Contacts of the strand formed by residues 144 - 161 (chain G) 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 G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134G GLU* 3.0 38.4 - - + +
135G LEU 3.5 10.8 - - - +
137G CYS* 3.8 4.8 + - - -
142G PRO* 2.7 40.7 + - + +
143G PRO* 1.3 82.2 - - + +
145G ARG* 1.3 81.4 + - - +
146G ILE* 4.4 15.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 145 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84G GLU* 4.2 25.4 + - + +
85G GLU* 5.5 5.3 + - - -
87G CYS* 3.5 28.3 - - - -
133G VAL 3.7 1.0 - - - +
134G GLU* 3.6 3.8 - - - -
135G LEU* 3.4 33.3 + - + +
137G CYS* 3.6 1.3 - - - -
140G LEU* 3.0 37.8 - - - +
141G ASP 3.9 13.3 + - - +
142G PRO* 3.7 11.3 + - - +
144G PHE* 1.3 89.4 + - - +
146G ILE* 1.3 66.9 + - - +
147G LYS* 4.4 3.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 146 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132G ILE* 4.8 25.1 - - + -
133G VAL 3.7 4.0 - - - -
134G GLU* 4.4 10.3 - - + +
144G PHE* 4.3 22.4 - - + -
145G ARG* 1.3 74.6 - - - +
147G LYS* 1.3 67.9 + - - +
148G LYS* 4.3 22.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 147 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82G VAL* 3.6 29.6 - - + -
83G SER 2.9 29.8 + - - +
84G GLU* 3.0 29.6 + - + +
131G VAL 3.3 3.6 - - - +
132G ILE* 3.5 3.6 - - - -
133G VAL* 2.7 47.1 + - - +
135G LEU* 4.3 6.7 - - + -
145G ARG* 4.4 8.1 - - + +
146G ILE* 1.3 80.7 - - - +
148G LYS* 1.3 62.6 + - - +
149G ILE* 3.7 9.8 + - + -
109H HIS* 6.2 1.8 - - - -
112H LYS* 5.0 3.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 148 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130G SER* 3.8 18.2 - - - +
131G VAL 3.7 5.4 - - - -
132G ILE* 4.5 20.4 - - + +
146G ILE* 4.3 19.6 - - + +
147G LYS* 1.3 73.0 - - - +
149G ILE* 1.3 68.0 + - - +
150G GLN 4.2 0.6 + - - -
108H ARG* 5.0 9.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 149 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80G GLN* 3.5 27.1 - - - +
82G VAL* 4.1 34.8 - - + -
92G ILE* 5.3 6.3 - - + -
94G ASN* 4.0 6.3 - - - +
129G THR 3.5 0.5 - - - +
130G SER* 3.4 5.9 - - - -
131G VAL* 2.9 39.1 + - + +
133G VAL* 4.2 18.4 - - + -
147G LYS* 4.3 13.0 - - + +
148G LYS* 1.3 82.9 - - - +
150G GLN* 1.3 77.4 + - - +
151G LYS* 3.6 5.3 + - + -
109H HIS* 5.5 9.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 150 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80G GLN* 5.2 0.3 + - - -
94G ASN* 2.9 21.5 + - - -
128G VAL* 3.7 25.9 - - + +
129G THR 3.4 4.9 - - - +
130G SER* 4.8 3.6 - - - +
148G LYS 4.2 0.6 + - - -
149G ILE* 1.3 76.0 - - - +
151G LYS* 1.3 58.6 + - - +
152G VAL* 4.3 0.7 - - - -
105H TYR* 4.5 13.7 + - - -
107H PRO* 4.7 9.1 - - + +
108H ARG* 2.9 52.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 151 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C MET* 3.2 45.2 + - - +
76C ASP* 5.4 0.9 - - - -
92G ILE* 5.1 3.8 - - + -
93G LEU 3.7 15.6 + - - +
94G ASN* 3.5 20.6 - - - +
95G ARG* 3.4 28.2 - - - +
128G VAL* 3.4 5.6 - - - +
129G THR* 2.7 51.1 + - - +
131G VAL* 3.6 25.6 - - + -
149G ILE* 4.4 6.5 - - + +
150G GLN* 1.3 76.6 - - - +
152G VAL* 1.3 63.5 + - - +
153G LYS* 3.6 15.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 152 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75G THR* 4.4 6.5 - - - +
94G ASN* 3.3 6.0 + - - +
95G ARG* 3.1 52.8 + - + +
97G CYS* 3.8 6.1 - - - -
125G PRO* 4.1 14.1 - - + -
127G ARG 4.0 3.8 - - - -
128G VAL* 4.9 4.0 - - + +
150G GLN 5.9 0.2 - - - -
151G LYS* 1.3 73.4 + - - +
153G LYS* 1.3 60.6 + - - +
154G HIS 4.2 4.0 - - - +
155G CYS* 3.8 29.2 - - - -
105H TYR* 3.7 31.0 - - + +
107H PRO* 4.0 6.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 153 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A ASP* 5.1 16.3 + - - +
75C MET* 5.7 5.5 - - - +
76C ASP* 5.9 4.4 - - - +
75G THR* 4.1 17.0 + - - +
95G ARG* 3.6 31.3 + - - +
127G ARG* 3.2 44.2 + - + +
129G THR* 3.8 18.4 - - + +
151G LYS* 4.3 16.1 - - - +
152G VAL* 1.3 76.4 - - - +
154G HIS* 1.3 88.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 154 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A ASP* 4.9 4.3 - - - -
126E GLN* 3.0 43.2 + - + -
156E ARG* 3.3 29.3 + - - -
75G THR* 5.0 5.4 - - + -
125G PRO* 3.3 8.8 - - - +
126G GLN* 2.9 45.0 + - + +
127G ARG* 3.7 10.8 + - - +
152G VAL* 4.2 0.3 - - - +
153G LYS* 1.3 97.7 + - + +
155G CYS* 1.3 66.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 155 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73G CYS* 3.4 30.2 - - - +
74G LYS* 3.9 12.3 - - - +
75G THR* 4.0 11.6 - - - +
97G CYS* 2.0 55.0 - - + -
123G CYS* 4.0 0.7 - - - -
124G LYS 3.3 5.4 - - - +
126G GLN* 4.1 5.7 + - - +
152G VAL* 3.8 9.6 - - - -
154G HIS* 1.3 78.4 - - - +
156G ARG* 1.3 65.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 156 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27B ASN* 3.2 19.3 - - - +
29B LYS* 3.4 46.8 + - - +
30B ASP* 2.9 25.1 + - - -
154E HIS* 3.3 28.7 + - - -
73G CYS* 3.3 12.6 - - - -
122G PHE 3.6 0.2 - - - +
124G LYS* 2.9 30.9 + - + +
126G GLN* 3.9 38.4 + - + +
155G CYS* 1.3 76.9 - - - +
157G CYS* 1.3 66.2 + - - +
158G MET* 3.6 13.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 157 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B LYS* 2.8 33.6 + - - +
41B LEU* 4.1 2.5 - - + -
71G ASP* 3.3 33.9 - - + +
72G TRP 3.8 2.5 - - - -
73G CYS* 3.6 18.7 - - - +
101G CYS* 2.1 51.8 - - + -
122G PHE 3.6 5.4 - - - -
156G ARG* 1.3 73.8 - - - +
158G MET* 1.3 63.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 158 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27B ASN* 3.3 37.7 - - - +
29B LYS* 4.0 18.4 - - - -
41B LEU* 3.5 28.9 - - - +
42B GLU* 3.2 30.1 - - + +
121G ALA* 3.2 3.6 - - - +
122G PHE* 3.0 53.4 + - + +
124G LYS* 4.3 14.4 - - + +
156G ARG* 4.3 15.3 - - - +
157G CYS* 1.3 82.1 - - - +
159G SER* 1.3 66.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 159 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38B ILE 4.4 1.9 + - - -
39B ALA* 4.4 5.9 - - - +
40B PRO* 3.9 5.1 - - - +
41B LEU* 3.2 44.6 + - - +
42B GLU* 3.3 11.8 + - - +
102G ASN 5.1 2.0 - - - -
119G SER* 4.7 8.3 - - - -
120G CYS 3.1 16.2 - - - -
121G ALA* 3.8 11.2 - - - -
122G PHE* 3.8 3.3 - - - -
158G MET* 1.3 80.5 - - - +
160G VAL* 1.3 70.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 160 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B PRO* 3.9 10.5 - - - -
42B GLU* 3.5 32.3 - - + +
43B TYR* 5.9 0.7 - - - -
119G SER* 3.2 7.1 - - - -
120G CYS* 2.8 47.1 + - + +
122G PHE* 4.0 12.8 - - + -
159G SER* 1.3 80.1 - - - +
161G ASN* 1.3 62.3 + - - +
162G LEU* 3.9 31.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 161 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B PRO* 4.2 12.2 - - + +
42B GLU 5.2 0.4 + - - -
93B ILE* 6.3 0.4 - - - +
94B SER* 5.0 9.5 + - - +
116G SER 4.9 3.4 + - - +
117G PHE* 3.5 38.0 - - + +
118G GLN 2.9 32.9 + - - +
120G CYS* 6.0 0.4 - - - -
160G VAL* 1.3 75.2 - - - +
162G LEU* 1.3 78.6 + - - +
----------------------------------------------------------
Back to top of page
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