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.
PLEASE WAIT...
Getting 'Exon' information from database.
2FKW
Asym. Unit
Info
Asym.Unit (231 KB)
Biol.Unit 1 (200 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 LH2 FROM RPS. ACIDOPHILA CRYSTALLIZED IN LIPIDIC MESOPHASES
Authors
:
M. Z. Papiz, V. Cherezov, J. Clogston, M. Caffrey
Date
:
05 Jan 06 (Deposition) - 28 Mar 06 (Release) - 30 Mar 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.45
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,R,S
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,R,S (1x)
Keywords
:
Light Harvesting Complex B800-B850, Lipidic Mesophase, Crystallization, Cubic Phase, Sponge Phase, Ldao, Rhodopin Glucoside Carotenoid, Membrane Protein, Photosynthesis
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
V. Cherezov, J. Clogston, M. Z. Papiz, M. Caffrey
Room To Move: Crystallizing Membrane Proteins In Swollen Lipidic Mesophases
J. Mol. Biol. V. 357 1605 2006
[
close entry info
]
Hetero Components
(4, 72)
Info
All Hetero Components
1a: BACTERIOCHLOROPHYLL A (BCLa)
1aa: BACTERIOCHLOROPHYLL A (BCLaa)
1b: BACTERIOCHLOROPHYLL A (BCLb)
1c: BACTERIOCHLOROPHYLL A (BCLc)
1d: BACTERIOCHLOROPHYLL A (BCLd)
1e: BACTERIOCHLOROPHYLL A (BCLe)
1f: BACTERIOCHLOROPHYLL A (BCLf)
1g: BACTERIOCHLOROPHYLL A (BCLg)
1h: BACTERIOCHLOROPHYLL A (BCLh)
1i: BACTERIOCHLOROPHYLL A (BCLi)
1j: BACTERIOCHLOROPHYLL A (BCLj)
1k: BACTERIOCHLOROPHYLL A (BCLk)
1l: BACTERIOCHLOROPHYLL A (BCLl)
1m: BACTERIOCHLOROPHYLL A (BCLm)
1n: BACTERIOCHLOROPHYLL A (BCLn)
1o: BACTERIOCHLOROPHYLL A (BCLo)
1p: BACTERIOCHLOROPHYLL A (BCLp)
1q: BACTERIOCHLOROPHYLL A (BCLq)
1r: BACTERIOCHLOROPHYLL A (BCLr)
1s: BACTERIOCHLOROPHYLL A (BCLs)
1t: BACTERIOCHLOROPHYLL A (BCLt)
1u: BACTERIOCHLOROPHYLL A (BCLu)
1v: BACTERIOCHLOROPHYLL A (BCLv)
1w: BACTERIOCHLOROPHYLL A (BCLw)
1x: BACTERIOCHLOROPHYLL A (BCLx)
1y: BACTERIOCHLOROPHYLL A (BCLy)
1z: BACTERIOCHLOROPHYLL A (BCLz)
2a: N-CARBOXYMETHIONINE (CXMa)
2b: N-CARBOXYMETHIONINE (CXMb)
2c: N-CARBOXYMETHIONINE (CXMc)
2d: N-CARBOXYMETHIONINE (CXMd)
2e: N-CARBOXYMETHIONINE (CXMe)
2f: N-CARBOXYMETHIONINE (CXMf)
2g: N-CARBOXYMETHIONINE (CXMg)
2h: N-CARBOXYMETHIONINE (CXMh)
2i: N-CARBOXYMETHIONINE (CXMi)
3a: LAURYL DIMETHYLAMINE-N-OXIDE (LDAa)
3aa: LAURYL DIMETHYLAMINE-N-OXIDE (LDAaa)
3b: LAURYL DIMETHYLAMINE-N-OXIDE (LDAb)
3c: LAURYL DIMETHYLAMINE-N-OXIDE (LDAc)
3d: LAURYL DIMETHYLAMINE-N-OXIDE (LDAd)
3e: LAURYL DIMETHYLAMINE-N-OXIDE (LDAe)
3f: LAURYL DIMETHYLAMINE-N-OXIDE (LDAf)
3g: LAURYL DIMETHYLAMINE-N-OXIDE (LDAg)
3h: LAURYL DIMETHYLAMINE-N-OXIDE (LDAh)
3i: LAURYL DIMETHYLAMINE-N-OXIDE (LDAi)
3j: LAURYL DIMETHYLAMINE-N-OXIDE (LDAj)
3k: LAURYL DIMETHYLAMINE-N-OXIDE (LDAk)
3l: LAURYL DIMETHYLAMINE-N-OXIDE (LDAl)
3m: LAURYL DIMETHYLAMINE-N-OXIDE (LDAm)
3n: LAURYL DIMETHYLAMINE-N-OXIDE (LDAn)
3o: LAURYL DIMETHYLAMINE-N-OXIDE (LDAo)
3p: LAURYL DIMETHYLAMINE-N-OXIDE (LDAp)
3q: LAURYL DIMETHYLAMINE-N-OXIDE (LDAq)
3r: LAURYL DIMETHYLAMINE-N-OXIDE (LDAr)
3s: LAURYL DIMETHYLAMINE-N-OXIDE (LDAs)
3t: LAURYL DIMETHYLAMINE-N-OXIDE (LDAt)
3u: LAURYL DIMETHYLAMINE-N-OXIDE (LDAu)
3v: LAURYL DIMETHYLAMINE-N-OXIDE (LDAv)
3w: LAURYL DIMETHYLAMINE-N-OXIDE (LDAw)
3x: LAURYL DIMETHYLAMINE-N-OXIDE (LDAx)
3y: LAURYL DIMETHYLAMINE-N-OXIDE (LDAy)
3z: LAURYL DIMETHYLAMINE-N-OXIDE (LDAz)
4a: RHODOPIN B-D-GLUCOSIDE (RG1a)
4b: RHODOPIN B-D-GLUCOSIDE (RG1b)
4c: RHODOPIN B-D-GLUCOSIDE (RG1c)
4d: RHODOPIN B-D-GLUCOSIDE (RG1d)
4e: RHODOPIN B-D-GLUCOSIDE (RG1e)
4f: RHODOPIN B-D-GLUCOSIDE (RG1f)
4g: RHODOPIN B-D-GLUCOSIDE (RG1g)
4h: RHODOPIN B-D-GLUCOSIDE (RG1h)
4i: RHODOPIN B-D-GLUCOSIDE (RG1i)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BCL
27
Ligand/Ion
BACTERIOCHLOROPHYLL A
2
CXM
9
Mod. Amino Acid
N-CARBOXYMETHIONINE
3
LDA
27
Ligand/Ion
LAURYL DIMETHYLAMINE-N-OXIDE
4
RG1
9
Ligand/Ion
RHODOPIN B-D-GLUCOSIDE
[
close Hetero Component info
]
Sites
(63, 63)
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)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (SOFTWARE)
42: EC6 (SOFTWARE)
43: EC7 (SOFTWARE)
44: EC8 (SOFTWARE)
45: EC9 (SOFTWARE)
46: FC1 (SOFTWARE)
47: FC2 (SOFTWARE)
48: FC3 (SOFTWARE)
49: FC4 (SOFTWARE)
50: FC5 (SOFTWARE)
51: FC6 (SOFTWARE)
52: FC7 (SOFTWARE)
53: FC8 (SOFTWARE)
54: FC9 (SOFTWARE)
55: GC1 (SOFTWARE)
56: GC2 (SOFTWARE)
57: GC3 (SOFTWARE)
58: GC4 (SOFTWARE)
59: GC5 (SOFTWARE)
60: GC6 (SOFTWARE)
61: GC7 (SOFTWARE)
62: GC8 (SOFTWARE)
63: GC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
VAL A:23 , BCL A:1701 , GLU B:10 , LEU B:11 , TYR B:14 , GLY B:18 , THR B:19 , HOH B:268 , BCL B:1601 , ALA C:27 , ILE C:28 , LEU C:32 , TRP C:45 , BCL C:1502 , GLN L:7 , RG1 L:1406 , GLN R:3 , LYS R:5 , ILE R:6 , BCL R:1709 , HOH R:1850 , HOH R:1855 , ALA S:5 , BCL S:1609
BINDING SITE FOR RESIDUE RG1 R 1401
02
AC2
SOFTWARE
GLN A:3 , LYS A:5 , ILE A:6 , BCL A:1701 , ALA B:5 , BCL B:1601 , VAL C:23 , BCL C:1702 , GLU D:10 , LEU D:11 , TYR D:14 , GLY D:18 , THR D:19 , BCL D:1602 , HOH D:1804 , HOH D:1805 , HOH D:1829 , TRP E:45 , BCL E:1503
BINDING SITE FOR RESIDUE RG1 D 1402
03
AC3
SOFTWARE
GLN C:3 , LYS C:5 , ILE C:6 , BCL C:1702 , ALA D:5 , BCL D:1602 , VAL E:23 , VAL E:30 , BCL E:1703 , GLU F:10 , LEU F:11 , TYR F:14 , GLY F:18 , THR F:19 , BCL F:1603 , HOH F:1827 , HOH F:1831 , HIS G:31 , BCL G:1504
BINDING SITE FOR RESIDUE RG1 F 1403
04
AC4
SOFTWARE
GLN E:3 , LYS E:5 , ILE E:6 , VAL E:9 , BCL E:1703 , ALA F:5 , BCL F:1603 , VAL G:23 , ALA G:33 , BCL G:1704 , GLN H:7 , GLU H:10 , LEU H:11 , TYR H:14 , GLY H:18 , THR H:19 , BCL H:1604 , HOH H:1830 , HOH H:1835 , LEU I:32 , TRP I:45
BINDING SITE FOR RESIDUE RG1 H 1404
05
AC5
SOFTWARE
GLN G:3 , ILE G:6 , BCL G:1704 , ALA H:5 , BCL H:1604 , VAL I:23 , BCL I:1705 , GLU J:10 , LEU J:11 , TYR J:14 , GLY J:18 , THR J:19 , BCL J:1605 , HOH J:1807 , HOH J:1811 , HOH J:1827 , LEU K:32 , TRP K:45 , BCL K:1506
BINDING SITE FOR RESIDUE RG1 J 1405
06
AC6
SOFTWARE
GLN B:7 , GLN I:3 , LYS I:5 , ILE I:6 , BCL I:1705 , BCL J:1605 , VAL K:23 , ILE K:26 , VAL K:30 , BCL K:1706 , GLU L:10 , TYR L:14 , GLY L:18 , THR L:19 , BCL L:1606 , ALA M:27 , HIS M:31 , BCL M:1507 , RG1 R:1401
BINDING SITE FOR RESIDUE RG1 L 1406
07
AC7
SOFTWARE
GLN K:3 , ILE K:6 , BCL K:1706 , ALA L:5 , BCL L:1606 , VAL M:23 , VAL M:30 , BCL M:1707 , GLU N:10 , TYR N:14 , GLY N:18 , THR N:19 , BCL N:1607 , HOH N:1818 , HOH N:1821 , ALA O:27 , BCL O:1508
BINDING SITE FOR RESIDUE RG1 N 1407
08
AC8
SOFTWARE
GLN M:3 , LYS M:5 , ILE M:6 , BCL M:1707 , ALA N:5 , BCL N:1607 , VAL O:23 , BCL O:1708 , GLU P:10 , TYR P:14 , GLY P:18 , THR P:19 , BCL P:1608 , HOH P:1830 , HIS R:31 , LEU R:32 , BCL R:1509
BINDING SITE FOR RESIDUE RG1 P 1408
09
AC9
SOFTWARE
TRP A:45 , GLN O:3 , LYS O:5 , ILE O:6 , BCL O:1708 , ALA P:5 , VAL R:23 , ILE R:26 , GLU S:10 , LEU S:11 , TYR S:14 , GLY S:18 , THR S:19 , HOH S:255 , HOH S:279 , HOH S:292 , HOH S:515 , BCL S:1609
BINDING SITE FOR RESIDUE RG1 S 1409
10
BC1
SOFTWARE
LEU A:20 , THR A:24 , ALA A:27 , HIS A:31 , TRP A:40 , PHE A:41 , TRP A:45 , PHE B:22 , ALA B:26 , ALA B:29 , HIS B:30 , BCL B:1601 , LDA B:1801 , ILE R:6 , GLY R:15 , SER R:22 , BCL R:1709 , BCL S:1609
BINDING SITE FOR RESIDUE BCL A 1501
11
BC2
SOFTWARE
VAL A:23 , ILE A:26 , ALA A:27 , VAL A:30 , HIS A:31 , ILE A:34 , BCL A:1501 , BCL A:1701 , HOH A:1831 , THR B:19 , PHE B:22 , LEU B:23 , ALA B:26 , HIS B:30 , TRP B:39 , HOH B:282 , TYR C:44 , TRP C:45 , BCL C:1502 , RG1 D:1402 , RG1 R:1401
BINDING SITE FOR RESIDUE BCL B 1601
12
BC3
SOFTWARE
CXM A:1 , ASN A:2 , GLN A:3 , HOH A:1821 , HOH A:1831 , ILE B:16 , THR B:19 , ARG B:20 , LEU B:23 , LEU B:27 , TRP B:39 , HOH B:282 , BCL B:1601 , BCL C:1502 , GLY D:18 , VAL D:21 , RG1 D:1402 , PHE P:31 , RG1 R:1401
BINDING SITE FOR RESIDUE BCL A 1701
13
BC4
SOFTWARE
GLY A:15 , SER A:22 , BCL A:1701 , LDA A:1816 , BCL B:1601 , LEU C:20 , THR C:24 , ALA C:27 , HIS C:31 , PHE C:41 , TRP C:45 , PHE D:22 , ALA D:26 , ALA D:29 , HIS D:30 , BCL D:1602 , LDA D:1802 , HOH D:1806 , RG1 R:1401
BINDING SITE FOR RESIDUE BCL C 1502
14
BC5
SOFTWARE
VAL C:23 , ALA C:27 , VAL C:30 , HIS C:31 , ILE C:34 , BCL C:1502 , BCL C:1702 , HOH C:1838 , THR D:19 , PHE D:22 , LEU D:23 , ALA D:26 , HIS D:30 , TRP D:39 , RG1 D:1402 , TYR E:44 , TRP E:45 , BCL E:1503 , VAL F:21 , RG1 F:1403
BINDING SITE FOR RESIDUE BCL D 1602
15
BC6
SOFTWARE
CXM C:1 , ASN C:2 , GLN C:3 , HOH C:1822 , HOH C:1838 , ILE D:16 , THR D:19 , ARG D:20 , HIS D:30 , TRP D:39 , RG1 D:1402 , BCL D:1602 , LEU E:20 , BCL E:1503 , GLY F:18 , RG1 F:1403
BINDING SITE FOR RESIDUE BCL C 1702
16
BC7
SOFTWARE
GLY C:15 , SER C:22 , BCL C:1702 , RG1 D:1402 , BCL D:1602 , LEU E:20 , THR E:24 , ALA E:27 , HIS E:31 , TRP E:40 , PHE E:41 , TRP E:45 , PHE F:22 , LEU F:25 , ALA F:26 , ALA F:29 , HIS F:30 , BCL F:1603 , LDA F:1803
BINDING SITE FOR RESIDUE BCL E 1503
17
BC8
SOFTWARE
VAL E:23 , ILE E:26 , ALA E:27 , VAL E:30 , HIS E:31 , ILE E:34 , BCL E:1503 , BCL E:1703 , THR F:19 , PHE F:22 , HIS F:30 , TRP F:39 , RG1 F:1403 , TYR G:44 , TRP G:45 , BCL G:1504 , RG1 H:1404
BINDING SITE FOR RESIDUE BCL F 1603
18
BC9
SOFTWARE
CXM E:1 , ASN E:2 , ILE F:16 , THR F:19 , ARG F:20 , HIS F:30 , RG1 F:1403 , BCL F:1603 , LEU G:20 , BCL G:1504 , GLY H:18 , RG1 H:1404
BINDING SITE FOR RESIDUE BCL E 1703
19
CC1
SOFTWARE
GLY E:15 , SER E:22 , BCL E:1703 , RG1 F:1403 , BCL F:1603 , LEU G:20 , THR G:24 , ALA G:27 , HIS G:31 , TRP G:40 , PHE G:41 , TRP G:45 , HOH G:1838 , HOH G:1853 , PHE H:22 , LEU H:25 , ALA H:26 , ALA H:29 , HIS H:30 , BCL H:1604
BINDING SITE FOR RESIDUE BCL G 1504
20
CC2
SOFTWARE
VAL G:23 , ALA G:27 , VAL G:30 , HIS G:31 , ILE G:34 , BCL G:1504 , BCL G:1704 , THR H:19 , PHE H:22 , LEU H:23 , ALA H:26 , HIS H:30 , ALA H:33 , TRP H:39 , RG1 H:1404 , TYR I:44 , TRP I:45 , BCL I:1505 , LEU J:25 , RG1 J:1405 , LDA J:1805
BINDING SITE FOR RESIDUE BCL H 1604
21
CC3
SOFTWARE
CXM G:1 , ASN G:2 , GLN G:3 , HOH G:1854 , HOH G:1863 , THR H:19 , ARG H:20 , HIS H:30 , RG1 H:1404 , BCL H:1604 , HOH H:1808 , LEU I:20 , BCL I:1505 , GLY J:18 , RG1 J:1405
BINDING SITE FOR RESIDUE BCL G 1704
22
CC4
SOFTWARE
GLY G:15 , LEU G:19 , BCL G:1704 , BCL H:1604 , THR I:24 , ALA I:27 , HIS I:31 , TRP I:40 , PHE I:41 , TRP I:45 , PHE J:22 , LEU J:25 , ALA J:26 , ALA J:29 , HIS J:30 , BCL J:1605 , LDA J:1805
BINDING SITE FOR RESIDUE BCL I 1505
23
CC5
SOFTWARE
VAL I:23 , ALA I:27 , VAL I:30 , HIS I:31 , ILE I:34 , BCL I:1505 , BCL I:1705 , THR J:19 , PHE J:22 , ALA J:26 , HIS J:30 , TRP J:39 , RG1 J:1405 , HOH J:1813 , HOH J:1825 , TYR K:44 , TRP K:45 , BCL K:1506 , HOH K:1851 , HOH K:1854 , HOH K:1864 , RG1 L:1406
BINDING SITE FOR RESIDUE BCL J 1605
24
CC6
SOFTWARE
SER F:35 , CXM I:1 , ASN I:2 , GLN I:3 , HOH I:1857 , THR J:19 , ARG J:20 , LEU J:27 , HIS J:30 , RG1 J:1405 , BCL J:1605 , HOH J:1825 , LEU K:20 , BCL K:1506 , HOH K:1854 , GLY L:18 , RG1 L:1406
BINDING SITE FOR RESIDUE BCL I 1705
25
CC7
SOFTWARE
GLY I:15 , SER I:22 , BCL I:1705 , RG1 J:1405 , BCL J:1605 , LEU K:20 , THR K:24 , ALA K:27 , HIS K:31 , TRP K:40 , PHE K:41 , TRP K:45 , HOH K:1851 , HOH K:1854 , HOH K:1864 , PHE L:22 , ALA L:26 , ALA L:29 , HIS L:30 , BCL L:1606 , LDA L:1806
BINDING SITE FOR RESIDUE BCL K 1506
26
CC8
SOFTWARE
VAL K:23 , ILE K:26 , ALA K:27 , VAL K:30 , HIS K:31 , ILE K:34 , TRP K:40 , BCL K:1506 , BCL K:1706 , HOH K:1859 , THR L:19 , PHE L:22 , LEU L:23 , ALA L:26 , HIS L:30 , TRP L:39 , RG1 L:1406 , HOH L:1835 , TYR M:44 , BCL M:1507 , RG1 N:1407
BINDING SITE FOR RESIDUE BCL L 1606
27
CC9
SOFTWARE
CXM K:1 , ASN K:2 , GLN K:3 , HOH K:1835 , VAL L:15 , ILE L:16 , THR L:19 , ARG L:20 , HIS L:30 , RG1 L:1406 , BCL L:1606 , LEU M:20 , BCL M:1507 , HOH M:1849 , GLY N:18 , RG1 N:1407
BINDING SITE FOR RESIDUE BCL K 1706
28
DC1
SOFTWARE
ILE K:6 , TRP K:7 , SER K:22 , BCL K:1706 , LDA K:1810 , RG1 L:1406 , BCL L:1606 , LEU M:20 , THR M:24 , ALA M:27 , HIS M:31 , TRP M:40 , PHE M:41 , TRP M:45 , PHE N:22 , ALA N:26 , HIS N:30 , BCL N:1607 , LDA N:1807
BINDING SITE FOR RESIDUE BCL M 1507
29
DC2
SOFTWARE
ILE M:26 , ALA M:27 , VAL M:30 , HIS M:31 , ILE M:34 , BCL M:1507 , BCL M:1707 , THR N:19 , PHE N:22 , LEU N:23 , ALA N:26 , HIS N:30 , ALA N:33 , TRP N:39 , RG1 N:1407 , TYR O:44 , BCL O:1508 , RG1 P:1408 , LDA P:1808
BINDING SITE FOR RESIDUE BCL N 1607
30
DC3
SOFTWARE
CXM M:1 , ASN M:2 , HOH M:1859 , ILE N:16 , THR N:19 , ARG N:20 , LEU N:27 , HIS N:30 , TRP N:39 , RG1 N:1407 , BCL N:1607 , HOH N:1831 , LEU O:20 , BCL O:1508 , GLY P:18 , VAL P:21 , RG1 P:1408
BINDING SITE FOR RESIDUE BCL M 1707
31
DC4
SOFTWARE
SER M:22 , BCL M:1707 , RG1 N:1407 , BCL N:1607 , LEU O:20 , THR O:24 , ALA O:27 , HIS O:31 , TRP O:40 , PHE O:41 , TRP O:45 , PHE P:22 , ALA P:26 , ALA P:29 , HIS P:30 , BCL P:1608 , LDA P:1808
BINDING SITE FOR RESIDUE BCL O 1508
32
DC5
SOFTWARE
ALA O:27 , VAL O:30 , HIS O:31 , ILE O:34 , BCL O:1508 , BCL O:1708 , HOH O:1853 , THR P:19 , PHE P:22 , LEU P:23 , ALA P:26 , HIS P:30 , TRP P:39 , RG1 P:1408 , HOH P:1837 , TYR R:44 , BCL R:1509 , LDA R:1809
BINDING SITE FOR RESIDUE BCL P 1608
33
DC6
SOFTWARE
CXM O:1 , ASN O:2 , GLN O:3 , HOH O:1822 , HOH O:1825 , HOH O:1833 , HOH O:1853 , THR P:19 , ARG P:20 , LEU P:23 , ALA P:26 , LEU P:27 , HIS P:30 , TRP P:39 , RG1 P:1408 , BCL P:1608 , HOH P:1810 , LEU R:20 , BCL R:1509 , GLY S:18 , RG1 S:1409
BINDING SITE FOR RESIDUE BCL O 1708
34
DC7
SOFTWARE
ILE O:6 , GLY O:15 , BCL O:1708 , RG1 P:1408 , BCL P:1608 , LEU R:20 , THR R:24 , ALA R:27 , HIS R:31 , TRP R:40 , PHE R:41 , TRP R:45 , PHE S:22 , LEU S:25 , ALA S:26 , ALA S:29 , HIS S:30 , HOH S:296 , BCL S:1609
BINDING SITE FOR RESIDUE BCL R 1509
35
DC8
SOFTWARE
TYR A:44 , TRP A:45 , BCL A:1501 , LEU B:25 , ILE R:26 , ALA R:27 , VAL R:30 , HIS R:31 , ILE R:34 , RG1 R:1401 , BCL R:1509 , BCL R:1709 , HOH R:1831 , THR S:19 , PHE S:22 , LEU S:23 , ALA S:26 , HIS S:30 , TRP S:39 , HOH S:515 , RG1 S:1409
BINDING SITE FOR RESIDUE BCL S 1609
36
DC9
SOFTWARE
LEU A:20 , BCL A:1501 , GLY B:18 , CXM R:1 , ASN R:2 , GLN R:3 , RG1 R:1401 , HOH R:1825 , HOH R:1831 , HOH R:1843 , ILE S:16 , THR S:19 , ARG S:20 , HIS S:30 , TRP S:39 , HOH S:419 , HOH S:515 , BCL S:1609
BINDING SITE FOR RESIDUE BCL R 1709
37
EC1
SOFTWARE
TRP A:40 , TYR A:44 , BCL A:1501 , ALA B:29 , ALA B:36 , THR B:37 , PRO B:38
BINDING SITE FOR RESIDUE LDA B 1801
38
EC2
SOFTWARE
TYR C:44 , BCL C:1502 , ALA D:29 , LEU D:32 , ALA D:36 , HOH D:1806
BINDING SITE FOR RESIDUE LDA D 1802
39
EC3
SOFTWARE
TRP E:40 , BCL E:1503 , HOH E:1862 , ALA F:29 , ALA F:36 , THR F:37 , PRO F:38 , HOH F:1809
BINDING SITE FOR RESIDUE LDA F 1803
40
EC4
SOFTWARE
TRP G:40 , TYR G:44 , ALA H:29 , LEU H:32 , ALA H:36 , THR H:37 , HOH H:1825 , HOH H:1826
BINDING SITE FOR RESIDUE LDA H 1804
41
EC5
SOFTWARE
BCL H:1604 , TYR I:44 , BCL I:1505 , ALA J:36 , HOH J:1814
BINDING SITE FOR RESIDUE LDA J 1805
42
EC6
SOFTWARE
TRP K:40 , TYR K:44 , BCL K:1506 , HOH K:1864 , ALA L:29 , ALA L:36 , HOH L:1809 , HOH L:1819
BINDING SITE FOR RESIDUE LDA L 1806
43
EC7
SOFTWARE
TRP M:40 , TYR M:44 , BCL M:1507 , ALA N:29 , ALA N:36 , PRO N:38 , HOH N:1810
BINDING SITE FOR RESIDUE LDA N 1807
44
EC8
SOFTWARE
BCL N:1607 , TYR O:44 , BCL O:1508 , ALA P:29 , ALA P:36 , THR P:37
BINDING SITE FOR RESIDUE LDA P 1808
45
EC9
SOFTWARE
BCL P:1608 , TRP R:40 , ALA S:36 , HOH S:296
BINDING SITE FOR RESIDUE LDA R 1809
46
FC1
SOFTWARE
ILE K:14 , HOH K:1852 , HOH K:1856 , ALA M:13 , ILE M:14 , BCL M:1507
BINDING SITE FOR RESIDUE LDA K 1810
47
FC2
SOFTWARE
ASN M:11 , ILE M:14 , ILE O:14
BINDING SITE FOR RESIDUE LDA M 1811
48
FC3
SOFTWARE
ILE I:14 , HOH I:1827 , HOH I:1829 , HOH I:1862 , ILE K:14 , HOH K:1856 , HOH K:1860 , HOH K:1863
BINDING SITE FOR RESIDUE LDA I 1812
49
FC4
SOFTWARE
ASN G:11 , ILE G:14 , ALA I:13 , ILE I:14 , ALA I:18 , HOH I:1826
BINDING SITE FOR RESIDUE LDA I 1813
50
FC5
SOFTWARE
ASN E:11 , ILE E:14 , ALA G:13 , ILE G:14 , GLY G:21 , HOH G:1853
BINDING SITE FOR RESIDUE LDA G 1814
51
FC6
SOFTWARE
ILE C:14 , ALA E:13 , ILE E:14 , HOH E:1837 , HOH E:1847 , HOH E:1860
BINDING SITE FOR RESIDUE LDA C 1815
52
FC7
SOFTWARE
ASN A:11 , ILE A:14 , ALA C:13 , ILE C:14 , BCL C:1502
BINDING SITE FOR RESIDUE LDA A 1816
53
FC8
SOFTWARE
ALA A:13 , ILE A:14 , GLY A:21 , HOH A:1818 , HOH A:1820
BINDING SITE FOR RESIDUE LDA A 1817
54
FC9
SOFTWARE
ILE O:14 , ILE R:14 , SER R:22 , HOH R:1852 , HOH R:1856
BINDING SITE FOR RESIDUE LDA R 1818
55
GC1
SOFTWARE
VAL A:25 , LEU R:29 , ALA R:33 , SER R:36
BINDING SITE FOR RESIDUE LDA R 1819
56
GC2
SOFTWARE
VAL O:25 , LEU O:29 , ALA O:33 , SER O:36 , HOH O:1823 , HOH O:1850 , LEU R:32
BINDING SITE FOR RESIDUE LDA O 1820
57
GC3
SOFTWARE
HOH A:1840 , LEU C:32
BINDING SITE FOR RESIDUE LDA C 1821
58
GC4
SOFTWARE
LEU C:29 , SER C:36 , HOH C:1843 , LEU E:32 , HOH E:1859
BINDING SITE FOR RESIDUE LDA E 1822
59
GC5
SOFTWARE
VAL E:25 , HOH E:1853 , HOH E:1854 , HOH E:1861 , ILE G:28 , LEU G:32 , LDA G:1824
BINDING SITE FOR RESIDUE LDA E 1823
60
GC6
SOFTWARE
LDA E:1823 , LEU G:29 , SER G:36 , HOH G:1828 , HOH G:1843 , HOH G:1844 , HOH G:1865 , LEU I:32 , HOH I:1859
BINDING SITE FOR RESIDUE LDA G 1824
61
GC7
SOFTWARE
ALA I:33 , SER I:36 , HOH I:1840 , HOH I:1845 , HOH I:1859 , HOH K:1842
BINDING SITE FOR RESIDUE LDA I 1825
62
GC8
SOFTWARE
LEU K:32 , ALA K:33 , HOH K:1846 , HOH K:1847 , HOH K:1863 , HOH K:1873 , LEU M:32
BINDING SITE FOR RESIDUE LDA K 1826
63
GC9
SOFTWARE
ALA M:33 , SER M:36 , LEU O:32 , HOH O:1852
BINDING SITE FOR RESIDUE LDA M 1827
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 18)
Info
All PROSITE Patterns/Profiles
1: ANTENNA_COMP_BETA (B:7-38,D:7-38,F:7-38,H:7-38,J:7-38...)
2: ANTENNA_COMP_ALPHA (A:25-41,C:25-41,E:25-41,G:25-41,I:...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ANTENNA_COMP_BETA
PS00969
Antenna complexes beta subunits signature.
LHB5_RHOAC
7-38
9
B:7-38
D:7-38
F:7-38
H:7-38
J:7-38
L:7-38
N:7-38
P:7-38
S:7-38
2
ANTENNA_COMP_ALPHA
PS00968
Antenna complexes alpha subunits signature.
LHA4_RHOAC
25-41
9
A:25-41
C:25-41
E:25-41
G:25-41
I:25-41
K:25-41
M:25-41
O:25-41
R:25-41
[
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.
SCOP Domains
(1, 18)
Info
All SCOP Domains
1a: SCOP_d2fkwa_ (A:)
1b: SCOP_d2fkwe_ (E:)
1c: SCOP_d2fkwf_ (F:)
1d: SCOP_d2fkwg_ (G:)
1e: SCOP_d2fkwh_ (H:)
1f: SCOP_d2fkwi_ (I:)
1g: SCOP_d2fkwj_ (J:)
1h: SCOP_d2fkwk_ (K:)
1i: SCOP_d2fkwl_ (L:)
1j: SCOP_d2fkwm_ (M:)
1k: SCOP_d2fkwn_ (N:)
1l: SCOP_d2fkwo_ (O:)
1m: SCOP_d2fkwp_ (P:)
1n: SCOP_d2fkwr_ (R:)
1o: SCOP_d2fkws_ (S:)
1p: SCOP_d2fkwb_ (B:)
1q: SCOP_d2fkwc_ (C:)
1r: SCOP_d2fkwd_ (D:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Membrane and cell surface proteins and peptides
(2046)
Fold
:
Light-harvesting complex subunits
(9)
Superfamily
:
Light-harvesting complex subunits
(9)
Family
:
Light-harvesting complex subunits
(8)
Protein domain
:
Light-harvesting complex subunits
(8)
Rhodoblastus acidophilus [TaxId: 1074]
(4)
1a
d2fkwa_
A:
1b
d2fkwe_
E:
1c
d2fkwf_
F:
1d
d2fkwg_
G:
1e
d2fkwh_
H:
1f
d2fkwi_
I:
1g
d2fkwj_
J:
1h
d2fkwk_
K:
1i
d2fkwl_
L:
1j
d2fkwm_
M:
1k
d2fkwn_
N:
1l
d2fkwo_
O:
1m
d2fkwp_
P:
1n
d2fkwr_
R:
1o
d2fkws_
S:
1p
d2fkwb_
B:
1q
d2fkwc_
C:
1r
d2fkwd_
D:
[
close SCOP info
]
CATH Domains
(2, 18)
Info
all CATH domains
1a: CATH_2fkwA00 (A:2-53)
1b: CATH_2fkwC00 (C:2-53)
1c: CATH_2fkwE00 (E:2-53)
1d: CATH_2fkwG00 (G:2-53)
1e: CATH_2fkwI00 (I:2-53)
1f: CATH_2fkwK00 (K:2-53)
1g: CATH_2fkwM00 (M:2-53)
1h: CATH_2fkwO00 (O:2-53)
1i: CATH_2fkwR00 (R:2-53)
2a: CATH_2fkwB00 (B:1-41)
2b: CATH_2fkwD00 (D:1-41)
2c: CATH_2fkwF00 (F:1-41)
2d: CATH_2fkwH00 (H:1-41)
2e: CATH_2fkwJ00 (J:1-41)
2f: CATH_2fkwL00 (L:1-41)
2g: CATH_2fkwN00 (N:1-41)
2h: CATH_2fkwP00 (P:1-41)
2i: CATH_2fkwS00 (S:1-41)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Few Secondary Structures
(1120)
Architecture
:
Irregular
(1120)
Topology
:
Light-harvesting Protein
(6)
Homologous Superfamily
:
[code=4.10.220.20, no name defined]
(5)
Rhodoblastus acidophilus. Organism_taxid: 1074. Strain: 10050.
(2)
1a
2fkwA00
A:2-53
1b
2fkwC00
C:2-53
1c
2fkwE00
E:2-53
1d
2fkwG00
G:2-53
1e
2fkwI00
I:2-53
1f
2fkwK00
K:2-53
1g
2fkwM00
M:2-53
1h
2fkwO00
O:2-53
1i
2fkwR00
R:2-53
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Single alpha-helices involved in coiled-coils or other helix-helix interfaces
(552)
Homologous Superfamily
:
[code=1.20.5.250, no name defined]
(9)
Rhodoblastus acidophilus. Organism_taxid: 1074. Strain: 10050.
(2)
2a
2fkwB00
B:1-41
2b
2fkwD00
D:1-41
2c
2fkwF00
F:1-41
2d
2fkwH00
H:1-41
2e
2fkwJ00
J:1-41
2f
2fkwL00
L:1-41
2g
2fkwN00
N:1-41
2h
2fkwP00
P:1-41
2i
2fkwS00
S:1-41
[
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
)
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 G
Chain H
Chain I
Chain J
Chain K
Chain L
Chain M
Chain N
Chain O
Chain P
Chain R
Chain S
Asymmetric Unit 1
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 (231 KB)
Header - Asym.Unit
Biol.Unit 1 (200 KB)
Header - Biol.Unit 1
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
2FKW
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help