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Asym. Unit
Info
Asym.Unit (63 KB)
Biol.Unit 1 (59 KB)
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(1)
Title
:
REDUCED (CU+) PEPTIDYLGLYCINE ALPHA-HYDROXYLATING MONOOXYGENASE WITH BOUND PEPTIDE AND DIOXYGEN
Authors
:
S. T. Prigge, B. A. Eipper, R. E. Mains, L. M. Amzel
Date
:
14 Feb 04 (Deposition) - 11 May 04 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.85
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Beta Jelly-Roll, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. T. Prigge, B. A. Eipper, R. E. Mains, L. M. Amzel
Dioxygen Binds End-On To Mononuclear Copper In A Precatalytic Enzyme Complex.
Science V. 304 864 2004
[
close entry info
]
Hetero Components
(5, 13)
Info
All Hetero Components
1a: COPPER (II) ION (CUa)
1b: COPPER (II) ION (CUb)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
3a: N-ALPHA-ACETYL-3,5-DIIODOTYROSYL-D... (IYTa)
3b: N-ALPHA-ACETYL-3,5-DIIODOTYROSYL-D... (IYTb)
3c: N-ALPHA-ACETYL-3,5-DIIODOTYROSYL-D... (IYTc)
4a: NICKEL (II) ION (NIa)
5a: OXYGEN MOLECULE (OXYa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CU
2
Ligand/Ion
COPPER (II) ION
2
GOL
6
Ligand/Ion
GLYCEROL
3
IYT
3
Ligand/Ion
N-ALPHA-ACETYL-3,5-DIIODOTYROSYL-D-THREONINE
4
NI
1
Ligand/Ion
NICKEL (II) ION
5
OXY
1
Ligand/Ion
OXYGEN MOLECULE
[
close Hetero Component info
]
Sites
(13, 13)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:107 , HIS A:108 , HIS A:172
BINDING SITE FOR RESIDUE CU A 357
02
AC2
SOFTWARE
HIS A:242 , HIS A:244 , MET A:314 , OXY A:360
BINDING SITE FOR RESIDUE CU A 358
03
AC3
SOFTWARE
HIS A:235 , HIS A:305 , HOH A:361 , HOH A:362 , GOL A:363
BINDING SITE FOR RESIDUE NI A 359
04
AC4
SOFTWARE
HIS A:242 , HIS A:244 , MET A:314 , CU A:358
BINDING SITE FOR RESIDUE OXY A 360
05
AC5
SOFTWARE
ALA A:135 , MET A:208 , ARG A:240 , HIS A:242 , MET A:314 , ASN A:316 , TYR A:318 , GOL A:368 , HOH A:406 , HOH A:479 , HOH A:491 , HOH A:540
BINDING SITE FOR RESIDUE IYT A 701
06
AC6
SOFTWARE
ASP A:61 , ALA A:63 , LYS A:98 , ARG A:100 , SER A:190 , HIS A:192
BINDING SITE FOR RESIDUE IYT A 702
07
AC7
SOFTWARE
ALA A:59 , SER A:60 , ASP A:61 , PHE A:62 , GLU A:90 , GLU A:91 , ARG A:195 , GLN A:228 , LYS A:230 , PHE A:285 , GLY A:286 , HOH A:486
BINDING SITE FOR RESIDUE IYT A 703
08
AC8
SOFTWARE
HIS A:235 , HIS A:305 , ASP A:312 , NI A:359 , HOH A:361 , HOH A:362 , HOH A:427 , HOH A:564
BINDING SITE FOR RESIDUE GOL A 363
09
AC9
SOFTWARE
LEU A:138 , TYR A:139 , THR A:148 , MET A:320 , HOH A:401 , HOH A:415 , HOH A:423 , HOH A:430
BINDING SITE FOR RESIDUE GOL A 364
10
BC1
SOFTWARE
ASN A:136 , LEU A:138 , PHE A:156 , ARG A:157 , GLY A:163 , SER A:164 , SER A:330 , HOH A:403 , HOH A:411
BINDING SITE FOR RESIDUE GOL A 365
11
BC2
SOFTWARE
TYR A:205 , CYS A:227 , GLN A:228 , LYS A:230 , MET A:231 , THR A:333 , HOH A:487
BINDING SITE FOR RESIDUE GOL A 366
12
BC3
SOFTWARE
THR A:148 , PRO A:151 , ASP A:211 , VAL A:213 , PHE A:237 , PRO A:276 , HOH A:452 , HOH A:468 , HOH A:488 , HOH A:537 , HOH A:551
BINDING SITE FOR RESIDUE GOL A 367
13
BC4
SOFTWARE
ASN A:136 , ILE A:137 , MET A:204 , TYR A:318 , PHE A:331 , MET A:332 , THR A:333 , HOH A:422 , IYT A:701
BINDING SITE FOR RESIDUE GOL A 368
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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]
PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: CU2_MONOOXYGENASE_1 (A:107-114)
2: CU2_MONOOXYGENASE_2 (A:235-247)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CU2_MONOOXYGENASE_1
PS00084
Copper type II, ascorbate-dependent monooxygenases signature 1.
AMD_RAT
107-114
1
A:107-114
2
CU2_MONOOXYGENASE_2
PS00085
Copper type II, ascorbate-dependent monooxygenases signature 2.
AMD_RAT
235-247
1
A:235-247
[
close PROSITE info
]
Exons
(11, 11)
Info
All Exons
Exon 1.2 (A:45-75)
Exon 1.3 (A:76-95)
Exon 1.4 (A:95-124)
Exon 1.5 (A:124-153)
Exon 1.6 (A:153-181)
Exon 1.7 (A:181-197)
Exon 1.8 (A:197-220)
Exon 1.9 (A:220-247)
Exon 1.10 (A:247-272)
Exon 1.11 (A:273-307)
Exon 1.13 (A:307-356)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.1/1.2
02: Boundary 1.2/1.3
03: Boundary 1.3/1.4
04: Boundary 1.4/1.5
05: Boundary 1.5/1.6
06: Boundary 1.6/1.7
07: Boundary 1.7/1.8
08: Boundary 1.8/1.9
09: Boundary 1.9/1.10
10: Boundary 1.10/1.11
11: Boundary 1.11/1.13
12: Boundary 1.13/1.14
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
ENSRNOT00000043451
1
ENSRNOE00000312990
chr9:
96893071-96893356
286
AMD_RAT
1-35
35
0
-
-
1.2
ENSRNOT00000043451
2
ENSRNOE00000111526
chr9:
96894215-96894335
121
AMD_RAT
35-75
41
1
A:45-75
31
1.3
ENSRNOT00000043451
3
ENSRNOE00000111589
chr9:
96922951-96923008
58
AMD_RAT
76-95
20
1
A:76-95
20
1.4
ENSRNOT00000043451
4
ENSRNOE00000111641
chr9:
96933678-96933765
88
AMD_RAT
95-124
30
1
A:95-124
30
1.5
ENSRNOT00000043451
5
ENSRNOE00000111712
chr9:
96945410-96945495
86
AMD_RAT
124-153
30
1
A:124-153
30
1.6
ENSRNOT00000043451
6
ENSRNOE00000111761
chr9:
96946758-96946841
84
AMD_RAT
153-181
29
1
A:153-181
29
1.7
ENSRNOT00000043451
7
ENSRNOE00000111838
chr9:
96973214-96973262
49
AMD_RAT
181-197
17
1
A:181-197
17
1.8
ENSRNOT00000043451
8
ENSRNOE00000111893
chr9:
96974658-96974725
68
AMD_RAT
197-220
24
1
A:197-220
24
1.9
ENSRNOT00000043451
9
ENSRNOE00000111971
chr9:
96975839-96975919
81
AMD_RAT
220-247
28
1
A:220-247
28
1.10
ENSRNOT00000043451
10
ENSRNOE00000112028
chr9:
96976178-96976254
77
AMD_RAT
247-272
26
1
A:247-272
26
1.11
ENSRNOT00000043451
11
ENSRNOE00000112095
chr9:
96977435-96977538
104
AMD_RAT
273-307
35
1
A:273-307
35
1.13
ENSRNOT00000043451
13
ENSRNOE00000112162
chr9:
96987329-96987513
185
AMD_RAT
307-369
63
1
A:307-356
50
1.14
ENSRNOT00000043451
14
ENSRNOE00000245578
chr9:
96989214-96989285
72
AMD_RAT
369-393
25
0
-
-
1.15a
ENSRNOT00000043451
15a
ENSRNOE00000314250
chr9:
97001605-97001919
315
AMD_RAT
393-498
106
0
-
-
1.16
ENSRNOT00000043451
16
ENSRNOE00000112300
chr9:
97011332-97011461
130
AMD_RAT
498-541
44
0
-
-
1.18
ENSRNOT00000043451
18
ENSRNOE00000245555
chr9:
97020681-97020797
117
AMD_RAT
541-580
40
0
-
-
1.19
ENSRNOT00000043451
19
ENSRNOE00000112441
chr9:
97023054-97023126
73
AMD_RAT
580-604
25
0
-
-
1.20
ENSRNOT00000043451
20
ENSRNOE00000112508
chr9:
97024339-97024549
211
AMD_RAT
605-675
71
0
-
-
1.21
ENSRNOT00000043451
21
ENSRNOE00000112572
chr9:
97024746-97024946
201
AMD_RAT
675-742
68
0
-
-
1.22
ENSRNOT00000043451
22
ENSRNOE00000112706
chr9:
97027717-97027832
116
AMD_RAT
742-780
39
0
-
-
1.23b
ENSRNOT00000043451
23b
ENSRNOE00000350802
chr9:
97030939-97031047
109
AMD_RAT
781-817
37
0
-
-
1.24
ENSRNOT00000043451
24
ENSRNOE00000112838
chr9:
97037983-97038036
54
AMD_RAT
817-835
19
0
-
-
1.25a
ENSRNOT00000043451
25a
ENSRNOE00000451699
chr9:
97043264-97043467
204
AMD_RAT
835-903
69
0
-
-
1.26a
ENSRNOT00000043451
26a
ENSRNOE00000446469
chr9:
97046192-97046217
26
AMD_RAT
903-911
9
0
-
-
1.27
ENSRNOT00000043451
27
ENSRNOE00000457036
chr9:
97046321-97046324
4
AMD_RAT
912-913
2
0
-
-
1.31a
ENSRNOT00000043451
31a
ENSRNOE00000344739
chr9:
97046660-97046865
206
AMD_RAT
913-980
68
0
-
-
[
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]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1sdwa1 (A:45-198)
1b: SCOP_d1sdwa2 (A:199-356)
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)
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Protein Domains
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)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Nucleoplasmin-like/VP (viral coat and capsid proteins)
(278)
Superfamily
:
PHM/PNGase F
(21)
Family
:
Peptidylglycine alpha-hydroxylating monooxygenase, PHM
(17)
Protein domain
:
Peptidylglycine alpha-hydroxylating monooxygenase, PHM
(17)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(17)
1a
d1sdwa1
A:45-198
1b
d1sdwa2
A:199-356
[
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CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_1sdwA02 (A:203-353)
2a: CATH_1sdwA01 (A:45-202)
View:
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Homologous Superfamilies
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)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
[code=2.60.120.230, no name defined]
(11)
Norway rat (Rattus norvegicus)
(8)
1a
1sdwA02
A:203-353
Homologous Superfamily
:
[code=2.60.120.310, no name defined]
(8)
Norway rat (Rattus norvegicus)
(8)
2a
1sdwA01
A:45-202
[
close CATH info
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Pfam Domains
(2, 2)
Info
all PFAM domains
1a: PFAM_Cu2_monoox_C_1sdwA01 (A:199-350)
2a: PFAM_Cu2_monooxygen_1sdwA02 (A:62-184)
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Clans
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Families
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Organisms
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)
Clan
:
no clan defined [family: Cu2_monoox_C]
(18)
Family
:
Cu2_monoox_C
(18)
Rattus norvegicus (Rat)
(18)
1a
Cu2_monoox_C-1sdwA01
A:199-350
Clan
:
no clan defined [family: Cu2_monooxygen]
(18)
Family
:
Cu2_monooxygen
(18)
Rattus norvegicus (Rat)
(18)
2a
Cu2_monooxygen-1sdwA02
A:62-184
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