Contacts of the helix formed by residues 132 - 155 (chain C) in PDB entry 1VEQ
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 LEU 132 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B ARG* 4.8 1.9 - - - +
124B ILE* 4.6 18.6 - - + -
125B GLU* 4.6 23.1 - - + +
128B GLU* 4.7 17.3 - - - +
135B GLN* 5.0 7.6 - - - +
139B ILE* 4.5 21.2 - - + +
127C LEU 5.0 0.7 - - - -
128C GLU* 4.5 28.5 - - + +
130C LEU 4.3 0.4 - - - -
131C ASP* 1.3 71.8 + - - +
133C VAL* 1.3 66.7 + - + +
135C GLN* 3.0 40.4 + - - +
136C ASP* 3.1 10.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 133 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B ARG* 4.0 7.6 - - - +
124B ILE* 5.1 7.0 - - + -
139B ILE* 4.1 17.7 - - + +
142B ALA* 3.9 14.8 - - + -
143B GLY* 3.9 21.1 - - - +
146B GLU* 3.8 19.1 - - - +
71C ARG* 3.4 33.0 - - - +
131C ASP* 3.2 8.5 + - - +
132C LEU* 1.3 72.7 - - + +
134C SER* 1.3 53.9 + - - +
135C GLN 2.6 15.7 + - - -
136C ASP* 3.2 12.5 + - - +
137C LEU* 3.2 14.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 134 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C VAL* 3.9 24.9 - - - +
21C LEU* 4.8 7.1 - - - +
71C ARG* 3.0 24.7 + - - +
75C LEU* 4.8 1.6 - - - +
127C LEU* 3.3 18.8 - - - +
131C ASP* 2.6 34.6 + - - -
132C LEU 3.4 0.4 - - - -
133C VAL* 1.3 71.8 - - - +
135C GLN* 1.3 58.5 + - - +
137C LEU* 3.9 11.4 - - - +
138C LEU* 3.6 16.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 135 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A LEU* 5.0 8.2 - - - +
124C ILE* 3.4 39.7 + - + +
125C GLU* 5.0 0.2 - - - +
127C LEU* 4.3 9.4 - - + -
128C GLU* 3.2 43.3 - - - +
131C ASP 3.4 10.4 + - - +
132C LEU* 3.0 27.0 - - - +
133C VAL 2.6 7.1 + - - -
134C SER* 1.3 74.2 - - - +
136C ASP* 1.3 65.5 + - - +
137C LEU 2.6 5.5 + - - -
138C LEU* 2.7 14.0 + - - +
139C ILE* 2.8 23.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 136 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A ASP* 2.5 22.2 - - - +
136B ASP* 2.4 33.2 - - - +
139B ILE* 3.9 31.0 - - + +
140B ALA* 5.2 6.9 + - - +
132C LEU 3.1 4.9 + - - +
133C VAL 3.2 1.5 + - - +
135C GLN* 1.3 78.6 + - - +
137C LEU* 1.3 63.8 + - - +
139C ILE* 3.6 11.7 - - - +
140C ALA* 3.1 23.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 137 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C LEU* 6.0 0.4 - - + -
67C GLU* 4.7 27.1 - - + +
68C VAL* 4.5 9.2 - - + +
71C ARG* 4.7 22.4 - - + -
133C VAL* 3.2 17.9 + - + +
134C SER* 3.9 8.7 - - - +
135C GLN 2.6 0.8 + - - -
136C ASP* 1.3 81.3 - - - +
138C LEU* 1.3 78.9 + - + +
140C ALA* 3.3 7.2 + - - +
141C HIS* 3.1 49.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 138 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C LEU* 4.1 21.8 - - + -
24C GLN* 3.1 41.5 - - + +
28C TYR* 3.9 8.7 - - - +
68C VAL* 4.9 4.0 - - + -
120C THR* 3.7 20.9 - - + +
123C SER* 5.1 5.6 - - - -
124C ILE* 4.1 15.3 - - + -
127C LEU* 4.6 11.7 - - + -
134C SER 3.6 13.4 + - - +
135C GLN* 2.7 11.7 + - - +
137C LEU* 1.3 93.9 - - + +
139C ILE* 1.3 64.2 + - - +
141C HIS* 3.3 8.6 + - + +
142C ALA* 3.2 14.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 139 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A LEU* 4.4 25.1 - - + +
133A VAL* 4.1 23.6 - - + -
136A ASP* 4.1 26.7 - - + +
124C ILE* 3.9 31.4 - - + -
135C GLN* 2.8 35.4 + - + +
136C ASP* 3.6 15.3 - - - +
138C LEU* 1.3 68.7 - - - +
140C ALA* 1.3 73.7 + - - +
142C ALA* 2.6 23.3 + - - +
143C GLY 3.2 2.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 140 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A ASP* 5.4 6.5 + - - +
64C TYR* 4.6 4.6 + - + -
136C ASP* 3.1 11.6 + - - +
137C LEU* 3.4 11.4 - - - +
139C ILE* 1.3 81.8 - - - +
141C HIS* 1.3 69.1 + - + +
143C GLY* 3.1 14.5 + - - -
144C GLU* 3.6 5.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 141 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C TYR* 2.7 30.1 + + - +
64C TYR* 3.1 51.3 - + + -
67C GLU* 3.0 21.2 + - - -
68C VAL* 4.0 6.1 - - + -
120C THR* 5.8 0.9 - - + -
137C LEU* 3.1 40.0 - - + +
138C LEU* 3.4 9.3 - - + +
139C ILE 2.8 4.0 + - - -
140C ALA* 1.3 76.6 - - + +
142C ALA* 1.3 63.7 + - - +
144C GLU* 2.9 5.5 + - - +
145C LEU* 2.8 39.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 142 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A VAL* 3.9 14.1 - - + -
117C ILE* 5.6 2.9 - - + -
120C THR* 4.5 10.9 - - + +
121C ARG* 5.4 1.3 - - - +
124C ILE* 4.5 9.0 - - + -
138C LEU 3.2 6.4 + - - +
139C ILE* 2.6 20.7 + - - +
141C HIS* 1.3 73.4 - - - +
143C GLY* 1.3 55.1 + - - +
145C LEU* 3.0 8.0 + - - -
146C GLU* 2.6 57.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 143 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A ARG* 4.3 7.8 + - - -
133A VAL* 3.9 20.6 - - - +
139C ILE 3.2 2.8 + - - -
140C ALA* 3.1 10.8 + - - -
142C ALA* 1.3 79.0 - - - +
144C GLU* 1.3 57.7 + - - +
146C GLU* 4.1 1.7 - - - +
147C LYS* 3.2 26.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 144 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C GLN* 4.2 4.8 - - - +
60C LEU* 3.5 27.2 - - + +
64C TYR* 3.4 23.7 + - + +
140C ALA 3.6 5.6 + - - +
141C HIS 2.9 2.6 + - - +
143C GLY* 1.3 74.2 - - - +
145C LEU* 1.3 62.2 + - - +
147C LYS* 3.6 21.9 + - + +
148C PHE* 2.8 32.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 145 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C TYR* 4.6 9.9 - - + +
31C LEU* 4.0 18.4 - - + -
57C GLN* 3.7 13.2 - - - +
61C VAL* 4.6 3.8 - - + -
64C TYR* 4.1 15.0 - - + -
113C TYR* 3.6 33.1 - - + -
116C VAL* 4.6 15.0 - - + -
117C ILE* 4.5 13.0 - - + -
120C THR* 5.7 4.0 - - + +
141C HIS* 2.8 51.9 + - + +
142C ALA* 3.6 7.4 - - - +
144C GLU* 1.3 74.0 - - - +
146C GLU* 1.3 64.2 + - - +
148C PHE* 3.3 2.9 + - - +
149C GLN* 3.0 17.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 146 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A ILE* 3.5 17.0 - - + +
71A ARG* 2.9 37.9 + - - +
74A THR* 3.5 14.4 - - + +
133A VAL* 3.9 1.5 - - - +
117C ILE* 3.5 33.7 - - + +
121C ARG* 2.9 35.7 + - - -
142C ALA* 2.6 37.7 + - - +
145C LEU* 1.3 74.6 - - - +
147C LYS* 1.3 61.9 + - - +
149C GLN* 3.2 7.7 + - - +
150C TRP 3.1 15.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 147 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A ASP 5.1 0.4 + - - -
67A GLU* 5.1 10.5 + - - +
70A GLU* 2.7 46.8 + - - +
71A ARG* 5.2 1.3 - - - +
74A THR* 4.1 19.5 - - - +
143C GLY 3.2 19.3 + - - +
144C GLU* 3.6 23.9 + - + +
146C GLU* 1.3 75.7 - - - +
148C PHE* 1.3 67.9 + - - +
150C TRP* 2.7 30.9 + - + +
151C PHE* 3.2 25.6 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 148 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C LEU* 4.1 11.9 - - + -
53C MET* 4.1 32.3 - - + -
54C ILE* 4.6 5.4 - - + -
57C GLN* 3.0 51.8 - - + +
109C LEU* 4.2 7.9 - - + -
113C TYR* 3.4 38.1 - + - -
144C GLU 2.8 15.6 + - - +
145C LEU 3.7 1.1 - - - +
147C LYS* 1.3 74.6 - - - +
149C GLN* 1.3 65.4 + - - +
151C PHE* 2.8 40.0 + + + +
152C VAL* 3.0 29.0 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 149 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A ILE* 5.1 3.1 - - - +
7A PRO* 4.0 5.6 - - - +
74A THR* 5.8 2.1 - - - +
110C ASP* 3.4 15.8 + - - +
113C TYR* 3.5 23.9 - - + +
114C ASN* 3.0 31.1 + - - +
117C ILE* 3.5 18.7 - - + +
145C LEU 3.0 12.4 + - - +
146C GLU* 3.2 11.7 - - - +
148C PHE* 1.3 78.3 - - - +
150C TRP* 1.3 64.2 + - - +
152C VAL* 2.8 23.5 + - + +
153C ARG* 2.8 49.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 150 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4A PHE* 4.4 13.9 - + - -
70A GLU* 4.3 33.9 - - + -
73A ALA* 3.4 47.0 + - + +
74A THR* 3.8 26.2 - - + +
146C GLU 3.1 2.4 + - - -
147C LYS* 2.7 21.9 + - + +
149C GLN* 1.3 78.9 + - - +
151C PHE* 1.3 84.5 + + - -
153C ARG* 3.0 9.4 + - - +
154C ALA* 2.6 46.8 + - + +
157C GLU* 5.5 1.4 + - - -
39J HIS 5.0 0.4 - - - -
40J TRP* 3.7 19.7 - - - -
42J VAL 5.3 1.6 - - - -
43J VAL* 5.8 3.5 - - + +
47J PHE* 4.2 17.0 - + - -
51J HIS* 4.5 9.4 - + - -
99J ARG* 4.8 5.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 151 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A GLU* 4.9 1.3 - - - -
53C MET* 4.0 21.3 - - + -
147C LYS* 3.2 31.4 + - + -
148C PHE* 2.8 38.2 + + + +
150C TRP* 1.3 91.3 - + - +
152C VAL* 1.3 64.7 + - - +
154C ALA* 3.4 5.4 + - - +
155C HIS* 2.9 23.3 + - - -
47J PHE* 3.3 20.9 - + - -
48J ILE* 4.2 11.2 - - + -
51J HIS* 3.7 33.2 - + - -
52J GLU* 6.2 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 152 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53C MET* 4.8 2.0 - - + +
106C LEU* 3.1 58.6 - - + +
109C LEU* 4.3 7.9 - - + -
110C ASP* 4.2 12.6 - - + +
113C TYR* 5.5 2.2 - - + -
148C PHE* 3.3 43.5 - - + +
149C GLN* 2.8 15.8 + - + +
151C PHE* 1.3 75.8 - - - +
153C ARG* 1.3 63.5 + - + +
155C HIS* 3.1 19.2 + - - +
156C LEU* 3.9 6.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 153 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4A PHE* 3.5 55.4 - - + +
5A THR 3.6 23.8 + - - -
6A ILE* 4.4 1.0 - - - +
7A PRO* 4.2 2.6 - - - +
74A THR 5.1 2.2 + - - -
110C ASP* 2.8 33.5 + - + +
114C ASN* 3.1 32.1 + - - +
149C GLN* 2.8 42.8 + - - +
150C TRP* 3.4 10.5 - - - +
152C VAL* 1.3 69.9 - - + +
154C ALA* 1.3 53.1 + - - +
155C HIS 2.8 5.2 - - - -
156C LEU* 2.6 37.9 + - + +
157C GLU* 3.5 10.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 154 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150C TRP* 2.6 33.5 + - + +
151C PHE 3.4 0.4 + - - -
153C ARG* 1.3 70.9 - - - +
155C HIS* 1.3 57.6 + - - +
156C LEU 3.2 1.4 + - - -
157C GLU* 4.0 10.0 + - - -
42J VAL 4.7 0.2 - - - +
43J VAL* 3.7 22.5 - - + +
44J GLY 3.0 26.6 + - - +
47J PHE* 3.8 35.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 155 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46C ASN* 4.4 0.4 + - - -
49C GLY* 6.0 0.4 - - - -
50C VAL* 4.0 17.4 + - + +
53C MET* 3.9 9.4 - - - -
103C GLN* 4.0 10.0 + - - +
106C LEU* 3.4 29.4 - - + +
151C PHE 2.9 21.1 + - - -
152C VAL* 3.1 12.0 + - - +
153C ARG 2.8 1.2 + - - -
154C ALA* 1.3 75.9 - - - +
156C LEU* 1.3 63.6 + - - +
157C GLU 3.8 0.4 - - - -
44J GLY 2.9 17.2 - - - +
45J PRO* 3.0 36.4 + - - +
46J ASN* 4.8 0.6 - - - -
47J PHE* 3.2 29.5 + + + -
48J ILE* 3.5 30.3 + - + +
----------------------------------------------------------
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