9GD7: DNA-PK Ku80 mediated dimer
DNA-PK Ku80 mediated dimer bound to DNA polymerase Lambda and DNA ligase 4/XRCC4. Determined by electron microscopy at 4.25 Å resolution. Released 13 Aug 2025.
- Method
- Electron microscopy
- Resolution
- 4.25 Å
- Organism
- Homo sapiens
- Chains
- 10
- Atoms
- 41,717
- Mol. weight
- 903.85 kDa
- Released
- 13 Aug 2025
Explore 9GD7 in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
9GD7 contains 266 α-helices and 97 β-strands across 8 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.
Chain A: 6 helices, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 40-43 | 4 | |
| β-strand | 47-48 | 2 | 31 |
| α-helix | 55-67 | 13 | |
| β-strand | 82-85 | 4 | 31 |
| α-helix | 91-97 | 7 | |
| α-helix | 103-104 | 2 | |
| β-strand | 108-111 | 4 | 31 |
| α-helix | 112-121 | 10 | |
| β-strand | 131 | 1 | 31 |
| α-helix | 132-133 | 2 | |
Chain E: 9 helices, 8 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 664-665 | 2 | 1 |
| α-helix | 676-685 | 10 | |
| β-strand | 690 | 1 | 1 |
| β-strand | 699-700 | 2 | 1 |
| β-strand | 701 | 1 | 2 |
| α-helix | 707-714 | 8 | |
| β-strand | 721 | 1 | 2 |
| α-helix | 723-732 | 10 | |
| β-strand | 743 | 1 | 2 |
| α-helix | 748-757 | 10 | |
| α-helix | 771-780 | 10 | |
| α-helix | 789-803 | 15 | |
| β-strand | 814 | 1 | 3 |
| α-helix | 838-843 | 6 | |
| β-strand | 851 | 1 | 3 |
| α-helix | 869-871 | 3 | |
| α-helix | 872-881 | 10 | |
Chain L: 26 helices, 29 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 8-15 | 8 | 4 |
| α-helix | 30-48 | 19 | |
| β-strand | 54 | 1 | 5 |
| β-strand | 56-59 | 4 | 4 |
| β-strand | 65 | 1 | 4 |
| β-strand | 77-79 | 3 | 4 |
| β-strand | 84 | 1 | 5 |
| α-helix | 88-96 | 9 | |
| α-helix | 107-121 | 15 | |
| β-strand | 129-135 | 7 | 4 |
| α-helix | 147-155 | 9 | |
| β-strand | 160-165 | 6 | 4 |
| α-helix | 199-215 | 17 | |
| α-helix | 218-223 | 6 | |
| β-strand | 225-226 | 2 | 4 |
| α-helix | 238-240 | 3 | |
| β-strand | 246-253 | 8 | 6 |
| β-strand | 257-267 | 11 | 6 |
| β-strand | 277-279 | 3 | 7 |
| β-strand | 289-297 | 9 | 8 |
| β-strand | 303-304 | 2 | 8 |
| β-strand | 310-311 | 2 | 9 |
| β-strand | 313-315 | 3 | 10 |
| β-strand | 317 | 1 | 11 |
| β-strand | 320-322 | 3 | 10 |
| α-helix | 326-331 | 6 | |
| β-strand | 340-347 | 8 | 6 |
| α-helix | 353-355 | 3 | |
| β-strand | 357-364 | 8 | 6 |
| β-strand | 366 | 1 | 6 |
| α-helix | 371-387 | 17 | |
| β-strand | 389-395 | 7 | 6 |
| α-helix | 402-403 | 2 | |
| β-strand | 404-412 | 9 | 6 |
| β-strand | 417-423 | 7 | 6 |
| β-strand | 430 | 1 | 12 |
| α-helix | 442-444 | 3 | |
| α-helix | 448-461 | 14 | |
| β-strand | 462 | 1 | 13 |
| β-strand | 466 | 1 | 14 |
| α-helix | 467 | 1 | |
| β-strand | 473 | 1 | 14 |
| α-helix | 485-499 | 15 | |
| α-helix | 504-506 | 3 | |
| α-helix | 510-514 | 5 | |
| α-helix | 518-519 | 2 | |
| α-helix | 520-536 | 17 | |
| β-strand | 540-541 | 2 | 15 |
| α-helix | 595-604 | 10 | |
| α-helix | 610-621 | 12 | |
| α-helix | 629-648 | 20 | |
| α-helix | 652-666 | 15 | |
| α-helix | 676-680 | 5 | |
| α-helix | 681-683 | 3 | |
| α-helix | 694-701 | 8 | |
Chain M: 1 helix, 2 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 183 | 1 | 16 |
| β-strand | 191 | 1 | 16 |
| α-helix | 194-196 | 3 | |
Chain P: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 146-197 | 52 | |
Chain Q: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 146-199 | 54 | |
Chain S: 205 helices, 28 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 12-20 | 9 | |
| α-helix | 29-46 | 18 | |
| α-helix | 52-69 | 18 | |
| α-helix | 76-96 | 21 | |
| α-helix | 101-116 | 16 | |
| α-helix | 118-122 | 5 | |
| α-helix | 125-140 | 16 | |
| α-helix | 145-148 | 4 | |
| α-helix | 150-160 | 11 | |
| α-helix | 171-173 | 3 | |
| α-helix | 174-177 | 4 | |
| α-helix | 187-207 | 21 | |
| α-helix | 220-231 | 12 | |
| α-helix | 241-251 | 11 | |
| α-helix | 266-278 | 13 | |
| α-helix | 290-300 | 11 | |
| α-helix | 306-329 | 24 | |
| α-helix | 334-336 | 3 | |
| α-helix | 337-341 | 5 | |
| α-helix | 342-347 | 6 | |
| α-helix | 357-368 | 12 | |
| α-helix | 371-375 | 5 | |
| α-helix | 378-395 | 18 | |
| α-helix | 410-423 | 14 | |
| α-helix | 429-431 | 3 | |
| α-helix | 432-444 | 13 | |
| α-helix | 451-468 | 18 | |
| α-helix | 472-492 | 21 | |
| α-helix | 525-527 | 3 | |
| α-helix | 528-536 | 9 | |
| α-helix | 538-545 | 8 | |
| α-helix | 560-578 | 19 | |
| β-strand | 583-584 | 2 | 17 |
| β-strand | 613-614 | 2 | 17 |
| α-helix | 617-633 | 17 | |
| α-helix | 645-659 | 15 | |
| α-helix | 664-679 | 16 | |
| α-helix | 698-717 | 20 | |
| α-helix | 718-720 | 3 | |
| α-helix | 726-734 | 9 | |
| α-helix | 740-742 | 3 | |
| α-helix | 745-759 | 15 | |
| α-helix | 763-779 | 17 | |
| α-helix | 789-792 | 4 | |
| α-helix | 793-797 | 5 | |
| α-helix | 835-838 | 4 | |
| α-helix | 849-862 | 14 | |
| α-helix | 864-867 | 4 | |
| β-strand | 894-895 | 2 | 18 |
| β-strand | 904-905 | 2 | 18 |
| α-helix | 911-919 | 9 | |
| α-helix | 924-947 | 24 | |
| α-helix | 959-973 | 15 | |
| α-helix | 978-995 | 18 | |
| α-helix | 998-1000 | 3 | |
| α-helix | 1005-1017 | 13 | |
| α-helix | 1023-1043 | 21 | |
| α-helix | 1046-1051 | 6 | |
| α-helix | 1056-1068 | 13 | |
| α-helix | 1072-1089 | 18 | |
| α-helix | 1094-1098 | 5 | |
| α-helix | 1101-1117 | 17 | |
| α-helix | 1123-1140 | 18 | |
| α-helix | 1143-1146 | 4 | |
| β-strand | 1149 | 1 | 19 |
| β-strand | 1163 | 1 | 19 |
| α-helix | 1165-1174 | 10 | |
| α-helix | 1181-1194 | 14 | |
| α-helix | 1195-1197 | 3 | |
| α-helix | 1205-1212 | 8 | |
| α-helix | 1219-1222 | 4 | |
| α-helix | 1232-1237 | 6 | |
| α-helix | 1250-1272 | 23 | |
| α-helix | 1278-1280 | 3 | |
| α-helix | 1289-1299 | 11 | |
| α-helix | 1328-1351 | 24 | |
| α-helix | 1358-1361 | 4 | |
| α-helix | 1369-1377 | 9 | |
| α-helix | 1390-1393 | 4 | |
| α-helix | 1395-1408 | 14 | |
| α-helix | 1412-1422 | 11 | |
| α-helix | 1431-1433 | 3 | |
| α-helix | 1443-1460 | 18 | |
| α-helix | 1478-1490 | 13 | |
| α-helix | 1505-1520 | 16 | |
| α-helix | 1524-1532 | 9 | |
| α-helix | 1556-1573 | 18 | |
| α-helix | 1577-1585 | 9 | |
| α-helix | 1591-1606 | 16 | |
| α-helix | 1613-1624 | 12 | |
| α-helix | 1639-1655 | 17 | |
| α-helix | 1668-1679 | 12 | |
| α-helix | 1686-1693 | 8 | |
| α-helix | 1708-1721 | 14 | |
| α-helix | 1734-1753 | 20 | |
| α-helix | 1756-1766 | 11 | |
| α-helix | 1775-1786 | 12 | |
| α-helix | 1791-1804 | 14 | |
| α-helix | 1817-1819 | 3 | |
| α-helix | 1820-1824 | 5 | |
| α-helix | 1825-1829 | 5 | |
| α-helix | 1833-1848 | 16 | |
| α-helix | 1864-1880 | 17 | |
| α-helix | 1915-1920 | 6 | |
| α-helix | 1936-1952 | 17 | |
| α-helix | 2036-2047 | 12 | |
| α-helix | 2095-2106 | 12 | |
| α-helix | 2127-2134 | 8 | |
| α-helix | 2140-2153 | 14 | |
| α-helix | 2158-2160 | 3 | |
| α-helix | 2161-2172 | 12 | |
| α-helix | 2182-2193 | 12 | |
| α-helix | 2206-2221 | 16 | |
| α-helix | 2230-2244 | 15 | |
| α-helix | 2255-2261 | 7 | |
| α-helix | 2271-2281 | 11 | |
| α-helix | 2301-2308 | 8 | |
| α-helix | 2313-2328 | 16 | |
| α-helix | 2330-2333 | 4 | |
| α-helix | 2339-2350 | 12 | |
| α-helix | 2360-2368 | 9 | |
| α-helix | 2372-2377 | 6 | |
| α-helix | 2379-2384 | 6 | |
| α-helix | 2386-2388 | 3 | |
| α-helix | 2392-2402 | 11 | |
| α-helix | 2412-2418 | 7 | |
| α-helix | 2420-2425 | 6 | |
| α-helix | 2429-2442 | 14 | |
| α-helix | 2443-2445 | 3 | |
| α-helix | 2448-2459 | 12 | |
| α-helix | 2468-2483 | 16 | |
| α-helix | 2493-2508 | 16 | |
| α-helix | 2515-2526 | 12 | |
| α-helix | 2535-2544 | 10 | |
| α-helix | 2554-2564 | 11 | |
| β-strand | 2575 | 1 | 20 |
| β-strand | 2587-2588 | 2 | 21 |
| α-helix | 2724-2729 | 6 | |
| α-helix | 2733-2735 | 3 | |
| α-helix | 2738-2763 | 26 | |
| α-helix | 2766-2769 | 4 | |
| β-strand | 2776-2777 | 2 | 21 |
| β-strand | 2786 | 1 | 20 |
| α-helix | 2788-2800 | 13 | |
| α-helix | 2802-2820 | 19 | |
| α-helix | 2826-2846 | 21 | |
| α-helix | 2852-2863 | 12 | |
| α-helix | 2866-2868 | 3 | |
| α-helix | 2873-2883 | 11 | |
| α-helix | 2886-2899 | 14 | |
| α-helix | 2920-2933 | 14 | |
| α-helix | 2937-2943 | 7 | |
| α-helix | 2951-2960 | 10 | |
| α-helix | 2965-2976 | 12 | |
| α-helix | 2985-2987 | 3 | |
| α-helix | 2988-3004 | 17 | |
| α-helix | 3008-3014 | 7 | |
| α-helix | 3035-3053 | 19 | |
| α-helix | 3060-3069 | 10 | |
| α-helix | 3072-3092 | 21 | |
| α-helix | 3096-3116 | 21 | |
| α-helix | 3122-3142 | 21 | |
| α-helix | 3156-3161 | 6 | |
| α-helix | 3163-3166 | 4 | |
| α-helix | 3176-3195 | 20 | |
| α-helix | 3227-3248 | 22 | |
| α-helix | 3256-3264 | 9 | |
| β-strand | 3267 | 1 | 22 |
| β-strand | 3269 | 1 | 22 |
| α-helix | 3270-3286 | 17 | |
| α-helix | 3292-3298 | 7 | |
| β-strand | 3300 | 1 | 23 |
| β-strand | 3303 | 1 | 23 |
| α-helix | 3305-3307 | 3 | |
| α-helix | 3320-3343 | 24 | |
| α-helix | 3348-3351 | 4 | |
| α-helix | 3355-3362 | 8 | |
| α-helix | 3370-3392 | 23 | |
| α-helix | 3408-3427 | 20 | |
| α-helix | 3442-3454 | 13 | |
| α-helix | 3459-3462 | 4 | |
| α-helix | 3465-3474 | 10 | |
| α-helix | 3476-3479 | 4 | |
| α-helix | 3481-3484 | 4 | |
| β-strand | 3493 | 1 | 24 |
| α-helix | 3496-3498 | 3 | |
| α-helix | 3499-3507 | 9 | |
| α-helix | 3513-3524 | 12 | |
| α-helix | 3530-3535 | 6 | |
| α-helix | 3548-3561 | 14 | |
| α-helix | 3565-3576 | 12 | |
| α-helix | 3581-3594 | 14 | |
| α-helix | 3606-3613 | 8 | |
| α-helix | 3614-3618 | 5 | |
| α-helix | 3628-3632 | 5 | |
| α-helix | 3633-3637 | 5 | |
| α-helix | 3638-3643 | 6 | |
| α-helix | 3658-3668 | 11 | |
| α-helix | 3685-3688 | 4 | |
| α-helix | 3697-3698 | 2 | |
| β-strand | 3700 | 1 | 25 |
| β-strand | 3709 | 1 | 24 |
| β-strand | 3718 | 1 | 25 |
| β-strand | 3719 | 1 | 26 |
| β-strand | 3727-3728 | 2 | 27 |
| β-strand | 3736-3738 | 3 | 27 |
| β-strand | 3742 | 1 | 26 |
| β-strand | 3750-3753 | 4 | 27 |
| α-helix | 3760-3777 | 18 | |
| α-helix | 3779-3783 | 5 | |
| β-strand | 3793-3797 | 5 | 27 |
| β-strand | 3800-3804 | 5 | 27 |
| β-strand | 3810-3811 | 2 | 28 |
| α-helix | 3812-3819 | 8 | |
| α-helix | 3822-3830 | 9 | |
| α-helix | 3834-3838 | 5 | |
| α-helix | 3854-3860 | 7 | |
| α-helix | 3864-3877 | 14 | |
| α-helix | 3882-3890 | 9 | |
| α-helix | 3894-3917 | 24 | |
| α-helix | 3925-3927 | 3 | |
| β-strand | 3928-3931 | 4 | 28 |
| β-strand | 3936-3939 | 4 | 28 |
| α-helix | 3948-3952 | 5 | |
| α-helix | 3965-3968 | 4 | |
| α-helix | 3979-3988 | 10 | |
| α-helix | 3998-4002 | 5 | |
| α-helix | 4040-4052 | 13 | |
| α-helix | 4056-4064 | 9 | |
| α-helix | 4074-4082 | 9 | |
| α-helix | 4101-4109 | 9 | |
| α-helix | 4113-4118 | 6 | |
| α-helix | 4122-4124 | 3 | |
Chain T: 17 helices, 26 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 35-43 | 9 | 29 |
| α-helix | 57-58 | 2 | |
| α-helix | 59-78 | 20 | |
| β-strand | 82-88 | 7 | 29 |
| β-strand | 94 | 1 | 29 |
| β-strand | 102-109 | 8 | 29 |
| β-strand | 112 | 1 | 11 |
| α-helix | 113-120 | 8 | |
| α-helix | 124-134 | 11 | |
| α-helix | 143-155 | 13 | |
| β-strand | 161-170 | 10 | 29 |
| α-helix | 180-195 | 16 | |
| β-strand | 200 | 1 | 29 |
| β-strand | 203-204 | 2 | 29 |
| α-helix | 239-243 | 5 | |
| β-strand | 257-262 | 6 | 13 |
| β-strand | 268-274 | 7 | 13 |
| β-strand | 277 | 1 | 12 |
| α-helix | 282-285 | 4 | |
| β-strand | 288-289 | 2 | 9 |
| α-helix | 296 | 1 | |
| β-strand | 297-304 | 8 | 8 |
| β-strand | 310 | 1 | 8 |
| β-strand | 317-321 | 5 | 7 |
| β-strand | 326-329 | 4 | 7 |
| α-helix | 331-338 | 8 | |
| β-strand | 344-352 | 9 | 13 |
| β-strand | 366-370 | 5 | 13 |
| β-strand | 375-376 | 2 | 15 |
| α-helix | 378-392 | 15 | |
| β-strand | 394-401 | 8 | 13 |
| β-strand | 409-416 | 8 | 13 |
| β-strand | 419-420 | 2 | 30 |
| β-strand | 426-428 | 3 | 30 |
| β-strand | 431-436 | 6 | 13 |
| β-strand | 443 | 1 | 6 |
| α-helix | 456-468 | 13 | |
| β-strand | 470 | 1 | 6 |
| α-helix | 475-477 | 3 | |
| α-helix | 481-494 | 14 | |
| α-helix | 501-503 | 3 | |
| α-helix | 511-518 | 8 | |
| α-helix | 522-528 | 7 | |
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| DNA ligase 4 | E | protein | 911 | Homo sapiens | P49917 (AlphaFold model) |
| X-ray repair cross-complementing protein 5 | L | protein | 732 | Homo sapiens | P13010 (AlphaFold model) |
| Protein PAXX | M | protein | 204 | Homo sapiens | Q9BUH6 (AlphaFold model) |
| DNA repair protein XRCC4 | P, Q | protein | 336 | Homo sapiens | Q13426 (AlphaFold model) |
| DNA-dependent protein kinase catalytic subunit | S | protein | 4128 | Homo sapiens | P78527 |
| X-ray repair cross-complementing protein 6 | T | protein | 609 | Homo sapiens | P12956 |
| DNA | i | DNA | 25 | Homo sapiens | |
| DNA | j | DNA | 25 | Homo sapiens | |
| DNA polymerase lambda | A | protein | 575 | Homo sapiens | Q9UGP5 |
Sequence of entity 1 (E), FASTA
>9GD7_1 DNA ligase 4 (chains E)
MAASQTSQTVASHVPFADLCSTLERIQKSKGRAEKIRHFREFLDSWRKFHDALHKNHKDV
TDSFYPAMRLILPQLERERMAYGIKETMLAKLYIELLNLPRDGKDALKLLNYRTPTGTHG
DAGDFAMIAYFVLKPRCLQKGSLTIQQVNDLLDSIASNNSAKRKDLIKKSLLQLITQSSA
LEQKWLIRMIIKDLKLGVSQQTIFSVFHNDAAELHNVTTDLEKVCRQLHDPSVGLSDISI
TLFSAFKPMLAAIADIEHIEKDMKHQSFYIETKLDGERMQMHKDGDVYKYFSRNGYNYTD
QFGASPTEGSLTPFIHNAFKADIQICILDGEMMAYNPNTQTFMQKGTKFDIKRMVEDSDL
QTCYCVFDVLMVNNKKLGHETLRKRYEILSSIFTPIPGRIEIVQKTQAHTKNEVIDALNE
AIDKREEGIMVKQPLSIYKPDKRGEGWLKIKPEYVSGLMDELDILIVGGYWGKGSRGGMM
SHFLCAVAEKPPPGEKPSVFHTLSRVGSGCTMKELYDLGLKLAKYWKPFHRKAPPSSILC
GTEKPEVYIEPCNSVIVQIKAAEIVPSDMYKTGCTLRFPRIEKIRDDKEWHECMTLDDLE
QLRGKASGKLASKHLYIGGDDEPQEKKRKAAPKMKKVIGIIEHLKAPNLTNVNKISNIFE
DVEFCVMSGTDSQPKPDLENRIAEFGGYIVQNPGPDTYCVIAGSENIRVKNIILSNKHDV
VKPAWLLECFKTKSFVPWQPRFMIHMCPSTKEHFAREYDCYGDSYFIDTDLNQLKEVFSG
IKNSNEQTPEEMASLIADLEYRYSWDCSPLSMFRRHTVYLDSYAVINDLSTKNEGTRLAI
KALELRFHGAKVVSCLAEGVSHVIIGEDHSRVADFKAFRRTFKRKFKILKESWVTDSIDK
CELQEENQYLI
Sequence of entity 2 (L), FASTA
>9GD7_2 X-ray repair cross-complementing protein 5 (chains L)
MVRSGNKAAVVLCMDVGFTMSNSIPGIESPFEQAKKVITMFVQRQVFAENKDEIALVLFG
TDGTDNPLSGGDQYQNITVHRHLMLPDFDLLEDIESKIQPGSQQADFLDALIVSMDVIQH
ETIGKKFEKRHIEIFTDLSSRFSKSQLDIIIHSLKKCDISLQFFLPFSLGKEDGSGDRGD
GPFRLGGHGPSFPLKGITEQQKEGLEIVKMVMISLEGEDGLDEIYSFSESLRKLCVFKKI
ERHSIHWPCRLTIGSNLSIRIAAYKSILQERVKKTWTVVDAKTLKKEDIQKETVYCLNDD
DETEVLKEDIIQGFRYGSDIVPFSKVDEEQMKYKSEGKCFSVLGFCKSSQVQRRFFMGNQ
VLKVFAARDDEAAAVALSSLIHALDDLDMVAIVRYAYDKRANPQVGVAFPHIKHNYECLV
YVQLPFMEDLRQYMFSSLKNSKKYAPTEAQLNAVDALIDSMSLAKKDEKTDTLEDLFPTT
KIPNPRFQRLFQCLLHRALHPREPLPPIQQHIWNMLNPPAEVTTKSQIPLSKIKTLFPLI
EAKKKDQVTAQEIFQDNHEDGPTAKKLKTEQGGAHFSVSSLAEGSVTSVGSVNPAENFRV
LVKQKKASFEEASNQLINHIEQFLDTNETPYFMKSIDCIRAFREEAIKFSEEQRFNNFLK
ALQEKVEIKQLNHFWEIVVQDGITLITKEEASGSSVTAEEAKKFLAPKDKPSGDTAAVFE
EGGDVDDLLDMI
Sequence of entity 3 (M), FASTA
>9GD7_3 Protein PAXX (chains M)
MDPLSPPLCTLPPGPEPPRFVCYCEGEESGEGDRGGFNLYVTDAAELWSTCFTPDSLAAL
KARFGLSAAEDITPRFRAACEQQAVALTLQEDRASLTLSGGPSALAFDLSKVPGPEAAPR
LRALTLGLAKRVWSLERRLAAAEETAVSPRKSPRPAGPQLFLPDPDPQRGGPGPGVRRRC
PGESLINPGFKSKKPAGGVDFDET
Sequence of entity 4 (P, Q), FASTA
>9GD7_4 DNA repair protein XRCC4 (chains P, Q)
MERKISRIHLVSEPSITHFLQVSWEKTLESGFVITLTDGHSAWTGTVSESEISQEADDMA
MEKGKYVGELRKALLSGAGPADVYTFNFSKESCYFFFEKNLKDVSFRLGSFNLEKVENPA
EVIRELICYCLDTIAENQAKNEHLQKENERLLRDWNDVQGRFEKCVSAKEALETDLYKRF
ILVLNEKKTKIRSLHNKLLNAAQEREKDIKQEGETAICSEMTADRDPVYDESTDEESENQ
TDLSGLASAAVSKDDSIISSLDVTDIAPSRKRRQRMQRNLGTEPKMAPQENQLQEKENSR
PDSSLPETSKKEHISAENMSLETLRNSSPEDLFDEI
Sequence of entity 5 (S), FASTA
>9GD7_5 DNA-dependent protein kinase catalytic subunit (chains S)
MAGSGAGVRCSLLRLQETLSAADRCGAALAGHQLIRGLGQECVLSSSPAVLALQTSLVFS
RDFGLLVFVRKSLNSIEFRECREEILKFLCIFLEKMGQKIAPYSVEIKNTCTSVYTKDRA
AKCKIPALDLLIKLLQTFRSSRLMDEFKIGELFSKFYGELALKKKIPDTVLEKVYELLGL
LGEVHPSEMINNAENLFRAFLGELKTQMTSAVREPKLPVLAGCLKGLSSLLCNFTKSMEE
DPQTSREIFNFVLKAIRPQIDLKRYAVPSAGLRLFALHASQFSTCLLDNYVSLFEVLLKW
CAHTNVELKKAALSALESFLKQVSNMVAKNAEMHKNKLQYFMEQFYGIIRNVDSNNKELS
IAIRGYGLFAGPCKVINAKDVDFMYVELIQRCKQMFLTQTDTGDDRVYQMPSFLQSVASV
LLYLDTVPEVYTPVLEHLVVMQIDSFPQYSPKMQLVCCRAIVKVFLALAAKGPVLRNCIS
TVVHQGLIRICSKPVVLPKGPESESEDHRASGEVRTGKWKVPTYKDYVDLFRHLLSSDQM
MDSILADEAFFSVNSSSESLNHLLYDEFVKSVLKIVEKLDLTLEIQTVGEQENGDEAPGV
WMIPTSDPAANLHPAKPKDFSAFINLVEFCREILPEKQAEFFEPWVYSFSYELILQSTRL
PLISGFYKLLSITVRNAKKIKYFEGVSPKSLKHSPEDPEKYSCFALFVKFGKEVAVKMKQ
YKDELLASCLTFLLSLPHNIIELDVRAYVPALQMAFKLGLSYTPLAEVGLNALEEWSIYI
DRHVMQPYYKDILPCLDGYLKTSALSDETKNNWEVSALSRAAQKGFNKVVLKHLKKTKNL
SSNEAISLEEIRIRVVQMLGSLGGQINKNLLTVTSSDEMMKSYVAWDREKRLSFAVPFRE
MKPVIFLDVFLPRVTELALTASDRQTKVAACELLHSMVMFMLGKATQMPEGGQGAPPMYQ
LYKRTFPVLLRLACDVDQVTRQLYEPLVMQLIHWFTNNKKFESQDTVALLEAILDGIVDP
VDSTLRDFCGRCIREFLKWSIKQITPQQQEKSPVNTKSLFKRLYSLALHPNAFKRLGASL
AFNNIYREFREEESLVEQFVFEALVIYMESLALAHADEKSLGTIQQCCDAIDHLCRIIEK
KHVSLNKAKKRRLPRGFPPSASLCLLDLVKWLLAHCGRPQTECRHKSIELFYKFVPLLPG
NRSPNLWLKDVLKEEGVSFLINTFEGGGCGQPSGILAQPTLLYLRGPFSLQATLCWLDLL
LAALECYNTFIGERTVGALQVLGTEAQSSLLKAVAFFLESIAMHDIIAAEKCFGTGAAGN
RTSPQEGERYNYSKCTVVVRIMEFTTTLLNTSPEGWKLLKKDLCNTHLMRVLVQTLCEPA
SIGFNIGDVQVMAHLPDVCVNLMKALKMSPYKDILETHLREKITAQSIEELCAVNLYGPD
AQVDRSRLAAVVSACKQLHRAGLLHNILPSQSTDLHHSVGTELLSLVYKGIAPGDERQCL
PSLDLSCKQLASGLLELAFAFGGLCERLVSLLLNPAVLSTASLGSSQGSVIHFSHGEYFY
SLFSETINTELLKNLDLAVLELMQSSVDNTKMVSAVLNGMLDQSFRERANQKHQGLKLAT
TILQHWKKCDSWWAKDSPLETKMAVLALLAKILQIDSSVSFNTSHGSFPEVFTTYISLLA
DTKLDLHLKGQAVTLLPFFTSLTGGSLEELRRVLEQLIVAHFPMQSREFPPGTPRFNNYV
DCMKKFLDALELSQSPMLLELMTEVLCREQQHVMEELFQSSFRRIARRGSCVTQVGLLES
VYEMFRKDDPRLSFTRQSFVDRSLLTLLWHCSLDALREFFSTIVVDAIDVLKSRFTKLNE
STFDTQITKKMGYYKILDVMYSRLPKDDVHAKESKINQVFHGSCITEGNELTKTLIKLCY
DAFTENMAGENQLLERRRLYHCAAYNCAISVICCVFNELKFYQGFLFSEKPEKNLLIFEN
LIDLKRRYNFPVEVEVPMERKKKYIEIRKEAREAANGDSDGPSYMSSLSYLADSTLSEEM
SQFDFSTGVQSYSYSSQDPRPATGRFRRREQRDPTVHDDVLELEMDELNRHECMAPLTAL
VKHMHRSLGPPQGEEDSVPRDLPSWMKFLHGKLGNPIVPLNIRLFLAKLVINTEEVFRPY
AKHWLSPLLQLAASENNGGEGIHYMVVEIVATILSWTGLATPTGVPKDEVLANRLLNFLM
KHVFHPKRAVFRHNLEIIKTLVECWKDCLSIPYRLIFEKFSGKDPNSKDNSVGIQLLGIV
MANDLPPYDPQCGIQSSEYFQALVNNMSFVRYKEVYAAAAEVLGLILRYVMERKNILEES
LCELVAKQLKQHQNTMEDKFIVCLNKVTKSFPPLADRFMNAVFFLLPKFHGVLKTLCLEV
VLCRVEGMTELYFQLKSKDFVQVMRHRDDERQKVCLDIIYKMMPKLKPVELRELLNPVVE
FVSHPSTTCREQMYNILMWIHDNYRDPESETDNDSQEIFKLAKDVLIQGLIDENPGLQLI
IRNFWSHETRLPSNTLDRLLALNSLYSPKIEVHFLSLATNFLLEMTSMSPDYPNPMFEHP
LSECEFQEYTIDSDWRFRSTVLTPMFVETQASQGTLQTRTQEGSLSARWPVAGQIRATQQ
QHDFTLTQTADGRSSFDWLTGSSTDPLVDHTSPSSDSLLFAHKRSERLQRAPLKSVGPDF
GKKRLGLPGDEVDNKVKGAAGRTDLLRLRRRFMRDQEKLSLMYARKGVAEQKREKEIKSE
LKMKQDAQVVLYRSYRHGDLPDIQIKHSSLITPLQAVAQRDPIIAKQLFSSLFSGILKEM
DKFKTLSEKNNITQKLLQDFNRFLNTTFSFFPPFVSCIQDISCQHAALLSLDPAAVSAGC
LASLQQPVGIRLLEEALLRLLPAELPAKRVRGKARLPPDVLRWVELAKLYRSIGEYDVLR
GIFTSEIGTKQITQSALLAEARSDYSEAAKQYDEALNKQDWVDGEPTEAEKDFWELASLD
CYNHLAEWKSLEYCSTASIDSENPPDLNKIWSEPFYQETYLPYMIRSKLKLLLQGEADQS
LLTFIDKAMHGELQKAILELHYSQELSLLYLLQDDVDRAKYYIQNGIQSFMQNYSSIDVL
LHQSRLTKLQSVQALTEIQEFISFISKQGNLSSQVPLKRLLNTWTNRYPDAKMDPMNIWD
DIITNRCFFLSKIEEKLTPLPEDNSMNVDQDGDPSDRMEVQEQEEDISSLIRSCKFSMKM
KMIDSARKQNNFSLAMKLLKELHKESKTRDDWLVSWVQSYCRLSHCRSRSQGCSEQVLTV
LKTVSLLDENNVSSYLSKNILAFRDQNILLGTTYRIIANALSSEPACLAEIEEDKARRIL
ELSGSSSEDSEKVIAGLYQRAFQHLSEAVQAAEEEAQPPSWSCGPAAGVIDAYMTLADFC
DQQLRKEEENASVIDSAELQAYPALVVEKMLKALKLNSNEARLKFPRLLQIIERYPEETL
SLMTKEISSVPCWQFISWISHMVALLDKDQAVAVQHSVEEITDNYPQAIVYPFIISSESY
SFKDTSTGHKNKEFVARIKSKLDQGGVIQDFINALDQLSNPELLFKDWSNDVRAELAKTP
VNKKNIEKMYERMYAALGDPKAPGLGAFRRKFIQTFGKEFDKHFGKGGSKLLRMKLSDFN
DITNMLLLKMNKDSKPPGNLKECSPWMSDFKVEFLRNELEIPGQYDGRGKPLPEYHVRIA
GFDERVTVMASLRRPKRIIIRGHDEREHPFLVKGGEDLRQDQRVEQLFQVMNGILAQDSA
CSQRALQLRTYSVVPMTSRLGLIEWLENTVTLKDLLLNTMSQEEKAAYLSDPRAPPCEYK
DWLTKMSGKHDVGAYMLMYKGANRTETVTSFRKRESKVPADLLKRAFVRMSTSPEAFLAL
RSHFASSHALICISHWILGIGDRHLNNFMVAMETGGVIGIDFGHAFGSATQFLPVPELMP
FRLTRQFINLMLPMKETGLMYSIMVHALRAFRSDPGLLTNTMDVFVKEPSFDWKNFEQKM
LKKGGSWIQEINVAEKNWYPRQKICYAKRKLAGANPAVITCDELLLGHEKAPAFRDYVAV
ARGSKDHNIRAQEPESGLSEETQVKCLMDQATDPNILGRTWEGWEPWM
Sequence of entity 6 (T), FASTA
>9GD7_6 X-ray repair cross-complementing protein 6 (chains T)
MSGWESYYKTEGDEEAEEEQEENLEASGDYKYSGRDSLIFLVDASKAMFESQSEDELTPF
DMSIQCIQSVYISKIISSDRDLLAVVFYGTEKDKNSVNFKNIYVLQELDNPGAKRILELD
QFKGQQGQKRFQDMMGHGSDYSLSEVLWVCANLFSDVQFKMSHKRIMLFTNEDNPHGNDS
AKASRARTKAGDLRDTGIFLDLMHLKKPGGFDISLFYRDIISIAEDEDLRVHFEESSKLE
DLLRKVRAKETRKRALSRLKLKLNKDIVISVGIYNLVQKALKPPPIKLYRETNEPVKTKT
RTFNTSTGGLLLPSDTKRSQIYGSRQIILEKEETEELKRFDDPGLMLMGFKPLVLLKKHH
YLRPSLFVYPEESLVIGSSTLFSALLIKCLEKEVAALCRYTPRRNIPPYFVALVPQEEEL
DDQKIQVTPPGFQLVFLPFADDKRKMPFTEKIMATPEQVGKMKAIVEKLRFTYRSDSFEN
PVLQQHFRNLEALALDLMEPEQAVDLTLPKVEAMNKRLGSLVDEFKELVYPPDYNPEGKV
TKRKHDNEGSGSKRPKVEYSEEELKTHISKGTLGKFTVPMLKEACRAYGLKSGLKKQELL
EALTKHFQD
Sequence of entity 7 (i), FASTA
>9GD7_7 DNA (chains i)
CTAATAAACTAAAAACTATTATTAT
Sequence of entity 8 (j), FASTA
>9GD7_8 DNA (chains j)
TAATAATAGTTTTTAGTTTATTGGG
Sequence of entity 9 (A), FASTA
>9GD7_9 DNA polymerase lambda (chains A)
MDPRGILKAFPKRQKIHADASSKVLAKIPRREEGEEAEEWLSSLRAHVVRTGIGRARAEL
FEKQIVQHGGQLCPAQGPGVTHIVVDEGMDYERALRLLRLPQLPPGAQLVKSAWLSLCLQ
ERRLVDVAGFSIFIPSRYLDHPQPSKAEQDASIPPGTHEALLQTALSPPPPPTRPVSPPQ
KAKEAPNTQAQPISDDEASDGEETQVSAADLEALISGHYPTSLEGDCEPSPAPAVLDKWV
CAQPSSQKATNHNLHITEKLEVLAKAYSVQGDKWRALGYAKAINALKSFHKPVTSYQEAC
SIPGIGKRMAEKIIEILESGHLRKLDHISESVPVLELFSNIWGAGTKTAQMWYQQGFRSL
EDIRSQASLTTQQAIGLKHYSDFLERMPREEATEIEQTVQKAAQAFNSGLLCVACGSYRR
GKATCGDVDVLITHPDGRSHRGIFSRLLDSLRQEGFLTDDLVSQEENGQQQKYLGVCRLP
GPGRRHRRLDIIVVPYSEFACALLYFTGSAHFNRSMRALAKTKGMSLSEHALSTAVVRNT
HGCKVGPGRVLPTPTEKDVFRLLGLPYREPAERDW
Primary citation
Structural and functional insights into the interaction between Ku70/80 and Pol X family polymerases in NHEJ. Frit, P., Amin, H., Zahid, S. et al. Nat Commun (2025) 16:4208-4208. DOI 10.1038/s41467-025-59133-2 · PubMed
Other PDB entries of the same protein (UniProt P49917 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 4HTP 2.25 Å, Crystal structure of the DBD domain of human DNA ligase IV bound to Artemis peptide
- 1IK9 2.3 Å, Crystal structure of a XRCC4-DNA ligase IV complex
- 3II6 2.4 Å, Structure of human Xrcc4 in complex with the tandem BRCT domains of DNA LigaseIV.
- 3W1B 2.4 Å, Crystal Structure of Human DNA ligase IV-Artemis Complex (Mercury Derivative)
- 6BKG 2.4 Å, Human LigIV catalytic domain with bound DNA-adenylate intermediate in closed conformation
- 3W1G 2.55 Å, Crystal Structure of Human DNA ligase IV-Artemis Complex (Native)
- 7D9Y 2.76 Å, DNA binding domain of human DNA Ligase IV mutant - A3V
- 9CQ3 2.8 Å, The gap-filling complex with Pol mu engaged in the NHEJ pathway
- 9N81 2.8 Å, A gap-filling complex with Pol mu engaged in the NHEJ Pathway
- 4HTO 2.81 Å, Crystal structure of the DBD domain of human DNA ligase IV Apo form
- 3W5O 2.84 Å, Crystal Structure of Human DNA ligase IV
- 7D9K 2.9 Å, DNA binding domain of human DNA Ligase IV - Wild type
Browse structure collections
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