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3PKZ
Biol. Unit 1
Info
Asym.Unit (530 KB)
Biol.Unit 1 (176 KB)
Biol.Unit 2 (176 KB)
Biol.Unit 3 (178 KB)
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(1)
Title
:
STRUCTURAL BASIS FOR CATALYTIC ACTIVATION OF A SERINE RECOMBINASE
Authors
:
R. A. Keenholtz, M. R. Boocock, S. J. Rowland, W. M. Stark, P. A. Rice
Date
:
12 Nov 10 (Deposition) - 15 Jun 11 (Release) - 28 Mar 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Biol. Unit 3: I,J,K,L (1x)
Keywords
:
Small Serine Recombinase, Resolvase, Dna, Recombination
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. A. Keenholtz, S. J. Rowland, M. R. Boocock, W. M. Stark, P. A. Rice
Structural Basis For Catalytic Activation Of A Serine Recombinase.
Structure V. 19 799 2011
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close entry info
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Hetero Components
(1, 7)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
3e: SULFATE ION (SO4e)
3f: SULFATE ION (SO4f)
3g: SULFATE ION (SO4g)
3h: SULFATE ION (SO4h)
3i: SULFATE ION (SO4i)
3j: SULFATE ION (SO4j)
3k: SULFATE ION (SO4k)
3l: SULFATE ION (SO4l)
3m: SULFATE ION (SO4m)
3n: SULFATE ION (SO4n)
3o: SULFATE ION (SO4o)
3p: SULFATE ION (SO4p)
3q: SULFATE ION (SO4q)
3r: SULFATE ION (SO4r)
3s: SULFATE ION (SO4s)
3t: SULFATE ION (SO4t)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
-1
Ligand/Ion
1,2-ETHANEDIOL
2
GOL
-1
Ligand/Ion
GLYCEROL
3
SO4
7
Ligand/Ion
SULFATE ION
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ARG A:7 , SER A:9 , ARG A:66 , ARG A:69 , HOH A:428
BINDING SITE FOR RESIDUE SO4 A 125
2
AC2
SOFTWARE
ASN A:51 , TYR A:80 , LYS A:84 , LYS F:48
BINDING SITE FOR RESIDUE SO4 A 126
3
AC3
SOFTWARE
ARG B:7 , SER B:9 , GLN B:13 , ARG B:66 , ARG B:69 , HOH B:228
BINDING SITE FOR RESIDUE SO4 B 125
4
AC4
SOFTWARE
ILE A:75 , ASN A:79 , ARG A:115 , ILE C:75 , ASN C:79 , ARG C:115 , HOH C:613
BINDING SITE FOR RESIDUE SO4 C 125
5
AC5
SOFTWARE
ARG C:7 , SER C:9 , GLN C:13 , ARG C:66 , ARG C:69 , HOH C:808
BINDING SITE FOR RESIDUE SO4 C 126
6
AC6
SOFTWARE
ASN B:79 , ARG B:115 , ASN D:79 , LYS D:82 , ASP D:111 , ARG D:115 , HOH D:629
BINDING SITE FOR RESIDUE SO4 D 125
7
AC7
SOFTWARE
ARG D:7 , SER D:9 , GLN D:13 , ARG D:66 , ARG D:69 , HOH D:297
BINDING SITE FOR RESIDUE SO4 D 126
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(3, 12)
Info
All PROSITE Patterns/Profiles
1: RECOMBINASES_3 (A:1-124,B:1-124,C:1-124,D:1-124)
2: RECOMBINASES_1 (A:5-13,B:5-13,C:5-13,D:5-13)
3: RECOMBINASES_2 (A:56-68,B:56-68,C:56-68,D:56-68)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RECOMBINASES_3
PS51736
Resolvase/invertase-type recombinase catalytic domain profile.
BIN3_STAAU
1-143
4
A:1-124
B:1-124
C:1-124
D:1-124
-
-
-
-
-
-
-
-
2
RECOMBINASES_1
PS00397
Site-specific recombinases active site.
BIN3_STAAU
5-13
4
A:5-13
B:5-13
C:5-13
D:5-13
-
-
-
-
-
-
-
-
3
RECOMBINASES_2
PS00398
Site-specific recombinases signature 2.
BIN3_STAAU
56-68
4
A:56-68
B:56-68
C:56-68
D:56-68
-
-
-
-
-
-
-
-
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Exons
(0, 0)
Info
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 12)
Info
All SCOP Domains
1a: SCOP_d3pkza_ (A:)
1b: SCOP_d3pkzb_ (B:)
1c: SCOP_d3pkzk_ (K:)
1d: SCOP_d3pkzl_ (L:)
1e: SCOP_d3pkzc_ (C:)
1f: SCOP_d3pkzd_ (D:)
1g: SCOP_d3pkze_ (E:)
1h: SCOP_d3pkzf_ (F:)
1i: SCOP_d3pkzg_ (G:)
1j: SCOP_d3pkzh_ (H:)
1k: SCOP_d3pkzi_ (I:)
1l: SCOP_d3pkzj_ (J:)
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Classes
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)
(
)
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(
)
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(
)
(
)
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(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Resolvase-like
(37)
Superfamily
:
Resolvase-like
(11)
Family
:
automated matches
(2)
Protein domain
:
automated matches
(2)
Staphylococcus aureus [TaxId: 1280]
(1)
1a
d3pkza_
A:
1b
d3pkzb_
B:
1c
d3pkzk_
K:
1d
d3pkzl_
L:
1e
d3pkzc_
C:
1f
d3pkzd_
D:
1g
d3pkze_
E:
1h
d3pkzf_
F:
1i
d3pkzg_
G:
1j
d3pkzh_
H:
1k
d3pkzi_
I:
1l
d3pkzj_
J:
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(1, 12)
Info
all PFAM domains
1a: PFAM_Resolvase_3pkzL01 (L:2-124)
1b: PFAM_Resolvase_3pkzL02 (L:2-124)
1c: PFAM_Resolvase_3pkzL03 (L:2-124)
1d: PFAM_Resolvase_3pkzL04 (L:2-124)
1e: PFAM_Resolvase_3pkzL05 (L:2-124)
1f: PFAM_Resolvase_3pkzL06 (L:2-124)
1g: PFAM_Resolvase_3pkzL07 (L:2-124)
1h: PFAM_Resolvase_3pkzL08 (L:2-124)
1i: PFAM_Resolvase_3pkzL09 (L:2-124)
1j: PFAM_Resolvase_3pkzL10 (L:2-124)
1k: PFAM_Resolvase_3pkzL11 (L:2-124)
1l: PFAM_Resolvase_3pkzL12 (L:2-124)
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Clans
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)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Resolvase]
(7)
Family
:
Resolvase
(7)
Staphylococcus aureus
(2)
1a
Resolvase-3pkzL01
L:2-124
1b
Resolvase-3pkzL02
L:2-124
1c
Resolvase-3pkzL03
L:2-124
1d
Resolvase-3pkzL04
L:2-124
1e
Resolvase-3pkzL05
L:2-124
1f
Resolvase-3pkzL06
L:2-124
1g
Resolvase-3pkzL07
L:2-124
1h
Resolvase-3pkzL08
L:2-124
1i
Resolvase-3pkzL09
L:2-124
1j
Resolvase-3pkzL10
L:2-124
1k
Resolvase-3pkzL11
L:2-124
1l
Resolvase-3pkzL12
L:2-124
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Asymmetric Unit 1
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Asym.Unit (530 KB)
Header - Asym.Unit
Biol.Unit 1 (176 KB)
Header - Biol.Unit 1
Biol.Unit 2 (176 KB)
Header - Biol.Unit 2
Biol.Unit 3 (178 KB)
Header - Biol.Unit 3
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