Contacts of the helix formed by residues 110 - 132 (chain G) in PDB entry 2JG7
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 ILE 110 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109G LYS* 1.3 76.6 - - - +
111G TYR* 1.3 66.0 + - - +
112G VAL* 3.7 26.2 - - + +
113G GLU* 2.9 34.0 + - + +
114G GLY 3.0 9.4 + - - -
296G THR* 6.0 0.6 - - - +
333G PRO* 3.7 14.6 - - + +
335G ASP 5.8 0.2 - - - +
338G THR* 3.8 36.8 - - + +
339G LEU* 4.0 31.6 - - + +
340G TYR 4.1 3.4 - - - +
341G GLY* 4.5 8.5 - - - +
505H GLN* 5.8 1.6 - - - +
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Residues in contact with TYR 111 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97G LYS* 3.7 40.7 - - - +
101G SER* 3.3 34.1 - - - -
104G SER* 3.7 12.5 + - - +
109G LYS 3.7 0.8 + - - -
110G ILE* 1.3 71.0 - - - +
112G VAL* 1.3 69.1 + - + +
114G GLY* 2.9 3.6 + - - -
115G VAL* 2.9 42.4 + - + +
333G PRO 3.0 20.2 + - - +
334G TRP* 4.3 30.5 - + + +
336G PRO* 6.6 0.2 - - + -
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Residues in contact with VAL 112 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110G ILE* 3.7 23.8 - - + +
111G TYR* 1.3 87.2 - - + +
113G GLU* 1.3 62.9 + - + +
115G VAL* 3.4 9.3 + - + +
116G GLY* 2.9 23.2 + - - -
505H GLN* 6.1 0.9 - - - +
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Residues in contact with GLU 113 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109G LYS* 4.1 19.9 - - + +
110G ILE* 2.9 28.9 + - + +
112G VAL* 1.3 79.3 - - + +
114G GLY* 1.3 59.8 + - - +
116G GLY* 3.6 3.6 - - - +
117G GLU* 3.0 27.7 + - - +
167G PHE* 6.0 0.2 - - - -
295G GLY* 4.5 1.4 - - - -
296G THR* 2.9 38.3 + - - +
300G ARG* 3.3 26.5 + - - -
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Residues in contact with GLY 114 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100G GLY* 3.6 22.8 - - - -
103G VAL* 4.2 19.0 - - - +
104G SER 4.8 0.7 - - - -
109G LYS* 4.1 4.2 - - - +
110G ILE 3.0 8.1 + - - -
111G TYR 2.9 8.0 + - - -
113G GLU* 1.3 75.1 - - - +
115G VAL* 1.3 61.0 + - - +
117G GLU* 3.4 5.6 + - - +
118G VAL* 3.3 24.6 + - - +
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Residues in contact with VAL 115 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96G ILE* 3.9 33.8 - - + +
97G LYS* 4.6 3.4 - - + -
100G GLY* 3.8 4.9 - - - -
111G TYR* 2.9 51.1 + - + +
112G VAL* 3.6 12.1 - - + +
114G GLY* 1.3 74.3 - - - +
116G GLY* 1.3 64.9 + - - +
118G VAL* 3.1 9.2 + - - +
119G GLN* 3.0 21.8 + - + +
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Residues in contact with GLY 116 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112G VAL 2.9 17.1 + - - -
113G GLU* 3.4 5.1 + - - -
114G GLY 3.3 0.2 - - - -
115G VAL* 1.3 76.9 - - - +
117G GLU* 1.3 61.2 + - - +
119G GLN* 3.3 10.6 + - - +
120G GLU* 3.1 25.4 + - - +
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Residues in contact with GLU 117 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103G VAL* 3.8 4.2 - - + +
109G LYS* 2.8 34.9 + - - +
113G GLU 3.0 15.5 + - - +
114G GLY* 3.6 7.4 - - - +
115G VAL 3.2 0.4 - - - -
116G GLY* 1.3 73.2 - - - +
118G VAL* 1.3 66.1 + - - +
120G GLU* 3.2 25.2 + - - +
121G TYR* 3.5 4.5 + - - +
167G PHE* 2.8 31.8 - - + -
168G PRO* 3.7 6.2 - - - +
169G VAL* 2.6 37.9 + - + +
170G ALA* 2.9 22.9 + - + +
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Residues in contact with VAL 118 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92G LEU* 4.3 14.4 - - + +
96G ILE* 3.7 30.5 - - + +
99G LEU* 3.8 37.2 - - + +
100G GLY* 3.9 13.0 - - - +
103G VAL* 4.9 0.4 - - + -
114G GLY 3.4 14.4 - - - +
115G VAL 3.1 7.7 + - - +
117G GLU* 1.3 75.8 - - - +
119G GLN* 1.3 63.4 + - - +
121G TYR* 3.1 6.8 + - - +
122G VAL* 3.0 24.1 + - + +
169G VAL* 4.3 15.5 - - + -
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Residues in contact with GLN 119 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93G ARG* 4.5 8.7 - - - +
96G ILE* 3.5 20.1 - - + +
115G VAL* 3.0 14.0 + - + +
116G GLY* 3.3 14.1 - - - +
118G VAL* 1.3 77.8 - - - +
120G GLU* 1.3 51.7 + - - +
122G VAL* 3.2 21.8 + - - +
123G ASP* 2.7 75.0 + - - +
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Residues in contact with GLU 120 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116G GLY 3.1 16.6 + - - +
117G GLU* 3.2 15.0 - - - +
119G GLN* 1.3 75.2 - - - +
121G TYR* 1.3 56.9 + - - +
123G ASP* 4.6 1.1 - - - +
124G VAL* 3.0 31.8 + - - +
167G PHE* 5.7 6.4 - - + -
170G ALA* 4.0 15.0 - - + +
174G TRP* 3.8 32.0 + - - +
461G ALA 5.1 5.0 - - - +
462G GLU* 5.8 2.1 - - - -
463G ILE* 3.7 26.4 + - - +
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Residues in contact with TYR 121 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88G ILE* 3.9 4.0 - - + +
92G LEU* 3.5 28.3 - - + -
117G GLU 3.5 4.6 + - - +
118G VAL* 3.1 12.2 + - - +
120G GLU* 1.3 76.6 - - - +
122G VAL* 1.3 64.2 + - - +
124G VAL* 3.2 6.7 - - + +
125G CYS* 3.0 38.7 + - - -
169G VAL* 3.9 23.3 - - + +
170G ALA* 5.1 3.3 - - - +
172G TYR* 3.7 9.0 - + - -
173G GLY* 3.6 40.8 - - - -
174G TRP 5.5 0.2 - - - +
176G ASN* 2.7 34.4 + - + +
177G ALA 4.7 1.3 - - - -
201G VAL* 4.0 21.3 - - + -
205G VAL* 3.8 8.6 - - + +
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Residues in contact with VAL 122 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89G GLY* 3.8 21.1 - - - +
92G LEU* 3.9 16.1 - - + +
93G ARG* 3.4 52.3 - - + +
96G ILE* 5.0 2.7 - - + -
118G VAL* 3.0 21.6 + - + +
119G GLN* 3.5 19.7 - - - +
121G TYR* 1.3 75.8 - - - +
123G ASP* 1.3 64.0 + - - +
125G CYS* 3.2 21.8 + - - +
126G ASP* 3.3 9.9 + - - +
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Residues in contact with ASP 123 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83F GLU* 5.6 1.9 - - - +
133F ARG* 4.3 19.8 + - - +
93G ARG* 5.3 1.0 + - - -
119G GLN* 2.7 52.5 + - - +
120G GLU* 4.7 0.7 - - - +
122G VAL* 1.3 73.9 - - - +
124G VAL* 1.3 57.5 + - - +
126G ASP* 3.4 11.4 + - - +
127G TYR* 3.1 25.6 + - - +
463G ILE* 3.3 26.9 - - + +
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Residues in contact with VAL 124 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120G GLU 3.0 17.8 + - - +
121G TYR* 3.2 21.5 - - + +
123G ASP* 1.3 73.9 - - - +
125G CYS* 1.3 59.7 + - - +
127G TYR* 4.0 9.4 - - + -
128G ALA* 2.9 28.4 + - - +
173G GLY 3.7 25.1 - - - +
174G TRP* 3.8 21.5 - - + +
177G ALA* 3.8 10.1 - - + +
178G ILE* 4.7 4.7 - - + -
463G ILE* 3.9 9.1 - - + +
479G SER* 3.6 28.5 - - - +
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Residues in contact with CYS 125 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85G VAL* 3.6 40.6 - - - +
86G ARG* 5.1 0.4 - - - +
88G ILE* 4.2 4.0 - - - -
89G GLY* 3.7 21.1 - - - -
121G TYR* 3.0 41.3 + - - -
122G VAL 3.2 10.1 + - - +
124G VAL* 1.3 76.8 - - - +
126G ASP* 1.3 64.5 + - - +
128G ALA* 3.1 5.4 + - - +
129G VAL* 3.0 26.5 + - - +
176G ASN* 6.0 0.2 - - - -
177G ALA* 4.2 2.9 - - - -
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Residues in contact with ASP 126 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83F GLU* 5.4 0.3 - - - +
86F ARG* 3.4 19.7 - - - +
126F ASP 4.5 1.2 - - - +
129F VAL* 3.8 22.3 - - + +
130F GLY 4.3 7.8 + - - -
86G ARG* 4.7 17.0 - - - +
89G GLY* 5.4 1.2 - - - -
93G ARG* 3.1 28.5 + - - -
122G VAL* 3.3 13.2 + - - +
123G ASP* 3.4 12.7 + - - +
125G CYS* 1.3 79.2 - - - +
127G TYR* 1.3 61.1 + - - +
129G VAL* 3.3 20.8 + - - +
130G GLY 3.4 5.0 + - - -
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Residues in contact with TYR 127 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129F VAL* 5.1 1.7 - - - +
130F GLY* 4.2 12.4 - - - -
133F ARG* 3.9 39.7 + - + +
134F MET* 3.9 28.1 - - + +
123G ASP 3.1 13.9 + - - +
124G VAL* 3.5 11.9 - - + +
126G ASP* 1.3 76.8 - - - +
128G ALA* 1.3 62.1 + - - +
130G GLY* 3.1 12.5 + - - -
131G LEU* 3.1 38.5 + - + +
178G ILE* 4.6 6.3 - - + -
463G ILE* 3.8 18.2 - - + -
464G GLY* 3.9 6.0 + - - -
479G SER* 3.7 17.9 - - - -
480G GLY* 4.0 8.5 - - - -
481G SER* 3.4 28.6 + - - -
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Residues in contact with ALA 128 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82G GLY* 5.5 0.4 - - - -
85G VAL* 3.9 7.9 - - + -
124G VAL 2.9 18.8 + - - +
125G CYS 3.1 5.8 + - - +
127G TYR* 1.3 73.8 - - - +
129G VAL* 1.3 60.9 + - - +
131G LEU* 3.1 11.5 + - - -
132G SER* 2.9 26.2 + - - -
177G ALA* 3.8 15.3 - - + +
178G ILE* 4.4 7.0 - - + -
181G THR* 3.2 30.7 - - - +
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Residues in contact with VAL 129 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126F ASP* 3.8 33.4 - - + +
127F TYR* 5.0 1.1 - - - +
82G GLY* 3.5 27.6 - - - +
83G GLU* 6.0 0.2 - - - -
85G VAL* 4.7 0.9 - - + -
86G ARG* 3.7 27.8 - - + +
125G CYS 3.0 15.1 + - - +
126G ASP* 3.4 13.5 - - - +
127G TYR 3.2 0.4 - - - -
128G ALA* 1.3 74.7 - - - +
130G GLY* 1.3 62.3 + - - +
132G SER* 2.6 27.4 + - - +
133G ARG* 4.0 6.6 + - - +
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Residues in contact with GLY 130 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126F ASP 4.3 3.0 + - - -
127F TYR* 4.2 14.8 - - - -
130F GLY* 3.7 21.3 - - - -
134F MET* 5.5 0.4 - - - -
126G ASP 3.4 4.4 + - - -
127G TYR 3.1 8.0 + - - -
129G VAL* 1.3 79.1 - - - +
131G LEU* 1.3 60.3 + - - +
133G ARG* 3.2 10.6 + - - +
134G MET* 3.2 26.4 - - - +
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Residues in contact with LEU 131 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134F MET* 3.9 28.7 - - + -
127G TYR* 3.1 42.3 + - + +
128G ALA* 3.1 10.4 + - - +
130G GLY* 1.3 69.6 - - - +
132G SER* 1.3 54.8 + - - +
133G ARG 3.0 5.2 - - - -
134G MET* 2.8 27.0 + - + -
135G ILE* 2.9 26.1 + - + +
178G ILE* 3.7 23.6 - - + -
181G THR* 4.2 7.0 - - + -
479G SER 4.9 2.0 - - - +
481G SER 5.0 2.5 - - - +
484G TRP* 4.3 33.2 - - + +
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Residues in contact with SER 132 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141E PRO* 3.5 4.6 - - - +
78G ALA* 3.2 34.2 - - - +
79G PRO* 3.2 30.3 + - - +
82G GLY* 3.8 12.5 - - - -
128G ALA 2.9 12.2 + - - -
129G VAL* 2.6 23.4 + - - +
131G LEU* 1.3 75.7 - - - +
133G ARG* 1.3 60.3 + - - +
134G MET 3.5 0.2 - - - -
181G THR* 3.6 16.4 - - - +
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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) + - + + + + + -
------------------------------------------------------------
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