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4HM0
Asym. Unit
Info
Asym.Unit (123 KB)
Biol.Unit 1 (340 KB)
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(1)
Title
:
NAPHTHALENE 1,2-DIOXYGENASE BOUND TO INDOLE-3-ACETATE
Authors
:
D. J. Ferraro, S. Ramaswamy
Date
:
17 Oct 12 (Deposition) - 30 Oct 13 (Release) - 30 Oct 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (3x)
Keywords
:
Oxidoreductase-Oxidoreductase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. J. Ferraro, S. Ramaswamy
Naphthalene 1, 2-Dioxygenase Bound To Indole-3-Acetate
To Be Published
[
close entry info
]
Hetero Components
(5, 23)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
1g: 1,2-ETHANEDIOL (EDOg)
1h: 1,2-ETHANEDIOL (EDOh)
1i: 1,2-ETHANEDIOL (EDOi)
1j: 1,2-ETHANEDIOL (EDOj)
1k: 1,2-ETHANEDIOL (EDOk)
1l: 1,2-ETHANEDIOL (EDOl)
1m: 1,2-ETHANEDIOL (EDOm)
1n: 1,2-ETHANEDIOL (EDOn)
1o: 1,2-ETHANEDIOL (EDOo)
3a: FE2/S2 (INORGANIC) CLUSTER (FESa)
2a: FE (III) ION (FEa)
4a: 1H-INDOL-3-YLACETIC ACID (IACa)
5a: SULFATE ION (SO4a)
5b: SULFATE ION (SO4b)
5c: SULFATE ION (SO4c)
5d: SULFATE ION (SO4d)
5e: SULFATE ION (SO4e)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
15
Ligand/Ion
1,2-ETHANEDIOL
2
FE
1
Ligand/Ion
FE (III) ION
3
FES
1
Ligand/Ion
FE2/S2 (INORGANIC) CLUSTER
4
IAC
1
Ligand/Ion
1H-INDOL-3-YLACETIC ACID
5
SO4
5
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(23, 23)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LEU A:31 , PHE A:35 , ALA A:36 , MET A:59 , GLY A:60 , ILE A:61 , ASP A:62 , PHE A:152 , TYR A:376 , GLN A:377
BINDING SITE FOR RESIDUE EDO A 501
02
AC2
SOFTWARE
HIS A:18 , CYS A:81 , ARG A:82 , SER A:381 , ASP A:382 , LEU A:383 , HOH A:783 , HOH A:807 , HOH A:808
BINDING SITE FOR RESIDUE EDO A 502
03
AC3
SOFTWARE
GLU A:24 , LYS A:374 , HOH A:809 , HOH A:810
BINDING SITE FOR RESIDUE EDO A 503
04
AC4
SOFTWARE
HIS A:208 , HIS A:213 , ASP A:362 , IAC A:505
BINDING SITE FOR RESIDUE FE A 504
05
AC5
SOFTWARE
ASN A:201 , ASP A:205 , HIS A:208 , HIS A:213 , HIS A:295 , ASN A:297 , PHE A:352 , ASP A:362 , FE A:504
BINDING SITE FOR RESIDUE IAC A 505
06
AC6
SOFTWARE
TRP A:439 , HOH A:671 , HOH A:712
BINDING SITE FOR RESIDUE SO4 A 506
07
AC7
SOFTWARE
LEU A:128 , ASN A:129 , LYS A:130 , LYS A:131
BINDING SITE FOR RESIDUE SO4 A 507
08
AC8
SOFTWARE
CYS A:81 , HIS A:83 , ARG A:84 , CYS A:101 , HIS A:104 , TRP A:106
BINDING SITE FOR RESIDUE FES A 508
09
AC9
SOFTWARE
VAL A:183 , ARG A:342 , ASP A:346 , HOH A:724
BINDING SITE FOR RESIDUE EDO A 509
10
BC1
SOFTWARE
THR A:56 , GLU A:92 , PRO A:186 , LYS A:188 , TRP A:327 , GLU B:570 , ARG B:683
BINDING SITE FOR RESIDUE EDO A 510
11
BC2
SOFTWARE
ASP A:361 , ASP A:364 , HOH A:603 , HOH A:816 , HOH A:857 , TRP B:608 , GLY B:609 , ARG B:648
BINDING SITE FOR RESIDUE EDO A 511
12
BC3
SOFTWARE
GLU A:142 , SER A:143 , EDO A:513
BINDING SITE FOR RESIDUE EDO A 512
13
BC4
SOFTWARE
SER A:73 , ILE A:74 , SER A:143 , EDO A:512 , HOH A:874
BINDING SITE FOR RESIDUE EDO A 513
14
BC5
SOFTWARE
ASP A:396 , ALA A:397 , VAL A:398 , PRO A:400 , HIS A:440 , HOH A:716 , HOH A:811
BINDING SITE FOR RESIDUE EDO A 514
15
BC6
SOFTWARE
PRO A:337 , GLU A:338 , HOH A:688
BINDING SITE FOR RESIDUE SO4 A 515
16
BC7
SOFTWARE
ASP B:546 , ARG B:615 , PHE B:616 , EDO B:705 , HOH B:851
BINDING SITE FOR RESIDUE EDO B 701
17
BC8
SOFTWARE
GLY B:559 , SER B:560 , GLY B:666 , GLU B:667 , LYS B:672 , HOH B:914
BINDING SITE FOR RESIDUE SO4 B 702
18
BC9
SOFTWARE
TYR B:588 , MET B:691 , VAL B:692 , PHE B:693 , HOH B:841 , HOH B:884
BINDING SITE FOR RESIDUE EDO B 703
19
CC1
SOFTWARE
ASN B:591 , GLN B:594 , HOH B:840 , HOH B:904
BINDING SITE FOR RESIDUE EDO B 704
20
CC2
SOFTWARE
ARG B:638 , ALA B:658 , GLU B:660 , VAL B:678 , ASP B:679 , EDO B:701 , HOH B:868
BINDING SITE FOR RESIDUE EDO B 705
21
CC3
SOFTWARE
VAL A:190 , GLN B:686 , THR B:687 , HIS B:688
BINDING SITE FOR RESIDUE EDO B 706
22
CC4
SOFTWARE
THR B:535 , THR B:539 , ILE B:620 , THR B:621 , ASN B:622
BINDING SITE FOR RESIDUE EDO B 707
23
CC5
SOFTWARE
LYS B:632 , ARG B:665 , GLY B:669 , ARG B:671 , HOH B:899
BINDING SITE FOR RESIDUE SO4 B 708
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
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Sorry, no Info available
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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
(3, 3)
Info
All SCOP Domains
1a: SCOP_d4hm0a1 (A:1-154)
2a: SCOP_d4hm0b_ (B:)
3a: SCOP_d4hm0a2 (A:155-448)
View:
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Classes
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(
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Folds
(
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(
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Superfamilies
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)
Families
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
ISP domain
(115)
Superfamily
:
ISP domain
(115)
Family
:
Ring hydroxylating alpha subunit ISP domain
(40)
Protein domain
:
Naphthalene 1,2-dioxygenase alpha subunit, N-domain
(27)
Pseudomonas sp. [TaxId: 69011]
(13)
1a
d4hm0a1
A:1-154
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Cystatin-like
(403)
Superfamily
:
NTF2-like
(231)
Family
:
Ring hydroxylating beta subunit
(46)
Protein domain
:
Naphthalene 1,2-dioxygenase beta subunit
(28)
Pseudomonas sp. [TaxId: 69011]
(10)
2a
d4hm0b_
B:
Fold
:
TBP-like
(289)
Superfamily
:
Bet v1-like
(158)
Family
:
Ring hydroxylating alpha subunit catalytic domain
(42)
Protein domain
:
Naphthalene 1,2-dioxygenase alpha subunit, C-domain
(29)
Pseudomonas sp. [TaxId: 69011]
(14)
3a
d4hm0a2
A:155-448
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
[
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Atom Selection
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Protein & NOT Site
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Chain A
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Asymmetric Unit 1
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
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Asym.Unit (123 KB)
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