6M6B: Cryo-EM structure of Thermus thermophilus Mfd in complex with RNA polymerase and ATP-gamma-S

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PDB ID: 6M6BDownload
MMDB ID: 194096
PDB Deposition Date: 2020/3/14
Updated in MMDB: 2020/10
Experimental Method:
electron microscopy
Resolution: 4.1  Å
Source Organism:
Thermus thermophilus HB8
Similar Structures:
Biological Unit for 6M6B: octameric; determined by author
Molecular Graphic ?
6M6B: Cryo-EM structure of Thermus thermophilus Mfd in complex with RNA polymerase and ATP-gamma-S
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AA: DNA-directed RNA polymerase subunit alphaBB: DNA-directed RNA polymerase subunit alphaCC: DNA-directed RNA polymerase subunit betaDD: DNA-directed RNA polymerase subunit beta'EE: DNA-directed RNA polymerase subunit omegaMM: Transcription-repair-coupling factorTT: template strand DNANN: nontemplate strand DNA1ZN: ZINC ION1ZN: ZINC ION2MG: MAGNESIUM ION3AGS: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
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Data Set:
Molecular Components in 6M6B
Label Count Molecule
Proteins (6 molecules)
2
DNA-directed RNA Polymerase Subunit Alpha
2 Proteins
SS Diagram
3D Domains
1250315315 residues, click to see VAST similar structures.helix 33-45helix 76-84helix 207-223strand 10-17strand 19-26strand 27-30strand 49-59strand 86-90strand 95-103strand 104-111strand 119-123strand 127-134strand 136-144strand 145-148strand 149-153strand 164-172strand 173-181strand 182-185strand 191-202Domain 1 (1-47): click to see VAST similar structures1Domain 2 (48-172): click to see VAST similar structures2Domain 1 (173-315): click to see VAST similar structures1
1
DNA-directed RNA Polymerase Subunit Beta
1 Protein
SS Diagram
3D Domains
1250500750100011191119 residues, click to see VAST similar structures.helix 21-30helix 44-51helix 79-87helix 193-201helix 203-211helix 215-222helix 231-242helix 250-260helix 271-281helix 304-315helix 336-359helix 377-387helix 400-408helix 555-564helix 583-590helix 769-778helix 884-897helix 912-930helix 938-950helix 959-969helix 1034-1043helix 1046-1053helix 1060-1072helix 1083-1095strand 2-6strand 66-70strand 71-76strand 90-104strand 105-120strand 126-130strand 131-142strand 144-150strand 158-164strand 171-178strand 180-187strand 188-192strand 290-295strand 296-301strand 331-335strand 391-394strand 409-412strand 451-455strand 459-463strand 465-476strand 477-480strand 483-487strand 495-498strand 502-505strand 507-510strand 512-517strand 520-525strand 530-533strand 578-581strand 594-597strand 598-602strand 603-608strand 609-616strand 618-625strand 627-632strand 633-642strand 647-651strand 653-659strand 660-663strand 664-667strand 669-677strand 686-692strand 700-716strand 717-723strand 747-750strand 751-756strand 757-762strand 784-793strand 796-800strand 801-808strand 820-833strand 837-842strand 844-854strand 857-862strand 864-867strand 868-872strand 899-903strand 974-978strand 988-997Domain 1 (1-13): click to see VAST similar structures1Domain 2 (14-143): click to see VAST similar structures2Domain 3 (144-323): click to see VAST similar structures3Domain 2 (324-457): click to see VAST similar structures2Domain 4 (458-544): click to see VAST similar structures4Domain 1 (545-592): click to see VAST similar structures1Domain 5 (593-659): click to see VAST similar structures5Domain 1 (660-696): click to see VAST similar structures1Domain 6 (697-835): click to see VAST similar structures6Domain 1 (836-1015): click to see VAST similar structures1Domain 7 (1016-1077): click to see VAST similar structures7
1
DNA-directed RNA Polymerase Subunit Beta'
1 Protein
SS Diagram
3D Domains
12505007501000125015241524 residues, click to see VAST similar structures.helix 14-22helix 110-117helix 120-128helix 155-162helix 458-466helix 471-482helix 486-505helix 540-560helix 565-582helix 646-654helix 655-663helix 670-677helix 686-695helix 753-761helix 783-793helix 810-818helix 846-855helix 877-890helix 893-900helix 908-921helix 925-944helix 960-980helix 985-1014helix 1019-1026helix 1031-1039helix 1067-1089helix 1090-1102helix 1137-1144helix 1168-1180helix 1222-1230helix 1256-1264helix 1332-1339helix 1342-1359helix 1366-1376helix 1398-1410helix 1423-1430helix 1433-1440helix 1444-1452helix 1462-1469helix 1490-1500strand 7-11strand 23-26strand 32-35strand 36-39strand 55-58strand 71-75strand 76-82strand 89-95strand 98-101strand 131-136strand 140-143strand 144-147strand 149-154strand 166-171strand 182-186strand 187-192strand 194-198strand 199-202strand 391-396strand 397-403strand 413-417strand 418-422strand 426-431strand 432-440strand 441-449strand 452-456strand 512-515strand 516-521strand 525-531strand 533-538strand 625-633strand 640-645strand 699-704strand 712-717strand 718-721strand 725-728strand 744-749strand 769-772strand 774-777strand 802-807strand 826-830strand 831-835strand 841-845strand 862-869strand 870-876strand 1106-1109strand 1117-1122strand 1123-1127strand 1130-1134strand 1147-1150strand 1151-1156strand 1157-1162strand 1163-1166strand 1184-1189strand 1199-1202strand 1272-1275strand 1277-1287strand 1288-1297strand 1298-1306strand 1316-1321strand 1323-1326strand 1377-1383strand 1392-1397strand 1415-1420strand 1454-1458Domain 1 (1-12): click to see VAST similar structures1Domain 2 (13-29): click to see VAST similar structures2Domain 3 (48-85): click to see VAST similar structures3Domain 2 (86-105): click to see VAST similar structures2Domain 4 (106-164): click to see VAST similar structures4Domain 5 (165-396): click to see VAST similar structures5Domain 6 (397-450): click to see VAST similar structures6Domain 4 (451-468): click to see VAST similar structures4Domain 1 (469-508): click to see VAST similar structures1Domain 2 (509-523): click to see VAST similar structures2Domain 7 (524-603): click to see VAST similar structures7Domain 8 (604-765): click to see VAST similar structures8Domain 9 (766-797): click to see VAST similar structures9Domain 10 (798-838): click to see VAST similar structures10Domain 9 (839-952): click to see VAST similar structures9Domain 11 (953-1053): click to see VAST similar structures11Domain 12 (1090-1104): click to see VAST similar structures12Domain 13 (1114-1194): click to see VAST similar structures13Domain 12 (1213-1268): click to see VAST similar structures12Domain 14 (1269-1329): click to see VAST similar structures14Domain 12 (1330-1376): click to see VAST similar structures12Domain 15 (1377-1421): click to see VAST similar structures15Domain 12 (1422-1431): click to see VAST similar structures12Domain 1 (1432-1479): click to see VAST similar structures1
1
DNA-directed RNA Polymerase Subunit Omega
1 Protein
SS Diagram
3D Domains
19999 residues, click to see VAST similar structures.helix 5-13helix 16-33helix 61-70helix 83-92strand 46-51strand 52-57Domain 1 (1-76): click to see VAST similar structures1
1
Transcription-repair-coupling Factor
1 Protein
SS Diagram
3D Domains
1250500750978978 residues, click to see VAST similar structures.helix 408-419helix 445-459helix 478-490helix 501-515helix 531-542helix 578-588helix 637-650helix 665-674helix 689-701helix 735-743helix 764-774helix 782-795helix 814-824strand 322-328strand 330-335strand 336-340strand 349-356strand 357-363strand 371-374strand 463-470strand 493-499strand 521-526strand 547-552strand 566-572strand 591-596strand 613-618strand 628-634strand 653-658strand 679-683strand 705-710strand 723-728strand 752-758Domain 1 (1-391): click to see VAST similar structures1Domain 2 (433-623): click to see VAST similar structures2Domain 3 (624-804): click to see VAST similar structures3
Nucleotides(2 molecules)
1
Template Strand DNA
110203040506063
1
Nontemplate Strand DNA
110203040506063
Chemicals and Non-standard biopolymers (4 molecules)
2
1
1
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