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4I8C
Asym. Unit
Info
Asym.Unit (259 KB)
Biol.Unit 1 (89 KB)
Biol.Unit 2 (89 KB)
Biol.Unit 3 (86 KB)
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(1)
Title
:
X-RAY STRUCTURE OF NIKA IN COMPLEX WITH NI-(L-HIS)2
Authors
:
H. Lebrette, M. Iannello, J. C. Fontecilla-Camps, C. Cavazza
Date
:
03 Dec 12 (Deposition) - 30 Jan 13 (Release) - 30 Jan 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Keywords
:
Transport Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Lebrette, M. Iannello, J. C. Fontecilla-Camps, C. Cavazza
The Binding Mode Of Ni-((L)-His)(2) In Nika Revealed By X-Ray Crystallography.
J. Inorg. Biochem. V. 121C 16 2012
[
close entry info
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Hetero Components
(6, 36)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
1d: ACETATE ION (ACTd)
1e: ACETATE ION (ACTe)
1f: ACETATE ION (ACTf)
1g: ACETATE ION (ACTg)
1h: ACETATE ION (ACTh)
1i: ACETATE ION (ACTi)
1j: ACETATE ION (ACTj)
1k: ACETATE ION (ACTk)
1l: ACETATE ION (ACTl)
1m: ACETATE ION (ACTm)
1n: ACETATE ION (ACTn)
1o: ACETATE ION (ACTo)
1p: ACETATE ION (ACTp)
2a: CHLORIDE ION (CLa)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
3f: GLYCEROL (GOLf)
3g: GLYCEROL (GOLg)
3h: GLYCEROL (GOLh)
4a: HISTIDINE (HISa)
4b: HISTIDINE (HISb)
4c: HISTIDINE (HISc)
4d: HISTIDINE (HISd)
4e: HISTIDINE (HISe)
4f: HISTIDINE (HISf)
5a: NICKEL (II) ION (NIa)
5b: NICKEL (II) ION (NIb)
5c: NICKEL (II) ION (NIc)
6a: SULFATE ION (SO4a)
6b: SULFATE ION (SO4b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
16
Ligand/Ion
ACETATE ION
2
CL
1
Ligand/Ion
CHLORIDE ION
3
GOL
8
Ligand/Ion
GLYCEROL
4
HIS
6
Mod. Amino Acid
HISTIDINE
5
NI
3
Ligand/Ion
NICKEL (II) ION
6
SO4
2
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(36, 36)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:22 , TRP A:100 , ARG A:137 , TRP A:398 , HIS A:416 , HIS A:602 , NI A:603 , HOH A:717
BINDING SITE FOR RESIDUE HIS A 601
02
AC2
SOFTWARE
THR A:23 , ARG A:97 , ARG A:137 , TYR A:382 , ARG A:386 , HIS A:416 , HIS A:601 , NI A:603 , ACT A:604
BINDING SITE FOR RESIDUE HIS A 602
03
AC3
SOFTWARE
HIS A:416 , HIS A:601 , HIS A:602
BINDING SITE FOR RESIDUE NI A 603
04
AC4
SOFTWARE
THR A:23 , GLU A:378 , HIS A:602 , HOH A:714
BINDING SITE FOR RESIDUE ACT A 604
05
AC5
SOFTWARE
GLN A:385 , HIS A:395 , HIS A:416 , HOH A:841 , HOH A:843 , HOH A:844
BINDING SITE FOR RESIDUE ACT A 605
06
AC6
SOFTWARE
TYR A:127 , ARG A:447 , HOH A:827
BINDING SITE FOR RESIDUE ACT A 606
07
AC7
SOFTWARE
THR A:203 , ASP A:227
BINDING SITE FOR RESIDUE ACT A 607
08
AC8
SOFTWARE
PRO A:159 , LEU A:167
BINDING SITE FOR RESIDUE ACT A 608
09
AC9
SOFTWARE
ARG A:68
BINDING SITE FOR RESIDUE ACT A 609
10
BC1
SOFTWARE
ASN A:149 , LYS A:157
BINDING SITE FOR RESIDUE ACT A 610
11
BC2
SOFTWARE
TRP A:10 , PRO A:11 , GLY A:219 , ASN A:220 , GLY A:222 , LEU A:223
BINDING SITE FOR RESIDUE GOL A 611
12
BC3
SOFTWARE
GLN A:361 , SER A:372 , LEU A:373
BINDING SITE FOR RESIDUE GOL A 612
13
BC4
SOFTWARE
LYS A:276 , GLU A:320 , THR A:325 , LEU A:326 , ARG A:333 , LYS B:276
BINDING SITE FOR RESIDUE GOL A 613
14
BC5
SOFTWARE
TYR B:22 , TRP B:100 , ARG B:137 , TRP B:398 , TYR B:402 , HIS B:416 , HIS B:602 , NI B:603 , HOH B:706 , HOH B:806
BINDING SITE FOR RESIDUE HIS B 601
15
BC6
SOFTWARE
TYR B:22 , THR B:23 , ARG B:97 , ARG B:137 , TYR B:382 , ARG B:386 , HIS B:416 , HIS B:601 , NI B:603 , HOH B:825
BINDING SITE FOR RESIDUE HIS B 602
16
BC7
SOFTWARE
HIS B:416 , HIS B:601 , HIS B:602
BINDING SITE FOR RESIDUE NI B 603
17
BC8
SOFTWARE
LEU B:293 , HIS B:459 , HOH B:728
BINDING SITE FOR RESIDUE CL B 604
18
BC9
SOFTWARE
SER B:57 , GLU B:58
BINDING SITE FOR RESIDUE ACT B 605
19
CC1
SOFTWARE
TRP B:54
BINDING SITE FOR RESIDUE ACT B 606
20
CC2
SOFTWARE
THR B:441 , HIS B:442
BINDING SITE FOR RESIDUE ACT B 607
21
CC3
SOFTWARE
ASN B:149 , LYS B:157
BINDING SITE FOR RESIDUE ACT B 608
22
CC4
SOFTWARE
GLU B:434
BINDING SITE FOR RESIDUE ACT B 609
23
CC5
SOFTWARE
ASN B:220 , ALA B:489 , THR B:490 , HOH B:766 , HOH B:796
BINDING SITE FOR RESIDUE GOL B 610
24
CC6
SOFTWARE
ARG B:68
BINDING SITE FOR RESIDUE GOL B 611
25
CC7
SOFTWARE
PHE A:229 , SER A:233 , LEU A:242 , ASN B:302 , LEU B:303 , GLY B:304
BINDING SITE FOR RESIDUE GOL B 612
26
CC8
SOFTWARE
TYR B:382 , GLN B:385 , PHE B:394 , HIS B:395 , ARG B:396 , HIS B:416 , HOH B:755
BINDING SITE FOR RESIDUE SO4 B 613
27
CC9
SOFTWARE
ARG B:341 , LYS C:433
BINDING SITE FOR RESIDUE ACT B 614
28
DC1
SOFTWARE
TYR C:22 , MET C:27 , TRP C:100 , ARG C:137 , TRP C:398 , TYR C:402 , HIS C:416 , HIS C:602 , NI C:603 , HOH C:709
BINDING SITE FOR RESIDUE HIS C 601
29
DC2
SOFTWARE
THR C:23 , ARG C:97 , ARG C:137 , TYR C:382 , ARG C:386 , HIS C:416 , HIS C:601 , NI C:603 , HOH C:711 , HOH C:756
BINDING SITE FOR RESIDUE HIS C 602
30
DC3
SOFTWARE
HIS C:416 , HIS C:601 , HIS C:602
BINDING SITE FOR RESIDUE NI C 603
31
DC4
SOFTWARE
LYS C:275 , LYS C:276
BINDING SITE FOR RESIDUE ACT C 604
32
DC5
SOFTWARE
ARG A:95 , HIS C:442
BINDING SITE FOR RESIDUE ACT C 605
33
DC6
SOFTWARE
TYR C:382 , GLN C:385 , PHE C:394 , HIS C:395 , ARG C:396 , HIS C:416 , HOH C:755
BINDING SITE FOR RESIDUE ACT C 606
34
DC7
SOFTWARE
GLN C:361 , ASP C:370 , VAL C:371 , SER C:372 , LEU C:373
BINDING SITE FOR RESIDUE GOL C 607
35
DC8
SOFTWARE
ASN B:261 , ASN C:261 , HOH C:738
BINDING SITE FOR RESIDUE GOL C 608
36
DC9
SOFTWARE
LYS B:433 , ARG C:341
BINDING SITE FOR RESIDUE SO4 C 609
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
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End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 3)
Info
All SCOP Domains
1a: SCOP_d4i8ca_ (A:)
1b: SCOP_d4i8cb_ (B:)
1c: SCOP_d4i8cc_ (C:)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Periplasmic binding protein-like II
(813)
Superfamily
:
Periplasmic binding protein-like II
(813)
Family
:
Phosphate binding protein-like
(463)
Protein domain
:
Nickel-binding periplasmic protein NikA
(18)
Escherichia coli [TaxId: 562]
(18)
1a
d4i8ca_
A:
1b
d4i8cb_
B:
1c
d4i8cc_
C:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
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Sorry, no Info available
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
[
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All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
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Chain C
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