Contacts of the strand formed by residues 2234 - 2249 (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 VAL2234 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2232A ASP 3.9 0.9 + - - +
2233A LYS* 1.3 73.2 - - - +
2235A VAL* 1.3 69.2 + - - +
2268A LYS* 4.6 16.4 - - + -
2269A VAL 4.0 9.9 - - - +
2270A GLN* 3.8 11.9 - - - +
2271A PRO* 3.8 27.6 - - + -
2336A VAL* 3.4 4.2 - - - +
2337A SER* 2.4 54.3 + - - +
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Residues in contact with VAL2235 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2204A LEU* 5.2 9.6 - - + -
2227A VAL* 5.5 2.9 - - + -
2229A ASN* 3.9 22.0 - - - +
2234A VAL* 1.3 90.7 - - - +
2236A LYS* 1.3 61.5 + - - +
2237A LYS* 3.6 20.2 - - - +
2238A ILE* 4.5 9.0 - - + -
2267A GLU 5.7 0.9 - - - +
2268A LYS* 3.7 9.9 - - - +
2269A VAL* 3.7 26.0 + - + +
2334A LEU* 4.4 16.4 - - + -
2335A THR 3.3 17.5 - - - +
2336A VAL* 3.8 14.8 - - + +
2337A SER 3.7 2.7 - - - +
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Residues in contact with LYS2236 (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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2234A VAL* 5.3 0.2 - - - -
2235A VAL* 1.3 74.7 - - - +
2237A LYS* 1.3 70.7 + - + +
2266A GLN* 4.2 8.8 + - - +
2267A GLU 3.8 9.2 - - - +
2268A LYS* 4.3 5.1 - - - +
2335A THR* 2.5 36.3 + - + +
2337A SER* 3.3 26.8 - - - +
2345A SER* 5.5 4.9 - - - +
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Residues in contact with LYS2237 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2235A VAL* 3.6 7.2 - - - +
2236A LYS* 1.3 89.1 - - + +
2238A ILE* 1.3 65.3 + - - +
2239A LYS* 5.3 2.7 - - + +
2264A GLU* 3.3 35.9 + - + +
2265A THR 3.4 15.9 - - - +
2266A GLN* 4.4 26.3 + - - +
2267A GLU 4.0 6.5 - - - -
2334A LEU* 3.7 1.0 - - - -
2335A THR* 3.0 51.2 + - + +
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Residues in contact with ILE2238 (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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2225A VAL* 4.5 20.9 - - + -
2227A VAL* 4.1 25.6 - - + -
2235A VAL* 4.5 8.3 - - + -
2237A LYS* 1.3 80.1 - - - +
2239A LYS* 1.3 62.7 + - - +
2240A VAL* 4.2 4.0 + - + -
2264A GLU* 3.4 1.9 - - - -
2265A THR* 3.0 49.1 + - + +
2267A GLU 4.8 5.2 - - - +
2269A VAL* 4.2 12.8 - - + -
2275A LEU* 4.3 13.2 - - + -
2277A LYS* 6.0 1.3 - - + -
2279A LEU* 4.3 4.5 - - + +
2332A VAL* 4.0 15.7 - - + -
2333A LYS 3.9 2.0 - - - -
2334A LEU* 3.7 25.4 - - + -
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Residues in contact with LYS2239 (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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2237A LYS* 4.1 4.4 - - + -
2238A ILE* 1.3 73.6 - - - +
2240A VAL* 1.3 70.3 + - - +
2241A SER* 5.3 3.6 - - - -
2262A SER* 4.1 25.4 + - - -
2263A GLU 4.2 0.4 - - - +
2264A GLU* 3.6 44.2 + - + +
2331A LYS 4.0 0.2 - - - +
2332A VAL* 3.5 2.5 - - - +
2333A LYS* 2.8 73.5 + - + +
2335A THR* 5.5 3.4 - - - +
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Residues in contact with VAL2240 (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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2223A VAL* 3.9 13.9 - - + +
2225A VAL* 5.5 3.8 - - + -
2238A ILE* 4.9 2.9 - - + -
2239A LYS* 1.3 79.6 - - - +
2241A SER* 1.3 67.3 + - - +
2262A SER* 3.4 3.1 - - - -
2263A GLU 2.8 36.1 + - - +
2279A LEU* 3.7 28.3 - - + -
2281A LEU* 3.6 29.2 - - + -
2330A ILE* 3.7 25.4 - - + -
2331A LYS 3.8 3.8 - - - +
2332A VAL* 4.0 17.7 - - + +
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Residues in contact with SER2241 (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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2239A LYS* 5.3 4.3 - - - -
2240A VAL* 1.3 81.0 - - - +
2242A VAL* 1.3 61.4 + - - +
2243A GLU* 3.3 22.5 + - - +
2259A PRO* 5.2 5.2 - - - -
2261A ALA 3.4 9.4 - - - -
2262A SER* 4.1 9.2 - - - -
2281A LEU* 4.1 1.1 - - - -
2330A ILE* 3.7 1.4 - - - -
2331A LYS* 2.8 59.9 + - - +
2333A LYS* 4.4 11.2 - - - -
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Residues in contact with VAL2242 (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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2221A ILE* 4.4 8.3 - - + -
2241A SER* 1.3 68.8 - - - +
2243A GLU* 1.3 54.6 + - - +
2259A PRO* 4.7 0.2 - - - -
2260A VAL* 2.7 34.2 + - + +
2261A ALA* 2.7 23.8 + - + +
2281A LEU* 3.7 31.4 - - + -
2283A PRO* 4.2 18.4 - - + -
2328A TYR* 4.3 11.9 - - + -
2329A HIS 4.0 2.9 - - - -
2330A ILE* 3.7 18.4 - - + -
2354A PHE* 3.6 29.4 - - + -
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Residues in contact with GLU2243 (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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2241A SER* 3.3 21.9 + - - +
2242A VAL* 1.3 72.6 - - - +
2244A GLN* 1.4 64.0 - - - +
2245A ILE 3.6 0.7 + - - -
2257A VAL* 3.5 17.3 - - + +
2258A LYS 3.3 7.2 - - - +
2259A PRO* 4.0 18.9 - - + +
2260A VAL* 4.6 0.4 - - - -
2328A TYR* 3.7 5.1 - - - +
2329A HIS* 3.0 65.1 + - + +
2331A LYS* 3.3 29.8 + - + +
2333A LYS* 4.7 7.8 + - - -
2351A GLU* 4.4 0.7 - - - +
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Residues in contact with GLN2244 (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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2243A GLU* 1.4 68.9 - - - +
2245A ILE* 1.3 63.6 + - - +
2246A ALA* 3.3 9.0 + - - +
2256A TYR 3.7 0.3 - - - +
2258A LYS* 2.4 52.7 + - - +
2260A VAL* 3.5 24.0 - - + +
2293A GLY 4.3 4.8 + - - -
2294A ILE* 4.1 18.7 - - - +
2295A ALA* 3.1 51.2 + - - +
2307A LEU* 5.1 1.4 - - - +
2308A ALA* 4.3 1.0 - - - +
2326A VAL* 4.1 11.9 - - + -
2327A SER 3.9 2.9 - - - +
2328A TYR* 3.3 30.1 + - + -
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Residues in contact with ILE2245 (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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2243A GLU 3.6 3.0 + - - -
2244A GLN* 1.3 70.4 - - - +
2246A ALA* 1.4 67.6 + - - +
2247A ASN* 3.4 8.2 + - + +
2255A TYR* 4.1 31.2 - - + -
2256A TYR 3.7 10.3 - - - +
2257A VAL* 4.1 10.3 - - + +
2326A VAL* 3.8 3.8 - - - +
2327A SER* 3.0 60.7 + - - +
2329A HIS* 4.5 20.6 + - + +
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Residues in contact with ALA2246 (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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2133A LEU* 5.5 4.3 - - + -
2244A GLN* 3.3 18.0 + - - +
2245A ILE* 1.4 67.4 - - - +
2247A ASN* 1.4 55.0 + - - +
2248A VAL* 3.4 13.1 + - + -
2255A TYR 3.2 0.3 - - - -
2256A TYR* 2.3 71.8 + - + +
2258A LYS* 6.2 1.6 - - + -
2293A GLY 4.9 9.2 - - - +
2295A ALA* 4.9 9.9 - - + -
2324A ILE* 5.5 2.9 - - + -
2325A LEU 3.9 3.4 - - - +
2326A VAL* 5.2 2.5 - - - +
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Residues in contact with ASN2247 (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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2245A ILE* 3.4 8.3 + - + +
2246A ALA* 1.4 67.9 - - - +
2248A VAL* 1.4 65.0 + - - +
2249A VAL* 3.6 19.8 + - - +
2253A SER* 3.8 8.3 + - - -
2254A ASP 3.9 6.3 + - - -
2255A TYR* 3.2 41.3 - - + +
2323A GLY 3.9 0.3 - - - +
2325A LEU* 2.9 68.2 + - + +
2326A VAL 6.1 0.4 - - - -
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Residues in contact with VAL2248 (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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142A PRO* 3.9 28.3 - - + -
143A MET* 4.6 9.9 - - + -
2066A PHE* 4.2 7.6 - - + -
2133A LEU* 5.2 9.2 - - + -
2246A ALA* 3.4 11.1 + - + +
2247A ASN* 1.4 75.3 - - - +
2249A VAL* 1.4 59.4 - - - +
2252A SER 3.8 0.5 - - - +
2254A ASP* 2.6 52.3 + - + +
2256A TYR* 3.8 25.4 - - + -
2323A GLY 4.2 1.3 - - - -
2324A ILE* 4.1 33.4 - - + +
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Residues in contact with VAL2249 (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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2066A PHE* 4.3 2.4 - - - -
2247A ASN* 3.6 26.9 - - - +
2248A VAL* 1.4 80.3 - - - +
2250A LEU* 1.3 69.4 + - - +
2251A TYR 5.4 0.7 - - - -
2252A SER* 3.8 16.4 - - - +
2253A SER* 4.1 14.4 - - - +
2320A THR* 5.5 5.2 - - + +
2321A VAL 4.3 19.7 - - - +
2322A MET* 4.0 9.8 - - + -
2323A GLY* 2.8 43.9 + - - +
2325A LEU* 4.8 3.1 - - + -
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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