GREMLIN Database
RARD - Protein RarD
UniProt: P27844 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11466
Length: 296 (268)
Sequences: 37124 (27769)
Seq/√Len: 1696.2

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
93_A154_A3.3611.00
12_L232_A3.0621.00
232_A236_R2.8991.00
257_A263_E2.7151.00
92_W153_I2.6091.00
47_F184_M2.4891.00
89_L156_G2.4171.00
69_T72_K2.3971.00
232_A235_T2.3431.00
40_T191_A2.3021.00
103_S253_M2.2671.00
132_A279_A2.2631.00
21_G252_L2.1821.00
217_I220_G2.1471.00
89_L153_I2.1421.00
27_F91_I2.0761.00
13_A233_A2.0711.00
28_K263_E2.0581.00
112_V158_A2.0551.00
123_E169_K2.0491.00
116_L166_L2.0391.00
85_G160_S1.9271.00
118_M125_F1.9241.00
117_G123_E1.8701.00
44_I187_L1.8641.00
21_G256_L1.8641.00
26_Y218_A1.8451.00
126_R129_Q1.8091.00
113_N243_G1.8081.00
219_A222_V1.7971.00
174_E177_T1.7831.00
97_H101_E1.7771.00
108_I112_V1.7661.00
188_P192_I1.7581.00
114_I133_V1.7551.00
51_V180_L1.7431.00
215_L218_A1.7391.00
52_V55_S1.7271.00
217_I222_V1.7241.00
18_F252_L1.6991.00
192_I195_F1.6881.00
209_P212_L1.6671.00
47_F187_L1.6311.00
218_A222_V1.6191.00
136_A247_Y1.6161.00
92_W96_N1.6141.00
89_L160_S1.6041.00
238_R241_T1.5851.00
266_G269_K1.5841.00
281_A285_M1.5741.00
112_V162_A1.5391.00
51_V55_S1.5351.00
210_M214_L1.5131.00
102_A154_A1.5031.00
132_A283_F1.5011.00
70_P74_F1.4861.00
53_L57_C1.4841.00
168_R231_T1.4511.00
12_L229_C1.4371.00
112_V159_F1.4191.00
267_A271_V1.4141.00
74_F78_V1.4101.00
211_S214_L1.4021.00
208_N212_L1.3891.00
16_A233_A1.3821.00
142_V275_F1.3581.00
117_G121_L1.3551.00
132_A282_I1.3461.00
46_S183_T1.3381.00
75_M167_V1.3371.00
252_L256_L1.3201.00
78_V167_V1.3131.00
25_A256_L1.3111.00
49_F224_T1.3061.00
99_M257_A1.3061.00
98_H101_E1.3041.00
116_L120_F1.3031.00
71_Q74_F1.3021.00
92_W95_N1.2961.00
40_T187_L1.2921.00
70_P73_I1.2881.00
212_L219_A1.2881.00
10_V245_F1.2871.00
142_V268_D1.2871.00
52_V56_I1.2841.00
214_L218_A1.2761.00
127_R131_L1.2751.00
71_Q75_M1.2691.00
48_F52_V1.2681.00
34_P37_E1.2611.00
215_L219_A1.2571.00
28_K31_Y1.2561.00
214_L217_I1.2511.00
128_M282_I1.2491.00
162_A166_L1.2491.00
136_A279_A1.2471.00
45_W220_G1.2351.00
274_A278_V1.2321.00
20_W226_P1.2311.00
270_M274_A1.2301.00
134_I138_C1.2201.00
100_L254_F1.2161.00
130_W134_I1.2141.00
104_L273_F1.2111.00
248_I252_L1.2071.00
22_I256_L1.2061.00
96_N153_I1.2051.00
139_G272_T1.1981.00
256_L260_F1.1971.00
82_L163_F1.1701.00
72_K173_V1.1661.00
265_P270_M1.1651.00
90_F94_V1.1611.00
11_L15_A1.1611.00
119_I122_G1.1591.00
77_A185_W1.1531.00
42_R223_T1.1481.00
40_T44_I1.1481.00
125_F130_W1.1391.00
127_R130_W1.1351.00
189_V192_I1.1341.00
33_V212_L1.1281.00
143_Q272_T1.1281.00
210_M213_N1.1111.00
16_A229_C1.0971.00
94_V102_A1.0961.00
47_F180_L1.0921.00
121_L166_L1.0911.00
97_H154_A1.0871.00
193_Y197_I1.0871.00
40_T194_L1.0841.00
75_M171_I1.0821.00
55_S59_Q1.0771.00
116_L163_F1.0751.00
84_G189_V1.0731.00
36_D193_Y1.0591.00
81_V189_V1.0551.00
128_M285_M1.0551.00
9_G233_A1.0521.00
220_G224_T1.0501.00
16_A20_W1.0461.00
80_A185_W1.0421.00
113_N165_G1.0381.00
118_M124_R1.0371.00
39_L91_I1.0341.00
123_E129_Q1.0341.00
82_L160_S1.0321.00
217_I221_I1.0311.00
9_G236_R1.0241.00
116_L162_A1.0241.00
105_G158_A1.0221.00
128_M286_D1.0211.00
82_L167_V1.0141.00
32_Y212_L1.0131.00
99_M261_Y1.0121.00
15_A229_C1.0111.00
27_F94_V1.0111.00
36_D88_L1.0091.00
84_G190_A1.0041.00
139_G276_I0.9931.00
113_N239_L0.9831.00
169_K238_R0.9771.00
211_S215_L0.9761.00
19_I229_C0.9751.00
20_W230_F0.9711.00
43_V186_L0.9691.00
35_A39_L0.9681.00
148_G151_P0.9651.00
74_F77_A0.9641.00
234_A242_L0.9631.00
55_S58_R0.9521.00
59_Q174_E0.9471.00
116_L159_F0.9451.00
251_T273_F0.9421.00
113_N162_A0.9331.00
44_I191_A0.9241.00
116_L119_I0.9241.00
169_K239_L0.9231.00
105_G154_A0.9221.00
104_L141_L0.9181.00
108_I140_V0.9151.00
158_A162_A0.9151.00
145_W148_G0.9101.00
25_A260_F0.9051.00
196_A199_D0.9011.00
14_L252_L0.8931.00
59_Q62_Y0.8921.00
237_L242_L0.8911.00
22_I218_A0.8901.00
267_A270_M0.8871.00
212_L216_L0.8871.00
212_L215_L0.8791.00
238_R242_L0.8771.00
173_V178_G0.8761.00
17_Y248_I0.8761.00
83_I164_Y0.8711.00
126_R130_W0.8701.00
17_Y252_L0.8651.00
99_M263_E0.8651.00
29_L215_L0.8651.00
114_I125_F0.8631.00
213_N217_I0.8611.00
73_I185_W0.8611.00
234_A238_R0.8611.00
41_H45_W0.8581.00
75_M79_S0.8561.00
49_F52_V0.8491.00
75_M170_K0.8451.00
51_V184_M0.8451.00
17_Y21_G0.8411.00
135_L279_A0.8321.00
84_G88_L0.8311.00
184_M188_P0.8261.00
195_F198_A0.8231.00
88_L92_W0.8201.00
50_M224_T0.8201.00
138_C142_V0.8171.00
154_A158_A0.8161.00
193_Y196_A0.8161.00
76_L173_V0.8131.00
39_L190_A0.8121.00
138_C275_F0.8101.00
25_A257_A0.8061.00
258_V265_P0.8041.00
192_I196_A0.7911.00
124_R128_M0.7911.00
38_I219_A0.7881.00
37_E194_L0.7841.00
180_L184_M0.7811.00
86_N160_S0.7801.00
97_H102_A0.7781.00
237_L241_T0.7741.00
13_A245_F0.7721.00
209_P213_N0.7701.00
218_A221_I0.7701.00
163_F167_V0.7701.00
140_V144_L0.7691.00
145_W150_L0.7681.00
142_V271_V0.7661.00
73_I77_A0.7661.00
254_F273_F0.7641.00
69_T73_I0.7631.00
271_V275_F0.7621.00
56_I59_Q0.7601.00
254_F265_P0.7601.00
47_F51_V0.7591.00
268_D271_V0.7581.00
233_A242_L0.7571.00
114_I129_Q0.7571.00
111_L136_A0.7541.00
115_V119_I0.7531.00
181_I185_W0.7491.00
258_V264_K0.7481.00
124_R127_R0.7451.00
10_V241_T0.7411.00
131_L135_L0.7401.00
24_P90_F0.7401.00
225_V229_C0.7361.00
147_F151_P0.7351.00
86_N164_Y0.7281.00
248_I251_T0.7251.00
125_F129_Q0.7221.00
212_L220_G0.7211.00
113_N166_L0.7181.00
54_M180_L0.7171.00
185_W189_V0.7171.00
37_E41_H0.7091.00
30_I212_L0.7061.00
24_P103_S0.7061.00
147_F150_L0.7031.00
85_G89_L0.7031.00
273_F277_W0.7031.00
194_L198_A0.6951.00
83_I227_L0.6921.00
195_F199_D0.6911.00
80_A84_G0.6871.00
186_L190_A0.6871.00
173_V177_T0.6841.00
185_W188_P0.6841.00
30_I38_I0.6781.00
25_A99_M0.6781.00
118_M122_G0.6771.00
123_E240_S0.6741.00
33_V37_E0.6741.00
44_I48_F0.6711.00
278_V282_I0.6711.00
161_F165_G0.6671.00
244_F283_F0.6621.00
204_H207_Q0.6611.00
112_V155_L0.6581.00
265_P269_K0.6571.00
33_V38_I0.6571.00
72_K76_L0.6551.00
184_M187_L0.6521.00
72_K75_M0.6471.00
75_M78_V0.6451.00
53_L176_Q0.6441.00
54_M58_R0.6421.00
205_M208_N0.6411.00
13_A237_L0.6391.00
32_Y209_P0.6381.00
228_L232_A0.6361.00
139_G279_A0.6351.00
212_L218_A0.6341.00
212_L222_V0.6321.00
187_L191_A0.6271.00
108_I111_L0.6271.00
153_I156_G0.6251.00
256_L259_T0.6231.00
161_F230_F0.6231.00
45_W49_F0.6211.00
29_L261_Y0.6201.00
266_G270_M0.6171.00
177_T181_I0.6161.00
76_L178_G0.6141.00
114_I118_M0.6101.00
257_A261_Y0.6101.00
208_N211_S0.6091.00
164_Y168_R0.6071.00
34_P198_A0.6051.00
57_C174_E0.6021.00
104_L144_L0.6011.00
197_I200_S0.6011.00
83_I182_E0.5981.00
146_T149_S0.5951.00
105_G155_L0.5941.00
208_N213_N0.5941.00
115_V133_V0.5931.00
110_P247_Y0.5921.00
181_I184_M0.5911.00
254_F258_V0.5911.00
57_C176_Q0.5881.00
9_G237_L0.5871.00
135_L282_I0.5871.00
53_L56_I0.5861.00
152_I156_G0.5851.00
179_M231_T0.5831.00
129_Q238_R0.5821.00
212_L217_I0.5791.00
264_K268_D0.5771.00
107_F140_V0.5741.00
219_A224_T0.5741.00
26_Y215_L0.5731.00
255_L258_V0.5731.00
164_Y231_T0.5731.00
269_K273_F0.5721.00
279_A283_F0.5701.00
93_A102_A0.5691.00
216_L220_G0.5661.00
178_G181_I0.5651.00
255_L259_T0.5621.00
214_L220_G0.5621.00
15_A19_I0.5621.00
14_L17_Y0.5611.00
126_R286_D0.5601.00
259_T262_G0.5591.00
84_G193_Y0.5581.00
19_I226_P0.5571.00
188_P191_A0.5561.00
26_Y217_I0.5561.00
69_T74_F0.5531.00
165_G230_F0.5521.00
159_F163_F0.5511.00
83_I186_L0.5511.00
246_Q249_G0.5501.00
46_S224_T0.5501.00
280_L283_F0.5491.00
17_Y249_G0.5461.00
90_F102_A0.5451.00
121_L169_K0.5451.00
23_A91_I0.5441.00
77_A81_V0.5431.00
121_L170_K0.5421.00
22_I217_I0.5411.00
108_I136_A0.5401.00
79_S168_R0.5381.00
207_Q210_M0.5381.00
168_R172_A0.5321.00
90_F157_L0.5281.00
77_A189_V0.5271.00
25_A261_Y0.5261.00
73_I181_I0.5251.00
48_F51_V0.5231.00
108_I158_A0.5231.00
13_A230_F0.5201.00
158_A161_F0.5161.00
107_F158_A0.5161.00
37_E198_A0.5141.00
93_A97_H0.5141.00
209_P214_L0.5141.00
62_Y177_T0.5131.00
137_I247_Y0.5131.00
39_L88_L0.5131.00
258_V270_M0.5101.00
91_I95_N0.5091.00
264_K269_K0.5061.00
34_P197_I0.5061.00
120_F163_F0.5061.00
233_A237_L0.5031.00
111_L133_V0.5001.00
215_L220_G0.5001.00
36_D190_A0.5001.00
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
2i68A 2 0.2601 98.9 0.747 Contact Map
3b5dA 2 0.3412 98.2 0.8 Contact Map
4he8J 1 0.5203 45.1 0.923 Contact Map
3wdoA 1 0.9324 19.1 0.936 Contact Map
2m20A 2 0.1182 13.2 0.941 Contact Map
2kluA 1 0.1453 12.7 0.941 Contact Map
2rddB 1 0.1081 12.7 0.941 Contact Map
4pypA 1 0.8277 10.9 0.943 Contact Map
4knfA 3 0.1351 10.6 0.943 Contact Map
4j05A 3 0.9189 10.5 0.943 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

Page generated in 0.0107 seconds.