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.
2RDZ
Asym. Unit
Info
Asym.Unit (362 KB)
Biol.Unit 1 (178 KB)
Biol.Unit 2 (176 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
HIGH RESOLUTION CRYSTAL STRUCTURE OF THE ESCHERICHIA COLI CYTOCHROME C NITRITE REDUCTASE.
Authors
:
T. A. Clarke, A. M. Hemmings, D. J. Richardson
Date
:
25 Sep 07 (Deposition) - 25 Mar 08 (Release) - 24 Jun 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.74
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Decaheme, Reductase, Electron Transport, Iron, Metal-Binding, Oxidoreductase, Transport
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. A. Clarke, G. L. Kemp, J. H. Wonderen, R. M. Doyle, J. A. Cole, N. Tovell, M. R. Cheesman, J. N. Butt, D. J. Richardson, A. M. Hemmings
Role Of A Conserved Glutamine Residue In Tuning The Catalytic Activity Of Escherichia Coli Cytochrome C Nitrite Reductase.
Biochemistry V. 47 3789 2008
[
close entry info
]
Hetero Components
(4, 60)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
2a: 1,2-ETHANEDIOL (EDOa)
2aa: 1,2-ETHANEDIOL (EDOaa)
2ab: 1,2-ETHANEDIOL (EDOab)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
2h: 1,2-ETHANEDIOL (EDOh)
2i: 1,2-ETHANEDIOL (EDOi)
2j: 1,2-ETHANEDIOL (EDOj)
2k: 1,2-ETHANEDIOL (EDOk)
2l: 1,2-ETHANEDIOL (EDOl)
2m: 1,2-ETHANEDIOL (EDOm)
2n: 1,2-ETHANEDIOL (EDOn)
2o: 1,2-ETHANEDIOL (EDOo)
2p: 1,2-ETHANEDIOL (EDOp)
2q: 1,2-ETHANEDIOL (EDOq)
2r: 1,2-ETHANEDIOL (EDOr)
2s: 1,2-ETHANEDIOL (EDOs)
2t: 1,2-ETHANEDIOL (EDOt)
2u: 1,2-ETHANEDIOL (EDOu)
2v: 1,2-ETHANEDIOL (EDOv)
2w: 1,2-ETHANEDIOL (EDOw)
2x: 1,2-ETHANEDIOL (EDOx)
2y: 1,2-ETHANEDIOL (EDOy)
2z: 1,2-ETHANEDIOL (EDOz)
3a: HEME C (HECa)
3b: HEME C (HECb)
3c: HEME C (HECc)
3d: HEME C (HECd)
3e: HEME C (HECe)
3f: HEME C (HECf)
3g: HEME C (HECg)
3h: HEME C (HECh)
3i: HEME C (HECi)
3j: HEME C (HECj)
3k: HEME C (HECk)
3l: HEME C (HECl)
3m: HEME C (HECm)
3n: HEME C (HECn)
3o: HEME C (HECo)
3p: HEME C (HECp)
3q: HEME C (HECq)
3r: HEME C (HECr)
3s: HEME C (HECs)
3t: HEME C (HECt)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
4c: SULFATE ION (SO4c)
4d: SULFATE ION (SO4d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
8
Ligand/Ion
CALCIUM ION
2
EDO
28
Ligand/Ion
1,2-ETHANEDIOL
3
HEC
20
Ligand/Ion
HEME C
4
SO4
4
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(60, 60)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:215 , TYR A:216 , LYS A:261 , GLN A:263 , HOH A:489 , HOH A:499
BINDING SITE FOR RESIDUE CA A1501
02
AC2
SOFTWARE
HEC A:3 , HEC A:4 , PRO A:91 , HOH A:623 , HOH A:650 , HOH A:908 , HOH A:936
BINDING SITE FOR RESIDUE CA A1502
03
AC3
SOFTWARE
HEC A:3 , TYR A:88 , ASN A:89 , ASP A:100 , THR A:104 , ARG A:106 , CYS A:122 , CYS A:125 , LYS A:126 , CYS A:212 , HIS A:213 , TYR A:216 , PHE A:218 , HIS A:264 , HIS A:388 , HOH A:483 , HOH A:484 , HOH A:487 , HOH A:494 , HOH A:501 , HOH A:529 , HOH A:541 , HOH A:563
BINDING SITE FOR RESIDUE HEC A 1
04
AC4
SOFTWARE
HEC A:3 , HIS A:49 , GLN A:52 , TYR A:53 , TRP A:56 , GLY A:159 , CYS A:160 , CYS A:163 , HIS A:164 , PHE A:171 , GLY A:174 , ARG A:201 , GLN A:205 , ILE A:283 , LYS A:289 , TYR A:298 , THR A:299 , HIS A:301 , HOH A:552 , HOH A:576
BINDING SITE FOR RESIDUE HEC A 2
05
AC5
SOFTWARE
HEC A:1 , HEC A:2 , HEC A:4 , GLN A:62 , PRO A:91 , ARG A:92 , GLY A:93 , HIS A:94 , PHE A:96 , ALA A:97 , ASP A:100 , CYS A:125 , LYS A:126 , LEU A:158 , VAL A:208 , CYS A:209 , CYS A:212 , HIS A:213 , ILE A:283 , HIS A:286 , MET A:287 , ILE A:303 , HOH A:498 , HOH A:623 , HOH A:747 , CA A:1502
BINDING SITE FOR RESIDUE HEC A 3
06
AC6
SOFTWARE
HEC A:3 , HEC A:5 , HIS A:213 , GLU A:266 , TRP A:270 , HIS A:275 , VAL A:280 , THR A:281 , CYS A:282 , CYS A:285 , HIS A:286 , ASN A:305 , PRO A:306 , PHE A:307 , VAL A:329 , HIS A:388 , HIS A:391 , MET A:392 , HIS A:393 , HOH A:606 , HOH A:650 , HOH A:731 , HOH A:787 , HOH A:873 , CA A:1502
BINDING SITE FOR RESIDUE HEC A 4
07
AC7
SOFTWARE
HEC A:4 , EDO A:11 , ILE A:274 , HIS A:275 , ASN A:278 , PHE A:307 , THR A:313 , CYS A:314 , CYS A:317 , HIS A:318 , ARG A:332 , MET A:392 , HOH A:503 , HOH A:525 , HEC B:5 , HIS B:318 , GLN B:320
BINDING SITE FOR RESIDUE HEC A 5
08
AC8
SOFTWARE
PHE A:307 , ASP A:308 , ASN A:309 , PHE A:310 , ALA A:311 , LYS A:322 , HOH A:815 , HOH A:981
BINDING SITE FOR RESIDUE SO4 A2001
09
AC9
SOFTWARE
MET A:233 , LYS A:234 , VAL A:235 , GLU A:397 , MET A:401 , HOH A:523 , HOH A:950
BINDING SITE FOR RESIDUE EDO A 481
10
BC1
SOFTWARE
HEC A:5 , ILE A:274 , ARG A:332 , GLU A:396 , HOH A:525 , HEC B:5 , ARG B:332
BINDING SITE FOR RESIDUE EDO A 11
11
BC2
SOFTWARE
ASP A:72 , ASN A:337 , LYS A:340 , ILE A:341 , HOH A:943
BINDING SITE FOR RESIDUE EDO A 13
12
BC3
SOFTWARE
ASN A:165 , GLU A:177 , LEU A:178 , THR A:179
BINDING SITE FOR RESIDUE EDO A 14
13
BC4
SOFTWARE
HIS A:286 , LYS A:302 , GLY A:304 , ASN A:305 , ASN A:309 , HOH A:585 , HOH A:812
BINDING SITE FOR RESIDUE EDO A 15
14
BC5
SOFTWARE
ASP A:411 , THR A:414 , LYS A:415 , ARG A:418 , HOH A:645 , ARG B:413 , HOH B:580
BINDING SITE FOR RESIDUE EDO A 20
15
BC6
SOFTWARE
GLY A:81 , TYR A:82 , PRO A:83 , ARG A:86 , HOH A:1025
BINDING SITE FOR RESIDUE EDO A 21
16
BC7
SOFTWARE
ASP A:345 , VAL A:348 , ILE A:431 , HOH A:635
BINDING SITE FOR RESIDUE EDO A 22
17
BC8
SOFTWARE
GLU B:215 , TYR B:216 , LYS B:261 , GLN B:263 , HOH B:504 , HOH B:528
BINDING SITE FOR RESIDUE CA B1501
18
BC9
SOFTWARE
HEC B:3 , HEC B:4 , PRO B:91 , HOH B:661 , HOH B:676 , HOH B:716 , HOH B:955
BINDING SITE FOR RESIDUE CA B1502
19
CC1
SOFTWARE
HEC B:3 , TYR B:88 , ASN B:89 , PRO B:91 , ASP B:100 , THR B:104 , ARG B:106 , THR B:107 , LEU B:118 , CYS B:122 , CYS B:125 , LYS B:126 , CYS B:212 , HIS B:213 , TYR B:216 , VAL B:225 , HIS B:264 , HIS B:388 , HOH B:484 , HOH B:485 , HOH B:490 , HOH B:493 , HOH B:517 , HOH B:522 , HOH B:534 , HOH B:545 , HOH B:1025
BINDING SITE FOR RESIDUE HEC B 1
20
CC2
SOFTWARE
HEC B:3 , HIS B:49 , GLN B:52 , TYR B:53 , TRP B:56 , GLY B:159 , CYS B:160 , CYS B:163 , HIS B:164 , PHE B:171 , GLY B:174 , ARG B:201 , GLN B:205 , ILE B:283 , MET B:287 , LYS B:289 , TYR B:298 , THR B:299 , HIS B:301 , HOH B:527 , HOH B:546
BINDING SITE FOR RESIDUE HEC B 2
21
CC3
SOFTWARE
HEC B:1 , HEC B:2 , HEC B:4 , GLN B:62 , PRO B:91 , ARG B:92 , GLY B:93 , HIS B:94 , PHE B:96 , ALA B:97 , ASP B:100 , CYS B:125 , LEU B:158 , VAL B:208 , CYS B:209 , CYS B:212 , HIS B:213 , HIS B:286 , MET B:287 , ILE B:303 , HOH B:661 , HOH B:720 , CA B:1502
BINDING SITE FOR RESIDUE HEC B 3
22
CC4
SOFTWARE
HEC B:3 , HEC B:5 , HIS B:213 , GLU B:266 , TRP B:270 , HIS B:275 , VAL B:280 , THR B:281 , CYS B:282 , CYS B:285 , HIS B:286 , ASN B:305 , PRO B:306 , PHE B:307 , VAL B:329 , HIS B:388 , HIS B:391 , MET B:392 , HIS B:393 , HOH B:676 , HOH B:686 , HOH B:692 , CA B:1502
BINDING SITE FOR RESIDUE HEC B 4
23
CC5
SOFTWARE
HEC A:5 , EDO A:11 , HIS A:318 , GLN A:320 , HEC B:4 , ILE B:274 , HIS B:275 , VAL B:280 , PRO B:306 , PHE B:307 , THR B:313 , CYS B:314 , CYS B:317 , HIS B:318 , ARG B:332 , MET B:392 , HOH B:506 , HOH B:509 , HOH B:568 , HOH B:701
BINDING SITE FOR RESIDUE HEC B 5
24
CC6
SOFTWARE
PHE B:307 , ASP B:308 , ASN B:309 , PHE B:310 , ALA B:311 , LYS B:322 , HOH B:804 , HOH B:917
BINDING SITE FOR RESIDUE SO4 B2001
25
CC7
SOFTWARE
MET B:233 , LYS B:234 , VAL B:235 , GLU B:268 , GLU B:397 , MET B:401 , HOH B:558
BINDING SITE FOR RESIDUE EDO B 481
26
CC8
SOFTWARE
ARG A:413 , HOH A:559 , ASP B:411 , THR B:414 , LYS B:415 , ARG B:418 , HOH B:813
BINDING SITE FOR RESIDUE EDO B 16
27
CC9
SOFTWARE
ASP B:407 , LYS B:408 , ASP B:411
BINDING SITE FOR RESIDUE EDO B 17
28
DC1
SOFTWARE
CYS B:285 , HIS B:286 , LYS B:302 , GLY B:304 , ASN B:305 , PRO B:306 , HOH B:697
BINDING SITE FOR RESIDUE EDO B 18
29
DC2
SOFTWARE
MET B:120 , ASP B:137 , GLY B:141 , TYR B:142 , HIS B:144 , ARG B:149 , HOH B:499
BINDING SITE FOR RESIDUE EDO B 19
30
DC3
SOFTWARE
ASP B:345 , VAL B:348 , ILE B:434 , HOH B:643 , HOH B:934 , HOH B:954
BINDING SITE FOR RESIDUE EDO B 20
31
DC4
SOFTWARE
GLU C:215 , TYR C:216 , LYS C:261 , GLN C:263 , HOH C:495 , HOH C:514
BINDING SITE FOR RESIDUE CA C1501
32
DC5
SOFTWARE
HEC C:3 , HEC C:4 , PRO C:91 , HOH C:609 , HOH C:712 , HOH C:769
BINDING SITE FOR RESIDUE CA C1502
33
DC6
SOFTWARE
HEC C:3 , TYR C:88 , ASN C:89 , ASP C:100 , THR C:104 , ARG C:106 , LEU C:118 , CYS C:122 , CYS C:125 , LYS C:126 , CYS C:212 , HIS C:213 , TYR C:216 , PHE C:218 , VAL C:225 , HIS C:264 , HIS C:388 , HOH C:486 , HOH C:491 , HOH C:505 , HOH C:507 , HOH C:517 , HOH C:518 , HOH C:522 , HOH C:558
BINDING SITE FOR RESIDUE HEC C 1
34
DC7
SOFTWARE
HEC C:3 , HIS C:49 , GLN C:52 , TYR C:53 , TRP C:56 , GLY C:159 , CYS C:160 , CYS C:163 , HIS C:164 , PHE C:171 , GLY C:174 , PRO C:176 , ARG C:201 , GLN C:205 , ILE C:283 , LYS C:289 , TYR C:298 , THR C:299 , HIS C:301 , HOH C:542 , HOH C:630
BINDING SITE FOR RESIDUE HEC C 2
35
DC8
SOFTWARE
HEC C:1 , HEC C:2 , HEC C:4 , GLN C:62 , PRO C:91 , ARG C:92 , GLY C:93 , HIS C:94 , PHE C:96 , ALA C:97 , ASP C:100 , CYS C:125 , LEU C:158 , VAL C:208 , CYS C:209 , CYS C:212 , HIS C:213 , HIS C:286 , MET C:287 , ILE C:303 , HOH C:640 , HOH C:712 , CA C:1502
BINDING SITE FOR RESIDUE HEC C 3
36
DC9
SOFTWARE
HEC C:3 , HEC C:5 , HIS C:213 , GLU C:266 , TRP C:270 , HIS C:275 , VAL C:280 , THR C:281 , CYS C:282 , CYS C:285 , HIS C:286 , ASN C:305 , PRO C:306 , VAL C:329 , HIS C:388 , HIS C:391 , MET C:392 , HIS C:393 , HOH C:578 , HOH C:660 , HOH C:674 , HOH C:769 , HOH C:884 , HOH C:963 , CA C:1502
BINDING SITE FOR RESIDUE HEC C 4
37
EC1
SOFTWARE
HEC C:4 , EDO C:12 , ILE C:274 , HIS C:275 , VAL C:280 , ASP C:284 , PHE C:307 , THR C:313 , CYS C:314 , CYS C:317 , HIS C:318 , ARG C:332 , MET C:392 , HOH C:493 , HOH C:500 , HEC D:5 , HIS D:318 , GLN D:320
BINDING SITE FOR RESIDUE HEC C 5
38
EC2
SOFTWARE
PHE C:307 , ASP C:308 , ASN C:309 , PHE C:310 , ALA C:311 , LYS C:322
BINDING SITE FOR RESIDUE SO4 C2001
39
EC3
SOFTWARE
MET C:233 , LYS C:234 , VAL C:235 , GLU C:268 , GLU C:397 , HOH C:508
BINDING SITE FOR RESIDUE EDO C 481
40
EC4
SOFTWARE
HEC C:5 , ILE C:274 , ARG C:332 , HEC D:5 , ILE D:274 , ARG D:332
BINDING SITE FOR RESIDUE EDO C 12
41
EC5
SOFTWARE
ASP C:407 , LYS C:408 , ASP C:411 , HOH C:889
BINDING SITE FOR RESIDUE EDO C 21
42
EC6
SOFTWARE
ASP C:411 , LYS C:415 , ARG C:418 , HOH C:681 , ARG D:413 , HOH D:639
BINDING SITE FOR RESIDUE EDO C 22
43
EC7
SOFTWARE
CYS C:285 , HIS C:286 , LYS C:302 , GLY C:304 , ASN C:305 , PRO C:306 , ASN C:309 , HOH C:759
BINDING SITE FOR RESIDUE EDO C 23
44
EC8
SOFTWARE
ASP C:345 , ILE C:431 , ILE C:434 , HOH C:529 , HOH C:689 , HOH C:807
BINDING SITE FOR RESIDUE EDO C 25
45
EC9
SOFTWARE
GLU D:215 , TYR D:216 , LYS D:261 , GLN D:263 , HOH D:497 , HOH D:520
BINDING SITE FOR RESIDUE CA D1501
46
FC1
SOFTWARE
HEC D:3 , HEC D:4 , PRO D:91 , HOH D:707 , HOH D:758
BINDING SITE FOR RESIDUE CA D1502
47
FC2
SOFTWARE
HEC D:3 , TYR D:88 , ASN D:89 , PRO D:91 , ASP D:100 , THR D:104 , ARG D:106 , LEU D:118 , CYS D:122 , CYS D:125 , LYS D:126 , CYS D:212 , HIS D:213 , TYR D:216 , VAL D:225 , HIS D:264 , HIS D:388 , HOH D:487 , HOH D:489 , HOH D:490 , HOH D:492 , HOH D:511 , HOH D:523 , HOH D:529 , HOH D:542 , HOH D:555
BINDING SITE FOR RESIDUE HEC D 1
48
FC3
SOFTWARE
HEC D:3 , HIS D:49 , GLN D:52 , TYR D:53 , TRP D:56 , GLY D:159 , CYS D:160 , CYS D:163 , HIS D:164 , PHE D:171 , GLY D:174 , ARG D:201 , GLN D:205 , ILE D:283 , MET D:287 , LYS D:289 , TYR D:298 , THR D:299 , HIS D:301 , HOH D:585 , HOH D:612
BINDING SITE FOR RESIDUE HEC D 2
49
FC4
SOFTWARE
HEC D:1 , HEC D:2 , HEC D:4 , GLN D:62 , PRO D:91 , ARG D:92 , GLY D:93 , HIS D:94 , PHE D:96 , ALA D:97 , ASP D:100 , CYS D:125 , LYS D:126 , LEU D:158 , VAL D:208 , CYS D:209 , CYS D:212 , HIS D:213 , HIS D:286 , MET D:287 , ILE D:303 , HOH D:522 , HOH D:707 , HOH D:776 , CA D:1502
BINDING SITE FOR RESIDUE HEC D 3
50
FC5
SOFTWARE
HEC D:3 , HEC D:5 , HIS D:213 , GLU D:266 , TRP D:270 , HIS D:275 , VAL D:280 , THR D:281 , CYS D:282 , CYS D:285 , HIS D:286 , ASN D:305 , PRO D:306 , VAL D:329 , HIS D:391 , MET D:392 , HIS D:393 , HOH D:604 , HOH D:659 , HOH D:681 , HOH D:700 , HOH D:709 , HOH D:738 , HOH D:779 , CA D:1502
BINDING SITE FOR RESIDUE HEC D 4
51
FC6
SOFTWARE
HEC C:5 , EDO C:12 , HIS C:318 , GLN C:320 , HEC D:4 , ILE D:274 , HIS D:275 , VAL D:280 , PRO D:306 , PHE D:307 , THR D:313 , CYS D:314 , CYS D:317 , HIS D:318 , ARG D:332 , MET D:392 , HOH D:525 , HOH D:550 , HOH D:567 , HOH D:667
BINDING SITE FOR RESIDUE HEC D 5
52
FC7
SOFTWARE
PHE D:307 , ASP D:308 , ASN D:309 , PHE D:310 , ALA D:311 , LYS D:322
BINDING SITE FOR RESIDUE SO4 D2001
53
FC8
SOFTWARE
ARG D:65 , ASN D:89 , ARG D:92 , ASP D:100 , HOH D:614 , HOH D:1029
BINDING SITE FOR RESIDUE EDO D 481
54
FC9
SOFTWARE
ARG C:413 , HOH C:554 , HOH C:622 , THR D:414 , LYS D:415 , ARG D:418
BINDING SITE FOR RESIDUE EDO D 482
55
GC1
SOFTWARE
MET D:233 , LYS D:234 , VAL D:235 , GLU D:268 , GLU D:397 , HOH D:623 , HOH D:1011
BINDING SITE FOR RESIDUE EDO D 6
56
GC2
SOFTWARE
SER D:55 , TYR D:298 , ASP D:300 , LYS D:302 , HOH D:689 , HOH D:928 , HOH D:995
BINDING SITE FOR RESIDUE EDO D 21
57
GC3
SOFTWARE
GLY D:81 , TYR D:82 , PRO D:83 , ARG D:86 , LEU D:446 , HOH D:528 , HOH D:642
BINDING SITE FOR RESIDUE EDO D 22
58
GC4
SOFTWARE
ASP D:345 , VAL D:348 , HIS D:349 , HOH D:730
BINDING SITE FOR RESIDUE EDO D 23
59
GC5
SOFTWARE
MET D:120 , ASP D:137 , GLY D:141 , TYR D:142 , HIS D:144 , ARG D:149 , HOH D:512
BINDING SITE FOR RESIDUE EDO D 24
60
GC6
SOFTWARE
THR A:436 , HOH A:753 , HOH C:646 , GLU D:236 , GLU D:239 , ARG D:380 , HOH D:510 , HOH D:649 , HOH D:1035
BINDING SITE FOR RESIDUE EDO D 25
[
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
(1, 4)
Info
All PROSITE Patterns/Profiles
1: MULTIHEME_CYTC (A:155-323,B:155-323,C:155-323,D:15...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
MULTIHEME_CYTC
PS51008
Multiheme cytochrome c family profile.
NRFA_ECOLI
155-323
4
A:155-323
B:155-323
C:155-323
D:155-323
[
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, 4)
Info
All SCOP Domains
1a: SCOP_d2rdza_ (A:)
1b: SCOP_d2rdzb_ (B:)
1c: SCOP_d2rdzc_ (C:)
1d: SCOP_d2rdzd_ (D:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Multiheme cytochromes
(149)
Superfamily
:
Multiheme cytochromes
(149)
Family
:
Di-heme elbow motif
(53)
Protein domain
:
automated matches
(16)
Escherichia coli [TaxId: 562]
(2)
1a
d2rdza_
A:
1b
d2rdzb_
B:
1c
d2rdzc_
C:
1d
d2rdzd_
D:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_Cytochrom_C552_2rdzD01 (D:41-474)
1b: PFAM_Cytochrom_C552_2rdzD02 (D:41-474)
1c: PFAM_Cytochrom_C552_2rdzD03 (D:41-474)
1d: PFAM_Cytochrom_C552_2rdzD04 (D:41-474)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Multiheme_cytos
(34)
Family
:
Cytochrom_C552
(6)
Escherichia coli (strain K12)
(3)
1a
Cytochrom_C552-2rdzD01
D:41-474
1b
Cytochrom_C552-2rdzD02
D:41-474
1c
Cytochrom_C552-2rdzD03
D:41-474
1d
Cytochrom_C552-2rdzD04
D:41-474
[
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
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 (362 KB)
Header - Asym.Unit
Biol.Unit 1 (178 KB)
Header - Biol.Unit 1
Biol.Unit 2 (176 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
2RDZ
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help