Contacts of the helix formed by residues 124 - 145 (chain C) in PDB entry 4UX9
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 ASP 124 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123C LEU* 1.3 75.9 - - - +
125C HIS* 1.3 65.9 + - - +
126C GLU* 3.6 19.2 + - - +
127C ARG* 2.7 51.3 + - - +
128C MET* 3.2 21.8 + - - +
281C PRO* 3.6 12.1 - - + -
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Residues in contact with HIS 125 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124C ASP* 1.3 74.9 - - - +
126C GLU* 1.3 61.8 + - - +
129C SER* 2.9 34.8 + - - -
280C PHE* 4.4 8.0 - + + +
281C PRO* 3.4 46.2 + - + +
289C LEU* 3.4 38.8 + - + +
290C LYS* 3.8 26.6 - - - -
291C ALA* 3.9 5.1 + - - +
320C TYR* 2.9 29.5 + + - -
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Residues in contact with GLU 126 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124C ASP* 3.3 19.6 - - - +
125C HIS* 1.3 83.7 + - - +
127C ARG* 1.4 56.3 + - - +
129C SER* 3.7 0.3 - - - -
130C TYR* 3.0 31.4 + - - +
289C LEU* 4.1 20.4 - - + +
324C TRP* 3.4 9.8 - - + -
39H PRO* 6.1 0.9 - - + -
41H PRO* 3.7 36.6 - - + +
42H THR 5.5 1.1 - - - +
43H LEU* 4.0 8.3 - - + -
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Residues in contact with ARG 127 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121C MET* 5.9 0.2 - - - -
122C GLU 5.7 0.4 - - - -
123C LEU* 4.0 29.4 - - + +
124C ASP* 2.7 49.5 + - - +
126C GLU* 1.4 76.0 - - - +
128C MET* 1.3 60.0 + - - +
130C TYR* 3.4 1.6 + - - +
131C LEU* 3.0 36.9 + - - +
163C CYS* 4.1 13.5 - - - -
42H THR* 3.2 39.7 + - - +
43H LEU* 3.5 21.1 + - + +
44H GLN* 3.0 35.2 + - - +
45H LEU* 4.1 4.2 - - - +
46H PRO* 5.6 1.6 - - - +
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Residues in contact with MET 128 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123C LEU* 3.8 18.5 - - + +
124C ASP 3.2 13.5 + - - +
125C HIS* 4.7 0.2 - - - -
127C ARG* 1.3 75.7 - - - +
129C SER* 1.3 57.6 + - - +
131C LEU* 3.3 3.1 + - - +
132C LEU* 3.0 47.9 + - + +
215C MET* 3.8 33.9 - - + +
218C MET* 3.8 30.7 - - + +
219C VAL* 3.8 28.7 - - + -
280C PHE* 5.1 1.1 - - + -
281C PRO* 4.8 15.0 - - - -
294C ALA* 5.0 2.5 - - + -
320C TYR* 3.8 19.3 - - + +
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Residues in contact with SER 129 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125C HIS 2.9 20.7 + - - -
126C GLU 3.7 0.7 - - - -
128C MET* 1.3 75.8 - - - +
130C TYR* 1.3 57.2 + - - +
132C LEU* 3.5 2.3 + - - +
133C TYR* 3.0 30.1 + - - +
289C LEU* 3.3 13.9 - - - +
320C TYR* 2.4 45.5 + - - -
321C ILE* 3.9 5.6 - - - +
324C TRP* 3.4 17.5 + - - -
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Residues in contact with TYR 130 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C LYS* 5.8 3.5 - - - -
126C GLU 3.0 21.2 + - - +
127C ARG 3.9 3.1 - - - +
129C SER* 1.3 76.2 - - - +
131C LEU* 1.4 60.4 + - - +
133C TYR* 3.4 12.7 + + - +
134C GLN* 3.0 68.3 + - + +
162C ASP 4.9 1.1 - - - -
163C CYS* 3.6 21.3 - - + -
164C THR* 4.3 12.5 - - + +
324C TRP* 3.4 43.2 - + + +
329C GLU* 5.2 7.0 + - - -
43H LEU* 3.6 27.4 - - + -
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Residues in contact with LEU 131 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115C LEU* 4.6 2.5 - - + -
118C VAL* 3.8 29.6 - - + -
123C LEU* 3.9 7.9 - - + -
127C ARG 3.0 22.3 + - - +
128C MET 3.3 4.0 + - - +
130C TYR* 1.4 76.0 - - - +
132C LEU* 1.3 55.8 + - - +
134C GLN* 3.4 4.4 + - - +
135C MET* 2.9 28.6 + - + +
159C VAL* 3.9 16.4 - - + -
163C CYS* 3.7 35.7 - - - +
165C LEU* 3.4 35.0 - - + +
218C MET* 3.8 17.7 - - + -
45H LEU* 4.7 5.4 - - + -
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Residues in contact with LEU 132 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128C MET* 3.0 42.9 + - + +
131C LEU* 1.3 71.9 - - - +
133C TYR* 1.4 60.7 + - - +
135C MET* 3.2 23.8 + - + +
136C LEU* 2.9 38.0 + - + +
211C VAL* 4.2 17.0 - - + -
215C MET* 3.8 51.1 - - + +
218C MET* 4.5 6.3 - - - -
297C LEU* 4.7 1.6 - - + -
301C MET* 6.0 0.4 - - + -
320C TYR* 4.1 9.4 - - + -
321C ILE* 3.6 16.8 - - + -
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Residues in contact with TYR 133 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C ASN* 5.7 0.9 - - - -
129C SER 3.0 18.4 + - - +
130C TYR* 3.5 12.6 - + - +
132C LEU* 1.4 75.2 - - - +
134C GLN* 1.3 67.7 + - + +
136C LEU* 3.2 5.2 + - - +
137C CYS* 2.9 50.2 + - - -
316C LEU* 3.7 19.1 - - + -
321C ILE* 3.7 33.5 - - + +
324C TRP* 3.1 39.9 - - + -
325C TYR* 3.6 15.5 - + - -
326C ASP 3.0 25.6 + - - -
329C GLU* 2.9 30.0 + - - +
330C ALA* 4.1 1.3 + - + +
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Residues in contact with GLN 134 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C ASN* 3.4 38.6 + - - +
130C TYR* 3.0 55.6 + - + +
131C LEU* 3.6 10.9 - - - +
133C TYR* 1.3 76.9 - - + +
135C MET* 1.4 65.3 + - - +
137C CYS* 3.3 1.1 + - - -
138C GLY* 3.1 18.5 + - - -
163C CYS 2.9 21.8 + - - -
164C THR* 3.2 9.9 - - - +
165C LEU* 2.8 35.5 + - + +
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Residues in contact with MET 135 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115C LEU* 4.1 19.3 - - + -
131C LEU* 2.9 29.0 + - + +
132C LEU* 3.2 24.2 - - + +
134C GLN* 1.4 76.5 - - - +
136C LEU* 1.3 61.7 + - + +
138C GLY* 3.3 1.7 + - - -
139C ILE* 3.1 35.9 + - + +
152C LEU* 6.1 0.7 - - + -
157C ILE* 4.3 17.9 - - + -
165C LEU* 3.8 28.4 - - + +
167C ILE* 4.2 14.9 - - + +
211C VAL* 4.3 24.5 - - + -
214C ILE* 4.4 12.8 - - + -
218C MET* 4.5 6.3 - - - -
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Residues in contact with LEU 136 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132C LEU* 2.9 21.6 + - + +
133C TYR 3.5 5.8 - - - +
135C MET* 1.3 72.9 - - + +
137C CYS* 1.4 53.5 + - - +
139C ILE* 3.3 8.9 + - + -
140C LYS* 2.8 30.8 + - - +
208C LEU* 4.1 16.6 - - + -
211C VAL* 4.6 9.6 - - + -
297C LEU* 5.7 0.7 - - + -
301C MET* 4.1 13.0 - - + -
312C VAL* 3.3 16.9 - - + +
315C ALA* 3.9 33.0 - - + +
316C LEU* 3.8 15.0 - - + +
321C ILE* 3.9 37.7 - - + -
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Residues in contact with CYS 137 (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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82C HIS* 3.9 7.0 + - + -
84C ASN* 3.4 20.2 - - - +
133C TYR* 2.9 59.6 + - - -
134C GLN 3.3 2.9 + - - +
136C LEU* 1.4 71.2 - - - +
138C GLY* 1.3 57.2 + - - +
140C LYS* 3.4 7.3 + - - +
141C HIS* 3.1 27.9 + - - +
316C LEU* 3.9 8.7 - - - -
329C GLU* 3.9 24.6 - - - +
330C ALA* 4.1 6.0 - - - +
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Residues in contact with GLY 138 (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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82C HIS* 4.6 2.0 - - - -
84C ASN* 3.9 21.0 - - - +
85C ILE* 3.3 30.0 - - - +
134C GLN 3.1 10.7 + - - -
135C MET 3.3 4.2 + - - -
137C CYS* 1.3 77.2 - - - +
139C ILE* 1.4 58.4 + - - +
141C HIS* 3.5 3.0 + - - +
142C LEU* 3.3 18.1 + - - +
167C ILE* 4.5 4.0 - - - -
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Residues in contact with ILE 139 (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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135C MET* 3.1 28.2 + - + +
136C LEU* 3.6 9.4 - - + +
138C GLY* 1.4 71.3 - - - +
140C LYS* 1.4 56.3 + - - +
142C LEU* 3.1 11.1 + - + +
143C HIS* 2.8 73.6 + - + +
149C HIS* 5.9 0.9 - - + -
152C LEU* 3.6 27.4 - - + -
167C ILE* 5.1 3.8 - - + -
207C ASP* 4.3 8.1 - - + +
208C LEU* 5.2 3.4 - - + -
211C VAL* 3.5 32.3 - - + -
312C VAL* 4.0 10.8 - - + -
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Residues in contact with LYS 140 (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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136C LEU 2.8 21.2 + - - +
137C CYS* 3.4 6.3 + - - +
139C ILE* 1.4 71.7 - - - +
141C HIS* 1.3 52.9 + - - +
143C HIS* 3.2 1.6 + - - +
144C SER* 2.7 39.7 + - - -
312C VAL* 3.9 16.1 - - + +
313C ASP* 3.2 28.2 + - - +
316C LEU* 3.6 21.7 - - + +
325C TYR* 3.9 18.0 + - - -
330C ALA* 3.2 30.8 + - - +
331C GLU* 4.1 10.6 - - - +
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Residues in contact with HIS 141 (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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80C VAL* 3.5 28.5 - - + +
81C ASN 3.6 25.0 + - - -
82C HIS* 3.5 36.9 - + + +
85C ILE* 4.5 1.2 - - + +
137C CYS 3.1 8.8 + - - +
138C GLY 3.6 9.2 - - - +
139C ILE 3.2 0.4 - - - -
140C LYS* 1.3 75.4 - - - +
142C LEU* 1.4 60.9 + - - +
144C SER* 2.6 23.2 + - - -
145C ALA 3.7 3.5 + - - -
332C ALA* 4.3 9.6 - - + +
333C PRO 3.4 20.4 + - - -
335C PRO* 3.4 42.1 - - + +
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Residues in contact with LEU 142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76C LEU* 5.7 1.8 - - + -
80C VAL* 4.0 28.7 - - + -
85C ILE* 3.9 19.1 - - + -
138C GLY 3.3 11.1 + - - +
139C ILE* 3.1 12.6 + - + +
141C HIS* 1.4 74.9 - - - +
143C HIS* 1.3 57.2 + - + +
145C ALA* 3.3 10.3 + - - +
147C ILE* 2.8 56.2 + - + +
149C HIS* 4.1 25.4 - - + +
152C LEU* 6.2 0.2 - - + -
167C ILE* 4.9 2.2 - - + -
170C PHE* 3.8 32.1 - - + -
335C PRO* 5.7 0.7 - - - -
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Residues in contact with HIS 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C ILE* 2.8 39.6 + - + +
140C LYS* 3.7 5.8 - - - +
142C LEU* 1.3 72.8 - - + +
144C SER* 1.4 56.9 + - - +
145C ALA 3.1 0.2 - - - -
146C GLY* 2.8 21.7 + - - -
147C ILE 3.1 22.4 - - - +
148C ILE* 4.3 0.4 - - - -
204C GLU* 3.1 56.2 + - + +
207C ASP* 2.8 25.6 + - + -
208C LEU* 4.5 6.0 - - + +
312C VAL* 3.5 25.3 - - + +
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Residues in contact with SER 144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140C LYS* 2.7 23.6 + - - -
141C HIS* 2.6 26.4 + - - -
143C HIS* 1.4 71.6 - - - +
145C ALA* 1.3 55.3 + - - +
146C GLY 3.3 0.2 - - - -
332C ALA 4.9 5.2 + - - -
334C PRO* 3.6 38.1 - - - +
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Residues in contact with ALA 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141C HIS 4.3 0.2 - - - +
142C LEU* 3.3 8.8 + - - +
143C HIS 3.1 0.6 - - - -
144C SER* 1.3 76.4 + - - +
146C GLY* 1.3 61.7 + - - +
147C ILE* 3.3 12.0 + - + +
334C PRO* 4.8 1.3 - - - -
335C PRO* 3.6 43.7 - - + +
337C ILE* 3.7 16.5 - - + +
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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
------------------------------------------------------------
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