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1HRK
Asym. Unit
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Asym.Unit (135 KB)
Biol.Unit 1 (130 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN FERROCHELATASE
Authors
:
C. K. Wu, H. A. Dailey, J. P. Rose, A. Burden, V. M. Sellers, B. -C. Wang
Date
:
21 Dec 00 (Deposition) - 22 Jun 01 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Ferrochelatase, Fe2S2 Cluster, Heme Biosynthesis, Protoheme Ferro-Lyase, Mature Length, Proteolytically Processed Mitochondrial Inner Membrane Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. K. Wu, H. A. Dailey, J. P. Rose, A. Burden, V. M. Sellers, B. C. Wang
The 2. 0 A Structure Of Human Ferrochelatase, The Terminal Enzyme Of Heme Biosynthesis.
Nat. Struct. Biol. V. 8 156 2001
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 8)
Info
All Hetero Components
1a: CHOLIC ACID (CHDa)
1b: CHOLIC ACID (CHDb)
1c: CHOLIC ACID (CHDc)
1d: CHOLIC ACID (CHDd)
1e: CHOLIC ACID (CHDe)
1f: CHOLIC ACID (CHDf)
2a: FE2/S2 (INORGANIC) CLUSTER (FESa)
2b: FE2/S2 (INORGANIC) CLUSTER (FESb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CHD
6
Ligand/Ion
CHOLIC ACID
2
FES
2
Ligand/Ion
FE2/S2 (INORGANIC) CLUSTER
[
close Hetero Component info
]
Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
LEU A:92 , LEU A:98 , SER A:197 , HIS A:263 , LEU A:265 , PRO A:266 , VAL A:269 , TRP A:310 , CHD A:1502 , HOH A:1544 , HOH A:1559 , HOH A:1569 , HOH A:1595 , HOH A:1633 , HOH A:1763
BINDING SITE FOR RESIDUE CHD A 1501
2
AC2
SOFTWARE
MET A:99 , ARG A:114 , LEU A:115 , PRO A:266 , MET A:308 , CHD A:1501 , CHD A:1503 , HOH A:1622 , HOH A:1679 , HOH A:1685 , HOH A:1698 , HOH A:1713 , HOH A:1726
BINDING SITE FOR RESIDUE CHD A 1502
3
AC3
SOFTWARE
LEU A:107 , CHD A:1502 , HOH A:1698 , HOH A:1726 , PHE B:110
BINDING SITE FOR RESIDUE CHD A 1503
4
AC4
SOFTWARE
LEU B:92 , PHE B:93 , LEU B:98 , SER B:197 , HIS B:263 , LEU B:265 , PRO B:266 , VAL B:269 , TRP B:310 , CHD B:2502 , HOH B:3079 , HOH B:3091 , HOH B:3092 , HOH B:3094 , HOH B:3112 , HOH B:3218 , HOH B:3281
BINDING SITE FOR RESIDUE CHD B 2501
5
AC5
SOFTWARE
MET B:99 , ARG B:114 , LEU B:115 , PRO B:266 , MET B:308 , CHD B:2501 , CHD B:2503 , HOH B:3157 , HOH B:3173 , HOH B:3214 , HOH B:3219 , HOH B:3264
BINDING SITE FOR RESIDUE CHD B 2502
6
AC6
SOFTWARE
LYS A:106 , PHE A:110 , LEU B:101 , ARG B:114 , CHD B:2502 , HOH B:3173 , HOH B:3219 , HOH B:3298
BINDING SITE FOR RESIDUE CHD B 2503
7
AC7
SOFTWARE
CYS A:196 , ARG A:272 , SER A:402 , CYS A:403 , CYS A:406 , CYS A:411
BINDING SITE FOR RESIDUE FES A 1499
8
AC8
SOFTWARE
CYS B:196 , ARG B:272 , SER B:402 , CYS B:403 , CYS B:406 , CYS B:411
BINDING SITE FOR RESIDUE FES B 2999
[
close Site info
]
SAPs(SNPs)/Variants
(22, 44)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_030554 (I71K, chain A/B, )
02: VAR_012028 (R96Q, chain A/B, )
03: VAR_030555 (Q139L, chain A/B, )
04: VAR_030556 (S151P, chain A/B, )
05: VAR_030557 (E178K, chain A/B, )
06: VAR_030558 (L182R, chain A/B, )
07: VAR_002384 (I186T, chain A/B, )
08: VAR_030559 (Y191H, chain A/B, )
09: VAR_030560 (P192T, chain A/B, )
10: VAR_030561 (C236Y, chain A/B, )
11: VAR_030562 (F260L, chain A/B, )
12: VAR_054629 (S264L, chain A/B, )
13: VAR_002385 (M267I, chain A/B, )
14: VAR_030563 (T283I, chain A/B, )
15: VAR_030564 (M288K, chain A/B, )
16: VAR_030565 (P334L, chain A/B, )
17: VAR_030566 (V362G, chain A/B, )
18: VAR_030567 (K379N, chain A/B, )
19: VAR_002386 (H386P, chain A/B, )
20: VAR_030568 (C406S, chain A/B, )
21: VAR_030569 (C406Y, chain A/B, )
22: VAR_002387 (F417S, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_030554
I
71
K
HEMH_HUMAN
Disease (EPP)
---
A/B
I
71
K
02
UniProt
VAR_012028
R
96
Q
HEMH_HUMAN
Polymorphism
1041951
A/B
R
96
Q
03
UniProt
VAR_030555
Q
139
L
HEMH_HUMAN
Disease (EPP)
---
A/B
Q
139
L
04
UniProt
VAR_030556
S
151
P
HEMH_HUMAN
Disease (EPP)
---
A/B
S
151
P
05
UniProt
VAR_030557
E
178
K
HEMH_HUMAN
Disease (EPP)
---
A/B
E
178
K
06
UniProt
VAR_030558
L
182
R
HEMH_HUMAN
Disease (EPP)
---
A/B
L
182
R
07
UniProt
VAR_002384
I
186
T
HEMH_HUMAN
Disease (EPP)
---
A/B
I
186
T
08
UniProt
VAR_030559
Y
191
H
HEMH_HUMAN
Disease (EPP)
---
A/B
Y
191
H
09
UniProt
VAR_030560
P
192
T
HEMH_HUMAN
Disease (EPP)
---
A/B
P
192
T
10
UniProt
VAR_030561
C
236
Y
HEMH_HUMAN
Disease (EPP)
---
A/B
C
236
Y
11
UniProt
VAR_030562
F
260
L
HEMH_HUMAN
Disease (EPP)
---
A/B
F
260
L
12
UniProt
VAR_054629
S
264
L
HEMH_HUMAN
Disease (EPP)
---
A/B
S
264
L
13
UniProt
VAR_002385
M
267
I
HEMH_HUMAN
Disease (EPP)
118204037
A/B
M
267
I
14
UniProt
VAR_030563
T
283
I
HEMH_HUMAN
Disease (EPP)
---
A/B
T
283
I
15
UniProt
VAR_030564
M
288
K
HEMH_HUMAN
Disease (EPP)
---
A/B
M
288
K
16
UniProt
VAR_030565
P
334
L
HEMH_HUMAN
Disease (EPP)
150146721
A/B
P
334
L
17
UniProt
VAR_030566
V
362
G
HEMH_HUMAN
Disease (EPP)
---
A/B
V
362
G
18
UniProt
VAR_030567
K
379
N
HEMH_HUMAN
Disease (EPP)
---
A/B
K
379
N
19
UniProt
VAR_002386
H
386
P
HEMH_HUMAN
Disease (EPP)
---
A/B
H
386
P
20
UniProt
VAR_030568
C
406
S
HEMH_HUMAN
Disease (EPP)
---
A/B
C
406
S
21
UniProt
VAR_030569
C
406
Y
HEMH_HUMAN
Disease (EPP)
---
A/B
C
406
Y
22
UniProt
VAR_002387
F
417
S
HEMH_HUMAN
Disease (EPP)
---
A/B
F
417
S
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: FERROCHELATASE (A:258-276,B:258-276)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
FERROCHELATASE
PS00534
Ferrochelatase signature.
HEMH_HUMAN
258-276
2
A:258-276
B:258-276
[
close PROSITE info
]
Exons
(10, 20)
Info
All Exons
Exon 1.2a (A:65-65 | B:65-65)
Exon 1.3 (A:65-105 | B:65-105)
Exon 1.4 (A:105-155 | B:105-155)
Exon 1.5 (A:155-200 | B:155-200)
Exon 1.6 (A:200-235 | B:200-235)
Exon 1.7 (A:236-268 | B:236-268)
Exon 1.8 (A:269-304 | B:269-304)
Exon 1.9 (A:305-359 | B:305-359)
Exon 1.10 (A:360-379 | B:360-379)
Exon 1.11b (A:380-423 | B:380-423)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.1a/1.2a
02: Boundary 1.2a/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 1.10/1.11b
11: Boundary 1.11b/-
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
ENST00000262093
1a
ENSE00001229850
chr18:
55254004-55253786
219
HEMH_HUMAN
1-23
23
0
-
-
1.2a
ENST00000262093
2a
ENSE00000669631
chr18:
55247431-55247305
127
HEMH_HUMAN
23-65
43
2
A:65-65
B:65-65
1
1
1.3
ENST00000262093
3
ENSE00001229830
chr18:
55240597-55240478
120
HEMH_HUMAN
65-105
41
2
A:65-105
B:65-105
41
41
1.4
ENST00000262093
4
ENSE00000669629
chr18:
55238772-55238624
149
HEMH_HUMAN
105-155
51
2
A:105-155
B:105-155
51
51
1.5
ENST00000262093
5
ENSE00000669628
chr18:
55233813-55233679
135
HEMH_HUMAN
155-200
46
2
A:155-200
B:155-200
46
46
1.6
ENST00000262093
6
ENSE00000669627
chr18:
55230212-55230106
107
HEMH_HUMAN
200-235
36
2
A:200-235
B:200-235
36
36
1.7
ENST00000262093
7
ENSE00001229801
chr18:
55226475-55226377
99
HEMH_HUMAN
236-268
33
2
A:236-268
B:236-268
33
33
1.8
ENST00000262093
8
ENSE00000669625
chr18:
55222184-55222077
108
HEMH_HUMAN
269-304
36
2
A:269-304
B:269-304
36
36
1.9
ENST00000262093
9
ENSE00001229786
chr18:
55221656-55221492
165
HEMH_HUMAN
305-359
55
2
A:305-359
B:305-359
55
55
1.10
ENST00000262093
10
ENSE00000669622
chr18:
55218606-55218547
60
HEMH_HUMAN
360-379
20
2
A:360-379
B:360-379
20
20
1.11b
ENST00000262093
11b
ENSE00001229844
chr18:
55218078-55215515
2564
HEMH_HUMAN
380-423
44
2
A:380-423
B:380-423
44
44
[
close EXON info
]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1hrka_ (A:)
1b: SCOP_d1hrkb_ (B:)
View:
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Classes
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)
(
)
Folds
(
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(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Chelatase-like
(149)
Superfamily
:
Chelatase
(46)
Family
:
Ferrochelatase
(37)
Protein domain
:
Ferrochelatase
(34)
Human (Homo sapiens) [TaxId: 9606]
(17)
1a
d1hrka_
A:
1b
d1hrkb_
B:
[
close SCOP info
]
CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1hrkA02 (A:228-370)
1b: CATH_1hrkA01 (A:65-227,A:371-423)
1c: CATH_1hrkB01 (B:65-227,B:371-423)
1d: CATH_1hrkB02 (B:228-370)
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.1400, no name defined]
(36)
Human (Homo sapiens)
(15)
1a
1hrkA02
A:228-370
1b
1hrkA01
A:65-227,A:371-423
1c
1hrkB01
B:65-227,B:371-423
1d
1hrkB02
B:228-370
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
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(currently selected atoms:
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Asymmetric Unit 1
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