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2V0N
Biol. Unit 1
Info
Asym.Unit (159 KB)
Biol.Unit 1 (147 KB)
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(1)
Title
:
ACTIVATED RESPONSE REGULATOR PLED IN COMPLEX WITH C-DIGMP AND GTP-ALPHA-S
Authors
:
P. Wassmann, T. Schirmer
Date
:
15 May 07 (Deposition) - 21 Aug 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.71
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Beryllium Fluoride Modification, Allosteric Product Inhibition, Response Regulator, Lyase, Cell Cycle, Transducer, Magnesium, Two-Component System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. Wassmann, C. Chan, R. Paul, A. Beck, H. Heerklotz, U. Jenal, T. Schirmer
Structure Of Bef3--Modified Response Regulator Pled: Implications For Diguanylate Cyclase Activation, Catalysis, And Feedback Inhibition
Structure V. 15 915 2007
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Hetero Components
(4, 10)
Info
All Hetero Components
1a: BERYLLIUM TRIFLUORIDE ION (BEFa)
1b: BERYLLIUM TRIFLUORIDE ION (BEFb)
2a: 9,9'-[(2R,3R,3AS,5S,7AR,9R,10R,10A... (C2Ea)
2b: 9,9'-[(2R,3R,3AS,5S,7AR,9R,10R,10A... (C2Eb)
2c: 9,9'-[(2R,3R,3AS,5S,7AR,9R,10R,10A... (C2Ec)
2d: 9,9'-[(2R,3R,3AS,5S,7AR,9R,10R,10A... (C2Ed)
3a: CHLORIDE ION (CLa)
4a: GUANOSINE-5'-RP-ALPHA-THIO-TRIPHOS... (GAVa)
4b: GUANOSINE-5'-RP-ALPHA-THIO-TRIPHOS... (GAVb)
5a: MAGNESIUM ION (MGa)
5b: MAGNESIUM ION (MGb)
5c: MAGNESIUM ION (MGc)
5d: MAGNESIUM ION (MGd)
5e: MAGNESIUM ION (MGe)
6a: SULFATE ION (SO4a)
6b: SULFATE ION (SO4b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BEF
2
Ligand/Ion
BERYLLIUM TRIFLUORIDE ION
2
C2E
4
Ligand/Ion
9,9'-[(2R,3R,3AS,5S,7AR,9R,10R,10AS,12S,14AR)-3,5,10,12-TETRAHYDROXY-5,12-DIOXIDOOCTAHYDRO-2H,7H-DIFURO[3,2-D:3',2'-J][1,3,7,9,2TETRAOXADIPHOSPHACYCLODODECINE-2,9-DIYL]BIS(2-AMINO-1,9-DIHYDRO-6H-PURIN-6-ONE)
3
CL
-1
Ligand/Ion
CHLORIDE ION
4
GAV
2
Ligand/Ion
GUANOSINE-5'-RP-ALPHA-THIO-TRIPHOSPHATE
5
MG
-1
Ligand/Ion
MAGNESIUM ION
6
SO4
2
Ligand/Ion
SULFATE ION
[
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Sites
(16, 16)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:53 , VAL A:54 , MET A:55 , THR A:83 , ALA A:84 , LYS A:105 , MG A:502 , HOH A:2001 , GLU B:423
BINDING SITE FOR RESIDUE BEF A 501
02
AC2
SOFTWARE
ASP A:10 , ASP A:53 , MET A:55 , BEF A:501 , HOH A:2001
BINDING SITE FOR RESIDUE MG A 502
03
AC3
SOFTWARE
ARG A:359 , ASP A:362 , ASP A:383 , ARG A:386 , ILE A:387 , ARG A:390 , C2E A:505 , ARG B:313
BINDING SITE FOR RESIDUE C2E A 503
04
AC4
SOFTWARE
ASN A:357 , VAL A:358 , ARG A:359 , ALA A:360 , ARG A:390 , C2E A:503 , SER B:309 , LYS B:312 , ARG B:313 , GLY B:318
BINDING SITE FOR RESIDUE C2E A 505
05
AC5
SOFTWARE
ASP A:327 , ILE A:328 , ASP A:329 , PHE A:330 , PHE A:331 , LYS A:332 , ASN A:335 , HIS A:340 , ASP A:344 , ARG A:366 , GLY A:369 , GLU A:370 , LYS A:442 , ARG A:446 , MG A:601
BINDING SITE FOR RESIDUE GAV A 600
06
AC6
SOFTWARE
ASP A:327 , ILE A:328 , GLU A:370 , GAV A:600
BINDING SITE FOR RESIDUE MG A 601
07
AC7
SOFTWARE
ASP A:327 , GLU A:370 , GLU A:371
BINDING SITE FOR RESIDUE MG A 602
08
AC8
SOFTWARE
ASP B:53 , VAL B:54 , MET B:55 , THR B:83 , ALA B:84 , LYS B:105 , MG B:502 , HOH B:2001
BINDING SITE FOR RESIDUE BEF B 501
09
AC9
SOFTWARE
ASP B:10 , ASP B:53 , MET B:55 , BEF B:501 , HOH B:2001
BINDING SITE FOR RESIDUE MG B 502
10
BC1
SOFTWARE
ARG A:313 , ARG B:359 , ASP B:362 , ASP B:383 , ARG B:386 , ILE B:387 , ARG B:390 , C2E B:505
BINDING SITE FOR RESIDUE C2E B 503
11
BC2
SOFTWARE
SER A:309 , ARG A:313 , GLY A:318 , ASN B:357 , VAL B:358 , ARG B:359 , ARG B:390 , C2E B:503
BINDING SITE FOR RESIDUE C2E B 505
12
BC3
SOFTWARE
GLY A:144 , ALA A:145 , ASP B:327 , ILE B:328 , PHE B:330 , PHE B:331 , LYS B:332 , ASN B:335 , HIS B:340 , ASP B:344 , ARG B:366 , GLY B:369 , GLU B:370 , LYS B:442 , ARG B:446 , MG B:601
BINDING SITE FOR RESIDUE GAV B 600
13
BC4
SOFTWARE
ASP B:327 , ILE B:328 , GLU B:370 , LYS B:442 , GAV B:600
BINDING SITE FOR RESIDUE MG B 601
14
BC5
SOFTWARE
ASN A:162 , ARG A:164 , ARG A:168
BINDING SITE FOR RESIDUE SO4 A1470
15
BC6
SOFTWARE
ARG A:117 , ARG A:121 , ARG B:117 , ARG B:121
BINDING SITE FOR RESIDUE SO4 A1471
16
BC7
SOFTWARE
ARG A:386 , ALA A:419 , ALA A:421 , ALA A:453 , ALA A:454
BINDING SITE FOR RESIDUE CL A1472
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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
(2, 12)
Info
All PROSITE Patterns/Profiles
1: RESPONSE_REGULATORY (A:4-120,A:155-269,B:155-269)
2: GGDEF (A:319-454,B:319-454)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RESPONSE_REGULATORY
PS50110
Response regulatory domain profile.
PLED_CAUCN
4-120
155-269
4
A:4-120
B:4-120
A:155-269
B:155-269
PLED_CAUCR
4-120
155-269
4
A:4-120
B:4-120
A:155-269
B:155-269
2
GGDEF
PS50887
GGDEF domain profile.
PLED_CAUCN
319-454
2
A:319-454
B:319-454
PLED_CAUCR
319-454
2
A:319-454
B:319-454
[
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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
(2, 6)
Info
All SCOP Domains
1a: SCOP_d2v0na3 (A:294-460)
1b: SCOP_d2v0nb3 (B:294-455)
2a: SCOP_d2v0na1 (A:2-140)
2b: SCOP_d2v0na2 (A:141-293)
2c: SCOP_d2v0nb1 (B:2-140)
2d: SCOP_d2v0nb2 (B:141-293)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Ferredoxin-like
(1795)
Superfamily
:
Nucleotide cyclase
(51)
Family
:
GGDEF domain
(2)
Protein domain
:
Response regulator PleD, C-terminal domain
(2)
Caulobacter crescentus [TaxId: 155892]
(2)
1a
d2v0na3
A:294-460
1b
d2v0nb3
B:294-455
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Flavodoxin-like
(1057)
Superfamily
:
CheY-like
(258)
Family
:
CheY-related
(166)
Protein domain
:
Response regulator PleD, receiver domain
(2)
Caulobacter crescentus [TaxId: 155892]
(2)
2a
d2v0na1
A:2-140
2b
d2v0na2
A:141-293
2c
d2v0nb1
B:2-140
2d
d2v0nb2
B:141-293
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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
(2, 6)
Info
all PFAM domains
1a: PFAM_Response_reg_2v0nB01 (B:156-266)
1b: PFAM_Response_reg_2v0nB02 (B:156-266)
1c: PFAM_Response_reg_2v0nB03 (B:156-266)
1d: PFAM_Response_reg_2v0nB04 (B:156-266)
2a: PFAM_GGDEF_2v0nB05 (B:289-448)
2b: PFAM_GGDEF_2v0nB06 (B:289-448)
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(
)
Organisms
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)
(
)
Clan
:
CheY
(97)
Family
:
Response_reg
(94)
Caulobacter crescentus (Caulobacter vibrioides)
(8)
1a
Response_reg-2v0nB01
B:156-266
1b
Response_reg-2v0nB02
B:156-266
1c
Response_reg-2v0nB03
B:156-266
1d
Response_reg-2v0nB04
B:156-266
Clan
:
Nucleot_cyclase
(14)
Family
:
GGDEF
(5)
Caulobacter crescentus (Caulobacter vibrioides)
(3)
2a
GGDEF-2v0nB05
B:289-448
2b
GGDEF-2v0nB06
B:289-448
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