Contacts of the helix formed by residues 122 - 150 (chain P) in PDB entry 6P18
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 SER 122 (chain P).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191 G 2.9 54.8 + - - +
201 A 5.3 0.7 - - - -
102P HIS* 3.8 6.0 + - - -
120P LYS 3.7 1.0 + - - -
121P PRO* 1.3 77.1 - - - +
123P LEU* 1.3 74.3 + - - +
124P ALA* 3.3 12.0 + - - +
125P THR* 3.4 4.7 - - - +
126P CYS* 3.2 22.3 + - - +
51Q ARG* 3.6 19.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 123 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95P HIS* 4.2 24.2 - - + -
98P ALA 4.3 3.1 - - - +
99P SER* 4.0 23.8 - - - +
102P HIS* 3.8 33.8 + - + -
122P SER* 1.3 78.8 + - - +
124P ALA* 1.3 58.2 + - - +
126P CYS* 3.3 3.5 + - - +
127P ARG* 3.0 43.4 + - + +
51Q ARG* 3.9 27.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 124 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191 G 3.9 8.5 - - + +
201 A 3.6 33.2 - - - +
211 G 5.0 6.5 - - - +
122P SER* 3.3 5.3 + - - +
123P LEU* 1.3 79.0 - - - +
125P THR* 1.3 57.1 + - - +
127P ARG* 3.4 9.0 + - - +
128P ARG* 3.0 49.2 + - - +
51Q ARG* 5.2 0.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 125 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181 T 3.5 44.3 + - + +
191 G 3.3 24.2 - - - +
108P ARG* 4.6 5.6 + - - +
110P MET* 5.2 2.7 - - + -
121P PRO* 3.9 12.1 - - + -
122P SER* 3.4 17.3 + - - +
124P ALA* 1.3 76.8 - - - +
126P CYS* 1.3 62.1 + - - +
128P ARG* 3.7 13.9 - - - +
129P GLU* 3.0 30.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 126 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98P ALA* 3.3 28.0 - - - +
101P TYR* 3.6 27.6 - - - -
102P HIS* 3.4 21.8 - - + -
121P PRO* 5.4 7.0 - - + -
122P SER 3.2 20.2 + - - +
123P LEU* 3.6 7.6 - - - +
124P ALA 3.2 1.0 - - - -
125P THR* 1.3 77.0 - - + +
127P ARG* 1.3 65.1 + - - +
129P GLU* 3.3 9.1 - - - +
130P VAL* 3.1 25.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 127 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211 G 4.5 5.8 + - - -
221 C 4.8 2.2 - - - +
452 T 3.5 22.6 + - - +
462 G 2.9 49.1 + - - -
472 C 3.3 18.6 - - - +
95P HIS* 4.3 20.7 + - - +
98P ALA* 3.8 17.9 - - + -
123P LEU* 3.0 30.1 + - + +
124P ALA* 3.7 7.4 - - - +
126P CYS* 1.3 75.1 - - - +
128P ARG* 1.3 58.6 + - + +
130P VAL* 3.3 10.9 - - - +
131P ASP* 3.1 29.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 128 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181 T 3.6 29.8 + - - +
191 G 2.5 47.7 + - - -
201 A 3.3 15.6 - - - +
472 C 6.2 0.2 - - - +
482 T 3.7 8.7 + - - +
492 C 4.0 4.0 - - - +
124P ALA* 3.0 33.6 + - - +
125P THR* 3.7 12.3 - - - +
126P CYS 3.3 0.2 - - - -
127P ARG* 1.3 78.8 - - + +
129P GLU* 1.3 57.5 + - - +
131P ASP* 3.4 5.8 + - - +
132P GLU* 2.9 27.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 129 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101P TYR* 3.2 43.7 + - + -
108P ARG* 5.6 10.8 + - - +
125P THR* 3.0 19.6 + - - +
126P CYS* 3.3 20.8 - - - +
128P ARG* 1.3 74.6 - - - +
130P VAL* 1.3 68.6 + - - +
132P GLU* 3.7 8.7 - - - +
133P ILE* 2.9 56.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 130 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83P ILE* 3.7 30.5 - - + -
94P LYS* 4.5 13.7 - - + +
97P ILE* 3.8 20.2 - - + -
98P ALA* 3.8 16.6 - - + -
101P TYR* 6.1 2.7 - - + -
126P CYS 3.1 19.6 + - - +
127P ARG* 3.3 14.4 - - - +
129P GLU* 1.3 83.1 - - - +
131P ASP* 1.3 63.1 + - - +
133P ILE* 3.8 5.3 - - + +
134P LEU* 2.9 34.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 131 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94P LYS* 4.2 24.2 + - - +
127P ARG 3.1 18.2 + - - +
128P ARG* 3.6 7.6 - - - +
130P VAL* 1.3 78.9 - - + +
132P GLU* 1.3 57.1 + - - +
134P LEU* 3.4 8.0 + - - +
135P ASN* 2.8 53.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 132 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128P ARG 2.9 17.4 + - - +
129P GLU* 3.7 10.7 - - - +
131P ASP* 1.3 74.8 - - - +
133P ILE* 1.3 68.3 + - - +
135P ASN* 4.0 5.0 - - + +
136P ALA* 2.9 39.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 133 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79P LYS* 6.1 5.4 - - + -
80P ALA* 4.0 32.8 - - + +
83P ILE* 4.3 26.0 - - + -
101P TYR* 5.6 6.5 - - + +
129P GLU* 2.9 40.5 + - - +
130P VAL* 3.8 5.8 - - + +
131P ASP 3.3 0.2 - - - -
132P GLU* 1.3 86.4 - - - +
134P LEU* 1.3 57.8 + - + +
136P ALA* 3.5 4.5 + - - +
137P SER* 2.9 30.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 134 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80P ALA 5.7 0.2 - - - +
83P ILE* 3.7 30.7 - - + +
84P LEU* 4.3 20.0 - - + +
87P TYR* 4.0 27.4 - - + -
88P TYR* 5.7 0.7 - - + -
94P LYS* 3.8 31.4 - - + -
97P ILE* 6.3 0.9 - - + -
130P VAL* 2.9 23.9 + - + +
131P ASP* 3.7 8.1 - - - +
132P GLU 3.3 0.2 - - - -
133P ILE* 1.3 77.3 - - + +
135P ASN* 1.3 58.8 + - - +
137P SER* 2.7 20.3 + - - +
138P LEU* 3.0 26.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 135 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7P ASN* 3.0 44.0 + - - +
8P LEU* 5.4 1.6 + - - +
13P HIS* 5.1 13.5 + - - -
131P ASP* 2.8 44.6 + - - +
132P GLU* 4.0 5.6 - - - +
134P LEU* 1.3 78.1 - - - +
136P ALA* 1.3 58.1 + - - +
138P LEU* 3.5 8.8 + - - +
139P PHE* 3.0 27.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 136 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132P GLU* 2.9 28.4 + - - +
133P ILE* 3.9 5.4 - - - +
135P ASN* 1.3 75.6 - - - +
137P SER* 1.3 58.3 - - - +
139P PHE* 3.4 7.6 + - - +
140P MET* 3.0 37.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 137 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74P MET* 4.8 15.3 - - - +
80P ALA* 5.0 12.9 + - - -
84P LEU* 4.3 22.0 - - - +
133P ILE* 2.9 16.3 + - - +
134P LEU* 2.7 31.9 + - - +
136P ALA* 1.3 71.8 - - - +
138P LEU* 1.3 60.6 + - - +
140P MET* 3.3 8.7 + - - +
141P ILE* 2.9 32.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 138 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8P LEU* 4.4 8.2 - - + +
13P HIS* 4.3 28.9 - - + +
16P LEU* 4.9 20.1 - - + +
17P ASN* 5.4 1.3 - - + +
20P LEU* 4.9 11.4 - - + -
84P LEU* 4.5 19.5 - - + -
88P TYR* 4.5 22.4 - - + +
134P LEU* 3.0 24.1 + - + +
135P ASN* 3.8 9.6 - - - +
136P ALA 3.3 0.2 - - - -
137P SER* 1.3 78.8 + - - +
139P PHE* 1.3 57.4 + - - +
141P ILE* 3.2 10.1 + - + +
142P TYR* 3.0 32.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 139 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6P LEU* 3.7 46.4 - - + -
7P ASN* 5.3 4.3 - - - +
8P LEU* 3.7 27.5 - - + +
135P ASN 3.0 17.6 + - - +
136P ALA* 3.4 8.0 + - - +
137P SER 3.3 0.2 - - - -
138P LEU* 1.3 76.0 - - - +
140P MET* 1.3 83.8 + - + +
142P TYR* 4.7 10.8 - + - +
143P PRO* 3.3 21.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 140 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73P VAL* 3.6 23.5 - - + +
74P MET* 4.0 26.7 - - + -
136P ALA* 3.0 26.1 + - + +
137P SER 3.7 5.4 - - - +
138P LEU 3.3 0.2 - - - -
139P PHE* 1.3 106.2 - - + +
141P ILE* 1.3 65.0 + - - +
143P PRO* 4.2 1.8 - - - +
144P VAL* 4.0 10.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 141 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16P LEU* 3.7 25.8 - - + -
20P LEU* 4.4 13.5 - - + -
69P VAL* 5.0 6.6 - - + +
70P VAL* 3.7 35.4 - - + +
73P VAL* 3.8 20.4 - - + +
74P MET* 4.7 3.1 - - + -
84P LEU* 4.7 11.4 - - + -
137P SER 2.9 22.2 + - - +
138P LEU* 3.2 11.4 + - + +
140P MET* 1.3 78.3 - - - +
142P TYR* 1.3 59.4 + - - +
144P VAL* 3.6 2.4 + - - +
145P LEU* 2.9 37.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 142 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8P LEU* 3.7 34.1 - - + -
12P GLN* 3.2 39.6 - - + +
16P LEU* 3.8 19.5 - - + -
138P LEU 3.0 16.3 + - - +
139P PHE* 4.5 7.9 - + - +
141P ILE* 1.3 78.4 - - - +
143P PRO* 1.4 87.4 - - + +
145P LEU* 3.1 8.7 + - + +
146P ASP* 2.8 51.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 143 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139P PHE* 3.3 24.2 - - + +
140P MET* 4.2 3.6 - - - +
141P ILE 3.9 1.1 - - - -
142P TYR* 1.4 104.0 - - + +
144P VAL* 1.3 66.0 + - + +
146P ASP* 3.3 13.7 + - + +
147P SER* 3.0 25.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 144 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69P VAL* 3.7 19.9 - - + +
72P SER* 5.0 3.6 - - - +
73P VAL* 4.3 22.9 - - + -
140P MET 4.0 15.0 - - - +
141P ILE 4.0 5.4 - - - +
142P TYR 3.3 0.6 - - - -
143P PRO* 1.3 82.5 - - + +
145P LEU* 1.3 57.9 + - - +
147P SER* 2.7 27.4 + - - +
148P ALA* 2.9 14.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 145 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15P TRP* 3.8 20.6 - - + -
16P LEU* 3.8 28.5 - - + -
19P TRP* 5.6 6.7 - - + -
20P LEU* 5.1 5.2 - - + -
66P ILE* 4.2 23.8 - - + -
69P VAL* 4.4 14.5 - - + +
141P ILE* 2.9 28.2 + - + +
142P TYR 3.1 6.0 + - - +
144P VAL* 1.3 74.6 - - - +
146P ASP* 1.3 65.0 + - - +
148P ALA* 3.3 6.0 + - - +
149P PHE* 2.9 54.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 146 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12P GLN* 5.0 0.3 - - - +
15P TRP* 4.4 6.8 - - - -
142P TYR* 2.8 51.3 + - - +
143P PRO* 3.3 11.0 + - + +
145P LEU* 1.3 83.2 - - - +
147P SER* 1.3 58.8 + - - +
150P LYS* 2.9 60.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 147 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143P PRO 3.0 14.0 + - - -
144P VAL* 2.7 28.5 + - - +
146P ASP* 1.3 76.0 - - - +
148P ALA* 1.3 60.6 + - - +
150P LYS* 4.4 10.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 148 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65P LEU* 4.0 30.2 - - + +
68P GLN* 4.5 4.0 - - - +
69P VAL* 4.1 19.5 - - + -
144P VAL 2.9 15.5 + - - +
145P LEU* 3.8 5.4 - - - +
146P ASP 3.2 0.2 - - - -
147P SER* 1.3 78.3 + - - +
149P PHE* 1.3 67.6 + - + +
150P LYS 4.8 0.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 149 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15P TRP* 3.7 26.7 - + - -
19P TRP* 4.8 22.2 - + - -
62P ASP* 5.8 2.9 - - + -
65P LEU* 3.7 30.5 - - + -
66P ILE* 3.7 26.9 - - + -
145P LEU* 2.9 42.8 + - + +
146P ASP 3.4 0.2 + - - -
148P ALA* 1.3 79.0 - - + +
150P LYS* 1.3 86.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 150 (chain P).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15P TRP* 4.7 7.1 - - - -
146P ASP* 2.9 49.0 + - + +
147P SER* 4.4 9.9 - - - -
148P ALA 4.8 0.9 - - - -
149P PHE* 1.3 105.1 - - + +
----------------------------------------------------------
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