 101-110helix 149-158
1
DNA-directed RNA Polymerases I, II, and III Subunit Rpabc1
(Gene symbol: RPB5)
1 Protein
SS Diagram
3D Domains
1215215 residues, click to see VAST similar structures.helix 4-26helix 91-98helix 160-168strand 78-83strand 106-113strand 130-137strand 151-155strand 176-179strand 193-203strand 205-215Domain 1 (53-144): click to see VAST similar structures1Domain 2 (145-215): click to see VAST similar structures2
1
DNA-directed RNA Polymerases I, II, and III Subunit Rpabc2
(Gene symbol: RPO26)
1 Protein
SS Diagram
1100155155 residues, click to see VAST similar structures.helix 89-100helix 117-125strand 132-139strand 141-148
1
DNA-directed RNA Polymerase III Subunit Rpc8
(Gene symbol: RPC25)
1 Protein
SS Diagram
3D Domains
1212212 residues, click to see VAST similar structures.helix 23-34strand 2-6strand 7-14strand 36-40strand 42-49strand 52-56strand 65-77strand 83-90strand 91-94strand 95-98strand 142-148strand 149-152strand 194-200Domain 1 (1-80): click to see VAST similar structures1Domain 2 (81-212): click to see VAST similar structures2
1
DNA-directed RNA Polymerases I, II, and III Subunit Rpabc3
(Gene symbol: RPB8)
1 Protein
SS Diagram
1146146 residues, click to see VAST similar structures.strand 3-11strand 12-17strand 22-31strand 36-44strand 51-61strand 94-102strand 103-108strand 110-119strand 120-128strand 139-146
1
DNA-directed RNA Polymerase III Subunit Rpc10
(Gene symbol: RPC11)
1 Protein
SS Diagram
1110110 residues, click to see VAST similar structures.strand 13-18strand 20-25
1
DNA-directed RNA Polymerases I, II, and III Subunit Rpabc5
(Gene symbol: RPB10)
1 Protein
SS Diagram
17070 residues, click to see VAST similar structures.helix 18-26
1
DNA-directed RNA Polymerases I and III Subunit Rpac2
(Gene symbol: RPC19)
1 Protein
SS Diagram
1142142 residues, click to see VAST similar structures.helix 71-80helix 113-141strand 46-50strand 59-67strand 87-93strand 99-107
1
DNA-directed RNA Polymerases I, II, and III Subunit Rpabc4
(Gene symbol: RPC10)
1 Protein
SS Diagram
17070 residues, click to see VAST similar structures.strand 28-32strand 36-39strand 55-59
1
DNA-directed RNA Polymerase III Subunit Rpc5
(Gene symbol: RPC37)
1 Protein
SS Diagram
3D Domains
1282282 residues, click to see VAST similar structures.helix 133-140helix 190-197helix 229-236helix 252-259strand 74-79strand 85-91strand 95-98strand 99-102strand 108-115strand 116-125strand 144-154strand 158-165strand 166-173strand 174-181strand 242-245Domain 1 (1-248): click to see VAST similar structures1
1
DNA-directed RNA Polymerase III Subunit Rpc4
(Gene symbol: RPC53)
1 Protein
SS Diagram
1250422422 residues, click to see VAST similar structures.helix 276-297strand 305-309strand 361-367strand 369-376strand 378-386strand 394-400strand 405-412strand 414-420
1
DNA-directed RNA Polymerase III Subunit Rpc3
(Gene symbol: RPC82)
1 Protein
SS Diagram
3D Domains
1250500654654 residues, click to see VAST similar structures.helix 46-54helix 62-71helix 88-96helix 125-132helix 136-143helix 153-165helix 184-197helix 216-225helix 234-254helix 285-303helix 307-319helix 338-345helix 347-355helix 450-458helix 484-499helix 503-511helix 518-526helix 534-543helix 572-591helix 601-608helix 625-648strand 103-112strand 114-123strand 263-266strand 271-274strand 546-552strand 562-568Domain 1 (1-79): click to see VAST similar structures1Domain 2 (100-134): click to see VAST similar structures2Domain 3 (175-279): click to see VAST similar structures3Domain 4 (329-471): click to see VAST similar structures4Domain 5 (472-570): click to see VAST similar structures5Domain 1 (571-654): click to see VAST similar structures1
1
DNA-directed RNA Polymerase III Subunit Rpc6
(Gene symbol: RPC34)
1 Protein
SS Diagram
3D Domains
1250317317 residues, click to see VAST similar structures.helix 14-23helix 33-40helix 48-58helix 77-84helix 89-100helix 107-114helix 118-131helix 179-186helix 237-244strand 60-64strand 71-75strand 134-138strand 146-150strand 252-257strand 259-264Domain 1 (1-86): click to see VAST similar structures1Domain 2 (87-164): click to see VAST similar structures2Domain 3 (165-317): click to see VAST similar structures3
1
DNA-directed RNA Polymerase III Subunit Rpc7
(Gene symbol: RPC31)
1 Protein
SS Diagram
1251251 residues, click to see VAST similar structures.helix 58-67
1
Tata-box-binding Protein
(Gene symbol: SPT15)
1 Protein
SS Diagram
1240240 residues, click to see VAST similar structures.helix 130-144helix 223-230strand 65-78strand 101-107strand 110-117strand 119-127strand 149-152strand 158-166strand 192-199strand 200-208strand 210-216
1
Transcription Factor Iiib 70 KDA Subunit
(Gene symbol: BRF1)
1 Protein
SS Diagram
3D Domains
1250500596596 residues, click to see VAST similar structures.helix 74-94helix 106-114helix 124-137helix 144-151helix 155-168helix 196-211helix 220-232helix 241-249helix 254-264helix 289-296helix 480-490helix 494-508strand 2-5strand 7-10strand 12-17strand 19-25Domain 1 (1-49): click to see VAST similar structures1Domain 2 (50-182): click to see VAST similar structures2Domain 3 (183-276): click to see VAST similar structures3Domain 4 (277-596): click to see VAST similar structures4
1
Transcription Factor Tfiiib Component B''
(Gene symbol: BDP1)
1 Protein
SS Diagram
3D Domains
1250500594594 residues, click to see VAST similar structures.helix 294-302helix 310-317helix 384-392helix 422-434helix 452-463helix 467-475helix 484-491helix 501-535strand 364-368strand 369-374Domain 1 (307-340): click to see VAST similar structures1Domain 2 (408-479): click to see VAST similar structures2Domain 1 (480-594): click to see VAST similar structures1
Nucleotides(2 molecules)
1
Non-template DNA
1153045607581
1
Template DNA
1153045607581
Chemicals and Non-standard biopolymers (7 molecules)
7
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