Contacts of the strand formed by residues 144 - 161 (chain E) in PDB entry 5HK5
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 PHE 144 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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134E GLU* 3.0 38.4 - - + +
135E LEU 3.5 10.1 - - - +
136E GLU* 5.7 0.2 - - - -
137E CYS* 3.8 4.6 + - - -
142E PRO* 2.7 43.8 + - + +
143E PRO* 1.3 83.6 - - + +
145E ARG* 1.3 79.6 + - - +
146E ILE* 4.5 15.9 - - + -
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Residues in contact with ARG 145 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84E GLU* 4.6 19.1 + - + +
87E CYS* 3.6 28.5 - - - -
133E VAL 3.7 1.4 - - - +
134E GLU* 3.6 3.9 - - - -
135E LEU* 3.3 32.3 + - + +
137E CYS* 3.6 1.5 - - - -
140E LEU* 3.4 45.3 + - + +
141E ASP 3.9 13.5 + - - -
142E PRO* 3.7 15.6 + - - +
144E PHE* 1.3 89.8 + - - +
146E ILE* 1.3 68.1 + - - +
147E LYS* 4.4 0.5 - - - +
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Residues in contact with ILE 146 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132E ILE* 4.8 25.4 - - + -
133E VAL 3.7 4.3 - - - -
134E GLU* 4.4 9.9 - - + +
144E PHE* 4.4 20.9 - - + -
145E ARG* 1.3 76.5 - - - +
147E LYS* 1.3 67.4 + - - +
148E LYS* 4.3 22.2 - - + +
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Residues in contact with LYS 147 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82E VAL* 3.6 30.7 - - + -
83E SER 4.0 6.9 + - - +
84E GLU* 1.9 54.5 + - + +
131E VAL 3.3 3.5 - - - +
132E ILE* 3.6 3.1 - - - -
133E VAL* 2.7 45.9 + - + +
135E LEU* 4.3 3.4 - - + -
145E ARG* 4.4 5.4 - - + +
146E ILE* 1.3 82.0 - - - +
148E LYS* 1.3 64.4 + - - +
149E ILE* 3.7 11.3 + - + +
109F HIS* 5.9 4.9 - - - -
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Residues in contact with LYS 148 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130E SER* 3.8 18.8 - - - +
131E VAL 3.7 5.6 - - - -
132E ILE* 4.5 19.5 - - + +
146E ILE* 4.3 19.7 - - + +
147E LYS* 1.3 72.8 - - - +
149E ILE* 1.3 67.9 + - - +
150E GLN 4.2 0.7 + - - -
108F ARG* 5.0 7.8 + - - -
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Residues in contact with ILE 149 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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80E GLN* 3.5 27.8 - - - +
82E VAL* 4.1 34.5 - - + -
92E ILE* 5.3 6.5 - - + -
94E ASN* 4.0 6.5 - - - +
129E THR 3.5 0.3 - - - +
130E SER* 3.4 5.3 - - - -
131E VAL* 2.9 38.7 + - + +
133E VAL* 4.2 18.8 - - + -
147E LYS* 4.3 14.8 - - + +
148E LYS* 1.3 83.5 - - - +
150E GLN* 1.3 77.0 + - - +
151E LYS* 3.6 6.0 + - + -
109F HIS* 5.5 8.7 - - + +
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Residues in contact with GLN 150 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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80E GLN* 5.2 0.2 + - - -
94E ASN* 2.9 21.5 + - - -
128E VAL* 3.6 27.2 - - + +
129E THR 3.4 5.2 - - - +
130E SER* 4.8 3.4 - - - +
148E LYS 4.2 1.2 + - - -
149E ILE* 1.3 76.3 - - - +
151E LYS* 1.3 57.8 + - - +
152E VAL* 4.4 0.6 + - - -
105F TYR* 4.5 11.1 + - - -
107F PRO* 4.7 8.6 - - + +
108F ARG* 3.3 48.2 + - + +
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Residues in contact with LYS 151 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75D MET* 3.2 46.1 - - - +
76D ASP* 5.3 1.6 - - - -
92E ILE* 5.1 3.1 - - + -
93E LEU 3.7 14.9 + - - +
94E ASN* 3.5 21.3 - - + +
95E ARG* 3.4 27.8 - - - +
128E VAL* 3.4 5.7 - - - +
129E THR* 2.7 48.8 + - + +
131E VAL* 3.7 28.0 - - + -
149E ILE* 4.4 6.1 - - + +
150E GLN* 1.3 76.5 - - - +
152E VAL* 1.3 63.7 + - - +
153E LYS* 3.6 16.4 + - - +
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Residues in contact with VAL 152 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75E THR* 4.4 7.2 - - - +
94E ASN* 3.2 6.3 + - - +
95E ARG* 3.1 53.3 + - + +
97E CYS* 3.8 6.3 - - - -
125E PRO* 4.1 14.4 - - + -
127E ARG 4.0 4.0 - - - -
128E VAL* 4.8 4.3 - - + +
150E GLN 5.8 0.4 - - - +
151E LYS* 1.3 73.7 + - - +
153E LYS* 1.3 60.8 + - - +
154E HIS 4.2 4.0 - - - +
155E CYS* 3.8 28.5 - - - -
105F TYR* 3.7 31.6 - - + -
107F PRO* 4.1 5.4 - - + -
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Residues in contact with LYS 153 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30B ASP* 5.0 15.7 + - - +
75D MET* 5.8 4.6 - - - +
76D ASP* 6.0 4.0 + - - +
75E THR* 4.1 17.7 + - - +
95E ARG* 3.6 31.8 + - - +
127E ARG* 3.2 43.2 + - + +
129E THR* 3.6 20.2 - - + -
151E LYS* 4.3 14.7 - - - +
152E VAL* 1.3 77.9 - - - +
154E HIS* 1.3 87.5 + - + +
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Residues in contact with HIS 154 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29B LYS 6.0 0.9 - - - -
30B ASP* 4.9 4.3 + - - -
75E THR* 5.0 4.9 - - - +
125E PRO* 3.3 9.2 - - - +
126E GLN* 2.9 44.6 + - + +
127E ARG* 3.7 12.6 + - + +
152E VAL* 4.2 0.3 - - - +
153E LYS* 1.3 96.1 + - + +
155E CYS* 1.3 66.9 + - - +
126G GLN* 2.8 44.1 + - + +
156G ARG* 3.3 30.2 + - - -
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Residues in contact with CYS 155 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73E CYS* 3.4 29.3 + - - +
74E LYS* 3.9 11.4 - - - +
75E THR* 4.0 12.5 - - - +
97E CYS* 2.0 55.4 - - + -
123E CYS* 4.0 0.7 - - - -
124E LYS 3.3 5.8 - - - +
126E GLN* 4.1 5.3 - - - +
152E VAL* 3.8 9.6 - - - -
154E HIS* 1.3 78.9 - - - +
156E ARG* 1.3 65.9 + - - +
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Residues in contact with ARG 156 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27A ASN* 3.2 18.5 - - - +
29A LYS* 3.4 46.0 + - - +
30A ASP* 2.8 25.9 + - - -
73E CYS* 3.3 12.1 - - - -
122E PHE 3.6 0.2 - - - +
124E LYS* 3.0 32.2 + - + +
126E GLN* 3.9 33.5 + - + +
155E CYS* 1.3 77.1 - - - +
157E CYS* 1.3 65.9 + - - +
158E MET* 3.6 12.2 + - + +
154G HIS* 3.3 27.7 + - - -
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Residues in contact with CYS 157 (chain E).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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29A LYS* 2.8 35.2 + - - +
41A LEU* 3.6 3.3 - - + +
71E ASP* 3.3 33.7 - - + +
72E TRP 3.8 3.1 - - - -
73E CYS* 3.6 17.8 - - - +
101E CYS* 2.1 52.5 - - + -
122E PHE 3.6 6.3 - - - -
156E ARG* 1.3 74.0 - - - +
158E MET* 1.3 63.6 + - - +
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Residues in contact with MET 158 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27A ASN* 3.3 39.3 - - - +
29A LYS* 3.9 17.9 - - - -
41A LEU* 3.4 27.6 - - - +
42A GLU* 3.2 29.8 - - + +
121E ALA* 3.2 4.2 - - - +
122E PHE* 3.0 52.0 + - + +
124E LYS* 4.3 14.6 - - + -
156E ARG* 4.3 15.7 - - - +
157E CYS* 1.3 83.2 - - - +
159E SER* 1.3 64.6 + - - +
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Residues in contact with SER 159 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38A ILE 4.4 1.7 + - - -
39A ALA* 4.4 5.2 - - - +
40A PRO* 3.8 4.7 - - - +
41A LEU* 3.2 45.0 + - - +
42A GLU* 3.3 12.0 + - - +
102E ASN 5.1 1.8 - - - -
119E SER* 4.7 9.4 - - - -
120E CYS 3.1 15.5 - - - -
121E ALA* 3.8 11.9 - - - -
122E PHE* 3.8 3.1 - - - -
158E MET* 1.3 79.8 - - - +
160E VAL* 1.3 69.3 + - - +
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Residues in contact with VAL 160 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40A PRO* 3.9 10.8 - - - -
42A GLU* 3.5 33.7 - - + +
43A TYR* 5.9 0.9 - - - -
119E SER* 3.2 7.2 - - - -
120E CYS* 2.8 47.4 + - + +
122E PHE* 4.0 13.5 - - + -
159E SER* 1.3 79.5 - - - +
161E ASN* 1.3 61.1 + - - +
162E LEU* 3.9 31.9 - - + -
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Residues in contact with ASN 161 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40A PRO* 4.2 12.2 - - + +
42A GLU 5.2 0.2 + - - -
94A SER* 5.1 8.9 + - - +
116E SER 4.9 3.2 + - - +
117E PHE* 3.5 37.7 - - + +
118E GLN* 2.9 33.1 + - - +
120E CYS* 6.0 0.2 - - - -
160E VAL* 1.3 75.4 - - - +
162E LEU* 1.3 79.9 + - - +
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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
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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