PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
No precomputed SNP/Variant structure found.
Calculating the structure may take several minutes.
PLEASE WAIT...
Getting 'PROSITE' information from database.
3PCI
Biol. Unit 2
Info
Asym.Unit (452 KB)
Biol.Unit 1 (879 KB)
Biol.Unit 2 (875 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
STRUCTURE OF PROTOCATECHUATE 3,4-DIOXYGENASE COMPLEXED WITH 3-IODO-4-HYDROXYBENZOATE
Authors
:
A. M. Orville, N. Elango, J. D. Lipscomb, D. H. Ohlendorf
Date
:
02 Jul 97 (Deposition) - 21 Jan 98 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.21
Chains
:
Asym. Unit : A,B,C,D,E,F,M,N,O,P,Q,R
Biol. Unit 1: A,B,C,D,E,F,M,N,O,P,Q,R (2x)
Biol. Unit 2: A,B,C,D,E,F,M,N,O,P,Q,R (2x)
Keywords
:
Dioxygenase, Iron, Nonheme, Metalloprotein, Oxidoreductase, Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. M. Orville, N. Elango, J. D. Lipscomb, D. H. Ohlendorf
Structures Of Competitive Inhibitor Complexes Of Protocatechuate 3, 4-Dioxygenase: Multiple Exogenous Ligand Binding Orientations Within The Active Site.
Biochemistry V. 36 10039 1997
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 36)
Info
All Hetero Components
1a: BETA-MERCAPTOETHANOL (BMEa)
1b: BETA-MERCAPTOETHANOL (BMEb)
1c: BETA-MERCAPTOETHANOL (BMEc)
1d: BETA-MERCAPTOETHANOL (BMEd)
1e: BETA-MERCAPTOETHANOL (BMEe)
1f: BETA-MERCAPTOETHANOL (BMEf)
2a: FE (III) ION (FEa)
2b: FE (III) ION (FEb)
2c: FE (III) ION (FEc)
2d: FE (III) ION (FEd)
2e: FE (III) ION (FEe)
2f: FE (III) ION (FEf)
3a: 3-IODO-4-HYDROXYBENZOIC ACID (IHBa)
3b: 3-IODO-4-HYDROXYBENZOIC ACID (IHBb)
3c: 3-IODO-4-HYDROXYBENZOIC ACID (IHBc)
3d: 3-IODO-4-HYDROXYBENZOIC ACID (IHBd)
3e: 3-IODO-4-HYDROXYBENZOIC ACID (IHBe)
3f: 3-IODO-4-HYDROXYBENZOIC ACID (IHBf)
3g: 3-IODO-4-HYDROXYBENZOIC ACID (IHBg)
3h: 3-IODO-4-HYDROXYBENZOIC ACID (IHBh)
3i: 3-IODO-4-HYDROXYBENZOIC ACID (IHBi)
3j: 3-IODO-4-HYDROXYBENZOIC ACID (IHBj)
3k: 3-IODO-4-HYDROXYBENZOIC ACID (IHBk)
3l: 3-IODO-4-HYDROXYBENZOIC ACID (IHBl)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BME
12
Ligand/Ion
BETA-MERCAPTOETHANOL
2
FE
-1
Ligand/Ion
FE (III) ION
3
IHB
24
Ligand/Ion
3-IODO-4-HYDROXYBENZOIC ACID
[
close Hetero Component info
]
Sites
(38, 38)
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: ACA (UNKNOWN)
11: ACB (UNKNOWN)
12: ACC (UNKNOWN)
13: ACD (UNKNOWN)
14: ACE (UNKNOWN)
15: ACF (UNKNOWN)
16: BC1 (SOFTWARE)
17: BC2 (SOFTWARE)
18: BC3 (SOFTWARE)
19: BC4 (SOFTWARE)
20: BC5 (SOFTWARE)
21: BC6 (SOFTWARE)
22: BC7 (SOFTWARE)
23: BC8 (SOFTWARE)
24: BC9 (SOFTWARE)
25: CC1 (SOFTWARE)
26: CC2 (SOFTWARE)
27: CC3 (SOFTWARE)
28: CC4 (SOFTWARE)
29: CC5 (SOFTWARE)
30: CC6 (SOFTWARE)
31: S2M (UNKNOWN)
32: S2P (UNKNOWN)
33: VEA (UNKNOWN)
34: VEB (UNKNOWN)
35: VEC (UNKNOWN)
36: VED (UNKNOWN)
37: VEE (UNKNOWN)
38: VEF (UNKNOWN)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR M:408 , TYR M:447 , HIS M:460 , HIS M:462 , IHB M:550
BINDING SITE FOR RESIDUE FE M 600
02
AC2
SOFTWARE
TYR N:408 , TYR N:447 , HIS N:460 , HIS N:462 , IHB N:550
BINDING SITE FOR RESIDUE FE N 600
03
AC3
SOFTWARE
TYR O:408 , TYR O:447 , HIS O:460 , HIS O:462 , IHB O:550
BINDING SITE FOR RESIDUE FE O 600
04
AC4
SOFTWARE
TYR P:408 , TYR P:447 , HIS P:460 , HIS P:462 , IHB P:550
BINDING SITE FOR RESIDUE FE P 600
05
AC5
SOFTWARE
TYR Q:408 , TYR Q:447 , HIS Q:460 , HIS Q:462 , IHB Q:550
BINDING SITE FOR RESIDUE FE Q 600
06
AC6
SOFTWARE
TYR R:408 , TYR R:447 , HIS R:460 , HIS R:462 , IHB R:550
BINDING SITE FOR RESIDUE FE R 600
07
AC7
SOFTWARE
HIS M:361 , CYS M:429 , SER M:438 , HOH M:690
BINDING SITE FOR RESIDUE BME M 601
08
AC8
SOFTWARE
PRO A:15 , TYR A:16 , TYR M:408 , TYR M:447 , TRP M:449 , ARG M:457 , HIS M:460 , HIS M:462 , ILE M:491 , FE M:600 , HOH M:634 , HOH M:742
BINDING SITE FOR RESIDUE IHB M 550
09
AC9
SOFTWARE
LEU M:320 , ARG M:333 , HOH M:679 , HOH M:734 , HOH M:745 , ILE O:328
BINDING SITE FOR RESIDUE IHB M 551
10
ACA
UNKNOWN
THR A:12 , ALA A:13 , GLY A:14 , PRO A:15 , TYR A:16 , ARG A:133 , GLY A:134 , TYR M:324 , THR M:326 , TRP M:400 , TYR M:408 , TYR M:447 , PRO M:448 , TRP M:449 , ARG M:450 , ARG M:457 , HIS M:460 , HIS M:462 , GLN M:477 , ILE M:491 , IHB M:550 , FE M:600 , HOH M:602 , HOH A:205 , HOH M:625 , HOH M:633 , HOH M:634 , HOH M:647 , HOH M:742
SITE "ACA" IS THE ACTIVE SITE OF THE PROTOMER CONSISTING OF CHAINS A AND M.
11
ACB
UNKNOWN
THR B:12 , ALA B:13 , GLY B:14 , PRO B:15 , TYR B:16 , ARG B:133 , GLY B:134 , TYR N:324 , THR N:326 , TRP N:400 , TYR N:408 , TYR N:447 , PRO N:448 , TRP N:449 , ARG N:450 , ARG N:457 , HIS N:460 , HIS N:462 , GLN N:477 , ILE N:491 , IHB N:550 , FE N:600 , HOH N:608 , HOH B:252 , HOH N:631 , HOH N:639 , HOH N:640 , HOH N:654 , HOH N:758
SITE "ACB" IS THE ACTIVE SITE OF THE PROTOMER CONSISTING OF CHAINS B AND N.
12
ACC
UNKNOWN
THR C:12 , ALA C:13 , GLY C:14 , PRO C:15 , TYR C:16 , ARG C:133 , GLY C:134 , TYR O:324 , THR O:326 , TRP O:400 , TYR O:408 , TYR O:447 , PRO O:448 , TRP O:449 , ARG O:450 , ARG O:457 , HIS O:460 , HIS O:462 , GLN O:477 , ILE O:491 , IHB O:550 , FE O:600 , HOH O:609 , HOH C:205 , HOH O:632 , HOH O:641 , HOH O:642 , HOH O:658 , HOH O:760
SITE "ACC" IS THE ACTIVE SITE OF THE PROTOMER CONSISTING OF CHAINS C AND O.
13
ACD
UNKNOWN
THR D:12 , ALA D:13 , GLY D:14 , PRO D:15 , TYR D:16 , ARG D:133 , GLY D:134 , TYR P:324 , THR P:326 , TRP P:400 , TYR P:408 , TYR P:447 , PRO P:448 , TRP P:449 , ARG P:450 , ARG P:457 , HIS P:460 , HIS P:462 , GLN P:477 , ILE P:491 , IHB P:550 , FE P:600 , HOH P:609 , HOH D:744 , HOH P:631 , HOH P:639 , HOH P:640 , HOH P:655 , HOH P:749
SITE "ACD" IS THE ACTIVE SITE OF THE PROTOMER CONSISTING OF CHAINS D AND P.
14
ACE
UNKNOWN
THR E:12 , ALA E:13 , GLY E:14 , PRO E:15 , TYR E:16 , ARG E:133 , GLY E:134 , TYR Q:324 , THR Q:326 , TRP Q:400 , TYR Q:408 , TYR Q:447 , PRO Q:448 , TRP Q:449 , ARG Q:450 , ARG Q:457 , HIS Q:460 , HIS Q:462 , GLN Q:477 , ILE Q:491 , IHB Q:550 , FE Q:600 , HOH Q:989 , HOH E:205 , HOH Q:1027 , HOH Q:1043 , HOH Q:1044 , HOH Q:1068 , HOH Q:1225
SITE "ACE" IS THE ACTIVE SITE OF THE PROTOMER CONSISTING OF CHAINS E AND Q.
15
ACF
UNKNOWN
THR F:12 , ALA F:13 , GLY F:14 , PRO F:15 , TYR F:16 , ARG F:133 , GLY F:134 , TYR R:324 , THR R:326 , TRP R:400 , TYR R:408 , TYR R:447 , PRO R:448 , TRP R:449 , ARG R:450 , ARG R:457 , HIS R:460 , HIS R:462 , GLN R:477 , ILE R:491 , IHB R:550 , FE R:600 , HOH R:1235 , HOH F:1236 , HOH R:1273 , HOH R:1289 , HOH R:1290 , HOH R:1314 , HOH R:1471
SITE "ACF" IS THE ACTIVE SITE OF THE PROTOMER CONSISTING OF CHAINS F AND R.
16
BC1
SOFTWARE
HIS N:361 , CYS N:429 , LEU N:430 , SER N:438 , HOH N:697
BINDING SITE FOR RESIDUE BME N 601
17
BC2
SOFTWARE
PRO B:15 , TYR B:16 , TYR N:408 , TYR N:447 , TRP N:449 , ARG N:457 , HIS N:460 , HIS N:462 , ILE N:491 , FE N:600 , HOH N:640
BINDING SITE FOR RESIDUE IHB N 550
18
BC3
SOFTWARE
PRO M:322 , ILE M:328 , HOH M:750 , ARG N:333 , HOH N:685 , HOH N:750
BINDING SITE FOR RESIDUE IHB N 551
19
BC4
SOFTWARE
HIS O:361 , CYS O:429 , LEU O:430 , SER O:438 , HOH O:702
BINDING SITE FOR RESIDUE BME O 601
20
BC5
SOFTWARE
PRO C:15 , TYR C:16 , TYR O:408 , TYR O:447 , TRP O:449 , ARG O:457 , HIS O:460 , HIS O:462 , ILE O:491 , FE O:600 , HOH O:760
BINDING SITE FOR RESIDUE IHB O 550
21
BC6
SOFTWARE
PRO N:322 , ILE N:328 , HOH N:765 , ARG O:333 , HOH O:690
BINDING SITE FOR RESIDUE IHB O 551
22
BC7
SOFTWARE
HIS P:361 , CYS P:429 , LEU P:430 , SER P:438 , HOH P:699
BINDING SITE FOR RESIDUE BME P 601
23
BC8
SOFTWARE
PRO D:15 , TYR D:16 , TYR P:408 , TYR P:447 , TRP P:449 , ARG P:457 , HIS P:460 , HIS P:462 , ILE P:491 , FE P:600 , HOH P:640
BINDING SITE FOR RESIDUE IHB P 550
24
BC9
SOFTWARE
ARG P:333 , HOH P:687 , HOH P:741 , PRO R:322 , ILE R:328 , HOH R:983
BINDING SITE FOR RESIDUE IHB P 551
25
CC1
SOFTWARE
HIS Q:361 , CYS Q:429 , LEU Q:430 , SER Q:438 , HOH Q:1132
BINDING SITE FOR RESIDUE BME Q 601
26
CC2
SOFTWARE
PRO E:15 , TYR E:16 , TYR Q:408 , TYR Q:447 , TRP Q:449 , ARG Q:457 , HIS Q:460 , HIS Q:462 , ILE Q:491 , FE Q:600 , HOH Q:1044 , HOH Q:1225
BINDING SITE FOR RESIDUE IHB Q 550
27
CC3
SOFTWARE
ILE P:328 , ARG Q:333 , HOH Q:1115 , HOH Q:1229
BINDING SITE FOR RESIDUE IHB Q 551
28
CC4
SOFTWARE
HIS R:361 , CYS R:429 , SER R:438 , HOH R:1378
BINDING SITE FOR RESIDUE BME R 601
29
CC5
SOFTWARE
PRO F:15 , TYR F:16 , TYR R:408 , TYR R:447 , TRP R:449 , ARG R:457 , HIS R:460 , HIS R:462 , FE R:600 , HOH R:1290 , HOH R:1471
BINDING SITE FOR RESIDUE IHB R 550
30
CC6
SOFTWARE
ILE Q:328 , ARG R:333 , HOH R:1361 , HOH R:1460 , HOH R:1475
BINDING SITE FOR RESIDUE IHB R 551
31
S2M
UNKNOWN
LYS M:318 , LEU M:320 , PRO M:322 , ILE M:328 , PRO M:332 , ARG M:333 , GLN M:334 , IHB M:551 , HOH M:679 , HOH M:696 , HOH M:709 , HOH C:201 , HOH O:603 , HOH M:734 , HOH M:745 , HOH M:746 , LYS N:318 , LEU N:320 , PRO N:322 , ILE N:328 , PRO N:332 , ARG N:333 , GLN N:334 , IHB N:551 , HOH N:685 , HOH N:703 , HOH N:717 , HOH N:722 , HOH M:748 , HOH N:750 , HOH M:750 , HOH N:761 , LYS O:318 , LEU O:320 , PRO O:322 , ILE O:328 , PRO O:332 , ARG O:333
SECONDARY THREE-FOLD SITE BETWEEN M, N, O CHAINS.
32
S2P
UNKNOWN
LYS P:318 , LEU P:320 , PRO P:322 , ILE P:328 , PRO P:332 , ARG P:333 , GLN P:334 , IHB P:551 , HOH P:687 , HOH P:704 , HOH P:716 , HOH F:925 , HOH R:967 , HOH P:741 , HOH R:983 , HOH P:752 , LYS Q:318 , LEU Q:320 , PRO Q:322 , ILE Q:328 , PRO Q:332 , ARG Q:333 , GLN Q:334 , IHB Q:551 , HOH Q:1115 , HOH Q:1141 , HOH Q:1163 , HOH D:1171 , HOH R:1213 , HOH Q:1214 , HOH Q:1229 , HOH Q:1230 , LYS R:318 , LEU R:320 , PRO R:322 , ILE R:328 , PRO R:332 , ARG R:333
SECONDARY THREE-FOLD SITE BETWEEN P, Q, R CHAINS.
33
VEA
UNKNOWN
TYR A:79 , VAL A:114 , ASN A:115 , ASN A:116 , ALA A:117 , ALA A:118 , MET A:122 , HIS A:125 , ASN A:127 , ARG A:142 , VAL A:157 , ASP M:304 , ARG M:307 , ILE M:339 , PRO M:340 , GLN M:341 , SER M:342 , ILE M:343 , SER M:344 , GLU M:345 , HOH A:218 , HOH M:631 , HOH M:638 , HOH A:230 , HOH M:644 , HOH A:233 , HOH M:659 , HOH A:245 , HOH N:604
SITE "VEA" IS THE VESTIGIAL SITE OF THE PROTOMER CONSISTING OF CHAINS A AND M.
34
VEB
UNKNOWN
TYR B:79 , VAL B:114 , ASN B:115 , ASN B:116 , ALA B:117 , ALA B:118 , MET B:122 , HIS B:125 , ASN B:127 , ARG B:142 , VAL B:157 , ASP N:304 , ARG N:307 , ILE N:339 , PRO N:340 , GLN N:341 , SER N:342 , ILE N:343 , SER N:344 , GLU N:345 , HOH B:292 , HOH B:301 , HOH N:644 , HOH B:319 , HOH N:651 , HOH B:328 , HOH N:666 , HOH B:370 , HOH O:606
SITE "VEB" IS THE VESTIGIAL SITE OF THE PROTOMER CONSISTING OF CHAINS B AND N.
35
VEC
UNKNOWN
TYR C:79 , VAL C:114 , ASN C:115 , ASN C:116 , ALA C:117 , ALA C:118 , MET C:122 , HIS C:125 , ASN C:127 , ARG C:142 , VAL C:157 , ASP O:304 , ARG O:307 , ILE O:339 , PRO O:340 , GLN O:341 , SER O:342 , ILE O:343 , SER O:344 , GLU O:345 , HOH C:221 , HOH O:639 , HOH O:647 , HOH C:231 , HOH O:655 , HOH C:234 , HOH O:670 , HOH C:246 , HOH M:753
SITE "VEC" IS THE VESTIGIAL SITE OF THE PROTOMER CONSISTING OF CHAINS C AND O.
36
VED
UNKNOWN
TYR D:79 , VAL D:114 , ASN D:115 , ASN D:116 , ALA D:117 , ALA D:118 , MET D:122 , HIS D:125 , ASN D:127 , ARG D:142 , VAL D:157 , ASP P:304 , ARG P:307 , ILE P:339 , PRO P:340 , GLN P:341 , SER P:342 , ILE P:343 , SER P:344 , GLU P:345 , HOH D:784 , HOH P:637 , HOH P:644 , HOH D:811 , HOH P:652 , HOH D:820 , HOH P:669 , HOH D:862 , HOH Q:928
SITE "VED" IS THE VESTIGIAL SITE OF THE PROTOMER CONSISTING OF CHAINS D AND P.
37
VEE
UNKNOWN
TYR E:79 , VAL E:114 , ASN E:115 , ASN E:116 , ALA E:117 , ALA E:118 , MET E:122 , HIS E:125 , ASN E:127 , ARG E:142 , VAL E:157 , ASP Q:304 , ARG Q:307 , ILE Q:339 , PRO Q:340 , GLN Q:341 , SER Q:342 , ILE Q:343 , SER Q:344 , GLU Q:345 , HOH E:220 , HOH Q:1039 , HOH E:228 , HOH E:232 , HOH Q:1064 , HOH E:235 , HOH Q:1090 , HOH E:247 , HOH R:1174
SITE "VEE" IS THE VESTIGIAL SITE OF THE PROTOMER CONSISTING OF CHAINS E AND Q.
38
VEF
UNKNOWN
TYR F:79 , VAL F:114 , ASN F:115 , ASN F:116 , ALA F:117 , ALA F:118 , MET F:122 , HIS F:125 , ASN F:127 , ARG F:142 , VAL F:157 , ASP R:304 , ARG R:307 , ILE R:339 , PRO R:340 , GLN R:341 , SER R:342 , ILE R:343 , SER R:344 , GLU R:345 , HOH F:1276 , HOH R:1285 , HOH R:1296 , HOH F:1303 , HOH R:1310 , HOH F:1312 , HOH R:1336 , HOH F:1354 , HOH P:758
SITE "VEF" IS THE VESTIGIAL SITE OF THE PROTOMER CONSISTING OF CHAINS F AND R.
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 24)
Info
All PROSITE Patterns/Profiles
1: INTRADIOL_DIOXYGENAS (M:380-408,N:380-408,O:380-408,P:38...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
INTRADIOL_DIOXYGENAS
PS00083
Intradiol ring-cleavage dioxygenases signature.
PCXA_PSEPU
52-80
12
A:51-79
B:51-79
C:51-79
D:51-79
E:51-79
F:51-79
PCXB_PSEPU
81-109
12
M:380-408
N:380-408
O:380-408
P:380-408
Q:380-408
R:380-408
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 12)
Info
All SCOP Domains
1a: SCOP_d3pcia_ (A:)
1b: SCOP_d3pcib_ (B:)
1c: SCOP_d3pcic_ (C:)
1d: SCOP_d3pcid_ (D:)
1e: SCOP_d3pcie_ (E:)
1f: SCOP_d3pcif_ (F:)
2a: SCOP_d3pcim_ (M:)
2b: SCOP_d3pcin_ (N:)
2c: SCOP_d3pcio_ (O:)
2d: SCOP_d3pcip_ (P:)
2e: SCOP_d3pciq_ (Q:)
2f: SCOP_d3pcir_ (R:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Prealbumin-like
(433)
Superfamily
:
Aromatic compound dioxygenase
(111)
Family
:
Aromatic compound dioxygenase
(100)
Protein domain
:
Protocatechuate-3,4-dioxygenase, alpha chain
(37)
Pseudomonas putida [TaxId: 303]
(31)
1a
d3pcia_
A:
1b
d3pcib_
B:
1c
d3pcic_
C:
1d
d3pcid_
D:
1e
d3pcie_
E:
1f
d3pcif_
F:
Protein domain
:
Protocatechuate-3,4-dioxygenase, beta chain
(44)
Pseudomonas putida [TaxId: 303]
(31)
2a
d3pcim_
M:
2b
d3pcin_
N:
2c
d3pcio_
O:
2d
d3pcip_
P:
2e
d3pciq_
Q:
2f
d3pcir_
R:
[
close SCOP info
]
CATH Domains
(1, 12)
Info
all CATH domains
1a: CATH_3pciM00 (M:301-536)
1b: CATH_3pciA00 (A:1-200)
1c: CATH_3pciB00 (B:1-200)
1d: CATH_3pciC00 (C:1-200)
1e: CATH_3pciD00 (D:1-200)
1f: CATH_3pciE00 (E:1-200)
1g: CATH_3pciF00 (F:1-200)
1h: CATH_3pciN00 (N:301-536)
1i: CATH_3pciO00 (O:301-536)
1j: CATH_3pciP00 (P:301-536)
1k: CATH_3pciQ00 (Q:301-536)
1l: CATH_3pciR00 (R:301-536)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Protocatechuate 3,4-Dioxygenase, subunit A
(43)
Homologous Superfamily
:
Protocatechuate 3,4-Dioxygenase, subunit A
(43)
Pseudomonas putida. Organism_taxid: 303.
(20)
1a
3pciM00
M:301-536
1b
3pciA00
A:1-200
1c
3pciB00
B:1-200
1d
3pciC00
C:1-200
1e
3pciD00
D:1-200
1f
3pciE00
E:1-200
1g
3pciF00
F:1-200
1h
3pciN00
N:301-536
1i
3pciO00
O:301-536
1j
3pciP00
P:301-536
1k
3pciQ00
Q:301-536
1l
3pciR00
R:301-536
[
close CATH info
]
Pfam Domains
(2, 18)
Info
all PFAM domains
1a: PFAM_Dioxygenase_C_3pciF01 (F:23-192)
1b: PFAM_Dioxygenase_C_3pciF02 (F:23-192)
1c: PFAM_Dioxygenase_C_3pciF03 (F:23-192)
1d: PFAM_Dioxygenase_C_3pciF04 (F:23-192)
1e: PFAM_Dioxygenase_C_3pciF05 (F:23-192)
1f: PFAM_Dioxygenase_C_3pciF06 (F:23-192)
1g: PFAM_Dioxygenase_C_3pciR01 (R:346-530)
1h: PFAM_Dioxygenase_C_3pciR02 (R:346-530)
1i: PFAM_Dioxygenase_C_3pciR03 (R:346-530)
1j: PFAM_Dioxygenase_C_3pciR04 (R:346-530)
1k: PFAM_Dioxygenase_C_3pciR05 (R:346-530)
1l: PFAM_Dioxygenase_C_3pciR06 (R:346-530)
2a: PFAM_PCDO_beta_N_3pciR07 (R:308-343)
2b: PFAM_PCDO_beta_N_3pciR08 (R:308-343)
2c: PFAM_PCDO_beta_N_3pciR09 (R:308-343)
2d: PFAM_PCDO_beta_N_3pciR10 (R:308-343)
2e: PFAM_PCDO_beta_N_3pciR11 (R:308-343)
2f: PFAM_PCDO_beta_N_3pciR12 (R:308-343)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Transthyretin
(88)
Family
:
Dioxygenase_C
(32)
Pseudomonas putida (Arthrobacter siderocapsulatus)
(27)
1a
Dioxygenase_C-3pciF01
F:23-192
1b
Dioxygenase_C-3pciF02
F:23-192
1c
Dioxygenase_C-3pciF03
F:23-192
1d
Dioxygenase_C-3pciF04
F:23-192
1e
Dioxygenase_C-3pciF05
F:23-192
1f
Dioxygenase_C-3pciF06
F:23-192
1g
Dioxygenase_C-3pciR01
R:346-530
1h
Dioxygenase_C-3pciR02
R:346-530
1i
Dioxygenase_C-3pciR03
R:346-530
1j
Dioxygenase_C-3pciR04
R:346-530
1k
Dioxygenase_C-3pciR05
R:346-530
1l
Dioxygenase_C-3pciR06
R:346-530
Clan
:
no clan defined [family: PCDO_beta_N]
(26)
Family
:
PCDO_beta_N
(26)
Pseudomonas putida (Arthrobacter siderocapsulatus)
(26)
2a
PCDO_beta_N-3pciR07
R:308-343
2b
PCDO_beta_N-3pciR08
R:308-343
2c
PCDO_beta_N-3pciR09
R:308-343
2d
PCDO_beta_N-3pciR10
R:308-343
2e
PCDO_beta_N-3pciR11
R:308-343
2f
PCDO_beta_N-3pciR12
R:308-343
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Chain C
Chain D
Chain E
Chain F
Chain M
Chain N
Chain O
Chain P
Chain Q
Chain R
Asymmetric Unit 1
Asymmetric Unit 2
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (452 KB)
Header - Asym.Unit
Biol.Unit 1 (879 KB)
Header - Biol.Unit 1
Biol.Unit 2 (875 KB)
Header - Biol.Unit 2
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
3PCI
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help