Contacts of the helix formed by residues 94 - 117 (chain I) in PDB entry 2I2X
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 ASN 94 (chain I).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90I GLN* 2.8 37.6 + - - +
91I MET 3.3 5.9 - - - +
93I ASN* 1.3 85.4 - - - +
95I PRO* 1.4 66.8 - - - +
96I SER* 3.2 3.8 - - - +
97I TRP* 2.9 54.4 + - + +
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Residues in contact with PRO 95 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91I MET 3.9 8.0 - - - +
92I SER 3.9 7.6 - - - +
93I ASN 3.3 9.4 - - - +
94I ASN* 1.4 82.4 - - - +
96I SER* 1.3 57.0 + - - +
97I TRP 3.3 0.3 + - - -
98I GLY* 3.4 4.5 + - - -
99I ALA* 3.1 23.0 + - - +
145I VAL* 3.9 27.1 - - + +
148I GLU* 4.0 16.4 - - + +
149I ALA* 3.8 22.9 - - - +
152I GLN* 3.9 18.5 - - + +
153I CYS* 4.8 2.3 - - - -
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Residues in contact with SER 96 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55I LYS* 5.6 0.2 - - - +
94I ASN* 3.0 1.5 + - - +
95I PRO* 1.3 76.8 - - - +
97I TRP* 1.3 72.1 + - - +
99I ALA* 3.4 10.2 - - - +
100I GLU* 2.8 46.1 + - - +
152I GLN* 4.3 11.8 + - - -
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Residues in contact with TRP 97 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52I GLY 5.0 3.4 - - - -
53I ALA 5.3 2.7 - - - -
54I SER* 4.5 6.3 - - - -
55I LYS* 3.6 63.1 - - + +
58I LEU* 4.2 11.2 - - + -
90I GLN* 3.7 39.0 - - + +
91I MET* 4.0 6.7 - - + -
94I ASN* 2.9 42.3 + - + +
96I SER* 1.3 83.2 - - - +
98I GLY* 1.3 66.0 + - - +
99I ALA 3.0 0.2 + - - -
100I GLU* 3.1 4.2 + - - +
101I VAL* 3.0 28.8 + - + +
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Residues in contact with GLY 98 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87I HIS* 3.7 16.4 - - - -
91I MET* 3.3 35.7 + - - +
95I PRO 3.4 1.9 + - - -
97I TRP* 1.3 78.2 - - - +
99I ALA* 1.3 56.4 + - - +
101I VAL* 3.5 1.2 + - - +
102I ALA* 3.0 23.9 + - - +
124I HIS* 3.5 10.9 + - - -
153I CYS* 3.5 7.1 - - - -
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Residues in contact with ALA 99 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95I PRO 3.1 13.8 + - - +
96I SER* 3.4 14.4 - - - +
97I TRP 3.0 0.8 - - - -
98I GLY* 1.3 76.1 - - - +
100I GLU* 1.3 65.5 + - + +
102I ALA* 3.3 6.1 + - - +
103I HIS* 3.0 19.1 + - - +
152I GLN* 3.6 31.0 - - + +
153I CYS* 3.9 6.9 - - - -
156I ASN* 3.4 20.6 - - - +
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Residues in contact with GLU 100 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55I LYS* 2.6 40.0 + - - +
59I ILE* 3.7 20.0 - - + +
96I SER* 2.8 33.9 + - - +
97I TRP* 3.7 4.7 - - - +
99I ALA* 1.3 70.1 - - + +
101I VAL* 1.3 60.2 + - - +
103I HIS* 3.2 7.3 + - - +
104I ALA* 2.9 30.3 + - - +
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Residues in contact with VAL 101 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55I LYS* 6.1 1.1 - - + -
58I LEU* 4.7 4.3 - - + -
59I ILE* 4.0 23.8 - - + +
62I TYR* 3.6 39.7 - - + -
85I THR* 4.4 0.2 - - + -
91I MET* 3.8 23.8 - - + -
97I TRP* 3.0 16.3 + - + +
98I GLY 3.7 7.0 - - - +
100I GLU* 1.3 71.7 - - - +
102I ALA* 1.3 66.9 + - - +
103I HIS 3.0 0.7 + - - -
104I ALA* 3.0 4.9 + - - +
105I GLN* 2.9 45.1 + - - +
124I HIS* 4.1 1.8 - - - +
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Residues in contact with ALA 102 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98I GLY 3.0 15.1 + - - +
99I ALA* 3.3 11.4 + - - +
101I VAL* 1.3 74.8 - - - +
103I HIS* 1.3 56.7 + - - +
105I GLN 3.6 0.2 + - - -
106I LYS* 2.8 31.7 + - - +
122I LEU* 3.6 6.4 - - - +
124I HIS* 3.5 26.0 + - + +
153I CYS* 4.1 12.6 - - - +
156I ASN 3.3 15.9 - - - +
157I GLY* 4.2 0.2 - - - -
158I ALA 4.1 7.4 - - - +
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Residues in contact with HIS 103 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99I ALA 3.0 12.4 + - - +
100I GLU* 3.5 11.4 + - - +
101I VAL 3.1 0.2 - - - -
102I ALA* 1.3 72.5 - - - +
104I ALA* 1.3 64.3 + - - +
106I LYS* 3.8 2.9 - - + +
107I THR* 2.7 50.3 + - - -
156I ASN* 3.0 36.7 + - + +
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Residues in contact with ALA 104 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59I ILE* 3.9 16.2 - - + +
62I TYR* 6.2 0.7 - - + -
63I GLU* 3.6 34.8 - - + +
100I GLU 2.9 15.8 + - - +
101I VAL* 3.7 4.3 - - - +
103I HIS* 1.3 81.4 + - - +
105I GLN* 1.3 64.5 + - + +
107I THR* 3.3 14.4 + - - -
108I ILE* 3.3 15.2 + - - +
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Residues in contact with GLN 105 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45I TYR* 3.0 24.3 + - - -
62I TYR* 4.3 15.3 - - + +
63I GLU* 5.2 0.4 - - - +
65I ILE* 5.3 0.2 - - - +
66I THR* 3.2 28.9 + - - +
83I LEU* 4.1 3.3 - - - +
85I THR* 2.6 23.3 + - - +
101I VAL* 2.9 29.4 + - + +
102I ALA 3.8 2.9 - - - +
104I ALA* 1.3 75.9 - - + +
106I LYS* 1.3 63.6 + - - +
108I ILE* 3.2 7.8 + - - +
109I MET* 3.0 37.6 + - + +
122I LEU* 3.8 8.0 - - + +
124I HIS* 3.2 23.8 - - - -
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Residues in contact with LYS 106 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29I GLY* 5.0 0.7 - - - -
30I LEU* 4.0 29.2 - - - +
102I ALA 2.8 23.0 + - - +
103I HIS* 4.0 4.5 - - + +
105I GLN* 1.3 73.2 - - - +
107I THR* 1.3 63.4 + - - +
109I MET* 3.0 23.1 + - + +
110I GLU* 2.8 42.5 + - + +
120I CYS 5.5 0.4 - - - -
121I ALA* 5.4 1.6 - - - +
122I LEU* 4.2 1.7 - - + +
156I ASN 4.7 0.2 - - - +
157I GLY* 2.6 44.1 + - - +
159I ASP* 2.9 32.0 + - - -
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Residues in contact with THR 107 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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103I HIS* 2.7 38.6 + - + -
104I ALA* 3.4 10.8 - - - -
105I GLN 3.2 0.2 - - - -
106I LYS* 1.3 77.2 - - - +
108I ILE* 1.3 64.5 + - + +
110I GLU* 3.4 14.6 + - - +
111I LYS* 3.2 19.9 + - + +
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Residues in contact with ILE 108 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63I GLU* 3.7 36.3 - - + +
66I THR* 3.9 19.1 - - + -
67I THR* 3.3 31.4 - - - +
70I MET* 4.5 2.0 - - + -
104I ALA 3.3 11.8 + - - +
105I GLN 3.2 8.1 + - - +
107I THR* 1.3 79.0 - - + +
109I MET* 1.3 63.1 + - - +
111I LYS* 3.1 20.7 + - + +
112I TYR* 3.1 32.7 + - + -
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Residues in contact with MET 109 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30I LEU* 4.0 2.2 - - + -
66I THR* 3.9 17.7 - - + -
70I MET* 4.2 18.4 - - - -
83I LEU* 3.9 18.2 - - + -
105I GLN* 3.0 40.9 + - + +
106I LYS* 3.0 18.9 + - + +
108I ILE* 1.3 75.9 - - - +
110I GLU* 1.3 59.0 + - - +
111I LYS 3.3 0.2 + - - -
112I TYR* 3.3 2.4 + - - +
113I HIS* 2.9 30.5 + - - +
120I CYS* 4.0 20.0 - - - -
121I ALA 4.6 7.2 - - - +
122I LEU* 3.6 37.9 - - + -
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Residues in contact with GLU 110 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30I LEU* 3.8 30.3 - - + +
106I LYS* 2.8 34.4 + - + +
107I THR* 3.7 15.1 + - - +
109I MET* 1.3 75.8 - - - +
111I LYS* 1.3 56.2 + - - +
113I HIS* 3.3 0.7 + - - +
114I ASP* 2.8 45.4 + - - +
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Residues in contact with LYS 111 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107I THR* 3.2 10.3 + - + +
108I ILE* 3.1 16.2 + - + +
110I GLU* 1.3 79.3 - - - +
112I TYR* 1.3 88.8 + - + +
114I ASP* 3.3 6.8 + - - +
115I GLU* 3.0 42.7 + - + +
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Residues in contact with TYR 112 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67I THR* 4.0 16.1 + - + +
70I MET* 3.5 41.5 - - + -
71I GLU* 2.6 53.6 + - - +
74I VAL* 4.2 4.7 - - + -
108I ILE* 3.1 31.5 + - + +
109I MET 3.9 5.6 - - - +
111I LYS* 1.3 98.2 + - + +
113I HIS* 1.3 53.9 + - - +
115I GLU* 3.3 1.1 + - - -
116I TYR* 2.8 69.7 + + - +
118I ILE* 3.9 4.7 - - + +
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Residues in contact with HIS 113 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30I LEU* 3.6 51.9 + - + +
31I ASP* 3.9 13.1 + - + +
109I MET 2.9 19.1 + - - +
110I GLU* 3.6 3.8 + - - +
112I TYR* 1.3 75.7 - - - +
114I ASP* 1.3 69.9 + - - +
117I GLY* 2.9 33.4 + - - +
118I ILE* 3.0 35.3 - - - +
119I LYS* 4.6 0.4 - - - -
120I CYS* 4.6 1.8 - - - -
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Residues in contact with ASP 114 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110I GLU* 2.8 32.3 + - - +
111I LYS* 3.9 5.7 - - - +
113I HIS* 1.3 87.0 + - - +
115I GLU* 1.3 61.6 - - - +
117I GLY 5.0 0.2 + - - -
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Residues in contact with GLU 115 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111I LYS* 3.0 36.3 + - + +
112I TYR* 5.7 0.2 - - - -
114I ASP* 1.3 80.2 - - + +
116I TYR* 1.3 92.1 + - + +
117I GLY 3.8 0.2 - - - -
20L LEU* 3.9 36.0 - - + +
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Residues in contact with TYR 116 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71I GLU* 4.9 4.3 + - - -
74I VAL* 3.8 14.2 - - + +
111I LYS* 6.1 0.2 - - - -
112I TYR* 2.8 57.3 + + - +
115I GLU* 1.3 103.3 + - + +
117I GLY* 1.3 57.9 + - - +
118I ILE* 3.2 4.9 - - + +
234K LEU* 3.4 34.7 - - + +
14L THR* 5.5 1.0 - - - +
16L TYR* 3.3 46.8 - + + -
20L LEU* 3.5 30.4 - - + +
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Residues in contact with GLY 117 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31I ASP* 5.6 0.5 - - - +
79I PRO 4.9 0.5 - - - +
113I HIS* 2.9 25.2 + - - -
114I ASP 5.0 0.2 + - - -
115I GLU 3.8 0.4 - - - -
116I TYR* 1.3 78.5 - - - +
118I ILE* 1.3 65.5 + - - +
119I LYS* 3.3 12.6 + - - +
16L TYR* 4.9 1.3 - - - -
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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
------------------------------------------------------------
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) + - + + + + + -
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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