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Getting 'Exon' information from database.
2HI8
Asym. Unit
Info
Asym.Unit (62 KB)
Biol.Unit 1 (57 KB)
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(1)
Title
:
HUMAN FORMYLGLYCINE GENERATING ENZYME, C336S MUTANT, BROMIDE CO-CRYSTALLIZATION
Authors
:
M. G. Rudolph, D. Roeser
Date
:
29 Jun 06 (Deposition) - 01 May 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.64
Chains
:
Asym. Unit : P,X
Biol. Unit 1: P,X (1x)
Keywords
:
Hydrolase Activator, Protein Binding, Formylglycin Generation, Post- Translational Modification, Endoplasmic Reticulum, Sulfatase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. Roeser, B. Schmidt, A. Preusser-Kunze, M. G. Rudolph
Probing The Oxygen-Binding Site Of The Human Formylglycine-Generating Enzyme Using Halide Ions.
Acta Crystallogr. , Sect. D V. 63 621 2007
[
close entry info
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Hetero Components
(4, 20)
Info
All Hetero Components
1a: BROMIDE ION (BRa)
1b: BROMIDE ION (BRb)
1c: BROMIDE ION (BRc)
1d: BROMIDE ION (BRd)
1e: BROMIDE ION (BRe)
1f: BROMIDE ION (BRf)
1g: BROMIDE ION (BRg)
1h: BROMIDE ION (BRh)
1i: BROMIDE ION (BRi)
1j: BROMIDE ION (BRj)
1k: BROMIDE ION (BRk)
1l: BROMIDE ION (BRl)
1m: BROMIDE ION (BRm)
1n: BROMIDE ION (BRn)
1o: BROMIDE ION (BRo)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
3a: CHLORIDE ION (CLa)
4a: N-ACETYL-D-GLUCOSAMINE (NAGa)
4b: N-ACETYL-D-GLUCOSAMINE (NAGb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BR
15
Ligand/Ion
BROMIDE ION
2
CA
2
Ligand/Ion
CALCIUM ION
3
CL
1
Ligand/Ion
CHLORIDE ION
4
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(20, 20)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
NAG X:2 , THR X:134 , GLU X:137 , LYS X:138 , ASN X:141 , HOH X:1256
BINDING SITE FOR RESIDUE NAG X 1
02
AC2
SOFTWARE
NAG X:1
BINDING SITE FOR RESIDUE NAG X 2
03
AC3
SOFTWARE
TRP X:299 , SER X:333 , SER X:336 , CYS X:341 , ASN X:360 , HOH X:1318
BINDING SITE FOR RESIDUE BR X 1001
04
AC4
SOFTWARE
LYS X:249 , HOH X:1306
BINDING SITE FOR RESIDUE BR X 1002
05
AC5
SOFTWARE
LEU X:225 , HOH X:1310 , HOH X:1406
BINDING SITE FOR RESIDUE BR X 1003
06
AC6
SOFTWARE
ARG X:236 , ASN X:241 , ARG X:242
BINDING SITE FOR RESIDUE BR X 1004
07
AC7
SOFTWARE
HOH X:1090 , HOH X:1116 , HOH X:1211 , HOH X:1286
BINDING SITE FOR RESIDUE BR X 1005
08
AC8
SOFTWARE
CYS P:1 , TRP X:179 , TRP X:180 , TYR X:340
BINDING SITE FOR RESIDUE BR X 1006
09
AC9
SOFTWARE
THR X:219 , LYS X:253 , HOH X:1154
BINDING SITE FOR RESIDUE BR X 1007
10
BC1
SOFTWARE
ARG X:224 , ASP X:368
BINDING SITE FOR RESIDUE BR X 1008
11
BC2
SOFTWARE
PRO X:202 , ASP X:203 , HIS X:204
BINDING SITE FOR RESIDUE BR X 1009
12
BC3
SOFTWARE
GLN X:262 , GLY X:263 , HIS X:337 , HOH X:1195 , HOH X:1340
BINDING SITE FOR RESIDUE BR X 1010
13
BC4
SOFTWARE
ALA X:283 , PHE X:284 , HOH X:1335
BINDING SITE FOR RESIDUE BR X 1011
14
BC5
SOFTWARE
ASN X:212 , PRO X:354 , HOH X:1114 , HOH X:1370
BINDING SITE FOR RESIDUE BR X 1012
15
BC6
SOFTWARE
SER X:196 , THR X:197 , HIS X:200 , ARG X:201 , HOH X:1228
BINDING SITE FOR RESIDUE BR X 1013
16
BC7
SOFTWARE
LEU X:239 , HIS X:240 , ARG X:242 , HOH X:1188
BINDING SITE FOR RESIDUE BR X 1014
17
BC8
SOFTWARE
GLU X:314
BINDING SITE FOR RESIDUE BR X 1015
18
BC9
SOFTWARE
GLU X:130 , ASN X:293 , GLY X:296 , ALA X:298 , GLU X:300 , HOH X:1048
BINDING SITE FOR RESIDUE CA X 1016
19
CC1
SOFTWARE
ASN X:259 , ILE X:260 , ASP X:273 , PHE X:275 , HOH X:1024 , HOH X:1027
BINDING SITE FOR RESIDUE CA X 1017
20
CC2
SOFTWARE
TRP X:299 , SER X:333 , SER X:336 , CYS X:341 , ASN X:360 , HOH X:1318
BINDING SITE FOR RESIDUE CL X 1018
[
close Site info
]
SAPs(SNPs)/Variants
(13, 13)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_016053 (S155P, chain X, )
02: VAR_019051 (A177P, chain X, )
03: VAR_042602 (W179S, chain X, )
04: VAR_016054 (C218Y, chain X, )
05: VAR_019052 (R224W, chain X, )
06: VAR_019053 (N259I, chain X, )
07: VAR_019054 (P266L, chain X, )
08: VAR_016055 (A279V, chain X, )
09: VAR_016056 (S336R, chain X, )
10: VAR_016057 (R345C, chain X, )
11: VAR_016058 (A348P, chain X, )
12: VAR_016059 (R349Q, chain X, )
13: VAR_016060 (R349W, chain X, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_016053
S
155
P
SUMF1_HUMAN
Disease (MSD)
---
X
S
155
P
02
UniProt
VAR_019051
A
177
P
SUMF1_HUMAN
Disease (MSD)
---
X
A
177
P
03
UniProt
VAR_042602
W
179
S
SUMF1_HUMAN
Disease (MSD)
---
X
W
179
S
04
UniProt
VAR_016054
C
218
Y
SUMF1_HUMAN
Disease (MSD)
---
X
C
218
Y
05
UniProt
VAR_019052
R
224
W
SUMF1_HUMAN
Disease (MSD)
---
X
R
224
W
06
UniProt
VAR_019053
N
259
I
SUMF1_HUMAN
Disease (MSD)
---
X
N
259
I
07
UniProt
VAR_019054
P
266
L
SUMF1_HUMAN
Disease (MSD)
---
X
P
266
L
08
UniProt
VAR_016055
A
279
V
SUMF1_HUMAN
Disease (MSD)
---
X
A
279
V
09
UniProt
VAR_016056
C
336
R
SUMF1_HUMAN
Disease (MSD)
---
X
S
336
R
10
UniProt
VAR_016057
R
345
C
SUMF1_HUMAN
Disease (MSD)
---
X
R
345
C
11
UniProt
VAR_016058
A
348
P
SUMF1_HUMAN
Disease (MSD)
---
X
A
348
P
12
UniProt
VAR_016059
R
349
Q
SUMF1_HUMAN
Disease (MSD)
---
X
R
349
Q
13
UniProt
VAR_016060
R
349
W
SUMF1_HUMAN
Disease (MSD)
---
X
R
349
W
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(9, 9)
Info
All Exons
Exon 1.1a (X:86-90)
Exon 1.2 (X:91-148)
Exon 1.3 (X:149-162)
Exon 1.4 (X:175-201)
Exon 1.5 (X:201-242)
Exon 1.6 (X:242-280)
Exon 1.7 (X:281-318)
Exon 1.8 (X:319-338)
Exon 1.9d (X:339-371)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.1a
02: Boundary 1.1a/1.2
03: Boundary 1.2/1.3
04: Boundary 1.3/1.4
05: Boundary 1.4/1.5
06: Boundary 1.5/1.6
07: Boundary 1.6/1.7
08: Boundary 1.7/1.8
09: Boundary 1.8/1.9d
10: Boundary 1.9d/-
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
1.1a
ENST00000272902
1a
ENSE00001901311
chr3:
4508965-4508660
306
SUMF1_HUMAN
1-90
90
1
X:86-90
5
1.2
ENST00000272902
2
ENSE00000965223
chr3:
4494733-4494560
174
SUMF1_HUMAN
91-148
58
1
X:91-148
58
1.3
ENST00000272902
3
ENSE00001173781
chr3:
4491024-4490950
75
SUMF1_HUMAN
149-173
25
1
X:149-162
14
1.4
ENST00000272902
4
ENSE00001173775
chr3:
4461830-4461748
83
SUMF1_HUMAN
174-201
28
1
X:175-201
27
1.5
ENST00000272902
5
ENSE00001173770
chr3:
4459816-4459694
123
SUMF1_HUMAN
201-242
42
1
X:201-242
42
1.6
ENST00000272902
6
ENSE00001173766
chr3:
4458926-4458812
115
SUMF1_HUMAN
242-280
39
1
X:242-280
39
1.7
ENST00000272902
7
ENSE00001173758
chr3:
4452662-4452549
114
SUMF1_HUMAN
281-318
38
1
X:281-318
38
1.8
ENST00000272902
8
ENSE00001173755
chr3:
4418073-4418014
60
SUMF1_HUMAN
319-338
20
1
X:319-338
20
1.9d
ENST00000272902
9d
ENSE00001072608
chr3:
4403938-4402830
1109
SUMF1_HUMAN
339-374
36
1
X:339-371
33
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d2hi8x_ (X:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
C-type lectin-like
(322)
Superfamily
:
C-type lectin-like
(322)
Family
:
Sulfatase-modifying factor-like
(15)
Protein domain
:
automated matches
(11)
Human (Homo sapiens) [TaxId: 9606]
(11)
1a
d2hi8x_
X:
[
close SCOP info
]
CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_2hi8X00 (X:86-371)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
paralog of FGE (formylglycine-generating enzyme)
(16)
Homologous Superfamily
:
paralog of FGE (formylglycine-generating enzyme)
(16)
Human (Homo sapiens)
(15)
1a
2hi8X00
X:86-371
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
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Nucleic
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Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain P
Chain X
Asymmetric Unit 1
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select residue range 5 to 10 in chain 'A'
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