Contacts of the helix formed by residues 137 - 158 (chain C) in PDB entry 5JKL
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 TYR 137 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27C GLU* 4.2 7.6 - - - -
65C HIS* 2.7 52.8 + + + -
68C LYS* 3.4 19.8 - - + +
69C LEU* 3.4 22.0 + - + +
114C LEU* 3.9 36.1 - - + -
132C PHE* 3.4 34.5 - + - -
133C ILE* 2.9 16.6 + - + +
136C HIS* 1.3 97.3 - - + +
138C LEU* 1.3 66.7 + - - +
139C ASN 3.4 1.8 - - - -
140C GLU* 3.3 5.8 + - + +
141C GLN* 2.9 28.8 + - - +
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Residues in contact with LEU 138 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A PRO* 3.9 21.1 - - + -
128A HIS* 3.8 37.0 - - + +
131A ASP* 6.2 0.9 - - + -
111C ASN* 4.3 7.1 - - - +
114C LEU* 4.0 22.0 - - + -
115C LEU* 4.1 17.9 - - + -
118C HIS* 4.4 0.9 - - + -
133C ILE* 2.9 40.5 + - + +
134C GLU* 3.8 22.1 + - + +
137C TYR* 1.3 74.7 - - - +
139C ASN* 1.3 60.0 + - - +
141C GLN* 3.3 5.6 + - - +
142C VAL* 3.0 30.8 + - - +
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Residues in contact with ASN 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A GLN* 4.5 8.1 + - - +
128A HIS* 2.8 32.4 + - + +
131A ASP* 5.1 7.2 - - - +
136A HIS* 6.1 1.2 + - - -
134C GLU 4.1 9.3 + - - +
135C THR 5.7 2.9 - - - +
136C HIS 5.5 0.2 - - - -
137C TYR 3.4 0.2 - - - -
138C LEU* 1.3 76.7 - - - +
140C GLU* 1.3 61.1 + - - +
142C VAL* 4.0 7.7 - - - +
143C LYS* 2.8 59.2 + - - +
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Residues in contact with GLU 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C HIS* 5.2 17.7 + - + +
135C THR 5.7 1.1 - - - +
136C HIS 3.4 22.2 - - - +
137C TYR* 3.3 10.3 + - + +
139C ASN* 1.3 78.4 - - - +
141C GLN* 1.3 61.8 + - - +
143C LYS* 2.9 34.1 + - - +
144C ALA* 3.0 28.2 + - - +
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Residues in contact with GLN 141 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C HIS* 4.6 7.4 - - - -
107C GLU* 2.8 53.2 + - - +
110C VAL* 3.8 18.2 - - - +
111C ASN* 3.4 26.7 - - + +
114C LEU* 3.5 27.3 - - + +
137C TYR* 2.9 13.8 + - - +
138C LEU 3.3 4.7 + - - +
139C ASN 3.2 0.2 - - - -
140C GLU* 1.3 79.3 - - - +
142C VAL* 1.3 60.6 + - - +
144C ALA* 3.2 2.9 + - - +
145C ILE* 2.9 35.5 + - - +
201C FE 4.0 11.4 - - - -
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Residues in contact with VAL 142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A GLN* 3.8 34.6 - - + +
76A ARG* 3.8 21.8 - - - +
128A HIS* 3.7 36.8 - - + +
111C ASN* 5.1 11.2 - - - +
138C LEU 3.0 19.4 + - - +
139C ASN* 3.3 7.2 + - - +
141C GLN* 1.3 73.7 - - - +
143C LYS* 1.3 65.1 + - - +
145C ILE* 3.5 6.8 + - + +
146C LYS* 3.0 23.2 + - - +
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Residues in contact with LYS 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75A GLN* 4.0 18.4 - - - +
139C ASN* 2.8 42.8 + - - +
140C GLU* 2.9 37.3 + - - +
142C VAL* 1.3 77.9 - - - +
144C ALA* 1.3 60.2 + - - +
146C LYS* 3.5 5.0 + - - +
147C GLU* 3.0 24.3 + - - +
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Residues in contact with ALA 144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107C GLU* 3.9 31.2 - - + +
140C GLU 3.0 17.2 + - - +
141C GLN* 3.2 6.5 + - - +
143C LYS* 1.3 75.8 - - - +
145C ILE* 1.3 58.2 + - - +
147C GLU* 3.4 8.0 + - - +
148C LEU* 3.0 36.8 + - + +
202C MG 4.4 9.6 - - - -
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Residues in contact with ILE 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8A VAL* 3.6 40.1 - - + +
10A GLN* 3.8 22.4 - - + +
75A GLN 5.8 0.7 - - - +
104C LEU* 3.8 17.5 - - + +
107C GLU* 3.9 31.2 - - + +
108C LYS* 4.0 10.8 - - + -
111C ASN* 3.9 15.9 - - + +
141C GLN* 2.9 22.2 + - + +
142C VAL* 3.9 7.0 - - + +
144C ALA* 1.3 75.3 - - - +
146C LYS* 1.3 59.5 + - - +
148C LEU* 3.4 2.4 + - - -
149C GLY 2.9 25.3 + - - -
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Residues in contact with LYS 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8A VAL* 4.0 7.2 - - + -
74A ASN* 3.4 32.3 - - - +
75A GLN* 4.1 25.3 + - + +
42B ASP* 2.9 36.7 + - - -
44B ASP* 3.7 17.3 - - + +
142C VAL 3.0 18.7 + - - +
143C LYS* 3.8 5.6 - - - +
145C ILE* 1.3 76.8 - - - +
147C GLU* 1.3 62.6 + - - +
149C GLY* 3.4 1.0 + - - -
150C ASP* 2.9 59.2 + - - +
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Residues in contact with GLU 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C TYR* 2.6 31.4 + - - +
58C GLN* 4.1 6.4 + - - -
143C LYS 3.0 16.8 + - - +
144C ALA* 3.6 8.1 - - - +
146C LYS* 1.3 77.8 - - - +
148C LEU* 1.3 63.1 + - - +
150C ASP* 3.2 11.3 + - - +
151C HIS* 3.0 46.8 + - + +
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Residues in contact with LEU 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34C TYR* 3.9 8.3 - - - +
54C TYR* 3.6 22.2 - - + +
55C PHE* 5.1 0.2 - - + -
58C GLN* 6.4 0.2 - - + -
100C MET* 3.6 30.3 - - - +
103C ALA* 3.7 27.8 - - + +
104C LEU* 3.9 16.4 - - + +
107C GLU* 3.6 31.2 - - + +
144C ALA* 3.0 22.8 + - + +
145C ILE* 3.9 3.6 - - - +
147C GLU* 1.3 76.3 - - - +
149C GLY* 1.3 64.0 + - - +
151C HIS* 3.3 4.5 + - - +
152C VAL* 2.9 30.1 + - - +
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Residues in contact with GLY 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A GLN* 3.0 34.5 + - - -
8A VAL* 4.3 7.6 - - - -
44B ASP* 4.0 3.1 - - - -
104C LEU* 4.4 5.5 - - - +
145C ILE 2.9 17.3 + - - -
146C LYS 3.8 1.8 - - - -
148C LEU* 1.3 78.9 - - - +
150C ASP* 1.3 61.0 + - - +
152C VAL* 3.3 1.1 + - - +
153C THR* 3.0 21.1 + - - -
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Residues in contact with ASP 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44B ASP* 3.2 18.2 - - - -
47B ALA* 3.8 21.4 - - + +
49B LYS* 6.1 1.4 - - - -
146C LYS* 2.9 49.9 + - - +
147C GLU* 3.4 11.7 - - - +
149C GLY* 1.3 76.5 - - - +
151C HIS* 1.3 67.3 + - + +
153C THR* 3.4 2.1 + - - -
154C ASN* 2.9 32.7 + - - +
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Residues in contact with HIS 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54C TYR* 3.7 23.3 + + - -
100C MET* 3.9 31.9 - - + -
147C GLU* 3.0 38.0 + - + +
148C LEU* 3.6 6.5 - - - +
150C ASP* 1.3 81.9 - - + +
152C VAL* 1.3 61.2 - - - +
154C ASN* 3.3 2.9 + - - +
155C LEU* 3.0 28.9 + - - +
170C PHE* 3.6 22.8 - + + -
174C THR* 3.7 23.8 - - + +
175C LEU* 3.8 11.3 - - + +
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Residues in contact with VAL 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7A GLN* 3.7 8.3 - - - +
97C LEU* 4.0 13.9 - - + +
100C MET* 3.7 36.3 - - + +
101C GLU* 3.9 11.2 - - + +
104C LEU* 4.6 7.6 - - + -
148C LEU 2.9 22.0 + - - +
149C GLY 3.7 4.7 - - - +
151C HIS* 1.3 73.9 - - - +
153C THR* 1.3 56.3 + - - +
155C LEU* 3.3 2.7 + - - +
156C ARG* 2.9 79.2 + - - +
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Residues in contact with THR 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7A GLN* 3.1 14.2 + - - -
44B ASP 2.6 23.6 + - - +
45B ASP* 3.6 32.8 - - - +
46B VAL 3.8 15.7 - - - +
47B ALA* 4.1 1.8 - - + -
149C GLY 3.0 7.5 + - - -
150C ASP 3.6 3.6 - - - -
151C HIS 3.3 0.2 - - - -
152C VAL* 1.3 78.4 - - - +
154C ASN* 1.3 58.1 + - - +
156C ARG* 3.7 8.7 + - - +
157C LYS* 2.9 40.6 + - + +
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Residues in contact with ASN 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46B VAL 4.5 3.1 - - - +
47B ALA* 2.9 34.4 + - - +
48B LEU* 3.9 10.0 - - - +
168B TYR* 3.4 28.2 - - + +
172B LYS* 5.0 0.8 + - - -
150C ASP* 2.9 30.0 + - - +
151C HIS* 3.8 1.4 + - - +
153C THR* 1.3 75.9 - - - +
155C LEU* 1.3 57.2 + - - +
157C LYS* 3.3 5.4 + - - +
158C MET* 2.8 37.9 + - - +
170C PHE* 3.8 22.7 - - + -
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Residues in contact with LEU 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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51C PHE* 4.1 11.0 - - + -
97C LEU* 3.9 34.1 - - + +
100C MET* 4.0 20.4 - - + -
151C HIS 3.0 20.8 + - - +
152C VAL 3.7 3.1 - - - +
154C ASN* 1.3 74.9 - - - +
156C ARG* 1.3 63.3 + - - +
158C MET* 3.4 5.2 + - - +
159C GLY 3.3 4.5 + - - -
160C ALA* 3.0 31.7 + - + +
166C ALA 4.4 2.7 - - - +
167C GLU* 4.1 27.6 - - + -
170C PHE* 3.6 39.0 - - + -
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Residues in contact with ARG 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7A GLN* 3.5 17.6 + - - +
97C LEU* 4.1 15.0 - - + +
101C GLU* 2.8 29.3 + - - +
104C LEU* 6.2 0.4 - - - +
152C VAL* 2.9 46.3 + - - +
153C THR* 3.7 7.6 + - - +
155C LEU* 1.3 76.4 - - - +
157C LYS* 1.3 64.5 + - + +
159C GLY* 3.0 16.3 + - - -
160C ALA 4.2 9.5 - - - +
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Residues in contact with LYS 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40B TYR* 5.6 1.4 + - - -
45B ASP 3.0 25.7 + - - -
46B VAL* 4.1 18.8 + - - +
48B LEU* 6.5 1.3 - - + -
94B GLU 5.8 2.0 + - - -
164B GLY* 3.4 36.3 + - - +
165B LEU 3.4 1.6 + - - -
153C THR* 2.9 34.2 + - + +
154C ASN* 3.9 6.1 - - - +
156C ARG* 1.3 75.6 - - + +
158C MET* 1.3 61.8 + - + +
159C GLY* 3.4 0.9 + - - -
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Residues in contact with MET 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164B GLY 4.8 0.2 - - - +
165B LEU* 3.8 39.9 - - + +
168B TYR* 3.4 63.3 - - + -
154C ASN 2.8 27.5 + - - +
155C LEU* 3.7 6.7 - - - +
156C ARG 3.2 0.2 - - - -
157C LYS* 1.3 77.4 - - + +
159C GLY* 1.3 57.3 + - - +
160C ALA 3.7 0.2 - - - -
163C SER* 4.3 5.0 + - - -
166C ALA* 3.4 38.2 - - + +
169C LEU* 4.0 5.4 - - + -
170C PHE* 3.8 24.0 - - - +
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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