Contacts of the helix formed by residues 91 - 111 (chain A) in PDB entry 2G33
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 THR 91 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87A SER* 2.9 23.9 - - - +
89A VAL 2.4 20.0 + - - -
90A ASN* 1.3 72.5 + - - +
92A ASN* 1.3 73.2 + - - +
93A VAL 3.5 1.3 - - - -
94A GLY* 3.9 2.7 - - - +
95A LEU* 3.7 17.3 + - - +
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Residues in contact with ASN 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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87A SER* 3.5 9.5 + - - -
88A TYR* 2.9 49.2 + - + +
91A THR* 1.3 94.4 - - - +
93A VAL* 1.3 61.9 + - - +
95A LEU* 4.2 9.1 - - - +
96A LYS* 4.2 14.6 + - - +
71B TRP* 6.2 0.6 - - - -
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Residues in contact with VAL 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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62A TRP* 4.0 20.9 - - + -
65A LEU* 4.2 19.5 - - + -
88A TYR* 3.3 30.0 + - + +
89A VAL* 3.3 16.9 + - + +
92A ASN* 1.3 77.5 - - - +
94A GLY* 1.3 69.3 + - - +
95A LEU 3.0 2.2 - - - -
96A LYS* 3.6 9.1 - - + +
97A PHE* 2.7 34.8 + - + +
64B ASP* 6.2 4.9 - - + +
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Residues in contact with GLY 94 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A VAL* 5.0 1.1 - - - -
62A TRP* 4.6 12.3 - - - -
89A VAL 2.9 16.2 + - - -
90A ASN 4.8 4.0 - - - -
91A THR* 3.9 6.6 - - - -
93A VAL* 1.3 78.1 - - - +
95A LEU* 1.3 54.1 + - - +
97A PHE* 4.8 0.2 - - - -
98A ARG* 2.5 55.8 + - - +
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Residues in contact with LEU 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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21A SER* 3.7 47.6 - - - +
24A PHE* 4.9 5.4 - - + -
91A THR 3.7 15.0 + - - +
92A ASN* 4.2 9.4 - - - +
93A VAL 3.0 0.2 - - - -
94A GLY* 1.3 75.0 - - - +
96A LYS* 1.3 61.8 + - + +
97A PHE 2.7 12.8 + - - -
98A ARG* 4.4 9.5 - - - +
99A GLN* 2.8 46.6 + - + +
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Residues in contact with LYS 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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5A PRO* 6.3 1.0 - - - +
92A ASN 4.2 6.0 + - - +
93A VAL* 3.3 17.1 + - + +
95A LEU* 1.3 85.9 - - + +
97A PHE* 1.3 68.2 + - + +
99A GLN* 4.0 15.6 - - - +
100A LEU* 3.9 18.4 + - - +
60B LEU* 5.7 10.5 - - - +
64B ASP* 3.6 33.3 + - - +
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Residues in contact with PHE 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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27A VAL* 5.8 1.6 - - + -
58A ALA* 3.4 20.6 - - + -
61A ALA* 4.2 16.2 - - + -
62A TRP* 3.4 56.5 - + + -
65A LEU* 4.7 7.4 - - + -
93A VAL* 2.7 27.5 + - + +
94A GLY 4.0 0.4 - - - +
95A LEU 2.7 4.8 + - - -
96A LYS* 1.3 80.8 - - + +
98A ARG* 1.3 67.4 + - - +
99A GLN 3.0 0.9 - - - -
100A LEU* 3.4 5.8 + - + +
101A LEU* 2.9 39.6 + - + +
61B ALA* 4.6 14.1 - - + -
64B ASP* 4.4 16.6 - - + -
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Residues in contact with ARG 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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21A SER 3.2 25.5 + - - -
22A ASP* 4.0 11.1 + - - +
24A PHE* 3.1 32.9 + - + +
25A PRO 3.3 23.6 - - - +
26A SER* 3.8 18.4 - - - +
27A VAL* 3.3 28.8 - - + +
30A LEU* 4.1 5.1 - - + +
94A GLY* 2.5 37.9 + - - +
95A LEU* 4.4 7.0 - - - +
97A PHE* 1.3 72.6 - - - +
99A GLN* 1.3 69.2 + - - +
101A LEU* 4.3 5.6 - - - -
102A TRP* 3.0 21.7 + - - +
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Residues in contact with GLN 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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6A TYR* 4.2 10.5 + - - +
13A VAL* 5.0 12.6 - - - +
16A LEU* 3.8 32.8 + - + +
17A SER* 5.0 2.6 - - - +
24A PHE* 3.5 38.1 - - + -
95A LEU* 2.8 34.6 + - + +
96A LYS* 4.0 20.1 - - - +
98A ARG* 1.3 84.0 - - - +
100A LEU* 1.3 70.4 + - - +
102A TRP* 3.5 10.2 + - - +
103A PHE* 3.6 4.1 + - - +
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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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5A PRO* 4.7 13.0 - - + +
6A TYR* 3.3 31.2 - - + +
54A ALA 5.8 0.2 - - - +
55A LEU* 6.0 0.4 - - + -
58A ALA* 4.5 20.4 - - + -
96A LYS 3.9 11.0 + - - +
97A PHE* 3.4 9.5 + - + +
99A GLN* 1.3 84.2 - - - +
101A LEU* 1.3 92.2 + - + +
103A PHE* 2.6 22.9 - - + +
104A HIS* 3.7 25.7 + - + +
57B GLN* 4.3 17.9 - - - +
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Residues in contact with LEU 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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27A VAL* 5.2 7.9 - - + -
30A LEU* 3.4 33.7 - - + -
31A LEU* 4.4 17.5 - - + -
55A LEU* 5.3 7.5 - - + +
58A ALA* 4.3 22.9 - - + -
59A ILE* 4.8 14.8 - - + +
62A TRP* 5.8 2.9 - - + -
97A PHE* 2.9 31.9 + - + +
98A ARG* 3.6 3.4 - - - +
100A LEU* 1.3 90.3 - - + +
102A TRP* 1.3 70.3 + - - +
103A PHE 2.9 0.2 + - - -
104A HIS* 3.0 15.1 + - - +
105A ILE* 3.4 24.1 - - + +
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Residues in contact with TRP 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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16A LEU* 5.7 4.9 - - + -
19A LEU* 4.9 11.7 - - + -
23A PHE* 4.5 28.1 - + - -
24A PHE* 4.0 33.9 - + + -
25A PRO* 4.8 14.8 - - + -
30A LEU* 3.4 19.2 - - + +
98A ARG 3.0 15.3 + - - +
99A GLN 3.6 1.1 - - - +
100A LEU 2.9 1.2 + - - -
101A LEU* 1.3 77.4 - - - +
103A PHE* 1.3 105.4 - + + +
104A HIS 3.0 0.2 + - - -
105A ILE* 3.0 23.1 + - + +
106A SER* 3.2 20.9 + - - -
115A VAL* 5.3 11.2 - - + -
118A TYR* 5.1 16.4 - + - -
119A LEU* 5.4 7.6 - - + -
140A LEU* 4.4 20.5 - - + +
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Residues in contact with PHE 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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5A PRO 5.9 0.4 - - - -
6A TYR* 4.2 34.5 - + + -
9A PHE* 4.3 25.4 - + + -
11A ALA* 5.1 7.9 - - + -
16A LEU* 5.6 7.9 - - + -
51A HIS* 4.6 7.2 - + - -
99A GLN 4.0 1.6 - - - +
100A LEU* 2.6 21.1 + - + +
102A TRP* 1.3 114.0 - + + +
104A HIS* 1.3 112.4 + + - +
106A SER* 2.7 17.7 + - - -
107A ALA* 3.8 4.5 + - + -
112A ARG* 6.4 0.2 - - + -
115A VAL* 4.9 19.3 - - + +
116A LEU* 5.4 6.5 - - + -
119A LEU* 5.9 5.2 - - + -
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Residues in contact with HIS 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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5A PRO 5.5 1.4 + - - -
9A PHE* 3.9 16.5 - + - -
51A HIS* 3.0 34.4 + - - -
54A ALA* 3.1 31.7 - - + +
55A LEU* 3.3 28.0 - - + -
100A LEU* 3.8 28.2 - - + +
101A LEU 3.0 6.4 + - - +
102A TRP 3.0 0.8 + - - -
103A PHE* 1.3 105.5 - + - +
105A ILE* 1.3 69.6 + - - +
106A SER 2.7 2.4 + - - -
107A ALA* 2.7 18.3 + - - +
108A LEU* 3.3 11.9 - - + +
57B GLN* 4.8 4.9 + - - -
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Residues in contact with ILE 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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30A LEU* 4.3 8.1 - - + +
33A THR* 5.7 6.1 - - + -
34A ALA* 4.6 20.0 - - + -
37A LEU* 6.0 2.2 - - + -
38A TYR* 4.3 13.6 + - + -
55A LEU* 4.1 19.9 - - + +
101A LEU* 3.4 46.2 - - + +
102A TRP* 3.0 14.7 + - + +
104A HIS* 1.3 76.2 - - - +
106A SER* 1.3 66.8 + - - +
108A LEU* 2.9 22.3 + - - +
109A THR* 2.8 18.7 + - - +
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Residues in contact with SER 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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102A TRP* 3.2 33.0 + - - -
103A PHE 2.7 14.6 + - - -
104A HIS 2.7 3.2 + - - -
105A ILE* 1.3 75.0 - - - +
107A ALA* 1.3 66.3 + - - -
109A THR* 2.6 16.2 + - - -
110A PHE* 2.8 33.1 - - - -
115A VAL* 4.3 11.9 - - - -
140A LEU* 4.5 12.7 - - - +
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Residues in contact with ALA 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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51A HIS* 4.2 22.7 - - + +
103A PHE* 3.8 4.6 + - + +
104A HIS* 2.7 15.8 + - - +
106A SER* 1.3 73.5 - - - +
108A LEU* 1.3 54.5 + - + +
109A THR 2.4 15.6 + - - -
110A PHE 2.9 0.3 + - - -
111A GLY* 2.9 21.9 + - - +
112A ARG* 4.0 17.9 - - - +
115A VAL* 3.6 24.7 - - + +
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Residues in contact with LEU 108 (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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38A TYR* 2.6 49.6 + - + +
42A LEU* 6.1 0.9 - - + -
51A HIS* 3.5 32.5 - - + -
52A HIS* 3.9 44.9 - - + +
55A LEU* 5.0 8.7 - - + -
104A HIS* 3.3 26.2 - - + +
105A ILE* 2.9 13.2 + - - +
107A ALA* 1.3 74.8 - - - +
109A THR* 1.3 56.9 + - - +
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Residues in contact with THR 109 (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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37A LEU* 6.2 2.0 - - + -
38A TYR* 3.2 10.4 + - - +
105A ILE* 2.8 17.3 + - - +
106A SER* 2.6 10.6 + - - -
107A ALA 2.4 14.1 + - - -
108A LEU* 1.3 79.7 + - - +
110A PHE* 1.3 82.6 + - + -
142A THR* 5.2 8.5 + - - +
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Residues in contact with PHE 110 (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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106A SER* 2.8 37.9 - - - +
107A ALA 2.9 0.4 + - - -
109A THR* 1.3 105.3 - - + +
111A GLY* 1.3 60.5 + - - +
114A THR* 3.2 37.5 + - + +
115A VAL* 4.8 3.8 - - + -
140A LEU* 2.7 54.1 - - + -
141A SER 4.3 7.0 - - - -
142A THR* 4.1 21.3 - - - -
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Residues in contact with GLY 111 (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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107A ALA* 2.9 14.3 + - - +
110A PHE* 1.3 82.0 - - - +
112A ARG* 1.3 57.0 + - - -
113A GLU 3.3 1.6 - - - -
114A THR* 3.0 5.1 + - - -
115A VAL* 2.6 40.5 + - - +
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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