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4GZ0
Biol. Unit 4
Info
Asym.Unit (597 KB)
Biol.Unit 1 (105 KB)
Biol.Unit 2 (105 KB)
Biol.Unit 3 (105 KB)
Biol.Unit 4 (102 KB)
Biol.Unit 5 (103 KB)
Biol.Unit 6 (103 KB)
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Title
:
MUS MUSCULUS TDP2-DNA SUBSTRATE ANALOG (5'-6-AMINOHEXANOL) COMPLEX
Authors
:
M. J. Schellenberg, R. S. Williams
Date
:
05 Sep 12 (Deposition) - 31 Oct 12 (Release) - 02 Jan 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.11
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,D (1x)
Biol. Unit 2: B,C (1x)
Biol. Unit 3: E,F (1x)
Biol. Unit 4: G,H (1x)
Biol. Unit 5: I,J (1x)
Biol. Unit 6: K,L (1x)
Keywords
:
Protein-Dna Complex, Dna Repair, 5'-Dna End Processing, Endonuclease/Exonuclease/Phosphatase Domain, Eep Domain, 5'-Dna End Recognition, Eep, Endonuclease/Exonuclease/Phosphatase Domain, 5'-End Recognition, Nuclear, Hydrolase, Hydrolase-Dna Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. J. Schellenberg, C. D. Appel, S. Adhikari, P. D. Robertson, D. A. Ramsden, R. S. Williams
Mechanism Of Repair Of 5'-Topoisomerase Ii-Dna Adducts By Mammalian Tyrosyl-Dna Phosphodiesterase 2.
Nat. Struct. Mol. Biol. V. 19 1363 2012
[
close entry info
]
Hetero Components
(3, 18)
Info
All Hetero Components
1a: 6-AMINOHEXAN-1-OL (6AHa)
1b: 6-AMINOHEXAN-1-OL (6AHb)
1c: 6-AMINOHEXAN-1-OL (6AHc)
1d: 6-AMINOHEXAN-1-OL (6AHd)
1e: 6-AMINOHEXAN-1-OL (6AHe)
1f: 6-AMINOHEXAN-1-OL (6AHf)
2a: ACETATE ION (ACTa)
2b: ACETATE ION (ACTb)
2c: ACETATE ION (ACTc)
2d: ACETATE ION (ACTd)
2e: ACETATE ION (ACTe)
2f: ACETATE ION (ACTf)
2g: ACETATE ION (ACTg)
2h: ACETATE ION (ACTh)
2i: ACETATE ION (ACTi)
2j: ACETATE ION (ACTj)
2k: ACETATE ION (ACTk)
2l: ACETATE ION (ACTl)
2m: ACETATE ION (ACTm)
2n: ACETATE ION (ACTn)
2o: ACETATE ION (ACTo)
2p: ACETATE ION (ACTp)
2q: ACETATE ION (ACTq)
2r: ACETATE ION (ACTr)
2s: ACETATE ION (ACTs)
2t: ACETATE ION (ACTt)
2u: ACETATE ION (ACTu)
2v: ACETATE ION (ACTv)
3a: 1,2-ETHANEDIOL (EDOa)
3aa: 1,2-ETHANEDIOL (EDOaa)
3ab: 1,2-ETHANEDIOL (EDOab)
3ac: 1,2-ETHANEDIOL (EDOac)
3ad: 1,2-ETHANEDIOL (EDOad)
3ae: 1,2-ETHANEDIOL (EDOae)
3af: 1,2-ETHANEDIOL (EDOaf)
3ag: 1,2-ETHANEDIOL (EDOag)
3ah: 1,2-ETHANEDIOL (EDOah)
3ai: 1,2-ETHANEDIOL (EDOai)
3aj: 1,2-ETHANEDIOL (EDOaj)
3ak: 1,2-ETHANEDIOL (EDOak)
3al: 1,2-ETHANEDIOL (EDOal)
3am: 1,2-ETHANEDIOL (EDOam)
3an: 1,2-ETHANEDIOL (EDOan)
3ao: 1,2-ETHANEDIOL (EDOao)
3ap: 1,2-ETHANEDIOL (EDOap)
3aq: 1,2-ETHANEDIOL (EDOaq)
3ar: 1,2-ETHANEDIOL (EDOar)
3as: 1,2-ETHANEDIOL (EDOas)
3at: 1,2-ETHANEDIOL (EDOat)
3au: 1,2-ETHANEDIOL (EDOau)
3av: 1,2-ETHANEDIOL (EDOav)
3aw: 1,2-ETHANEDIOL (EDOaw)
3ax: 1,2-ETHANEDIOL (EDOax)
3ay: 1,2-ETHANEDIOL (EDOay)
3az: 1,2-ETHANEDIOL (EDOaz)
3b: 1,2-ETHANEDIOL (EDOb)
3ba: 1,2-ETHANEDIOL (EDOba)
3bb: 1,2-ETHANEDIOL (EDObb)
3bc: 1,2-ETHANEDIOL (EDObc)
3bd: 1,2-ETHANEDIOL (EDObd)
3be: 1,2-ETHANEDIOL (EDObe)
3bf: 1,2-ETHANEDIOL (EDObf)
3bg: 1,2-ETHANEDIOL (EDObg)
3bh: 1,2-ETHANEDIOL (EDObh)
3bi: 1,2-ETHANEDIOL (EDObi)
3bj: 1,2-ETHANEDIOL (EDObj)
3bk: 1,2-ETHANEDIOL (EDObk)
3bl: 1,2-ETHANEDIOL (EDObl)
3bm: 1,2-ETHANEDIOL (EDObm)
3bn: 1,2-ETHANEDIOL (EDObn)
3bo: 1,2-ETHANEDIOL (EDObo)
3bp: 1,2-ETHANEDIOL (EDObp)
3bq: 1,2-ETHANEDIOL (EDObq)
3br: 1,2-ETHANEDIOL (EDObr)
3bs: 1,2-ETHANEDIOL (EDObs)
3bt: 1,2-ETHANEDIOL (EDObt)
3bu: 1,2-ETHANEDIOL (EDObu)
3bv: 1,2-ETHANEDIOL (EDObv)
3bw: 1,2-ETHANEDIOL (EDObw)
3bx: 1,2-ETHANEDIOL (EDObx)
3by: 1,2-ETHANEDIOL (EDOby)
3bz: 1,2-ETHANEDIOL (EDObz)
3c: 1,2-ETHANEDIOL (EDOc)
3ca: 1,2-ETHANEDIOL (EDOca)
3cb: 1,2-ETHANEDIOL (EDOcb)
3cc: 1,2-ETHANEDIOL (EDOcc)
3cd: 1,2-ETHANEDIOL (EDOcd)
3ce: 1,2-ETHANEDIOL (EDOce)
3cf: 1,2-ETHANEDIOL (EDOcf)
3cg: 1,2-ETHANEDIOL (EDOcg)
3ch: 1,2-ETHANEDIOL (EDOch)
3ci: 1,2-ETHANEDIOL (EDOci)
3cj: 1,2-ETHANEDIOL (EDOcj)
3ck: 1,2-ETHANEDIOL (EDOck)
3cl: 1,2-ETHANEDIOL (EDOcl)
3cm: 1,2-ETHANEDIOL (EDOcm)
3cn: 1,2-ETHANEDIOL (EDOcn)
3co: 1,2-ETHANEDIOL (EDOco)
3cp: 1,2-ETHANEDIOL (EDOcp)
3cq: 1,2-ETHANEDIOL (EDOcq)
3cr: 1,2-ETHANEDIOL (EDOcr)
3cs: 1,2-ETHANEDIOL (EDOcs)
3ct: 1,2-ETHANEDIOL (EDOct)
3cu: 1,2-ETHANEDIOL (EDOcu)
3cv: 1,2-ETHANEDIOL (EDOcv)
3cw: 1,2-ETHANEDIOL (EDOcw)
3cx: 1,2-ETHANEDIOL (EDOcx)
3cy: 1,2-ETHANEDIOL (EDOcy)
3cz: 1,2-ETHANEDIOL (EDOcz)
3d: 1,2-ETHANEDIOL (EDOd)
3da: 1,2-ETHANEDIOL (EDOda)
3db: 1,2-ETHANEDIOL (EDOdb)
3dc: 1,2-ETHANEDIOL (EDOdc)
3dd: 1,2-ETHANEDIOL (EDOdd)
3de: 1,2-ETHANEDIOL (EDOde)
3df: 1,2-ETHANEDIOL (EDOdf)
3dg: 1,2-ETHANEDIOL (EDOdg)
3dh: 1,2-ETHANEDIOL (EDOdh)
3di: 1,2-ETHANEDIOL (EDOdi)
3e: 1,2-ETHANEDIOL (EDOe)
3f: 1,2-ETHANEDIOL (EDOf)
3g: 1,2-ETHANEDIOL (EDOg)
3h: 1,2-ETHANEDIOL (EDOh)
3i: 1,2-ETHANEDIOL (EDOi)
3j: 1,2-ETHANEDIOL (EDOj)
3k: 1,2-ETHANEDIOL (EDOk)
3l: 1,2-ETHANEDIOL (EDOl)
3m: 1,2-ETHANEDIOL (EDOm)
3n: 1,2-ETHANEDIOL (EDOn)
3o: 1,2-ETHANEDIOL (EDOo)
3p: 1,2-ETHANEDIOL (EDOp)
3q: 1,2-ETHANEDIOL (EDOq)
3r: 1,2-ETHANEDIOL (EDOr)
3s: 1,2-ETHANEDIOL (EDOs)
3t: 1,2-ETHANEDIOL (EDOt)
3u: 1,2-ETHANEDIOL (EDOu)
3v: 1,2-ETHANEDIOL (EDOv)
3w: 1,2-ETHANEDIOL (EDOw)
3x: 1,2-ETHANEDIOL (EDOx)
3y: 1,2-ETHANEDIOL (EDOy)
3z: 1,2-ETHANEDIOL (EDOz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
6AH
1
Ligand/Ion
6-AMINOHEXAN-1-OL
2
ACT
3
Ligand/Ion
ACETATE ION
3
EDO
14
Ligand/Ion
1,2-ETHANEDIOL
[
close Hetero Component info
]
Sites
(36, 36)
Info
All Sites
01: AC3 (SOFTWARE)
02: AC4 (SOFTWARE)
03: AC6 (SOFTWARE)
04: AC7 (SOFTWARE)
05: BC2 (SOFTWARE)
06: BC5 (SOFTWARE)
07: BC9 (SOFTWARE)
08: CC3 (SOFTWARE)
09: CC4 (SOFTWARE)
10: CC5 (SOFTWARE)
11: CC6 (SOFTWARE)
12: DC7 (SOFTWARE)
13: EC6 (SOFTWARE)
14: FC4 (SOFTWARE)
15: FC7 (SOFTWARE)
16: FC8 (SOFTWARE)
17: FC9 (SOFTWARE)
18: KC4 (SOFTWARE)
19: LC1 (SOFTWARE)
20: LC2 (SOFTWARE)
21: LC3 (SOFTWARE)
22: LC4 (SOFTWARE)
23: LC5 (SOFTWARE)
24: LC6 (SOFTWARE)
25: LC7 (SOFTWARE)
26: LC8 (SOFTWARE)
27: LC9 (SOFTWARE)
28: MC1 (SOFTWARE)
29: MC2 (SOFTWARE)
30: MC3 (SOFTWARE)
31: MC4 (SOFTWARE)
32: MC5 (SOFTWARE)
33: MC6 (SOFTWARE)
34: MC7 (SOFTWARE)
35: MC8 (SOFTWARE)
36: MC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC3
SOFTWARE
TYR A:188 , MET A:214 , HOH A:642 , EDO H:102 , HOH H:201
BINDING SITE FOR RESIDUE EDO A 403
02
AC4
SOFTWARE
EDO A:409 , HOH A:527 , GLU G:348 , LYS G:349
BINDING SITE FOR RESIDUE EDO A 404
03
AC6
SOFTWARE
SER A:341 , HOH A:575 , SER G:148
BINDING SITE FOR RESIDUE EDO A 406
04
AC7
SOFTWARE
CYS A:149 , GLU A:348 , ACT A:427 , TYR G:153 , ASP G:343 , LEU G:344
BINDING SITE FOR RESIDUE EDO A 407
05
BC2
SOFTWARE
TYR A:153 , HOH A:501 , CYS G:149 , LEU G:152 , TYR G:153 , GLU G:348
BINDING SITE FOR RESIDUE EDO A 411
06
BC5
SOFTWARE
LEU A:152 , TYR A:153 , ACT A:423 , HOH A:594 , HOH A:689 , LEU G:152 , TYR G:153 , EDO G:407
BINDING SITE FOR RESIDUE EDO A 414
07
BC9
SOFTWARE
LEU A:347 , GLU A:348 , LYS A:349 , HOH A:509 , EDO G:405
BINDING SITE FOR RESIDUE EDO A 418
08
CC3
SOFTWARE
LEU A:350 , HOH A:509 , LYS G:301
BINDING SITE FOR RESIDUE EDO A 422
09
CC4
SOFTWARE
SER A:125 , TYR A:153 , PRO A:155 , LEU A:363 , EDO A:410 , EDO A:414 , HOH A:601 , LEU G:152
BINDING SITE FOR RESIDUE ACT A 423
10
CC5
SOFTWARE
HIS A:302 , ASP A:343 , HOH A:528 , ARG G:144 , GLY G:145 , SER G:148 , HOH G:522
BINDING SITE FOR RESIDUE ACT A 424
11
CC6
SOFTWARE
ARG A:144 , GLY A:145 , SER A:148 , GLU A:348 , HOH A:539 , HIS G:302 , ASP G:343
BINDING SITE FOR RESIDUE ACT A 425
12
DC7
SOFTWARE
GLU B:205 , ILE B:206 , THR G:253
BINDING SITE FOR RESIDUE EDO B 409
13
EC6
SOFTWARE
ASN B:184 , MET B:215 , ASN B:217 , HOH B:576 , GLU G:260
BINDING SITE FOR RESIDUE EDO B 417
14
FC4
SOFTWARE
ILE B:181 , PHE B:201 , PRO G:210
BINDING SITE FOR RESIDUE ACT B 424
15
FC7
SOFTWARE
GLU A:162 , SER A:239 , DC D:2 , DG D:4 , DA D:5 , HOH D:201 , DT H:8
BINDING SITE FOR RESIDUE 6AH D 101
16
FC8
SOFTWARE
DA D:6 , DT D:7 , EDO D:103 , THR G:240 , GLU G:242 , HIS G:243
BINDING SITE FOR RESIDUE EDO D 102
17
FC9
SOFTWARE
DT D:7 , EDO D:102 , HOH D:210 , DA H:5 , HOH H:203
BINDING SITE FOR RESIDUE EDO D 103
18
KC4
SOFTWARE
GLY G:136 , PRO G:140 , TYR G:170 , GLY K:136 , CYS K:137
BINDING SITE FOR RESIDUE EDO K 413
19
LC1
SOFTWARE
PHE G:209 , PRO G:210 , ASN G:211 , GLU G:246 , ARG G:249
BINDING SITE FOR RESIDUE EDO G 401
20
LC2
SOFTWARE
PHE G:296 , EDO G:404
BINDING SITE FOR RESIDUE EDO G 402
21
LC3
SOFTWARE
SER A:148 , ALA A:151 , SER G:341 , EDO G:406 , HOH G:524 , HOH G:594
BINDING SITE FOR RESIDUE EDO G 403
22
LC4
SOFTWARE
GLY G:298 , EDO G:402 , HOH G:601
BINDING SITE FOR RESIDUE EDO G 404
23
LC5
SOFTWARE
EDO A:418 , TYR G:305 , ASP G:308 , ALA G:311 , TRP G:360
BINDING SITE FOR RESIDUE EDO G 405
24
LC6
SOFTWARE
ALA A:151 , EDO G:403 , EDO G:407 , HOH G:524
BINDING SITE FOR RESIDUE EDO G 406
25
LC7
SOFTWARE
LEU A:152 , EDO A:414 , SER G:125 , TYR G:153 , SER G:154 , PRO G:155 , EDO G:406
BINDING SITE FOR RESIDUE EDO G 407
26
LC8
SOFTWARE
GLU G:205 , LYS G:257
BINDING SITE FOR RESIDUE EDO G 408
27
LC9
SOFTWARE
TRP G:307 , ASP G:308 , ASN G:312 , ASN G:314 , LEU G:315 , ASP G:358
BINDING SITE FOR RESIDUE EDO G 409
28
MC1
SOFTWARE
ASP A:351 , LEU G:297 , GLY G:298 , PRO G:300
BINDING SITE FOR RESIDUE EDO G 410
29
MC2
SOFTWARE
ASP G:135 , ASN G:314 , ARG G:316 , ARG G:354
BINDING SITE FOR RESIDUE EDO G 411
30
MC3
SOFTWARE
ARG G:276 , ASP G:277 , HIS G:323 , HOH G:526
BINDING SITE FOR RESIDUE ACT G 412
31
MC4
SOFTWARE
ARG G:241 , GLU G:279
BINDING SITE FOR RESIDUE ACT G 413
32
MC5
SOFTWARE
LYS G:310 , ALA G:311 , LYS G:349
BINDING SITE FOR RESIDUE ACT G 414
33
MC6
SOFTWARE
GLU G:162 , SER G:239 , DC H:2
BINDING SITE FOR RESIDUE 6AH H 101
34
MC7
SOFTWARE
EDO A:403 , DT H:7 , DT H:8
BINDING SITE FOR RESIDUE EDO H 102
35
MC8
SOFTWARE
MET A:214 , DT H:7 , HOH H:201 , HOH H:202 , HOH H:206
BINDING SITE FOR RESIDUE EDO H 103
36
MC9
SOFTWARE
DC D:9 , DC H:2 , DG H:4
BINDING SITE FOR RESIDUE EDO H 104
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
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Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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SCOP Domains
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CATH Domains
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Pfam Domains
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