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3ORV
Asym. Unit
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Asym.Unit (498 KB)
Biol.Unit 1 (488 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE Y294H-MAUG/PRE-METHYLAMINE DEHYDROGENASE COMPLEX
Authors
:
L. M. R. Jensen, C. M. Wilmot
Date
:
07 Sep 10 (Deposition) - 10 Nov 10 (Release) - 18 May 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.91
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (1x)
Keywords
:
Maug, Methylamine Dehydrogenase, His-His Heme, C-Heme, Quinone Cofactor, Oxidoreductase-Electron Transport Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. Abu Tarboush, L. M. Jensen, M. Feng, H. Tachikawa, C. M. Wilmot, V. L. Davidson
Functional Importance Of Tyrosine 294 And The Catalytic Selectivity For The Bis-Fe(Iv) State Of Maug Revealed By Replacement Of This Axial Heme Ligand With Histidine .
Biochemistry V. 49 9783 2010
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Hetero Components
(8, 18)
Info
All Hetero Components
1a: 7-HYDROXY-L-TRYPTOPHAN (0AFa)
1b: 7-HYDROXY-L-TRYPTOPHAN (0AFb)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
3a: 1,2-ETHANEDIOL (EDOa)
3b: 1,2-ETHANEDIOL (EDOb)
3c: 1,2-ETHANEDIOL (EDOc)
4a: HEME C (HECa)
4b: HEME C (HECb)
4c: HEME C (HECc)
4d: HEME C (HECd)
5a: HEXAETHYLENE GLYCOL (P6Ga)
6a: DI(HYDROXYETHYL)ETHER (PEGa)
6b: DI(HYDROXYETHYL)ETHER (PEGb)
6c: DI(HYDROXYETHYL)ETHER (PEGc)
7a: TETRAETHYLENE GLYCOL (PG4a)
7b: TETRAETHYLENE GLYCOL (PG4b)
8a: TRIETHYLENE GLYCOL (PGEa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
0AF
2
Mod. Amino Acid
7-HYDROXY-L-TRYPTOPHAN
2
CA
2
Ligand/Ion
CALCIUM ION
3
EDO
3
Ligand/Ion
1,2-ETHANEDIOL
4
HEC
4
Ligand/Ion
HEME C
5
P6G
1
Ligand/Ion
HEXAETHYLENE GLYCOL
6
PEG
3
Ligand/Ion
DI(HYDROXYETHYL)ETHER
7
PG4
2
Ligand/Ion
TETRAETHYLENE GLYCOL
8
PGE
1
Ligand/Ion
TRIETHYLENE GLYCOL
[
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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:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:66 , THR A:275 , PRO A:277 , HOH A:376 , HOH A:377 , HOH A:384 , HOH A:395
BINDING SITE FOR RESIDUE CA A 400
02
AC2
SOFTWARE
GLN A:29 , SER A:30 , CYS A:31 , CYS A:34 , HIS A:35 , VAL A:55 , ARG A:65 , THR A:67 , PRO A:68 , LEU A:70 , GLN A:91 , PHE A:92 , TRP A:93 , ARG A:96 , LEU A:100 , GLN A:103 , ALA A:104 , PRO A:107 , MET A:114 , GLN A:163 , LYS A:265 , HOH A:444 , HOH A:515 , HOH A:1053 , HOH A:1114
BINDING SITE FOR RESIDUE HEC A 500
03
AC3
SOFTWARE
TRP A:93 , ASN A:200 , CYS A:201 , CYS A:204 , HIS A:205 , HIS A:224 , ILE A:226 , LEU A:228 , PHE A:264 , PRO A:267 , LEU A:269 , TYR A:278 , MET A:279 , HIS A:280 , LEU A:287 , HIS A:294 , SER A:324 , GLU A:327 , HOH A:377 , HOH A:384 , HOH A:422 , HOH A:440 , HOH A:443
BINDING SITE FOR RESIDUE HEC A 600
04
AC4
SOFTWARE
ASN B:66 , THR B:275 , PRO B:277 , HOH B:383 , HOH B:399 , HOH B:413 , HOH B:431
BINDING SITE FOR RESIDUE CA B 400
05
AC5
SOFTWARE
GLN B:29 , SER B:30 , CYS B:31 , CYS B:34 , HIS B:35 , SER B:54 , ARG B:65 , THR B:67 , PRO B:68 , LEU B:70 , GLN B:91 , PHE B:92 , TRP B:93 , ARG B:96 , LEU B:100 , GLN B:103 , ALA B:104 , PRO B:107 , GLN B:163 , LYS B:265 , HOH B:530 , HOH B:582 , HOH B:727 , HOH B:838
BINDING SITE FOR RESIDUE HEC B 500
06
AC6
SOFTWARE
TRP B:93 , ASN B:200 , CYS B:201 , CYS B:204 , HIS B:205 , HIS B:224 , ILE B:226 , LEU B:228 , PHE B:264 , PRO B:267 , LEU B:269 , TYR B:278 , MET B:279 , HIS B:280 , LEU B:287 , HIS B:294 , SER B:324 , GLU B:327 , HOH B:376 , HOH B:399 , HOH B:413 , HOH B:423 , HOH B:428
BINDING SITE FOR RESIDUE HEC B 600
07
AC7
SOFTWARE
ALA B:164 , ARG B:215
BINDING SITE FOR RESIDUE EDO B 374
08
AC8
SOFTWARE
THR D:187 , LYS D:236 , LEU D:254 , SER D:255
BINDING SITE FOR RESIDUE PGE D 387
09
AC9
SOFTWARE
ASP D:87 , PRO D:146 , GLN D:235
BINDING SITE FOR RESIDUE EDO D 388
10
BC1
SOFTWARE
ASP C:32 , GLY C:33 , PRO C:87 , CYS C:88 , HIS D:54 , HOH D:1138
BINDING SITE FOR RESIDUE PEG D 389
11
BC2
SOFTWARE
ASP E:32 , GLY E:33 , PRO E:87 , HIS F:54
BINDING SITE FOR RESIDUE PEG E 138
12
BC3
SOFTWARE
THR F:187 , LYS F:236 , LEU F:254 , SER F:255 , HOH F:800
BINDING SITE FOR RESIDUE PG4 F 387
13
BC4
SOFTWARE
VAL D:98 , PHE D:99 , SER D:100 , GLU D:106 , THR D:108 , VAL F:98 , PHE F:99 , SER F:100 , GLU F:106 , THR F:108 , HOH F:528
BINDING SITE FOR RESIDUE PG4 F 388
14
BC5
SOFTWARE
ARG A:125 , ASP A:128 , VAL F:219 , PHE F:261 , LEU F:262 , HOH F:840 , HOH F:1206
BINDING SITE FOR RESIDUE P6G F 389
15
BC6
SOFTWARE
VAL F:85 , ASP F:87 , THR F:145 , GLY F:148 , GLN F:235
BINDING SITE FOR RESIDUE PEG F 390
16
BC7
SOFTWARE
ARG F:293 , LEU F:324 , GLU F:362
BINDING SITE FOR RESIDUE EDO F 391
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: CYTC (A:9-130,B:9-130|A:176-350,B:176-35...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CYTC
PS51007
Cytochrome c family profile.
MAUG_PARDP
29-150
196-370
4
A:9-130
B:9-130
A:176-350
B:176-350
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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
(2, 4)
Info
All SCOP Domains
1a: SCOP_d3orvd_ (D:)
1b: SCOP_d3orvf_ (F:)
2a: SCOP_d3orvc_ (C:)
2b: SCOP_d3orve_ (E:)
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(
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(
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
7-bladed beta-propeller
(245)
Superfamily
:
YVTN repeat-like/Quinoprotein amine dehydrogenase
(31)
Family
:
automated matches
(18)
Protein domain
:
automated matches
(18)
Paracoccus denitrificans [TaxId: 318586]
(18)
1a
d3orvd_
D:
1b
d3orvf_
F:
Class
:
Small proteins
(3458)
Fold
:
Methylamine dehydrogenase, L chain
(68)
Superfamily
:
Methylamine dehydrogenase, L chain
(68)
Family
:
Methylamine dehydrogenase, L chain
(41)
Protein domain
:
automated matches
(32)
Paracoccus denitrificans [TaxId: 318586]
(19)
2a
d3orvc_
C:
2b
d3orve_
E:
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CATH Domains
(0, 0)
Info
all CATH domains
View:
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Sorry, no Info available
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Pfam Domains
(3, 6)
Info
all PFAM domains
1a: PFAM_Me_amine_dh_H_3orvF01 (F:43-384)
1b: PFAM_Me_amine_dh_H_3orvF02 (F:43-384)
2a: PFAM_CCP_MauG_3orvB01 (B:7-186)
2b: PFAM_CCP_MauG_3orvB02 (B:7-186)
3a: PFAM_Me_amine_dh_L_3orvE01 (E:8-130)
3b: PFAM_Me_amine_dh_L_3orvE02 (E:8-130)
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Clans
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Families
(
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(
)
Organisms
(
)
(
)
Clan
:
Beta_propeller
(192)
Family
:
Me-amine-dh_H
(13)
Paracoccus denitrificans (strain Pd 1222)
(6)
1a
Me-amine-dh_H-3orvF01
F:43-384
1b
Me-amine-dh_H-3orvF02
F:43-384
Clan
:
Cytochrome-c
(108)
Family
:
CCP_MauG
(10)
Paracoccus denitrificans (strain Pd 1222)
(6)
2a
CCP_MauG-3orvB01
B:7-186
2b
CCP_MauG-3orvB02
B:7-186
Clan
:
no clan defined [family: Me-amine-dh_L]
(16)
Family
:
Me-amine-dh_L
(16)
Paracoccus denitrificans
(7)
3a
Me-amine-dh_L-3orvE01
E:8-130
3b
Me-amine-dh_L-3orvE02
E:8-130
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