Contacts of the helix formed by residues 70 - 89 (chain A) in PDB entry 4ZWJ
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 THR 70 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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66A LYS 5.5 0.2 - - - +
67A LYS 3.8 10.5 - - - +
68A LEU 2.7 14.0 + - - -
69A ARG* 1.3 78.8 - - - +
71A PRO* 1.3 67.1 - - + +
72A LEU* 3.2 3.6 + - - +
73A ASN* 2.8 37.1 + - - +
74A TYR* 3.1 15.0 + - - -
2070A GLN* 5.2 7.2 - - + -
2073A ILE* 3.3 35.6 - - + +
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Residues in contact with PRO 71 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69A ARG 4.9 0.4 - - - +
70A THR* 1.3 86.0 - - + -
72A LEU* 1.3 58.6 + - - +
74A TYR* 3.0 37.2 - - + +
75A ILE 3.8 2.4 + - - -
134A GLU* 4.7 0.3 - - - +
148A PHE* 3.4 29.3 - - + +
149A GLY* 3.4 37.7 - - - +
150A GLU* 3.9 6.3 - - + +
153A ALA* 3.3 12.2 - - + +
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Residues in contact with LEU 72 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70A THR* 3.0 3.8 + - - +
71A PRO* 1.3 79.3 - - - +
73A ASN* 1.3 69.3 + - - +
75A ILE* 3.3 24.3 - - - +
76A LEU* 3.8 6.3 + - - +
131A LEU* 4.7 4.4 - - + +
134A GLU* 3.7 32.6 - - + +
135A ARG* 5.0 8.3 - - + +
138A VAL* 4.2 32.1 - - + -
145A ASN* 5.3 1.6 - - - +
148A PHE* 3.7 18.8 - - + -
2073A ILE* 3.7 30.1 - - + -
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Residues in contact with ASN 73 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62A THR* 6.4 0.2 - - + -
68A LEU* 2.8 29.3 + - - +
70A THR* 2.8 23.3 + - - +
72A LEU* 1.3 79.6 - - - +
74A TYR* 1.3 54.0 + - - +
75A ILE 3.2 0.2 - - - -
76A LEU* 3.1 15.3 + - - +
77A LEU* 2.8 42.7 + - + +
310A ASN* 5.7 0.5 + - - -
312A GLN* 3.8 17.5 + - - +
313A PHE* 3.4 36.5 - - + -
2073A ILE* 4.8 5.0 - - - +
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Residues in contact with TYR 74 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69A ARG* 4.4 15.4 + - + +
70A THR* 3.1 39.5 - - - -
71A PRO* 3.0 19.3 + - + +
73A ASN* 1.3 76.6 - - - +
75A ILE* 1.3 56.9 + - - +
77A LEU* 3.3 17.5 + - + +
78A ASN* 3.0 26.2 + - - +
150A GLU* 4.4 30.0 + - + +
153A ALA* 3.9 17.5 - - + -
154A ILE* 4.4 23.6 - - + -
157A VAL* 3.8 12.4 - - + +
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Residues in contact with ILE 75 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71A PRO 3.8 1.6 + - - -
72A LEU 3.3 15.6 + - - +
74A TYR* 1.3 79.8 - - - +
76A LEU* 1.3 66.9 + - - +
78A ASN* 3.3 4.2 + - - +
79A LEU* 3.1 21.1 + - - +
127A SER* 3.4 30.3 + - - +
130A VAL* 3.5 29.6 - - + -
131A LEU* 3.7 23.6 - - + -
134A GLU* 3.4 24.0 - - - +
153A ALA* 5.4 0.9 - - - +
156A GLY 4.1 3.4 - - - +
157A VAL* 4.0 19.0 - - + +
160A THR* 3.7 16.4 - - - +
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Residues in contact with LEU 76 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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58A THR* 5.1 1.6 - - - +
72A LEU 4.2 8.3 - - - +
73A ASN* 3.1 26.5 + - + +
75A ILE* 1.3 84.5 - - - +
77A LEU* 1.3 60.5 + - - +
79A LEU* 3.4 12.4 + - + +
80A ALA* 3.3 18.0 + - - +
131A LEU* 3.6 33.9 - - + -
135A ARG* 4.2 7.9 - - - +
306A TYR* 4.0 14.6 - - + +
307A ILE* 3.8 31.4 - - + +
310A ASN* 3.8 25.1 - - - +
313A PHE* 4.3 13.2 - - + -
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Residues in contact with LEU 77 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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58A THR* 4.3 10.1 - - + +
59A LEU* 3.7 23.8 - - + +
62A THR* 3.3 44.2 - - + +
69A ARG* 5.5 3.6 - - + -
73A ASN* 2.8 33.6 + - + +
74A TYR* 3.5 20.2 - - + +
75A ILE 3.3 0.2 - - - -
76A LEU* 1.3 70.7 - - - +
78A ASN* 1.3 64.7 + - - +
80A ALA* 3.2 7.8 + - - +
81A VAL* 3.1 27.3 + - - +
313A PHE* 5.1 4.5 - - + -
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Residues in contact with ASN 78 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74A TYR 3.0 13.2 + - - +
75A ILE* 3.3 10.4 + - - +
77A LEU* 1.3 78.3 - - - +
79A LEU* 1.3 55.2 + - - +
81A VAL* 3.4 9.6 + - - +
82A ALA* 3.0 27.4 + - - +
123A ILE* 3.5 5.7 - - - +
127A SER* 3.2 17.8 + - - +
157A VAL* 3.6 27.5 - - + +
160A THR* 3.4 27.3 + - - +
161A TRP* 2.8 27.9 + - - +
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Residues in contact with LEU 79 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75A ILE 3.1 12.3 + - - +
76A LEU* 3.4 14.6 - - + +
77A LEU 3.2 0.2 - - - -
78A ASN* 1.3 77.6 - - - +
80A ALA* 1.3 60.0 + - - +
82A ALA* 3.3 4.0 + - - +
83A ASP* 3.0 41.5 + - - +
124A ALA* 3.6 43.7 - - + +
127A SER* 3.9 10.7 + - - -
128A LEU* 3.9 24.0 - - + -
302A ASN* 4.9 12.1 - - + +
303A PRO* 5.2 0.4 - - + -
306A TYR* 4.0 23.3 - - + -
307A ILE* 4.7 12.1 - - + -
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Residues in contact with ALA 80 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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55A ASN* 3.7 35.5 - - - +
58A THR* 4.1 19.7 - - + -
59A LEU* 4.1 9.2 - - + -
76A LEU 3.3 9.6 + - - +
77A LEU 3.2 8.9 + - - +
79A LEU* 1.3 80.4 - - - +
81A VAL* 1.3 61.1 + - - +
83A ASP 3.5 0.7 + - - -
84A LEU* 3.1 30.3 + - - +
307A ILE* 5.8 3.1 - - + +
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Residues in contact with VAL 81 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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59A LEU* 4.0 22.7 - - + -
77A LEU 3.1 15.5 + - - +
78A ASN* 3.7 12.8 - - - +
79A LEU 3.3 0.2 - - - -
80A ALA* 1.3 75.4 - - - +
82A ALA* 1.3 62.9 + - - +
84A LEU* 3.3 10.6 + - + +
85A PHE* 3.2 47.5 + - + -
123A ILE* 6.4 0.7 - - + -
161A TRP* 4.9 14.6 - - + +
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Residues in contact with ALA 82 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78A ASN 3.0 17.1 + - - +
79A LEU 3.5 6.3 - - - +
80A ALA 3.3 0.2 - - - -
81A VAL* 1.3 77.2 - - - +
83A ASP* 1.3 61.2 + - - +
85A PHE* 3.3 16.8 + - - +
86A MET* 3.3 4.0 + - - +
120A GLY* 3.3 40.3 - - - +
123A ILE* 3.5 24.2 - - + +
124A ALA* 3.6 11.7 - - + +
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Residues in contact with ASP 83 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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55A ASN* 3.3 26.9 - - - +
79A LEU* 3.0 27.7 + - - +
81A VAL 3.3 0.2 - - - -
82A ALA* 1.3 72.6 - - - +
84A LEU* 1.3 64.3 + - - +
86A MET* 3.2 14.5 + - - +
87A VAL* 3.2 26.0 + - - +
124A ALA* 4.0 16.5 - - - +
298A ALA 4.9 0.7 - - - +
299A ALA* 3.9 27.4 - - + +
302A ASN* 5.5 1.3 + - - +
303A PRO* 3.4 23.5 - - - +
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Residues in contact with LEU 84 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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51A GLY 5.0 0.2 - - - +
52A PHE* 3.9 36.1 - - + +
55A ASN* 3.7 23.1 - - + +
56A PHE* 4.0 14.1 - - + +
59A LEU* 3.4 32.1 - - + -
80A ALA 3.1 18.2 + - - +
81A VAL* 3.5 10.8 - - + +
82A ALA 3.3 0.2 - - - -
83A ASP* 1.3 78.8 - - - +
85A PHE* 1.3 57.9 + - + +
87A VAL* 3.3 5.4 + - + +
88A LEU* 3.0 42.2 + - + +
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Residues in contact with PHE 85 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81A VAL* 3.2 43.7 + - + -
82A ALA* 3.5 11.2 - - - +
83A ASP 3.3 0.2 - - - -
84A LEU* 1.3 77.6 - - + +
86A MET* 1.3 59.2 + - - +
88A LEU* 5.1 5.2 - - + -
89A GLY* 2.9 31.4 + - - +
90A GLY 3.5 1.0 + - - -
116A PHE* 4.2 27.9 - + + +
119A LEU* 5.0 18.2 - - + -
120A GLY* 4.3 9.9 - - - +
123A ILE* 5.1 10.1 - - + -
161A TRP* 5.5 6.7 - + - -
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Residues in contact with MET 86 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82A ALA 3.3 10.3 + - - +
83A ASP* 3.2 17.8 + - - +
85A PHE* 1.3 79.1 - - - +
87A VAL* 1.3 55.7 + - - +
90A GLY* 3.2 8.2 + - - +
91A PHE* 2.9 51.0 + - + -
116A PHE 4.9 2.9 - - - -
117A ALA* 4.3 15.9 - - + +
120A GLY* 3.7 17.3 - - - +
121A GLY* 3.8 20.9 - - - +
124A ALA* 5.3 1.8 - - - -
295A ALA* 4.4 14.4 - - + +
296A LYS* 4.5 7.2 - - + -
299A ALA* 3.9 26.2 - - + -
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Residues in contact with VAL 87 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47A LEU 4.5 1.6 - - - +
48A ILE* 4.4 23.1 - - + -
51A GLY* 4.1 28.5 - - - -
52A PHE* 4.1 28.3 - - + +
55A ASN* 4.9 0.9 - - - +
83A ASP 3.2 16.0 + - - +
84A LEU* 3.3 9.4 + - - +
86A MET* 1.3 74.6 - - - +
88A LEU* 1.3 69.2 - - + +
91A PHE* 3.2 22.0 + - + -
92A THR* 3.2 29.5 + - + +
299A ALA* 6.0 1.1 - - + -
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Residues in contact with LEU 88 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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52A PHE* 4.7 26.5 - - + -
84A LEU* 3.0 22.7 + - + +
85A PHE* 5.1 5.8 - - + -
87A VAL* 1.3 85.3 - - + +
89A GLY* 1.3 59.9 + - - +
92A THR* 2.6 29.1 + - + -
93A SER* 4.6 2.8 + - - -
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Residues in contact with GLY 89 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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85A PHE* 2.9 16.5 + - - +
88A LEU* 1.3 78.8 - - - +
90A GLY* 1.3 58.7 + - - +
93A SER* 3.7 10.8 + - - -
113A GLN* 3.4 23.7 - - - +
116A PHE* 4.0 29.0 - - - -
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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
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Atomic class I II III IV V VI VII VIII
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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