Contacts of the helix formed by residues 91 - 107 (chain A) in PDB entry 4UN0
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 PRO 91 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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87A PHE 4.7 2.7 - - - +
89A GLN 4.0 5.8 - - - +
90A PHE* 1.3 86.5 - - + +
92A ARG* 1.3 62.7 + - - +
93A TYR 3.4 0.2 - - - -
94A VAL* 3.5 21.9 + - + -
95A THR* 3.0 25.7 + - - +
131A GLN* 3.3 38.8 - - + +
143A LEU* 6.4 1.1 - - + -
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Residues in contact with ARG 92 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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48A ARG* 4.7 4.4 - - - +
49A TYR* 3.2 62.4 + - - -
52A GLU* 2.8 33.1 + - - -
53A GLY* 4.6 3.6 - - - +
78A PHE* 3.5 16.7 - - + -
82A TYR* 3.3 10.8 - - - -
87A PHE* 3.8 21.8 - - + -
90A PHE 3.5 2.6 + - - -
91A PRO* 1.3 71.6 - - - +
93A TYR* 1.3 90.3 + - + +
95A THR 3.2 0.7 + - - -
96A GLY* 2.8 26.0 + - - -
128A GLN* 5.4 2.4 - - - +
131A GLN* 3.6 13.4 + - - +
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Residues in contact with TYR 93 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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52A GLU* 3.1 33.9 + - + +
53A GLY* 5.3 1.3 - - - -
56A PHE* 3.3 50.0 - + + -
92A ARG* 1.3 106.4 + - + +
94A VAL* 1.3 62.1 + - - +
97A ALA 3.1 16.8 + - - -
124A LEU* 3.7 29.8 - - + -
128A GLN* 3.1 39.6 + - + +
131A GLN* 3.2 31.2 + - - +
132A PHE* 3.4 11.3 - - + -
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Residues in contact with VAL 94 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91A PRO* 3.5 17.5 + - + +
92A ARG 3.2 0.2 - - - -
93A TYR* 1.3 77.4 - - - +
95A THR* 1.3 61.2 + - - +
97A ALA* 3.5 4.2 + - - +
98A CYS* 3.1 20.8 + - - +
131A GLN* 3.3 44.2 - - + +
132A PHE* 3.6 26.0 - - + -
139A GLU* 4.0 28.5 - - + +
140A VAL* 4.3 7.6 - - + +
143A LEU* 4.1 11.7 - - + -
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Residues in contact with THR 95 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78A PHE* 4.3 1.6 - - + -
81A PHE* 3.6 41.0 - - + -
82A TYR* 2.9 31.3 + - + -
90A PHE* 4.1 4.7 - - - +
91A PRO 3.0 7.8 + - - -
92A ARG 3.2 2.7 + - - -
94A VAL* 1.3 76.2 - - - +
96A GLY* 1.3 59.8 + - - +
98A CYS* 3.1 3.9 + - + +
99A CYS* 2.8 38.2 + - - -
143A LEU* 3.6 20.7 - - + +
147A LEU* 5.4 1.8 - - + -
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Residues in contact with GLY 96 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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53A GLY 5.2 0.4 - - - -
56A PHE* 4.5 5.4 - - - -
57A ILE* 3.6 33.0 - - - +
78A PHE* 3.9 7.4 - - - -
92A ARG 2.8 16.7 + - - -
93A TYR 4.0 1.6 - - - -
94A VAL 3.3 0.2 - - - -
95A THR* 1.3 77.6 - - - +
97A ALA* 1.3 56.2 + - - +
99A CYS* 3.2 3.0 + - - +
100A LEU* 2.9 29.5 + - - +
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Residues in contact with ALA 97 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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56A PHE* 4.0 11.3 - - + -
60A VAL* 6.4 0.2 - - - -
93A TYR 3.1 19.2 + - - +
94A VAL 3.7 5.4 - - - +
96A GLY* 1.3 75.2 - - - +
98A CYS* 1.3 56.4 + - - +
100A LEU* 3.6 6.3 + - - +
101A PHE* 3.1 27.5 + - - +
116A ILE* 4.3 23.5 - - + +
117A ILE* 6.3 1.8 - - + -
120A ALA* 5.6 1.6 - - + -
132A PHE* 4.0 19.3 - - + -
140A VAL* 4.4 9.5 - - + +
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Residues in contact with CYS 98 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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94A VAL 3.1 12.9 + - - +
95A THR* 3.1 10.8 + - + +
97A ALA* 1.3 76.3 - - - +
99A CYS* 1.3 63.0 + - - +
101A PHE* 3.5 4.8 + - - +
102A LEU* 3.1 22.2 + - - +
140A VAL* 3.7 23.5 - - + +
143A LEU* 3.9 15.3 - - + -
144A GLU* 3.5 42.0 - - - -
147A LEU* 3.8 13.2 - - + -
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Residues in contact with CYS 99 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57A ILE* 4.2 3.6 - - + -
74A GLY* 3.4 21.2 - - - +
77A TYR* 3.7 14.5 - - + -
78A PHE* 3.5 34.3 - - - -
95A THR* 2.8 22.4 + - - -
96A GLY 3.2 7.8 + - - +
98A CYS* 1.3 75.3 - - - +
100A LEU* 1.3 59.7 + - - +
102A LEU* 3.3 2.9 + - - +
103A ALA* 2.8 30.8 + - - +
147A LEU* 3.9 21.5 - - - -
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Residues in contact with LEU 100 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57A ILE* 3.8 26.9 - - + +
60A VAL* 3.7 23.1 - - + -
61A GLY* 3.6 27.4 - - - +
64A LEU* 5.2 2.9 - - + -
66A LEU* 3.7 25.1 - - + +
70A THR* 4.4 11.4 - - + +
71A LEU* 4.2 11.7 - - + -
74A GLY* 4.6 1.0 - - - -
96A GLY 2.9 16.1 + - - +
97A ALA* 3.9 6.5 - - - +
99A CYS* 1.3 74.8 - - - +
101A PHE* 1.3 62.6 + - - +
103A ALA* 3.4 3.4 + - - +
104A GLY* 3.1 19.6 + - - -
116A ILE* 4.6 11.8 - - + +
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Residues in contact with PHE 101 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97A ALA 3.1 19.2 + - - +
98A CYS* 3.6 8.5 - - - +
99A CYS 3.2 0.2 - - - -
100A LEU* 1.3 78.0 - - - +
102A LEU* 1.3 63.4 + - - +
104A GLY* 3.4 9.5 + - - -
105A LYS* 3.4 40.5 + - + +
111A LYS 3.7 19.6 + - - +
112A LYS* 5.0 0.4 - - - -
113A CYS* 3.6 30.5 - - + -
116A ILE* 3.7 26.0 - - + +
140A VAL* 5.0 7.6 - - + -
141A MET* 4.2 17.0 - - + -
144A GLU* 3.8 22.0 - - + -
764C LYS 5.0 1.6 - - - -
765C GLU* 3.7 19.5 - - - -
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Residues in contact with LEU 102 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77A TYR* 4.0 13.2 - - + -
98A CYS 3.1 14.5 + - - +
99A CYS 3.8 3.4 - - - +
101A PHE* 1.3 78.0 - - - +
103A ALA* 1.3 65.0 + - - +
105A LYS* 3.2 9.5 + - - +
106A VAL* 3.1 28.0 + - + +
144A GLU* 4.0 21.5 - - + +
147A LEU* 3.8 23.6 - - + -
148A LEU* 3.7 35.0 - - + -
151A ILE* 3.9 16.6 - - + -
155A LEU* 4.6 1.3 - - + -
772C ILE* 4.2 20.4 - - + -
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Residues in contact with ALA 103 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70A THR* 3.6 24.9 - - + +
73A THR* 3.9 10.3 - - + -
74A GLY* 3.6 16.8 - - - +
77A TYR* 4.1 9.2 - - + -
99A CYS 2.8 17.8 + - - +
100A LEU* 3.8 5.6 - - - +
101A PHE 3.3 0.2 - - - -
102A LEU* 1.3 77.1 - - - +
104A GLY* 1.3 57.2 + - - +
106A VAL* 4.3 1.6 - - - -
107A GLU* 2.9 35.7 + - - +
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Residues in contact with GLY 104 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66A LEU* 5.7 2.0 - - - -
70A THR* 3.9 10.5 - - - +
100A LEU 3.1 15.0 + - - -
101A PHE 3.4 3.1 + - - -
102A LEU 3.2 0.6 - - - -
103A ALA* 1.3 77.2 - - - +
105A LYS* 1.3 57.3 + - - +
108A GLU 3.2 1.7 + - - -
109A THR* 2.7 48.5 + - - -
110A PRO* 3.1 10.2 - - - -
111A LYS* 5.1 2.0 - - - -
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Residues in contact with LYS 105 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101A PHE* 3.4 30.7 + - + +
102A LEU* 3.2 8.1 + - - +
104A GLY* 1.3 76.3 - - - +
106A VAL* 1.3 67.6 + - - +
108A GLU* 3.3 13.9 + - - +
110A PRO* 4.4 14.6 - - + -
111A LYS 6.0 0.4 - - - +
144A GLU* 2.7 29.5 + - - -
765C GLU* 3.0 17.5 + - + +
767C PHE* 2.8 28.4 + - - +
769C ILE* 3.8 35.2 - - + +
772C ILE* 3.7 24.9 - - + +
773C ARG* 5.9 0.5 - - - +
776C LYS* 4.9 0.3 - - - -
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Residues in contact with VAL 106 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73A THR* 4.8 0.4 - - + -
77A TYR* 3.6 26.0 - - - +
102A LEU* 3.1 29.0 + - + +
103A ALA* 3.8 4.9 - - - +
105A LYS* 1.3 74.3 - - - +
107A GLU* 1.3 72.7 + - + +
108A GLU* 3.0 12.4 + - - +
155A LEU* 3.8 24.9 - - + +
156A GLN* 4.8 2.0 - - + +
772C ILE* 4.1 12.6 - - + -
776C LYS* 3.2 40.1 + - + +
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Residues in contact with GLU 107 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69A ASP* 4.6 13.4 - - + +
70A THR* 3.5 30.1 - - + +
73A THR* 2.8 36.5 + - + +
103A ALA 2.9 19.3 + - - +
106A VAL* 1.3 81.4 - - - +
108A GLU* 1.3 69.6 + - - +
109A THR* 3.2 9.3 + - + +
156A GLN* 5.7 0.3 - - - -
157A VAL* 4.3 13.3 + - - +
159A HIS* 5.5 0.2 - - - -
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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