Contacts of the helix formed by residues 67 - 94 (chain A) in PDB entry 1KKC
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with ASP 67 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ALA* 2.8 15.7 + - - +
65A ALA* 3.1 11.0 - - + +
66A THR* 1.3 73.6 - - - +
68A VAL* 1.3 57.1 + - - +
69A PRO* 3.1 13.7 - - - +
70A LYS* 2.7 42.5 + - + +
71A LEU* 2.9 30.4 + - - +
16X TYR* 4.0 0.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 68 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A THR 3.4 3.5 + - - +
67A ASP* 1.3 68.3 - - - +
69A PRO* 1.3 75.6 - - + +
71A LEU* 3.2 8.5 + - + +
72A VAL* 3.0 24.4 + - + +
16X TYR* 3.3 35.9 - - + +
52X LEU* 4.0 18.8 - - + -
82X GLY* 3.7 16.6 - - - +
85X HIS* 4.5 10.3 - - + +
86X ILE* 3.6 24.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 69 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A ASP* 3.1 13.9 - - - +
68A VAL* 1.3 96.0 - - + +
70A LYS* 1.3 62.1 + - - +
72A VAL* 3.4 2.1 + - - +
73A SER* 3.0 24.5 + - - -
86X ILE* 3.7 21.3 - - + -
163X PRO* 6.3 0.2 - - + -
214X GLY* 4.0 33.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 70 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A ALA* 4.7 21.4 - - - +
62A ALA* 3.3 21.1 - - + -
67A ASP* 2.7 35.2 + - - +
69A PRO* 1.3 73.4 - - - +
71A LEU* 1.3 61.8 + - - +
73A SER* 2.7 27.3 + - - +
74A VAL* 3.0 17.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 71 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A GLN* 3.2 42.4 + - + +
62A ALA* 3.7 7.4 - - + +
63A ALA* 3.4 23.3 - - + +
67A ASP 2.9 16.8 + - - +
68A VAL* 3.6 11.2 - - + +
70A LYS* 1.3 75.3 - - - +
72A VAL* 1.3 60.4 + - + +
74A VAL* 3.0 22.2 - - - +
75A GLN* 3.5 7.4 + - - +
16X TYR* 3.5 25.4 - - + +
52X LEU* 5.6 2.2 - - + -
56X LEU* 4.1 26.5 - - + -
75X GLN* 4.4 1.7 + - - -
78X ILE* 4.1 16.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 72 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A VAL* 3.0 17.1 + - + +
69A PRO 3.8 3.1 - - - +
71A LEU* 1.3 75.3 - - + +
73A SER* 1.3 62.2 + - - +
75A GLN* 3.0 32.2 - - - +
78X ILE* 3.7 24.0 - - + +
79X LYS* 4.1 19.5 - - + +
82X GLY* 3.8 23.3 - - - -
86X ILE* 4.0 5.6 - - + -
163X PRO* 3.7 34.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 73 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A PRO 3.0 14.3 + - - -
70A LYS* 2.7 34.1 + - - +
72A VAL* 1.3 79.5 - - - +
74A VAL* 1.3 61.1 + - - +
75A GLN 3.2 1.0 + - - -
76A GLN* 3.6 14.9 + - - +
77A ALA* 4.5 1.0 + - - +
165X THR* 5.1 17.0 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 74 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A ALA* 3.4 35.4 - - + +
58A ALA* 3.9 16.4 - - + +
59A GLN* 3.8 26.7 - - + +
70A LYS* 3.0 16.0 + - + +
71A LEU* 3.0 26.5 - - - +
73A SER* 1.3 80.0 + - - +
75A GLN* 1.3 64.9 + - - +
76A GLN 3.2 0.4 - - - -
77A ALA* 3.0 19.8 + - + -
78A ILE* 3.2 11.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 75 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A LEU 4.0 1.8 - - - +
72A VAL* 3.0 24.0 + - - +
73A SER 3.1 0.6 - - - +
74A VAL* 1.3 82.3 - - - +
76A GLN* 1.3 102.1 + - - +
78A ILE 3.3 1.2 + - - -
79A LYS* 3.0 35.3 + - - +
75X GLN* 3.1 65.2 - - + +
76X GLN* 5.4 2.0 + - - +
78X ILE* 5.2 0.2 - - + -
79X LYS* 3.2 34.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 76 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A SER 3.6 10.0 + - - +
74A VAL 3.2 0.4 - - - -
75A GLN* 1.3 102.6 + - - +
77A ALA* 1.3 56.8 + - - +
79A LYS* 3.5 27.4 + - - +
80A PHE* 2.9 30.7 + - - +
137B GLN* 2.8 38.8 - - - +
79X LYS* 6.0 0.5 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 77 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A ALA* 3.8 17.7 - - + -
73A SER 4.5 1.0 + - - +
74A VAL* 3.0 18.4 + - + +
76A GLN* 1.3 77.5 - - - +
78A ILE* 1.3 59.8 + - - +
80A PHE* 4.6 2.7 - - - -
81A ASN* 2.9 45.5 + - - +
137B GLN* 4.7 5.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 78 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A LEU* 4.6 7.2 - - + -
55A ALA* 3.8 20.6 - - + +
56A LEU* 4.0 19.3 - - + -
59A GLN* 3.0 48.7 - - + +
74A VAL* 3.2 11.3 + - + +
75A GLN 3.3 6.0 + - - +
77A ALA* 1.3 75.3 - - - +
79A LYS* 1.3 57.8 + - - +
82A GLY* 2.6 35.5 + - - +
71X LEU* 4.3 13.0 - - + +
72X VAL* 4.0 10.2 - - + +
75X GLN* 3.3 28.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 79 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A GLN* 3.0 33.1 + - - +
76A GLN* 3.6 27.1 + - - +
78A ILE* 1.3 79.5 - - - +
80A PHE* 1.3 58.2 + - - +
83A GLY* 2.9 26.3 + - - -
160A ASP* 5.9 1.2 + - - +
161A GLN 4.1 3.5 - - - +
162A ASP* 2.8 41.5 + - - +
163A PRO* 4.7 1.0 - - + +
72X VAL* 4.2 22.4 - - + +
75X GLN* 4.4 9.2 - - + +
76X GLN* 6.0 2.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 80 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A TYR* 3.6 28.8 - + - -
76A GLN* 2.9 15.8 + - - +
77A ALA* 4.0 2.2 - - - +
79A LYS* 1.3 78.1 - - - +
81A ASN* 1.3 73.0 + - - +
84A GLY* 2.9 23.2 + - - -
160A ASP* 4.5 6.1 - - + -
161A GLN* 3.4 38.6 - - + +
162A ASP* 5.9 0.7 - - - -
176A TRP* 3.9 22.2 - + - -
137B GLN* 3.3 61.9 - - + +
138B GLY 4.0 1.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 81 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A THR* 3.9 5.3 + - - +
48A TYR* 3.3 36.0 - - - +
51A GLY* 3.5 28.5 - - - +
52A LEU* 3.3 22.4 - - - +
77A ALA* 2.9 34.5 + - - +
80A PHE* 1.3 81.7 - - - +
82A GLY* 1.3 60.8 + - - +
84A GLY* 3.3 0.9 + - - -
85A HIS* 2.9 28.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 82 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A LEU* 3.8 24.5 - - - +
78A ILE 2.6 24.3 + - - -
81A ASN* 1.3 74.1 - - - +
83A GLY* 1.3 56.6 + - - +
85A HIS* 3.3 2.9 + - - +
86A ILE* 3.0 33.1 + - - +
68X VAL* 3.7 1.6 - - - +
72X VAL* 3.9 13.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 83 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A LYS 2.9 15.0 + - - -
82A GLY* 1.3 74.2 - - - +
84A GLY* 1.3 60.2 + - - +
86A ILE* 4.4 0.9 - - - -
87A ASN* 2.9 35.9 + - - +
161A GLN 3.1 22.0 - - - -
163A PRO* 3.8 20.4 - - - -
72X VAL* 4.0 1.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 84 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A TYR* 4.0 15.0 - - - -
80A PHE 2.9 16.7 + - - -
81A ASN 3.3 2.7 + - - -
82A GLY 3.2 0.4 - - - -
83A GLY* 1.3 77.0 - - - +
85A HIS* 1.3 61.4 + - - +
88A HIS* 2.7 33.3 + - - +
161A GLN* 3.5 23.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 85 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16A TYR* 4.0 30.8 - + + +
17A THR 3.7 19.9 + - - -
19A PRO* 4.0 4.8 - - - +
45A HIS* 3.2 28.4 + - - -
48A TYR* 4.0 6.1 - - + +
49A VAL* 3.9 12.5 - - + +
52A LEU* 3.7 23.8 - - + +
81A ASN 2.9 14.0 + - - +
82A GLY 3.5 7.6 - - - +
84A GLY* 1.3 76.6 - - - +
86A ILE* 1.3 60.0 + - - +
89A SER* 2.7 43.2 + - - -
68X VAL* 4.4 8.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 86 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A GLY 3.0 17.5 + - - +
83A GLY* 3.7 4.3 - - - +
85A HIS* 1.3 78.7 - - + +
87A ASN* 1.3 73.4 + - - +
89A SER* 3.6 4.5 - - - -
90A LEU* 3.1 39.0 + - + +
163A PRO* 4.0 20.4 - - + -
164A VAL 5.6 0.7 - - - +
169A PRO* 6.3 0.2 - - + -
68X VAL* 3.5 26.5 - - + +
69X PRO* 3.5 40.8 - - + -
72X VAL* 4.0 9.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 87 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A GLY 2.9 24.2 + - - +
84A GLY 4.0 2.2 - - - +
86A ILE* 1.3 75.8 - - - +
88A HIS* 1.3 57.1 + - - +
90A LEU* 3.2 5.8 + - - +
91A PHE* 2.9 26.7 + - - +
141A TRP* 3.5 33.1 - - + +
143A TRP* 3.4 26.7 - - + -
161A GLN* 3.2 30.0 + - - +
162A ASP 3.3 12.3 + - - -
163A PRO* 3.4 18.2 - - - +
164A VAL 4.5 0.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 88 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A HIS* 3.1 20.5 + + - -
44A HIS* 5.1 0.4 - - - +
45A HIS* 3.5 30.3 - + + +
48A TYR* 3.4 26.9 - + - -
84A GLY 2.7 29.2 + - - +
87A ASN* 1.3 72.2 - - - +
89A SER* 1.3 65.7 + - - +
91A PHE* 3.4 6.6 - + - +
92A TRP* 2.9 44.5 + + - +
141A TRP* 3.6 12.0 - + - -
161A GLN* 3.5 13.2 - - - -
174A ASP* 3.5 1.1 + - - -
178A HIS* 4.0 0.4 + - - -
2001A MN 2.2 36.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 89 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A PRO* 4.0 10.3 - - - +
45A HIS* 3.7 9.2 + - - -
85A HIS* 2.7 43.4 + - - -
86A ILE* 3.6 5.8 - - - -
88A HIS* 1.3 77.4 - - - +
90A LEU* 1.3 61.5 + - - +
92A TRP* 3.9 6.0 + - - +
93A LYS* 3.6 27.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 90 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A ILE* 3.1 34.9 + - + +
87A ASN* 3.5 4.7 - - - +
88A HIS 3.1 0.4 - - - -
89A SER* 1.3 75.2 - - - +
91A PHE* 1.3 66.2 + - - +
93A LYS* 3.3 2.1 + - + -
94A ASN* 3.0 13.5 + - - -
143A TRP* 4.1 27.8 - - + -
164A VAL 6.3 0.2 - - - +
169A PRO* 4.2 24.7 - - + +
207A ARG* 2.8 50.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 91 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A ILE* 4.9 4.7 - - + -
37A MET* 6.0 1.1 - - - -
40A HIS* 3.9 26.2 - + - -
87A ASN 2.9 13.5 + - - +
88A HIS* 3.0 9.2 + + - +
90A LEU* 1.3 74.2 - - - +
92A TRP* 1.3 92.8 + + - +
94A ASN* 3.0 18.4 + - - +
95A LEU* 3.4 42.7 - - + +
141A TRP* 3.7 21.3 - + + -
143A TRP* 5.7 0.4 - - - -
172A GLY 3.3 24.0 - - - -
173A VAL* 3.8 3.4 - - - -
174A ASP* 3.6 14.4 - - + -
179A ALA* 5.3 0.2 - - + -
191A TYR* 3.8 20.0 - - - -
195A ILE* 4.0 12.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 92 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A PRO* 4.6 7.0 - - + -
20A PRO 5.7 1.6 - - - +
21A LEU* 3.5 26.2 - - + -
22A PRO* 4.1 8.4 - - + +
23A TYR* 2.7 26.2 + - - -
37A MET* 3.9 25.4 - - + -
40A HIS* 3.4 44.6 - + + -
41A HIS* 3.3 39.5 + + + -
45A HIS* 2.6 32.2 + + - -
88A HIS* 2.9 33.1 + + + +
89A SER* 4.2 7.4 - - - +
91A PHE* 1.3 98.0 - + - +
93A LYS* 1.3 61.9 + - + +
95A LEU* 3.4 9.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 93 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A PRO* 6.6 0.2 - - - -
22A PRO* 5.0 11.2 - - + -
89A SER* 3.6 13.6 + - - +
90A LEU* 3.3 2.8 + - + +
91A PHE 3.1 1.0 - - - -
92A TRP* 1.3 76.9 - - + +
94A ASN* 1.3 57.3 + - - +
95A LEU 3.1 6.2 + - - -
200A ASN* 3.1 25.8 + - - -
203A GLU* 3.4 22.4 - - + +
207A ARG* 3.5 17.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 94 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A LEU* 3.0 22.9 + - - +
91A PHE* 3.0 12.8 + - - +
93A LYS* 1.3 75.8 - - - +
95A LEU* 1.3 61.7 + - - +
143A TRP* 5.1 0.2 - - - -
170A VAL 4.6 0.7 - - - +
171A PHE* 3.7 15.2 - - + +
172A GLY* 2.9 44.9 + - - +
199A ILE* 3.5 11.0 - - + +
200A ASN* 2.8 28.4 + - - +
203A GLU* 4.4 4.0 - - + -
204A ALA 5.5 0.2 - - - +
207A ARG* 3.1 30.0 - - - +
----------------------------------------------------------
Back to top of page
A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il