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3Q9B
Biol. Unit 3
Info
Asym.Unit (698 KB)
Biol.Unit 1 (125 KB)
Biol.Unit 2 (126 KB)
Biol.Unit 3 (126 KB)
Biol.Unit 4 (125 KB)
Biol.Unit 5 (126 KB)
Biol.Unit 6 (125 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF APAH COMPLEXED WITH M344
Authors
:
P. M. Lombardi, D. W. Christianson
Date
:
07 Jan 11 (Deposition) - 02 Mar 11 (Release) - 30 Mar 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.25
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,I (1x)
Biol. Unit 2: B,F (1x)
Biol. Unit 3: C,K (1x)
Biol. Unit 4: D,J (1x)
Biol. Unit 5: E,H (1x)
Biol. Unit 6: G,L (1x)
Keywords
:
Hdac, Polyamines, Arginase Fold, Deacetylase, Hydrolase-Hydrolase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. M. Lombardi, H. D. Angell, D. A. Whittington, E. F. Flynn, K. R. Rajashankar, D. W. Christianson
Structure Of Prokaryotic Polyamine Deacetylase Reveals Evolutionary Functional Relationships With Eukaryotic Histone Deacetylases .
Biochemistry V. 50 1808 2011
[
close entry info
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Hetero Components
(2, 18)
Info
All Hetero Components
1a: 4-(DIMETHYLAMINO)-N-[7-(HYDROXYAMI... (B3Na)
1b: 4-(DIMETHYLAMINO)-N-[7-(HYDROXYAMI... (B3Nb)
1c: 4-(DIMETHYLAMINO)-N-[7-(HYDROXYAMI... (B3Nc)
1d: 4-(DIMETHYLAMINO)-N-[7-(HYDROXYAMI... (B3Nd)
1e: 4-(DIMETHYLAMINO)-N-[7-(HYDROXYAMI... (B3Ne)
1f: 4-(DIMETHYLAMINO)-N-[7-(HYDROXYAMI... (B3Nf)
1g: 4-(DIMETHYLAMINO)-N-[7-(HYDROXYAMI... (B3Ng)
1h: 4-(DIMETHYLAMINO)-N-[7-(HYDROXYAMI... (B3Nh)
1i: 4-(DIMETHYLAMINO)-N-[7-(HYDROXYAMI... (B3Ni)
1j: 4-(DIMETHYLAMINO)-N-[7-(HYDROXYAMI... (B3Nj)
1k: 4-(DIMETHYLAMINO)-N-[7-(HYDROXYAMI... (B3Nk)
1l: 4-(DIMETHYLAMINO)-N-[7-(HYDROXYAMI... (B3Nl)
2a: DIMETHYL SULFOXIDE (DMSa)
2aa: DIMETHYL SULFOXIDE (DMSaa)
2ab: DIMETHYL SULFOXIDE (DMSab)
2ac: DIMETHYL SULFOXIDE (DMSac)
2ad: DIMETHYL SULFOXIDE (DMSad)
2ae: DIMETHYL SULFOXIDE (DMSae)
2af: DIMETHYL SULFOXIDE (DMSaf)
2ag: DIMETHYL SULFOXIDE (DMSag)
2ah: DIMETHYL SULFOXIDE (DMSah)
2ai: DIMETHYL SULFOXIDE (DMSai)
2aj: DIMETHYL SULFOXIDE (DMSaj)
2ak: DIMETHYL SULFOXIDE (DMSak)
2al: DIMETHYL SULFOXIDE (DMSal)
2am: DIMETHYL SULFOXIDE (DMSam)
2an: DIMETHYL SULFOXIDE (DMSan)
2ao: DIMETHYL SULFOXIDE (DMSao)
2ap: DIMETHYL SULFOXIDE (DMSap)
2aq: DIMETHYL SULFOXIDE (DMSaq)
2ar: DIMETHYL SULFOXIDE (DMSar)
2as: DIMETHYL SULFOXIDE (DMSas)
2at: DIMETHYL SULFOXIDE (DMSat)
2au: DIMETHYL SULFOXIDE (DMSau)
2av: DIMETHYL SULFOXIDE (DMSav)
2aw: DIMETHYL SULFOXIDE (DMSaw)
2ax: DIMETHYL SULFOXIDE (DMSax)
2ay: DIMETHYL SULFOXIDE (DMSay)
2az: DIMETHYL SULFOXIDE (DMSaz)
2b: DIMETHYL SULFOXIDE (DMSb)
2ba: DIMETHYL SULFOXIDE (DMSba)
2bb: DIMETHYL SULFOXIDE (DMSbb)
2bc: DIMETHYL SULFOXIDE (DMSbc)
2bd: DIMETHYL SULFOXIDE (DMSbd)
2be: DIMETHYL SULFOXIDE (DMSbe)
2bf: DIMETHYL SULFOXIDE (DMSbf)
2bg: DIMETHYL SULFOXIDE (DMSbg)
2bh: DIMETHYL SULFOXIDE (DMSbh)
2bi: DIMETHYL SULFOXIDE (DMSbi)
2bj: DIMETHYL SULFOXIDE (DMSbj)
2bk: DIMETHYL SULFOXIDE (DMSbk)
2bl: DIMETHYL SULFOXIDE (DMSbl)
2bm: DIMETHYL SULFOXIDE (DMSbm)
2bn: DIMETHYL SULFOXIDE (DMSbn)
2bo: DIMETHYL SULFOXIDE (DMSbo)
2bp: DIMETHYL SULFOXIDE (DMSbp)
2bq: DIMETHYL SULFOXIDE (DMSbq)
2br: DIMETHYL SULFOXIDE (DMSbr)
2bs: DIMETHYL SULFOXIDE (DMSbs)
2bt: DIMETHYL SULFOXIDE (DMSbt)
2bu: DIMETHYL SULFOXIDE (DMSbu)
2bv: DIMETHYL SULFOXIDE (DMSbv)
2bw: DIMETHYL SULFOXIDE (DMSbw)
2bx: DIMETHYL SULFOXIDE (DMSbx)
2by: DIMETHYL SULFOXIDE (DMSby)
2bz: DIMETHYL SULFOXIDE (DMSbz)
2c: DIMETHYL SULFOXIDE (DMSc)
2ca: DIMETHYL SULFOXIDE (DMSca)
2cb: DIMETHYL SULFOXIDE (DMScb)
2cc: DIMETHYL SULFOXIDE (DMScc)
2cd: DIMETHYL SULFOXIDE (DMScd)
2ce: DIMETHYL SULFOXIDE (DMSce)
2cf: DIMETHYL SULFOXIDE (DMScf)
2cg: DIMETHYL SULFOXIDE (DMScg)
2ch: DIMETHYL SULFOXIDE (DMSch)
2ci: DIMETHYL SULFOXIDE (DMSci)
2cj: DIMETHYL SULFOXIDE (DMScj)
2ck: DIMETHYL SULFOXIDE (DMSck)
2cl: DIMETHYL SULFOXIDE (DMScl)
2cm: DIMETHYL SULFOXIDE (DMScm)
2cn: DIMETHYL SULFOXIDE (DMScn)
2co: DIMETHYL SULFOXIDE (DMSco)
2cp: DIMETHYL SULFOXIDE (DMScp)
2cq: DIMETHYL SULFOXIDE (DMScq)
2cr: DIMETHYL SULFOXIDE (DMScr)
2cs: DIMETHYL SULFOXIDE (DMScs)
2ct: DIMETHYL SULFOXIDE (DMSct)
2cu: DIMETHYL SULFOXIDE (DMScu)
2cv: DIMETHYL SULFOXIDE (DMScv)
2cw: DIMETHYL SULFOXIDE (DMScw)
2cx: DIMETHYL SULFOXIDE (DMScx)
2cy: DIMETHYL SULFOXIDE (DMScy)
2cz: DIMETHYL SULFOXIDE (DMScz)
2d: DIMETHYL SULFOXIDE (DMSd)
2da: DIMETHYL SULFOXIDE (DMSda)
2db: DIMETHYL SULFOXIDE (DMSdb)
2dc: DIMETHYL SULFOXIDE (DMSdc)
2dd: DIMETHYL SULFOXIDE (DMSdd)
2e: DIMETHYL SULFOXIDE (DMSe)
2f: DIMETHYL SULFOXIDE (DMSf)
2g: DIMETHYL SULFOXIDE (DMSg)
2h: DIMETHYL SULFOXIDE (DMSh)
2i: DIMETHYL SULFOXIDE (DMSi)
2j: DIMETHYL SULFOXIDE (DMSj)
2k: DIMETHYL SULFOXIDE (DMSk)
2l: DIMETHYL SULFOXIDE (DMSl)
2m: DIMETHYL SULFOXIDE (DMSm)
2n: DIMETHYL SULFOXIDE (DMSn)
2o: DIMETHYL SULFOXIDE (DMSo)
2p: DIMETHYL SULFOXIDE (DMSp)
2q: DIMETHYL SULFOXIDE (DMSq)
2r: DIMETHYL SULFOXIDE (DMSr)
2s: DIMETHYL SULFOXIDE (DMSs)
2t: DIMETHYL SULFOXIDE (DMSt)
2u: DIMETHYL SULFOXIDE (DMSu)
2v: DIMETHYL SULFOXIDE (DMSv)
2w: DIMETHYL SULFOXIDE (DMSw)
2x: DIMETHYL SULFOXIDE (DMSx)
2y: DIMETHYL SULFOXIDE (DMSy)
2z: DIMETHYL SULFOXIDE (DMSz)
3a: POTASSIUM ION (Ka)
3b: POTASSIUM ION (Kb)
3c: POTASSIUM ION (Kc)
3d: POTASSIUM ION (Kd)
3e: POTASSIUM ION (Ke)
3f: POTASSIUM ION (Kf)
3g: POTASSIUM ION (Kg)
3h: POTASSIUM ION (Kh)
3i: POTASSIUM ION (Ki)
3j: POTASSIUM ION (Kj)
3k: POTASSIUM ION (Kk)
3l: POTASSIUM ION (Kl)
3m: POTASSIUM ION (Km)
3n: POTASSIUM ION (Kn)
3o: POTASSIUM ION (Ko)
3p: POTASSIUM ION (Kp)
3q: POTASSIUM ION (Kq)
3r: POTASSIUM ION (Kr)
3s: POTASSIUM ION (Ks)
3t: POTASSIUM ION (Kt)
3u: POTASSIUM ION (Ku)
3v: POTASSIUM ION (Kv)
3w: POTASSIUM ION (Kw)
4a: SODIUM ION (NAa)
4b: SODIUM ION (NAb)
4c: SODIUM ION (NAc)
4d: SODIUM ION (NAd)
4e: SODIUM ION (NAe)
4f: SODIUM ION (NAf)
4g: SODIUM ION (NAg)
4h: SODIUM ION (NAh)
4i: SODIUM ION (NAi)
4j: SODIUM ION (NAj)
4k: SODIUM ION (NAk)
4l: SODIUM ION (NAl)
5a: ZINC ION (ZNa)
5b: ZINC ION (ZNb)
5c: ZINC ION (ZNc)
5d: ZINC ION (ZNd)
5e: ZINC ION (ZNe)
5f: ZINC ION (ZNf)
5g: ZINC ION (ZNg)
5h: ZINC ION (ZNh)
5i: ZINC ION (ZNi)
5j: ZINC ION (ZNj)
5k: ZINC ION (ZNk)
5l: ZINC ION (ZNl)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
B3N
2
Ligand/Ion
4-(DIMETHYLAMINO)-N-[7-(HYDROXYAMINO)-7-OXOHEPTYL]BENZAMIDE
2
DMS
16
Ligand/Ion
DIMETHYL SULFOXIDE
3
K
-1
Ligand/Ion
POTASSIUM ION
4
NA
-1
Ligand/Ion
SODIUM ION
5
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(31, 31)
Info
All Sites
01: DC3 (SOFTWARE)
02: DC4 (SOFTWARE)
03: DC5 (SOFTWARE)
04: DC6 (SOFTWARE)
05: DC7 (SOFTWARE)
06: DC8 (SOFTWARE)
07: DC9 (SOFTWARE)
08: EC1 (SOFTWARE)
09: EC2 (SOFTWARE)
10: EC3 (SOFTWARE)
11: EC4 (SOFTWARE)
12: IC1 (SOFTWARE)
13: IC2 (SOFTWARE)
14: IC5 (SOFTWARE)
15: KC1 (SOFTWARE)
16: KC3 (SOFTWARE)
17: PC5 (SOFTWARE)
18: PC6 (SOFTWARE)
19: PC7 (SOFTWARE)
20: PC8 (SOFTWARE)
21: PC9 (SOFTWARE)
22: QC1 (SOFTWARE)
23: QC2 (SOFTWARE)
24: QC3 (SOFTWARE)
25: QC4 (SOFTWARE)
26: QC5 (SOFTWARE)
27: QC6 (SOFTWARE)
28: QC7 (SOFTWARE)
29: QC8 (SOFTWARE)
30: QC9 (SOFTWARE)
31: RC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
DC3
SOFTWARE
LEU C:60 , LYS C:61 , ASP C:64 , HOH C:1167 , HOH C:2057
BINDING SITE FOR RESIDUE DMS C 405
02
DC4
SOFTWARE
ILE C:142 , GLU C:275 , ALA C:276
BINDING SITE FOR RESIDUE DMS C 415
03
DC5
SOFTWARE
TYR C:247
BINDING SITE FOR RESIDUE DMS C 419
04
DC6
SOFTWARE
ARG C:53 , HIS C:54 , ALA C:133
BINDING SITE FOR RESIDUE DMS C 423
05
DC7
SOFTWARE
ARG C:95 , ARG C:96 , THR C:97 , HOH C:1405 , ASN K:200 , ASP K:204
BINDING SITE FOR RESIDUE DMS C 411
06
DC8
SOFTWARE
ARG C:96 , THR C:97 , LEU K:229
BINDING SITE FOR RESIDUE DMS C 421
07
DC9
SOFTWARE
TYR C:19 , PHE C:27 , HIS C:158 , HIS C:159 , TYR C:168 , ASP C:195 , HIS C:197 , PHE C:225 , ASP C:284 , PRO C:290 , ILE C:291 , TYR C:323 , ZN C:344 , HOH C:366 , HOH C:622 , HOH C:1232 , HOH C:1770
BINDING SITE FOR RESIDUE B3N C 401
08
EC1
SOFTWARE
ASP C:193 , ASP C:195 , HIS C:197 , SER C:216 , LEU C:217
BINDING SITE FOR RESIDUE K C 342
09
EC2
SOFTWARE
PHE C:206 , ARG C:209 , VAL C:212 , THR C:243 , HOH C:827
BINDING SITE FOR RESIDUE NA C 343
10
EC3
SOFTWARE
ASP C:195 , HIS C:197 , ASP C:284 , B3N C:401
BINDING SITE FOR RESIDUE ZN C 344
11
EC4
SOFTWARE
PHE C:286 , GLU C:287 , ASP C:289 , SER C:292 , PHE C:294
BINDING SITE FOR RESIDUE K C 345
12
IC1
SOFTWARE
ILE C:101 , PRO C:102 , HOH F:804 , HOH F:1635
BINDING SITE FOR RESIDUE DMS F 413
13
IC2
SOFTWARE
GLN C:179 , ALA F:65 , GLY F:66 , ASN F:69
BINDING SITE FOR RESIDUE DMS F 417
14
IC5
SOFTWARE
GLY C:210 , HOH C:605 , PRO F:102 , HOH F:951
BINDING SITE FOR RESIDUE DMS F 342
15
KC1
SOFTWARE
ILE G:101 , PRO G:102 , HOH G:369 , HOH G:905 , GLY K:210
BINDING SITE FOR RESIDUE DMS G 413
16
KC3
SOFTWARE
GLN G:179 , ARG G:209 , HOH G:2267 , ALA K:65 , GLY K:66 , ASN K:69
BINDING SITE FOR RESIDUE DMS G 417
17
PC5
SOFTWARE
TYR C:19 , GLY C:20 , TRP K:78 , TYR K:83 , GLU K:106 , HOH K:717
BINDING SITE FOR RESIDUE DMS K 403
18
PC6
SOFTWARE
ASN C:114 , ASN C:200 , ASP C:204 , LEU C:229 , ARG K:95 , ARG K:96 , THR K:97 , HOH K:1879
BINDING SITE FOR RESIDUE DMS K 411
19
PC7
SOFTWARE
TYR C:207 , GLU C:234 , THR K:97
BINDING SITE FOR RESIDUE DMS K 421
20
PC8
SOFTWARE
TYR C:83 , GLU C:106 , TYR K:19 , GLY K:20 , B3N K:401 , HOH K:894
BINDING SITE FOR RESIDUE DMS K 342
21
PC9
SOFTWARE
LEU K:60 , LYS K:61 , HIS K:63 , HOH K:2259
BINDING SITE FOR RESIDUE DMS K 405
22
QC1
SOFTWARE
HOH G:963 , ILE K:101 , PRO K:102
BINDING SITE FOR RESIDUE DMS K 413
23
QC2
SOFTWARE
ILE K:142 , GLU K:275 , ALA K:276
BINDING SITE FOR RESIDUE DMS K 415
24
QC3
SOFTWARE
ALA G:65 , GLN K:179 , ARG K:209
BINDING SITE FOR RESIDUE DMS K 417
25
QC4
SOFTWARE
ASN K:246 , TYR K:247
BINDING SITE FOR RESIDUE DMS K 419
26
QC5
SOFTWARE
ARG K:53 , HIS K:54 , ALA K:133
BINDING SITE FOR RESIDUE DMS K 423
27
QC6
SOFTWARE
TYR K:19 , PHE K:27 , HIS K:158 , HIS K:159 , TYR K:168 , ASP K:195 , HIS K:197 , PHE K:225 , ASP K:284 , PRO K:290 , ILE K:291 , TYR K:323 , DMS K:342 , ZN K:345 , HOH K:729
BINDING SITE FOR RESIDUE B3N K 401
28
QC7
SOFTWARE
ASP K:193 , ASP K:195 , HIS K:197 , SER K:216 , LEU K:217
BINDING SITE FOR RESIDUE K K 343
29
QC8
SOFTWARE
PHE K:206 , ARG K:209 , VAL K:212 , THR K:243 , HOH K:573
BINDING SITE FOR RESIDUE NA K 344
30
QC9
SOFTWARE
ASP K:195 , HIS K:197 , ASP K:284 , B3N K:401
BINDING SITE FOR RESIDUE ZN K 345
31
RC1
SOFTWARE
PHE K:286 , GLU K:287 , ASP K:289 , SER K:292 , PHE K:294 , HOH K:1876
BINDING SITE FOR RESIDUE K K 346
[
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
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CATH Domains
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Pfam Domains
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