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Getting 'Biological Unit' information from database.
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Getting 'Hetero Component' information from database.
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Getting 'PROSITE' information from database.
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Getting 'Exon' information from database.
2QD5
Asym. Unit
Info
Asym.Unit (132 KB)
Biol.Unit 1 (127 KB)
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(1)
Title
:
STRUCTURE OF WILD TYPE HUMAN FERROCHELATASE IN COMPLEX WITH A LEAD-PORPHYRIN COMPOUND
Authors
:
A. E. Meldock, T. A. Dailey, T. A. Ross, H. A. Dailey, W. N. Lanzilotta
Date
:
20 Jun 07 (Deposition) - 30 Oct 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Heme Synthesis, Ferrochelatase, Protoporphyrin Ix, Lyase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. E. Medlock, T. A. Dailey, T. A. Ross, H. A. Dailey, W. N. Lanzilotta
A Pi-Helix Switch Selective For Porphyrin Deprotonation And Product Release In Human Ferrochelatase.
J. Mol. Biol. V. 373 1006 2007
[
close entry info
]
Hetero Components
(7, 15)
Info
All Hetero Components
1a: ACETIC ACID (ACYa)
1b: ACETIC ACID (ACYb)
1c: ACETIC ACID (ACYc)
2a: CHOLIC ACID (CHDa)
2b: CHOLIC ACID (CHDb)
2c: CHOLIC ACID (CHDc)
2d: CHOLIC ACID (CHDd)
3a: FE2/S2 (INORGANIC) CLUSTER (FESa)
3b: FE2/S2 (INORGANIC) CLUSTER (FESb)
4a: GLYCEROL (GOLa)
5a: OXYGEN MOLECULE (OXYa)
6a: LEAD (II) ION (PBa)
6b: LEAD (II) ION (PBb)
7a: PROTOPORPHYRIN IX (PP9a)
7b: PROTOPORPHYRIN IX (PP9b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACY
3
Ligand/Ion
ACETIC ACID
2
CHD
4
Ligand/Ion
CHOLIC ACID
3
FES
2
Ligand/Ion
FE2/S2 (INORGANIC) CLUSTER
4
GOL
1
Ligand/Ion
GLYCEROL
5
OXY
1
Ligand/Ion
OXYGEN MOLECULE
6
PB
2
Ligand/Ion
LEAD (II) ION
7
PP9
2
Ligand/Ion
PROTOPORPHYRIN IX
[
close Hetero Component info
]
Sites
(15, 15)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ACY A:801 , ACY A:803 , PP9 A:901
BINDING SITE FOR RESIDUE PB A 1101
02
AC2
SOFTWARE
OXY B:1001 , PP9 B:1105 , ACY B:1106
BINDING SITE FOR RESIDUE PB B 1102
03
AC3
SOFTWARE
CYS A:196 , SER A:402 , CYS A:403 , CYS A:406 , CYS A:411
BINDING SITE FOR RESIDUE FES A 501
04
AC4
SOFTWARE
CYS B:696 , SER B:902 , CYS B:903 , CYS B:906 , CYS B:911
BINDING SITE FOR RESIDUE FES B 502
05
AC5
SOFTWARE
MET A:99 , ARG A:115 , PRO A:266 , SER A:268 , VAL A:305 , GLY A:306 , MET A:308 , CHD A:702 , HOH A:1176
BINDING SITE FOR RESIDUE CHD A 701
06
AC6
SOFTWARE
ARG A:114 , CHD A:701 , ILE B:603 , LYS B:606 , PHE B:610
BINDING SITE FOR RESIDUE CHD A 702
07
AC7
SOFTWARE
LEU B:601 , PRO B:766 , SER B:768 , VAL B:805 , GLY B:806 , MET B:808 , CHD B:1104 , PP9 B:1105 , HOH B:1108 , HOH B:1162
BINDING SITE FOR RESIDUE CHD B 1103
08
AC8
SOFTWARE
LYS A:106 , PHE A:110 , LEU B:601 , PRO B:602 , CHD B:1103
BINDING SITE FOR RESIDUE CHD B 1104
09
AC9
SOFTWARE
MET A:76 , PHE A:93 , LEU A:98 , ARG A:115 , ILE A:119 , SER A:195 , SER A:197 , HIS A:263 , LEU A:265 , PRO A:266 , ALA A:336 , PHE A:337 , HIS A:341 , ILE A:342 , ACY A:801 , ACY A:803 , PB A:1101 , HOH A:1102 , HOH A:1160
BINDING SITE FOR RESIDUE PP9 A 901
10
BC1
SOFTWARE
MET B:576 , PHE B:593 , LEU B:598 , ARG B:615 , TYR B:623 , TYR B:691 , SER B:697 , HIS B:763 , LEU B:765 , PRO B:766 , TYR B:776 , VAL B:805 , ALA B:836 , PHE B:837 , HIS B:841 , ILE B:842 , PB B:1102 , CHD B:1103 , ACY B:1106 , HOH B:1154 , HOH B:1159
BINDING SITE FOR RESIDUE PP9 B 1105
11
BC2
SOFTWARE
PB B:1102
BINDING SITE FOR RESIDUE OXY B 1001
12
BC3
SOFTWARE
PRO A:277 , SER A:281 , TRP A:301 , HOH A:1131 , PRO B:777 , SER B:781 , TRP B:801
BINDING SITE FOR RESIDUE GOL A 601
13
BC4
SOFTWARE
MET A:76 , LEU A:98 , TYR A:165 , TYR A:191 , SER A:197 , THR A:198 , PP9 A:901 , PB A:1101
BINDING SITE FOR RESIDUE ACY A 801
14
BC5
SOFTWARE
HIS B:763 , SER B:764 , GLN B:802 , SER B:803 , LYS B:804 , TRP B:810 , PB B:1102 , PP9 B:1105
BINDING SITE FOR RESIDUE ACY B 1106
15
BC6
SOFTWARE
SER A:264 , SER A:303 , LYS A:304 , TRP A:310 , PP9 A:901 , PB A:1101
BINDING SITE FOR RESIDUE ACY A 803
[
close Site info
]
SAPs(SNPs)/Variants
(22, 44)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_030554 (I571K, chain A/B, )
02: VAR_012028 (R596Q, chain A/B, )
03: VAR_030555 (Q639L, chain A/B, )
04: VAR_030556 (S651P, chain A/B, )
05: VAR_030557 (E678K, chain A/B, )
06: VAR_030558 (L682R, chain A/B, )
07: VAR_002384 (I686T, chain A/B, )
08: VAR_030559 (Y691H, chain A/B, )
09: VAR_030560 (P692T, chain A/B, )
10: VAR_030561 (C736Y, chain A/B, )
11: VAR_030562 (F760L, chain A/B, )
12: VAR_054629 (S764L, chain A/B, )
13: VAR_002385 (M767I, chain A/B, )
14: VAR_030563 (T783I, chain A/B, )
15: VAR_030564 (M788K, chain A/B, )
16: VAR_030565 (P834L, chain A/B, )
17: VAR_030566 (V862G, chain A/B, )
18: VAR_030567 (K879N, chain A/B, )
19: VAR_002386 (H886P, chain A/B, )
20: VAR_030568 (C906S, chain A/B, )
21: VAR_030569 (C906Y, chain A/B, )
22: VAR_002387 (F917S, 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
571
K
02
UniProt
VAR_012028
R
96
Q
HEMH_HUMAN
Polymorphism
1041951
A
B
R
96
596
Q
03
UniProt
VAR_030555
Q
139
L
HEMH_HUMAN
Disease (EPP)
---
A
B
Q
139
639
L
04
UniProt
VAR_030556
S
151
P
HEMH_HUMAN
Disease (EPP)
---
A
B
S
151
651
P
05
UniProt
VAR_030557
E
178
K
HEMH_HUMAN
Disease (EPP)
---
A
B
E
178
678
K
06
UniProt
VAR_030558
L
182
R
HEMH_HUMAN
Disease (EPP)
---
A
B
L
182
682
R
07
UniProt
VAR_002384
I
186
T
HEMH_HUMAN
Disease (EPP)
---
A
B
I
186
686
T
08
UniProt
VAR_030559
Y
191
H
HEMH_HUMAN
Disease (EPP)
---
A
B
Y
191
691
H
09
UniProt
VAR_030560
P
192
T
HEMH_HUMAN
Disease (EPP)
---
A
B
P
192
692
T
10
UniProt
VAR_030561
C
236
Y
HEMH_HUMAN
Disease (EPP)
---
A
B
C
236
736
Y
11
UniProt
VAR_030562
F
260
L
HEMH_HUMAN
Disease (EPP)
---
A
B
F
260
760
L
12
UniProt
VAR_054629
S
264
L
HEMH_HUMAN
Disease (EPP)
---
A
B
S
264
764
L
13
UniProt
VAR_002385
M
267
I
HEMH_HUMAN
Disease (EPP)
118204037
A
B
M
267
767
I
14
UniProt
VAR_030563
T
283
I
HEMH_HUMAN
Disease (EPP)
---
A
B
T
283
783
I
15
UniProt
VAR_030564
M
288
K
HEMH_HUMAN
Disease (EPP)
---
A
B
M
288
788
K
16
UniProt
VAR_030565
P
334
L
HEMH_HUMAN
Disease (EPP)
150146721
A
B
P
334
834
L
17
UniProt
VAR_030566
V
362
G
HEMH_HUMAN
Disease (EPP)
---
A
B
V
362
862
G
18
UniProt
VAR_030567
K
379
N
HEMH_HUMAN
Disease (EPP)
---
A
B
K
379
879
N
19
UniProt
VAR_002386
H
386
P
HEMH_HUMAN
Disease (EPP)
---
A
B
H
386
886
P
20
UniProt
VAR_030568
C
406
S
HEMH_HUMAN
Disease (EPP)
---
A
B
C
406
906
S
21
UniProt
VAR_030569
C
406
Y
HEMH_HUMAN
Disease (EPP)
---
A
B
C
406
906
Y
22
UniProt
VAR_002387
F
417
S
HEMH_HUMAN
Disease (EPP)
---
A
B
F
417
917
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:758-776)
;
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:758-776
[
close PROSITE info
]
Exons
(10, 20)
Info
All Exons
Exon 1.2a (A:65-65 | B:565-565)
Exon 1.3 (A:65-105 | B:565-605)
Exon 1.4 (A:105-155 | B:605-655)
Exon 1.5 (A:155-200 | B:655-700)
Exon 1.6 (A:200-235 | B:700-735)
Exon 1.7 (A:236-268 | B:736-768)
Exon 1.8 (A:269-304 | B:769-804)
Exon 1.9 (A:305-359 | B:805-859)
Exon 1.10 (A:360-379 | B:860-879)
Exon 1.11b (A:380-423 | B:880-923)
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:565-565
1
1
1.3
ENST00000262093
3
ENSE00001229830
chr18:
55240597-55240478
120
HEMH_HUMAN
65-105
41
2
A:65-105
B:565-605
41
41
1.4
ENST00000262093
4
ENSE00000669629
chr18:
55238772-55238624
149
HEMH_HUMAN
105-155
51
2
A:105-155
B:605-655
51
51
1.5
ENST00000262093
5
ENSE00000669628
chr18:
55233813-55233679
135
HEMH_HUMAN
155-200
46
2
A:155-200
B:655-700
46
46
1.6
ENST00000262093
6
ENSE00000669627
chr18:
55230212-55230106
107
HEMH_HUMAN
200-235
36
2
A:200-235
B:700-735
36
36
1.7
ENST00000262093
7
ENSE00001229801
chr18:
55226475-55226377
99
HEMH_HUMAN
236-268
33
2
A:236-268
B:736-768
33
33
1.8
ENST00000262093
8
ENSE00000669625
chr18:
55222184-55222077
108
HEMH_HUMAN
269-304
36
2
A:269-304
B:769-804
36
36
1.9
ENST00000262093
9
ENSE00001229786
chr18:
55221656-55221492
165
HEMH_HUMAN
305-359
55
2
A:305-359
B:805-859
55
55
1.10
ENST00000262093
10
ENSE00000669622
chr18:
55218606-55218547
60
HEMH_HUMAN
360-379
20
2
A:360-379
B:860-879
20
20
1.11b
ENST00000262093
11b
ENSE00001229844
chr18:
55218078-55215515
2564
HEMH_HUMAN
380-423
44
2
A:380-423
B:880-923
44
44
[
close EXON info
]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2qd5a_ (A:)
1b: SCOP_d2qd5b_ (B:)
View:
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Classes
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)
(
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Folds
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(
)
Superfamilies
(
)
(
)
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(
)
(
)
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
d2qd5a_
A:
1b
d2qd5b_
B:
[
close SCOP info
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_2qd5A02 (A:228-370)
1b: CATH_2qd5B02 (B:728-870)
1c: CATH_2qd5A01 (A:65-227,A:371-423)
1d: CATH_2qd5B01 (B:565-727,B:871-923)
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(
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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
2qd5A02
A:228-370
1b
2qd5B02
B:728-870
1c
2qd5A01
A:65-227,A:371-423
1d
2qd5B01
B:565-727,B:871-923
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
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select residue range 5 to 10 in chain 'A'
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