Contacts of the helix formed by residues 211 - 221 (chain 1) in PDB entry 1BHQ
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 211 (chain 1).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1381 LEU* 4.5 1.4 - - + +
1761 TYR* 2.5 38.4 + - + +
2091 THR* 3.5 14.8 + - - +
2101 HIS* 1.3 70.8 - - - +
2121 ALA* 1.3 60.8 + - - +
2141 GLY* 3.4 1.5 + - - +
2151 ILE* 3.0 34.8 + - + +
2391 VAL* 4.5 8.7 - - + -
2411 THR* 4.7 1.8 - - + +
2431 GLY 4.6 3.1 + - - -
2451 LYS* 4.2 2.8 - - - +
2481 ASP* 3.8 1.0 + - - -
2521 TYR* 3.4 30.5 + - + +
2871 ILE* 4.2 13.5 - - + -
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Residues in contact with ALA 212 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2111 THR* 1.3 73.6 - - - +
2131 THR* 1.3 65.9 + - - +
2141 GLY 2.9 5.1 + - - -
2151 ILE* 2.9 10.6 + - - -
2161 ARG 3.0 9.0 + - - -
2451 LYS* 3.6 16.3 - - + +
2481 ASP* 3.2 13.3 + - - +
2501 LEU* 3.9 7.6 - - + +
2511 GLY 3.7 24.7 - - - +
2521 TYR* 4.2 7.4 - - + -
2551 VAL* 3.3 25.5 - - + +
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Residues in contact with THR 213 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1801 PHE* 3.7 20.6 - - + -
2101 HIS* 4.0 5.2 - - + +
2121 ALA* 1.3 78.4 - - - +
2141 GLY* 1.3 57.2 + - - +
2161 ARG* 3.1 25.7 - - + +
2171 LYS* 3.2 37.0 - - + +
2481 ASP* 2.6 26.7 + - - -
2491 PRO* 4.3 2.3 - - - +
2501 LEU* 3.8 18.0 - - + +
5492 PRO* 4.2 21.9 - - + +
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Residues in contact with GLY 214 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1381 LEU* 4.0 18.2 - - - -
1741 MET* 4.3 1.1 - - - +
1761 TYR* 4.8 0.7 - - - -
1801 PHE* 3.9 21.5 - - - -
2101 HIS 3.3 8.6 + - - -
2111 THR* 3.4 5.4 + - - -
2121 ALA 2.9 1.0 - - - -
2131 THR* 1.3 75.1 - - - +
2151 ILE* 1.3 64.9 + - - +
2161 ARG 3.0 1.3 + - - -
2171 LYS* 3.2 5.7 + - - +
2181 VAL* 3.0 26.9 + - - +
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Residues in contact with ILE 215 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1381 LEU* 4.3 10.1 - - + -
2111 THR* 3.0 31.9 + - + +
2121 ALA 2.9 6.1 + - - +
2141 GLY* 1.3 76.5 - - - +
2161 ARG* 1.3 57.2 + - - +
2181 VAL* 3.5 6.4 + - - +
2191 VAL* 2.9 42.3 + - + +
2371 LEU* 5.0 10.5 - - + -
2391 VAL* 4.3 9.9 - - + -
2521 TYR* 4.6 5.8 - - + -
2551 VAL* 3.9 21.8 - - + -
2561 ILE* 4.5 15.5 - - + -
2591 ALA* 4.7 9.6 - - + -
2661 ARG* 5.1 4.5 - - - -
2871 ILE* 3.5 31.9 - - + -
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Residues in contact with ARG 216 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2121 ALA 3.0 10.5 + - - +
2131 THR* 3.1 20.0 - - + +
2151 ILE* 1.3 76.8 - - - +
2171 LYS* 1.3 56.8 + - + +
2191 VAL* 3.5 5.8 + - - +
2201 ARG* 2.7 76.6 + - - +
2501 LEU* 3.1 28.3 - - + +
2541 ASP 3.4 16.7 + - - -
2551 VAL* 4.3 9.3 - - + +
2581 GLU* 3.1 25.5 + - - +
5492 PRO 3.4 21.7 + - - +
5502 LEU* 4.0 1.0 - - - +
5512 GLY 4.7 0.2 - - - +
5542 ASP* 2.7 37.1 + - - -
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Residues in contact with LYS 217 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1741 MET* 4.0 17.9 - - + +
1801 PHE* 3.6 38.8 - - + -
2131 THR* 3.2 38.1 - - - +
2141 GLY 3.2 4.6 + - - +
2161 ARG* 1.3 76.2 - - + +
2181 VAL* 1.3 64.0 + - - +
2191 VAL 3.1 1.6 - - - -
2201 ARG* 4.0 3.8 - - - +
2211 GLU* 2.7 51.3 + - + +
2221 LEU* 3.4 1.7 + - - +
5492 PRO* 6.1 1.8 - - - +
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Residues in contact with VAL 218 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1361 ALA* 4.4 0.2 - - + -
1371 PHE 5.2 0.7 - - - +
1381 LEU* 3.8 34.3 - - + -
1741 MET* 4.1 8.1 - - + -
2141 GLY 3.0 20.5 + - - +
2151 ILE* 3.8 7.4 - - - +
2171 LYS* 1.3 75.7 - - - +
2191 VAL* 1.3 57.7 + - + +
2221 LEU* 3.1 45.3 + - + +
2231 PHE* 3.2 29.2 + - + -
2371 LEU* 3.2 35.2 - - + -
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Residues in contact with VAL 219 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2151 ILE* 2.9 26.9 - - + +
2161 ARG* 3.5 5.8 - - - +
2171 LYS 3.1 0.2 - - - -
2181 VAL* 1.3 81.7 - - + +
2201 ARG* 1.3 61.3 + - + +
2231 PHE* 4.3 22.9 + - + +
2371 LEU* 5.8 0.9 - - + -
2551 VAL* 5.4 1.3 - - + +
2581 GLU* 4.2 35.7 - - + +
2591 ALA* 4.1 27.8 - - + +
2611 ARG* 4.5 6.7 - - - +
2621 GLU* 4.6 14.3 - - + +
2641 VAL* 4.7 10.8 - - + -
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Residues in contact with ARG 220 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2161 ARG* 2.7 65.1 + - - +
2171 LYS* 4.6 2.7 - - - -
2191 VAL* 1.3 76.2 - - + +
2211 GLU* 1.3 64.6 + - + +
2241 ASN* 3.4 23.2 + - - +
2581 GLU* 3.2 34.4 + - - +
5532 GLU* 4.6 14.5 + - - -
5542 ASP* 4.4 6.7 + - - -
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Residues in contact with GLU 221 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1741 MET* 4.5 7.1 - - - +
1821 ILE* 3.5 26.8 - - + +
2171 LYS* 2.7 33.4 + - + +
2201 ARG* 1.3 79.2 - - + +
2221 LEU* 1.3 59.3 + - + +
2231 PHE 3.6 0.4 - - - -
2241 ASN* 3.0 18.3 - - - +
2271 ASN* 2.6 35.4 + - - +
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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