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4QRO
Asym. Unit
Info
Asym.Unit (488 KB)
Biol.Unit 1 (126 KB)
Biol.Unit 2 (123 KB)
Biol.Unit 3 (126 KB)
Biol.Unit 4 (127 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF DIHYDROXYBENZOIC ACID DECARBBOXYLASE BPRO_2061 (TARGET EFI-500288) FROM POLAROMONAS SP. JS666 WITH BOUND MANGANESE AND AN INHIBITOR, 2-NITRORESORCINOL
Authors
:
Y. Patskovsky, A. Vladimirova, R. Toro, R. Bhosle, J. A. Gerlt, M. Raush S. C. Almo
Date
:
01 Jul 14 (Deposition) - 06 Aug 14 (Release) - 06 Aug 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.65
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Biol. Unit 4: G,H (1x)
Keywords
:
Enzyme Function Initiative, Efi, Hydrolase, Decarboxylase, Hydrolase- Hydrolase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. Patskovsky, A. Vladimirova, R. Toro, R. Bhosle, F. M. Raushel, S. C. Almo
Crystal Structure Of Dihydroxybenzoate Decarboxylase From Frompolaromonas Sp With Bound Manganese And 2-Nitroresorcinol
To Be Published
[
close entry info
]
Hetero Components
(5, 34)
Info
All Hetero Components
1a: 2-NITROBENZENE-1,3-DIOL (38La)
1b: 2-NITROBENZENE-1,3-DIOL (38Lb)
1c: 2-NITROBENZENE-1,3-DIOL (38Lc)
1d: 2-NITROBENZENE-1,3-DIOL (38Ld)
1e: 2-NITROBENZENE-1,3-DIOL (38Le)
1f: 2-NITROBENZENE-1,3-DIOL (38Lf)
1g: 2-NITROBENZENE-1,3-DIOL (38Lg)
1h: 2-NITROBENZENE-1,3-DIOL (38Lh)
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)
3a: BICARBONATE ION (BCTa)
4a: GLYCEROL (GOLa)
4b: GLYCEROL (GOLb)
4c: GLYCEROL (GOLc)
4d: GLYCEROL (GOLd)
4e: GLYCEROL (GOLe)
4f: GLYCEROL (GOLf)
5a: MANGANESE (II) ION (MNa)
5b: MANGANESE (II) ION (MNb)
5c: MANGANESE (II) ION (MNc)
5d: MANGANESE (II) ION (MNd)
5e: MANGANESE (II) ION (MNe)
5f: MANGANESE (II) ION (MNf)
5g: MANGANESE (II) ION (MNg)
5h: MANGANESE (II) ION (MNh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
38L
8
Ligand/Ion
2-NITROBENZENE-1,3-DIOL
2
ACT
11
Ligand/Ion
ACETATE ION
3
BCT
1
Ligand/Ion
BICARBONATE ION
4
GOL
6
Ligand/Ion
GLYCEROL
5
MN
8
Ligand/Ion
MANGANESE (II) ION
[
close Hetero Component info
]
Sites
(34, 34)
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)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
THR A:54 , PRO A:92 , THR A:93 , ARG A:94 , PHE A:95 , ARG A:96 , LEU A:324 , ASN A:329
BINDING SITE FOR RESIDUE GOL A 401
02
AC2
SOFTWARE
THR A:267 , TRP A:299 , ASN A:302 , THR A:303 , SER A:304 , HOH A:517 , HOH A:531 , HOH A:569 , HOH A:614 , HOH A:782 , THR D:267 , TRP D:299 , ASN D:302 , THR D:303 , SER D:304 , HOH D:518
BINDING SITE FOR RESIDUE GOL A 402
03
AC3
SOFTWARE
GLU A:8 , HIS A:10 , HIS A:164 , ASP A:287 , 38L A:405
BINDING SITE FOR RESIDUE MN A 403
04
AC4
SOFTWARE
TRP A:288 , ASN A:292 , ILE A:293 , ASP A:294 , HOH A:783
BINDING SITE FOR RESIDUE ACT A 404
05
AC5
SOFTWARE
GLU A:8 , HIS A:10 , HIS A:164 , PRO A:185 , HIS A:218 , ASP A:287 , PHE A:290 , MN A:403 , HOH A:556 , HOH A:604 , ARG B:229 , ASN B:234
BINDING SITE FOR RESIDUE 38L A 405
06
AC6
SOFTWARE
THR B:267 , TRP B:299 , SER B:304 , HOH B:515 , HOH B:521 , HOH B:550 , HOH B:708 , THR C:267 , TRP C:299 , SER C:304
BINDING SITE FOR RESIDUE GOL B 401
07
AC7
SOFTWARE
GLU B:8 , HIS B:10 , HIS B:164 , ASP B:287 , 38L B:404
BINDING SITE FOR RESIDUE MN B 402
08
AC8
SOFTWARE
TRP B:288 , ASN B:292 , ILE B:293 , ASP B:294 , HOH B:501
BINDING SITE FOR RESIDUE ACT B 403
09
AC9
SOFTWARE
ARG A:229 , ASN A:234 , GLU B:8 , HIS B:10 , HIS B:164 , PRO B:185 , PHE B:189 , HIS B:218 , ASP B:287 , PHE B:290 , MN B:402 , HOH B:520 , HOH B:562
BINDING SITE FOR RESIDUE 38L B 404
10
BC1
SOFTWARE
GLY C:3 , MET C:47 , ASP C:48 , ILE C:52 , GLU C:53 , ARG C:94
BINDING SITE FOR RESIDUE GOL C 401
11
BC2
SOFTWARE
GLU C:8 , HIS C:10 , HIS C:164 , ASP C:287 , 38L C:405
BINDING SITE FOR RESIDUE MN C 402
12
BC3
SOFTWARE
ARG C:42 , LEU C:46 , TRP C:288 , ASN C:292 , ILE C:293 , ASP C:294
BINDING SITE FOR RESIDUE ACT C 403
13
BC4
SOFTWARE
LEU C:37 , ILE C:39 , GLN C:40 , GLN C:87 , HOH C:586
BINDING SITE FOR RESIDUE ACT C 404
14
BC5
SOFTWARE
GLU C:8 , HIS C:10 , HIS C:164 , PRO C:185 , HIS C:218 , ASP C:287 , PHE C:290 , MN C:402 , HOH C:519 , HOH C:570 , ARG D:229 , ASN D:234
BINDING SITE FOR RESIDUE 38L C 405
15
BC6
SOFTWARE
GLU D:8 , HIS D:10 , HIS D:164 , ASP D:287 , 38L D:403
BINDING SITE FOR RESIDUE MN D 401
16
BC7
SOFTWARE
LEU D:46 , TRP D:288 , ASN D:292 , ILE D:293 , ASP D:294 , HOH D:689
BINDING SITE FOR RESIDUE ACT D 402
17
BC8
SOFTWARE
ARG C:229 , ASN C:234 , GLU D:8 , HIS D:10 , HIS D:164 , PRO D:185 , HIS D:218 , ASP D:287 , PHE D:290 , MN D:401 , HOH D:582 , HOH D:616
BINDING SITE FOR RESIDUE 38L D 403
18
BC9
SOFTWARE
GLU E:8 , HIS E:10 , HIS E:164 , ASP E:287 , 38L E:404
BINDING SITE FOR RESIDUE MN E 401
19
CC1
SOFTWARE
LEU E:46 , ASN E:292 , ILE E:293 , ASP E:294 , HOH E:731
BINDING SITE FOR RESIDUE ACT E 402
20
CC2
SOFTWARE
ASP E:172 , TYR E:176 , GLN E:191 , HOH E:616 , GLN F:191 , HOH F:605
BINDING SITE FOR RESIDUE ACT E 403
21
CC3
SOFTWARE
GLU E:8 , HIS E:10 , HIS E:164 , PRO E:185 , HIS E:218 , ASP E:287 , PHE E:290 , MN E:401 , HOH E:583 , HOH E:584 , ARG F:229 , ASN F:234
BINDING SITE FOR RESIDUE 38L E 404
22
CC4
SOFTWARE
THR F:267 , TRP F:299 , ASN F:302 , THR F:303 , SER F:304 , HOH F:506 , HOH F:510 , HOH F:524 , HOH F:581 , THR G:267 , TRP G:299 , ASN G:302 , THR G:303 , SER G:304 , HOH G:537
BINDING SITE FOR RESIDUE GOL F 401
23
CC5
SOFTWARE
GLU F:8 , HIS F:10 , HIS F:164 , ASP F:287 , 38L F:404
BINDING SITE FOR RESIDUE MN F 402
24
CC6
SOFTWARE
LEU F:46 , ASN F:292 , ILE F:293 , ASP F:294 , HOH F:763
BINDING SITE FOR RESIDUE ACT F 403
25
CC7
SOFTWARE
ARG E:229 , ASN E:234 , GLU F:8 , HIS F:10 , HIS F:164 , PRO F:185 , HIS F:218 , ASP F:287 , PHE F:290 , MN F:402 , HOH F:543 , HOH F:582
BINDING SITE FOR RESIDUE 38L F 404
26
CC8
SOFTWARE
GLU G:8 , HIS G:10 , HIS G:164 , ASP G:287 , 38L G:403
BINDING SITE FOR RESIDUE MN G 401
27
CC9
SOFTWARE
LEU G:46 , ASN G:292 , ILE G:293 , ASP G:294 , HOH G:762
BINDING SITE FOR RESIDUE ACT G 402
28
DC1
SOFTWARE
GLU G:8 , HIS G:10 , HIS G:164 , PRO G:185 , HIS G:218 , ASP G:287 , PHE G:290 , MN G:401 , HOH G:516 , HOH G:735 , ARG H:229 , ASN H:234
BINDING SITE FOR RESIDUE 38L G 403
29
DC2
SOFTWARE
ASP G:172 , GLN G:191 , HOH G:575 , GLN H:191 , HOH H:588 , HOH H:775
BINDING SITE FOR RESIDUE BCT G 404
30
DC3
SOFTWARE
THR E:267 , TRP E:299 , ASN E:302 , SER E:304 , THR H:267 , TRP H:299 , ASN H:302 , THR H:303 , SER H:304 , HOH H:510 , HOH H:540 , HOH H:541 , HOH H:553 , HOH H:576 , HOH H:783
BINDING SITE FOR RESIDUE GOL H 401
31
DC4
SOFTWARE
GLU H:8 , HIS H:10 , HIS H:164 , ASP H:287 , 38L H:405
BINDING SITE FOR RESIDUE MN H 402
32
DC5
SOFTWARE
ASN H:292 , ILE H:293 , ASP H:294 , HOH H:501
BINDING SITE FOR RESIDUE ACT H 403
33
DC6
SOFTWARE
ARG G:174 , PRO H:139 , SER H:171 , ASP H:172 , HOH H:773
BINDING SITE FOR RESIDUE ACT H 404
34
DC7
SOFTWARE
ARG G:229 , ASN G:234 , GLU H:8 , HIS H:10 , HIS H:164 , PRO H:185 , HIS H:218 , ASP H:287 , PHE H:290 , MN H:402 , HOH H:595 , HOH H:608
BINDING SITE FOR RESIDUE 38L H 405
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
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End label:
Sorry, no Info available
[
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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.
SCOP Domains
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Sorry, no Info available
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CATH Domains
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Info
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Sorry, no Info available
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Pfam Domains
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Sorry, no Info available
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (488 KB)
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