Contacts of the helix formed by residues 137 - 159 (chain I) 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 I).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27I GLU* 4.1 13.0 - - - -
65I HIS* 2.6 54.5 + + + -
68I LYS* 3.4 18.5 - - + +
69I LEU* 3.3 23.2 + - + +
114I LEU* 3.9 29.6 - - + -
132I PHE* 3.4 35.4 - + - -
133I ILE* 2.9 15.9 + - + +
135I THR 3.7 0.4 - - - -
136I HIS* 1.3 96.3 - - + +
138I LEU* 1.3 65.5 + - - +
139I ASN 3.4 2.0 - - - -
140I GLU* 3.2 6.1 + - - +
141I GLN* 3.0 29.5 + - - +
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Residues in contact with LEU 138 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127G PRO* 3.8 35.7 - - + -
128G HIS* 3.9 22.2 - - + +
131G ASP* 6.3 0.4 - - + -
111I ASN* 4.2 7.4 - - - +
114I LEU* 3.9 21.3 - - + +
115I LEU* 4.1 17.5 - - + -
118I HIS* 4.4 1.8 - - + -
133I ILE* 2.9 40.7 + - + +
134I GLU* 3.8 21.2 + - + +
137I TYR* 1.3 72.5 - - - +
139I ASN* 1.3 59.4 + - - +
141I GLN* 3.3 6.6 + - - +
142I VAL* 3.1 28.4 + - - +
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Residues in contact with ASN 139 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75G GLN* 4.5 7.7 + - - +
128G HIS* 2.8 33.9 + - + +
131G ASP* 5.2 6.1 - - - +
132G PHE* 6.0 1.1 - - - -
136G HIS* 6.0 1.4 + - - -
134I GLU 4.1 9.0 + - - +
135I THR 5.8 2.4 + - - +
137I TYR 3.4 0.2 - - - -
138I LEU* 1.3 76.5 - - - +
140I GLU* 1.3 61.3 + - - +
142I VAL* 4.0 7.7 - - - +
143I LYS* 2.9 60.2 + - - +
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Residues in contact with GLU 140 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61I GLU* 4.6 12.0 - - - +
65I HIS* 4.9 21.3 + - + +
135I THR 5.6 1.1 - - - +
136I HIS* 3.4 24.2 - - - +
137I TYR* 3.2 10.6 + - - +
139I ASN* 1.3 80.8 + - - +
141I GLN* 1.3 63.8 + - - +
143I LYS* 2.9 34.3 + - - +
144I ALA* 3.1 23.4 + - - +
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Residues in contact with GLN 141 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65I HIS* 4.8 6.1 - - - -
107I GLU* 2.7 52.0 + - - +
110I VAL* 3.8 18.0 - - - +
111I ASN* 3.4 29.8 - - + +
114I LEU* 3.6 16.7 - - + +
137I TYR* 3.0 19.2 + - - +
138I LEU* 3.5 5.8 - - - +
140I GLU* 1.3 75.3 - - - +
142I VAL* 1.3 62.8 + - - +
144I ALA* 3.2 2.4 + - - +
145I ILE* 2.9 35.8 + - + +
201I FE 3.9 15.6 - - - -
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Residues in contact with VAL 142 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75G GLN* 3.8 38.0 - - + +
76G ARG* 3.9 14.1 - - - +
128G HIS* 3.7 41.7 - - + +
111I ASN* 5.0 11.7 - - - +
138I LEU 3.1 15.2 + - - +
139I ASN* 3.2 7.1 + - - +
141I GLN* 1.3 79.3 - - - +
143I LYS* 1.3 63.2 + - - +
145I ILE* 3.5 7.6 + - + +
146I LYS* 3.0 22.7 + - - +
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Residues in contact with LYS 143 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75G GLN* 3.9 21.5 - - - +
139I ASN* 2.9 38.5 + - - +
140I GLU* 2.9 39.6 + - - +
142I VAL* 1.3 78.6 - - - +
144I ALA* 1.4 55.9 + - - +
146I LYS* 3.4 4.9 + - - +
147I GLU* 3.0 30.0 + - - +
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Residues in contact with ALA 144 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58I GLN* 5.9 2.2 - - - +
107I GLU* 3.9 28.5 - - + +
140I GLU 3.1 18.3 + - - +
141I GLN* 3.2 4.5 + - - +
143I LYS* 1.4 75.4 - - - +
145I ILE* 1.3 59.3 + - - +
147I GLU* 3.4 8.0 + - - +
148I LEU* 2.9 38.1 + - + +
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Residues in contact with ILE 145 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8G VAL* 3.7 41.2 - - + +
10G GLN* 3.9 9.4 - - + +
75G GLN 5.6 1.1 - - - +
104I LEU* 3.8 17.9 - - + +
107I GLU* 3.9 33.9 - - + +
108I LYS* 4.0 9.0 - - + -
111I ASN* 3.9 26.0 - - + +
141I GLN* 2.9 24.2 + - + +
142I VAL* 3.8 6.5 - - + +
144I ALA* 1.3 72.4 - - - +
146I LYS* 1.3 61.2 + - - +
148I LEU* 4.7 1.6 - - - -
149I GLY* 2.9 24.9 + - - -
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Residues in contact with LYS 146 (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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8G VAL* 4.1 6.7 - - + -
74G ASN* 3.5 30.7 - - - +
75G GLN* 4.1 24.9 + - + +
42H ASP* 2.8 38.8 + - - +
44H ASP* 3.8 16.6 - - + +
47H ALA* 6.0 0.2 - - - +
142I VAL 3.0 18.1 + - - +
143I LYS* 3.8 5.8 - - - +
145I ILE* 1.3 77.8 - - - +
147I GLU* 1.3 58.1 + - - +
149I GLY* 3.4 1.0 + - - -
150I ASP* 2.9 65.1 + - - +
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Residues in contact with GLU 147 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54I TYR* 2.6 31.8 + - - +
58I GLN* 4.0 7.6 + - - -
143I LYS 3.0 18.3 + - - +
144I ALA* 3.7 7.1 - - - +
146I LYS* 1.3 77.9 - - - +
148I LEU* 1.3 58.0 + - - +
150I ASP* 3.2 12.4 + - + +
151I HIS* 2.9 49.3 + - + +
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Residues in contact with LEU 148 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34I TYR* 4.0 5.8 - - + +
54I TYR* 3.7 22.7 - - + +
55I PHE* 5.0 0.2 - - + -
100I MET* 3.6 30.5 - - - +
103I ALA* 3.6 30.7 - - + +
104I LEU* 3.8 16.4 - - + +
107I GLU* 3.6 29.8 - - + -
144I ALA* 2.9 22.8 + - + +
145I ILE* 4.0 3.6 - - - +
147I GLU* 1.3 72.8 - - - +
149I GLY* 1.3 60.2 + - - +
151I HIS* 3.2 5.1 + - + +
152I VAL* 2.9 35.0 + - - +
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Residues in contact with GLY 149 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7G GLN* 3.1 34.6 + - - -
8G VAL* 4.3 7.4 - - - -
44H ASP* 4.1 3.1 - - - -
104I LEU* 4.4 5.1 - - - +
145I ILE 2.9 17.2 + - - -
146I LYS 3.7 1.6 - - - -
148I LEU* 1.3 76.4 - - - +
150I ASP* 1.3 62.3 + - - +
152I VAL* 3.3 1.5 + - - +
153I THR* 2.9 21.3 + - - -
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Residues in contact with ASP 150 (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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43H ARG 4.2 0.2 - - - +
44H ASP* 3.3 17.6 - - - +
47H ALA* 3.9 20.4 - - + +
49H LYS* 4.7 13.0 + - - +
146I LYS* 2.9 54.3 + - - +
147I GLU* 3.4 10.7 - - - +
149I GLY* 1.3 76.7 - - - +
151I HIS* 1.3 62.5 + - + +
153I THR* 3.6 1.2 - - - -
154I ASN* 2.9 37.7 + - - +
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Residues in contact with HIS 151 (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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49H LYS* 6.3 0.2 - - - -
54I TYR* 3.7 22.1 + + - -
100I MET* 3.9 32.3 - - + -
147I GLU* 2.9 38.2 + - + +
148I LEU* 3.5 7.6 - - - +
150I ASP* 1.3 81.8 - - + +
152I VAL* 1.3 60.9 - - - +
154I ASN* 3.3 2.4 + - - +
155I LEU* 3.0 30.0 + - - +
170I PHE* 3.6 22.0 - + + -
174I THR* 3.7 24.7 - - + +
175I LEU* 3.7 12.9 - - + +
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Residues in contact with VAL 152 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7G GLN* 3.5 8.5 - - - +
97I LEU* 3.9 13.0 - - + +
100I MET* 3.9 33.7 - - + +
101I GLU* 3.9 10.8 - - + +
104I LEU* 4.5 7.9 - - + -
148I LEU 2.9 22.0 + - - +
149I GLY 3.6 4.3 - - - +
151I HIS* 1.3 73.7 - - - +
153I THR* 1.3 58.3 + - - +
155I LEU* 3.2 2.3 + - - +
156I ARG* 2.8 79.9 + - - +
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Residues in contact with THR 153 (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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7G GLN* 3.1 15.1 + - - -
44H ASP 2.7 22.6 + - - +
45H ASP* 3.6 34.0 - - - +
46H VAL 3.9 13.9 - - - +
47H ALA* 4.1 1.8 - - + -
149I GLY 2.9 7.1 + - - -
150I ASP 3.6 4.0 - - - -
152I VAL* 1.3 78.6 - - - +
154I ASN* 1.3 58.4 + - - +
156I ARG* 3.6 9.2 + - - +
157I LYS* 2.9 41.3 + - + +
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Residues in contact with ASN 154 (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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46H VAL 4.6 2.6 - - - +
47H ALA* 2.9 36.5 + - - +
48H LEU* 4.0 9.2 - - - +
168H TYR* 3.4 28.6 - - + +
172H LYS* 5.0 0.6 + - - -
150I ASP* 2.9 30.8 + - - +
151I HIS* 3.8 4.5 + - - +
153I THR* 1.3 77.6 - - - +
155I LEU* 1.3 56.8 + - - +
157I LYS* 3.2 6.4 + - - +
158I MET* 2.9 37.1 + - - +
170I PHE* 3.9 19.6 - - + -
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Residues in contact with LEU 155 (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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51I PHE* 4.2 7.9 - - + -
97I LEU* 3.9 26.7 - - + +
100I MET* 3.9 26.7 - - + -
151I HIS 3.0 21.4 + - - +
152I VAL 3.8 3.1 - - - +
154I ASN* 1.3 76.1 - - - +
156I ARG* 1.3 60.4 + - - +
158I MET* 3.4 5.9 + - - +
159I GLY 3.3 4.5 + - - -
160I ALA* 2.9 34.2 + - + +
166I ALA 4.6 1.8 - - - +
167I GLU* 4.2 25.6 - - + +
170I PHE* 3.6 44.6 - - + -
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Residues in contact with ARG 156 (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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7G GLN* 3.4 18.4 + - - +
97I LEU* 4.0 16.4 - - + +
101I GLU* 3.0 29.5 + - - +
104I LEU* 6.3 0.4 - - - +
152I VAL* 2.8 42.4 + - - +
153I THR* 3.6 8.2 + - - +
155I LEU* 1.3 76.0 - - - +
157I LYS* 1.3 65.9 + - + +
159I GLY* 3.1 15.2 + - - -
160I ALA 4.2 8.7 + - - +
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Residues in contact with LYS 157 (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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40H TYR* 5.9 0.4 + - - -
45H ASP 2.9 27.6 + - - -
46H VAL* 4.0 16.6 + - - +
48H LEU* 6.5 0.7 - - + -
164H GLY* 3.4 35.6 + - - +
165H LEU 3.6 1.0 + - - -
153I THR* 2.9 30.7 + - + +
154I ASN* 3.2 6.7 + - - +
156I ARG* 1.3 80.1 - - + +
158I MET* 1.3 60.7 + - + +
159I GLY 3.5 0.5 + - - -
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Residues in contact with MET 158 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164H GLY 4.8 0.2 - - - +
165H LEU* 3.9 41.6 - - + +
168H TYR* 3.4 63.0 - - + -
154I ASN 2.9 25.8 + - - +
155I LEU* 3.8 4.5 - - - +
156I ARG 3.2 0.2 - - - -
157I LYS* 1.3 76.7 - - + +
159I GLY* 1.3 57.7 + - - +
163I SER* 4.3 3.8 + - - -
166I ALA* 3.4 41.8 - - + +
169I LEU* 4.1 4.7 - - + -
170I PHE* 3.8 19.1 - - - +
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Residues in contact with GLY 159 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156I ARG 3.1 10.4 + - - -
157I LYS 3.3 1.2 + - - -
158I MET* 1.3 79.5 - - - +
160I ALA* 1.3 65.4 + - - +
162I GLU* 3.4 10.3 - - - +
163I SER* 3.0 31.4 + - - -
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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) + - + + + + + -
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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