Contacts of the helix formed by residues 43 - 68 (chain C) in PDB entry 1ORZ
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 SER 43 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217B HIS* 3.8 29.2 + - - +
219B ILE* 4.1 15.3 - - - +
36C PRO 4.0 7.0 - - - -
37C GLN* 2.7 23.2 + - - -
42C LEU* 1.3 80.8 - - - +
44C SER* 1.3 65.9 + - - -
46C HIS* 3.0 17.1 + - - +
47C ARG* 3.0 19.5 + - - +
128C TYR* 5.0 1.6 - - - -
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Residues in contact with SER 44 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C GLN* 3.1 10.8 + - - -
38C LEU* 3.3 38.6 + - - +
43C SER* 1.3 78.7 - - - +
45C LEU* 1.3 77.4 + - - +
47C ARG* 2.9 17.1 + - - +
48C ILE* 2.9 23.7 + - - +
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Residues in contact with LEU 45 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C LEU* 4.7 4.3 - - + +
40C TRP 2.7 25.1 - - - +
41C TYR* 2.9 53.4 - - + +
43C SER 3.3 0.4 - - - -
44C SER* 1.3 91.5 + - - +
46C HIS* 1.3 56.9 + - - +
48C ILE* 2.7 26.9 - - + +
49C SER* 2.6 35.7 + - - -
105C ILE* 5.3 0.2 - - - -
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Residues in contact with HIS 46 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C TYR 4.4 1.0 + - - -
42C LEU 3.4 18.4 + - - +
43C SER* 3.0 13.1 + - - +
45C LEU* 1.3 77.7 - - - +
47C ARG* 1.3 65.1 + - - +
49C SER* 2.6 22.8 + - - -
50C LEU* 3.2 5.4 + - - +
105C ILE* 4.7 5.2 - - + -
106C HIS* 3.0 47.9 + + - -
109C GLY* 3.6 10.8 - - - -
110C ALA* 3.0 41.8 + - + +
113C HIS* 5.7 4.5 - + + -
81D GLU* 4.8 6.3 + - - -
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Residues in contact with ARG 47 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174B TRP* 5.3 1.0 - - - +
217B HIS* 3.1 43.7 + - + +
43C SER* 3.0 21.9 + - - +
44C SER* 2.9 14.1 + - - +
46C HIS* 1.3 80.7 - - + +
48C ILE* 1.3 62.0 + - - +
50C LEU* 3.0 24.8 + - - +
51C VAL* 3.3 10.2 + - - +
84D SER* 4.6 7.3 + - - -
85D CYS* 3.8 33.6 - - - +
88D ASP* 3.5 16.9 + - - -
89D TYR* 3.1 40.4 + - - -
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Residues in contact with ILE 48 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C SER 2.9 8.2 + - - +
45C LEU* 2.7 59.9 - - + +
47C ARG* 1.3 75.8 - - - +
49C SER* 1.3 66.1 + - - +
51C VAL* 3.0 21.8 + - + +
52C LEU* 3.3 15.2 + - + +
102C LEU* 4.6 13.9 - - + -
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Residues in contact with SER 49 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C LEU 2.6 17.3 + - - -
46C HIS* 2.6 21.6 + - - -
48C ILE* 1.3 73.7 - - - +
50C LEU* 1.3 60.3 + - - +
53C MET* 3.0 15.3 + - - +
102C LEU* 2.7 62.3 - - - +
105C ILE* 4.5 3.6 - - - -
106C HIS* 3.1 24.7 - - - +
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Residues in contact with LEU 50 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46C HIS 3.9 6.3 - - - +
47C ARG* 3.0 13.8 + - - +
49C SER* 1.3 80.0 + - - +
51C VAL* 1.3 60.3 + - - +
53C MET* 3.1 14.3 + - + +
54C GLY 2.8 24.8 + - - -
106C HIS* 3.9 17.9 - - + +
75D LEU* 6.4 2.0 - - + -
78D CYS* 5.8 3.4 - - + +
81D GLU* 3.0 66.2 - - + +
82D PHE* 3.8 21.3 - - + +
85D CYS* 4.4 13.0 - - - -
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Residues in contact with VAL 51 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C ARG 3.8 11.4 - - - +
48C ILE* 3.0 14.6 + - + +
50C LEU* 1.3 76.3 - - + +
52C LEU* 1.3 63.4 + - - +
54C GLY* 3.1 10.6 + - - -
55C LEU* 3.3 11.6 + - + +
82D PHE* 4.0 17.9 - - + -
85D CYS* 4.8 18.6 - - + -
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Residues in contact with LEU 52 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C ILE* 3.3 13.9 + - + +
51C VAL* 1.3 79.8 - - - +
53C MET* 1.3 50.4 + - - +
55C LEU* 3.1 12.5 + - + +
56C GLY* 2.7 32.2 + - - +
98C SER* 4.7 17.3 - - - +
99C PHE* 3.3 34.1 - - + -
101C TYR* 5.2 5.4 - - - +
102C LEU* 2.9 32.1 - - + -
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Residues in contact with MET 53 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C SER 3.0 15.0 + - - +
50C LEU* 3.1 13.2 + - + +
52C LEU* 1.3 75.1 - - - +
54C GLY* 1.3 65.9 + - - +
56C GLY* 2.9 9.9 + - - -
57C PHE* 3.1 13.4 + - + +
99C PHE* 3.5 17.6 - - + -
102C LEU* 4.2 2.2 - - + +
103C PHE* 3.0 62.8 - - + +
106C HIS* 3.3 37.7 - - + -
75D LEU* 5.7 11.7 - - + +
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Residues in contact with GLY 54 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C LEU 2.8 10.9 + - - -
51C VAL 3.1 1.9 + - - -
53C MET* 1.3 79.3 - - - +
55C LEU* 1.3 60.0 + - - +
57C PHE* 3.6 12.3 + - - +
58C TYR* 4.1 3.6 + - - +
75D LEU* 5.2 9.9 - - - +
82D PHE* 3.5 28.7 - - - -
108D LEU* 5.9 6.5 - - - +
115D PHE* 4.9 7.4 - - - -
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Residues in contact with LEU 55 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C VAL* 3.3 9.3 + - + +
52C LEU* 3.1 15.1 + - + +
54C GLY* 1.3 74.6 - - - +
56C GLY* 1.3 65.1 + - - +
58C TYR* 3.0 37.8 + - + +
59C LEU* 3.3 5.4 + - + +
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Residues in contact with GLY 56 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52C LEU* 2.7 11.5 + - - -
53C MET 2.9 1.4 + - - -
55C LEU* 1.3 74.3 - - - +
57C PHE* 1.3 63.8 + - - +
59C LEU* 2.9 14.2 + - - +
60C PHE* 2.8 21.8 - - - -
99C PHE* 3.0 35.4 - - - -
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Residues in contact with PHE 57 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53C MET* 3.1 10.0 + - + +
54C GLY 4.1 6.5 - - - +
55C LEU 3.2 0.4 - - - -
56C GLY* 1.3 74.6 - - - +
58C TYR* 1.3 64.0 + - - +
60C PHE* 3.1 13.0 + + + +
61C THR* 2.8 56.4 + - + -
99C PHE* 4.0 4.8 - + + -
68D SER* 5.9 2.5 - - - -
71D SER* 6.2 2.9 - - - -
72D VAL* 3.6 33.9 - - + -
75D LEU* 3.8 29.2 - - + -
115D PHE* 3.9 26.2 - + + -
119D LYS* 5.5 2.5 - - + -
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Residues in contact with TYR 58 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C GLY 4.1 0.4 + - - -
55C LEU* 3.0 28.0 + - + +
57C PHE* 1.3 79.3 - - - +
59C LEU* 1.3 68.0 + - + +
61C THR* 3.1 1.4 + - - -
62C ILE* 2.7 70.7 + - + +
114D LEU* 5.4 11.0 - - + -
115D PHE* 2.9 47.2 - + + -
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Residues in contact with LEU 59 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C LEU* 3.3 5.7 + - + +
56C GLY* 2.9 12.8 + - - +
58C TYR* 1.3 89.1 - - + +
60C PHE* 1.3 69.9 + - + +
62C ILE* 3.0 9.3 + - + +
63C LEU* 2.9 32.4 + - + +
95C ILE* 4.5 17.0 - - + -
96C LYS* 2.9 38.1 - - - +
99C PHE* 5.9 1.3 - - + -
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Residues in contact with PHE 60 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C GLY* 2.8 30.9 + - - -
57C PHE* 3.8 14.8 - + + +
59C LEU* 1.3 81.6 - - + +
61C THR* 1.3 64.3 + - - +
63C LEU* 3.2 7.7 + - + +
64C PHE* 2.8 25.1 + - - +
96C LYS* 3.8 40.6 - - + -
99C PHE* 3.0 56.3 - + + -
100C ALA* 5.1 1.6 - - + -
135D TRP* 5.0 10.7 - + - -
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Residues in contact with THR 61 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C PHE* 2.8 49.2 + - + -
58C TYR 3.5 4.5 - - - -
60C PHE* 1.3 78.0 - - - +
62C ILE* 1.3 54.7 + - + +
64C PHE* 3.0 9.5 + - + +
65C GLY* 2.6 32.7 + - - -
115D PHE* 3.9 17.3 - - + +
118D TYR* 3.6 31.1 - - + -
119D LYS* 5.2 5.8 - - + +
122D THR* 5.4 3.4 - - + -
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Residues in contact with ILE 62 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58C TYR* 2.7 73.9 + - + +
59C LEU* 3.4 10.5 - - + +
61C THR* 1.3 82.1 - - + +
63C LEU* 1.3 66.4 + - + +
65C GLY* 3.0 2.7 + - - -
66C VAL* 2.8 35.3 + - + +
118D TYR* 5.8 5.4 - - + -
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Residues in contact with LEU 63 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59C LEU* 2.9 26.4 + - + +
60C PHE* 3.7 8.5 - - + +
62C ILE* 1.3 78.7 - - + +
64C PHE* 1.3 58.7 + - - +
66C VAL* 3.2 2.9 + - + -
67C SER* 2.8 32.1 + - - -
79C VAL* 3.6 21.1 - - + +
82C TRP* 5.2 18.6 - - + -
83C TYR* 6.0 6.3 - - + -
96C LYS* 2.9 37.0 - - + +
135D TRP* 4.7 12.6 - - + -
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Residues in contact with PHE 64 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C PHE 2.8 13.6 + - - +
61C THR* 3.3 12.8 - - + +
63C LEU* 1.3 77.1 - - - +
65C GLY* 1.3 57.9 + - - +
68C GLY* 2.8 33.5 + - - -
64D THR* 4.3 5.8 - - - -
122D THR* 2.8 37.5 - - + -
125D ASP* 5.1 0.2 - - - -
127D VAL* 2.5 57.7 - - + -
131D VAL* 3.0 24.7 - - + -
135D TRP* 3.3 35.2 - + + -
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Residues in contact with GLY 65 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C THR 2.6 18.7 + - - -
62C ILE* 3.0 3.7 + - - -
64C PHE* 1.3 76.4 - - - +
66C VAL* 1.3 63.6 + - - +
67C SER 4.1 0.2 - - - -
68C GLY* 4.0 3.6 + - - -
71C GLY* 4.3 9.9 - - - -
72C LEU* 5.9 0.7 - - - +
118D TYR* 3.7 31.3 + - - -
122D THR* 4.1 8.7 + - - -
125D ASP* 5.5 1.7 - - - +
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Residues in contact with VAL 66 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C ILE* 2.8 36.3 + - + +
63C LEU* 4.9 2.5 - - + -
65C GLY* 1.3 73.6 - - - +
67C SER* 1.3 63.5 + - - +
71C GLY* 4.0 2.1 - - - -
72C LEU* 6.4 0.2 - - - -
75C THR* 2.6 71.1 + - + +
78C LYS* 4.5 9.6 - - + -
79C VAL* 3.3 14.8 - - + -
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Residues in contact with SER 67 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C LEU 2.8 17.6 + - - -
64C PHE 3.9 1.6 - - - -
66C VAL* 1.3 82.6 - - - +
68C GLY* 1.3 74.7 + - - +
71C GLY 3.0 7.1 + - - -
76C THR* 2.9 23.7 - - - +
79C VAL* 3.2 31.1 - - - +
135D TRP* 4.5 16.1 - - - -
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Residues in contact with GLY 68 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64C PHE* 2.8 21.5 + - - +
65C GLY 4.4 2.0 - - - -
67C SER* 1.3 91.1 + - - +
69C LEU* 1.3 70.5 + - - +
70C LEU 2.9 0.7 - - - -
71C GLY* 3.6 11.4 - - - -
76C THR* 4.1 2.6 - - - +
122D THR* 5.5 0.2 - - - -
125D ASP* 4.4 7.2 - - - -
131D VAL* 3.8 9.9 - - - -
135D TRP* 5.5 0.9 - - - -
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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