GREMLIN Database
YCJR - Uncharacterized protein YcjR
UniProt: P76044 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13915
Length: 262 (226)
Sequences: 16538 (11629)
Seq/√Len: 773.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
175_Q202_G3.0341.00
82_E135_V2.9451.00
20_R51_T2.7961.00
45_K49_K2.7921.00
220_D223_A2.6891.00
126_S168_E2.5671.00
86_E139_T2.4991.00
29_G236_Y2.4591.00
208_D215_G2.4531.00
46_A50_E2.3511.00
195_H227_Q2.2691.00
142_V202_G2.2601.00
86_E135_V2.2451.00
14_N17_E2.1421.00
142_V175_Q2.0961.00
144_Y202_G2.0731.00
16_L47_A2.0101.00
134_Q171_L1.9541.00
89_A139_T1.9141.00
164_R168_E1.9111.00
163_R196_D1.8901.00
122_R164_R1.8721.00
78_L131_V1.8491.00
47_A51_T1.8211.00
95_G144_Y1.8161.00
195_H230_A1.7591.00
20_R24_E1.7521.00
75_L79_K1.7201.00
208_D217_G1.6941.00
85_L139_T1.6861.00
48_I55_V1.6661.00
163_R167_V1.6531.00
227_Q230_A1.6441.00
47_A50_E1.6401.00
40_N43_E1.6371.00
133_E174_V1.6301.00
42_E90_E1.6051.00
123_K168_E1.6011.00
189_N192_Q1.5731.00
135_V138_R1.5651.00
122_R168_E1.5621.00
120_G123_K1.5511.00
192_Q196_D1.5431.00
88_L93_G1.5431.00
74_R128_S1.5071.00
222_H226_E1.5011.00
144_Y177_I1.4921.00
38_V90_E1.4901.00
79_K83_R1.4731.00
126_S130_R1.4631.00
23_K51_T1.4621.00
83_R86_E1.4571.00
73_R76_N1.4491.00
134_Q138_R1.4401.00
137_A173_H1.4331.00
117_S120_G1.4301.00
135_V139_T1.4291.00
41_I90_E1.4231.00
123_K127_D1.4221.00
85_L136_A1.4161.00
204_V228_L1.4121.00
158_T161_D1.4101.00
226_E230_A1.3881.00
82_E131_V1.3861.00
180_F224_L1.3811.00
16_L50_E1.3701.00
43_E46_A1.3541.00
137_A171_L1.3471.00
19_F51_T1.3251.00
21_Y24_E1.3241.00
227_Q231_D1.3241.00
191_A223_A1.3231.00
127_D130_R1.3191.00
175_Q200_L1.2961.00
20_R47_A1.2881.00
17_E20_R1.2821.00
46_A49_K1.2821.00
124_M127_D1.2491.00
193_A197_N1.2421.00
79_K82_E1.2371.00
160_A196_D1.2261.00
95_G142_V1.2171.00
130_R170_D1.2171.00
133_E169_N1.2141.00
82_E86_E1.2041.00
43_E47_A1.2001.00
167_V200_L1.1941.00
85_L141_T1.1931.00
140_G173_H1.1901.00
147_P183_M1.1801.00
42_E46_A1.1691.00
16_L43_E1.1681.00
126_S169_N1.1671.00
85_L135_V1.1581.00
78_L82_E1.1541.00
157_N161_D1.1481.00
191_A195_H1.1481.00
45_K90_E1.1441.00
164_R167_V1.1421.00
27_F239_Y1.1401.00
162_A176_I1.1351.00
178_G183_M1.1301.00
163_R200_L1.1151.00
75_L131_V1.1141.00
81_I132_L1.1121.00
23_K52_G1.1111.00
228_L231_D1.1101.00
198_R231_D1.0981.00
131_V134_Q1.0961.00
130_R169_N1.0851.00
137_A172_K1.0841.00
122_R126_S1.0731.00
19_F47_A1.0721.00
70_I73_R1.0721.00
207_A211_R1.0591.00
136_A143_V1.0561.00
21_Y25_M1.0451.00
211_R214_P1.0411.00
163_R197_N1.0371.00
118_L161_D1.0271.00
223_A227_Q1.0221.00
82_E138_R1.0191.00
182_H207_A1.0101.00
29_G56_T1.0051.00
31_E57_T0.9961.00
192_Q195_H0.9821.00
19_F48_I0.9821.00
29_G54_P0.9801.00
86_E90_E0.9791.00
179_D240_E0.9781.00
95_G202_G0.9731.00
71_E75_L0.9701.00
181_Y207_A0.9681.00
38_V42_E0.9621.00
194_L231_D0.9601.00
195_H231_D0.9581.00
119_D164_R0.9561.00
48_I53_L0.9521.00
41_I45_K0.9491.00
16_L20_R0.9391.00
41_I87_A0.9341.00
219_L224_L0.9321.00
94_K142_V0.9311.00
134_Q137_A0.9301.00
31_E203_H0.9271.00
78_L128_S0.9251.00
86_E89_A0.9181.00
76_N79_K0.9151.00
22_I27_F0.9141.00
97_V177_I0.9081.00
213_Q216_S0.9051.00
133_E171_L0.9051.00
54_P94_K0.9031.00
127_D131_V0.9031.00
82_E139_T0.9021.00
181_Y211_R0.8951.00
32_I55_V0.8941.00
184_N218_T0.8911.00
58_A88_L0.8911.00
176_I197_N0.8891.00
23_K28_D0.8881.00
48_I51_T0.8861.00
166_I200_L0.8821.00
119_D123_K0.8801.00
129_L174_V0.8801.00
206_I221_F0.8791.00
191_A227_Q0.8751.00
133_E173_H0.8751.00
88_L96_I0.8721.00
13_E21_Y0.8711.00
169_N174_V0.8681.00
22_I30_F0.8591.00
130_R134_Q0.8551.00
146_E240_E0.8521.00
160_A164_R0.8511.00
74_R124_M0.8491.00
41_I91_V0.8411.00
194_L227_Q0.8391.00
37_L40_N0.8381.00
39_N43_E0.8271.00
207_A242_R0.8261.00
87_A91_V0.8261.00
56_T236_Y0.8211.00
74_R127_D0.8201.00
130_R171_L0.8061.00
122_R161_D0.8051.00
225_F229_R0.8051.00
59_C99_P0.8031.00
42_E45_K0.8001.00
89_A141_T0.7981.00
212_Y216_S0.7911.00
159_L196_D0.7841.00
118_L121_D0.7801.00
45_K92_G0.7791.00
20_R50_E0.7791.00
159_L188_D0.7791.00
28_D54_P0.7721.00
120_G124_M0.7681.00
142_V173_H0.7681.00
130_R168_E0.7621.00
204_V237_V0.7611.00
55_V93_G0.7591.00
156_I162_A0.7581.00
223_A226_E0.7561.00
221_F225_F0.7501.00
180_F221_F0.7471.00
89_A140_G0.7401.00
124_M128_S0.7401.00
184_N219_L0.7361.00
72_E76_N0.7361.00
54_P236_Y0.7351.00
66_I128_S0.7331.00
125_V165_Y0.7311.00
132_L143_V0.7301.00
194_L197_N0.7271.00
203_H238_V0.7261.00
68_D73_R0.7171.00
166_I176_I0.7101.00
59_C62_Y0.7081.00
19_F30_F0.7071.00
177_I203_H0.7011.00
84_I96_I0.6921.00
16_L51_T0.6911.00
80_Q83_R0.6901.00
131_V135_V0.6891.00
83_R87_A0.6851.00
128_S131_V0.6801.00
78_L132_L0.6781.00
225_F237_V0.6761.00
18_K22_I0.6751.00
19_F23_K0.6721.00
232_N235_G0.6721.00
178_G194_L0.6701.00
95_G203_H0.6671.00
156_I165_Y0.6661.00
31_E238_V0.6661.00
198_R201_L0.6651.00
170_D200_L0.6601.00
198_R227_Q0.6561.00
85_L96_I0.6551.00
206_I237_V0.6531.00
170_D173_H0.6531.00
23_K53_L0.6511.00
74_R78_L0.6511.00
129_L165_Y0.6461.00
161_D164_R0.6431.00
94_K140_G0.6421.00
166_I170_D0.6421.00
147_P162_A0.6421.00
96_I136_A0.6411.00
133_E143_V0.6381.00
13_E17_E0.6381.00
146_E205_H0.6341.00
194_L201_L0.6331.00
166_I174_V0.6321.00
71_E74_R0.6311.00
17_E21_Y0.6311.00
147_P156_I0.6301.00
71_E124_M0.6281.00
121_D124_M0.6271.00
204_V233_Y0.6241.00
126_S165_Y0.6191.00
144_Y175_Q0.6161.00
58_A61_G0.6141.00
146_E182_H0.6111.00
229_R232_N0.6101.00
98_V143_V0.6091.00
133_E137_A0.6091.00
20_R23_K0.6071.00
180_F206_I0.6051.00
203_H236_Y0.6031.00
193_A196_D0.6021.00
125_V129_L0.6021.00
72_E75_L0.6021.00
122_R165_Y0.6001.00
179_D207_A0.5981.00
58_A93_G0.5941.00
184_N190_L0.5941.00
194_L198_R0.5921.00
228_L233_Y0.5921.00
205_H238_V0.5911.00
37_L41_I0.5851.00
199_D231_D0.5851.00
70_I74_R0.5841.00
19_F44_V0.5841.00
154_H157_N0.5831.00
183_M193_A0.5811.00
229_R237_V0.5811.00
99_P207_A0.5801.00
169_N172_K0.5801.00
210_H213_Q0.5761.00
136_A141_T0.5751.00
74_R131_V0.5731.00
194_L224_L0.5691.00
163_R166_I0.5681.00
178_G193_A0.5651.00
178_G201_L0.5651.00
190_L193_A0.5611.00
134_Q173_H0.5601.00
49_K90_E0.5601.00
159_L163_R0.5591.00
92_G141_T0.5581.00
19_F53_L0.5581.00
88_L141_T0.5581.00
78_L135_V0.5571.00
97_V203_H0.5561.00
61_G84_I0.5541.00
99_P182_H0.5531.00
100_A103_G0.5501.00
77_G80_Q0.5501.00
176_I201_L0.5471.00
165_Y169_N0.5461.00
203_H233_Y0.5441.00
122_R155_M0.5421.00
44_V47_A0.5411.00
60_G84_I0.5381.00
78_L81_I0.5371.00
76_N80_Q0.5371.00
10_F25_M0.5331.00
98_V129_L0.5311.00
129_L133_E0.5291.00
86_E138_R0.5261.00
57_T97_V0.5231.00
38_V41_I0.5221.00
57_T238_V0.5211.00
48_I52_G0.5211.00
207_A241_G0.5181.00
197_N201_L0.5181.00
136_A139_T0.5141.00
159_L192_Q0.5131.00
42_E49_K0.5121.00
241_G244_R0.5121.00
206_I225_F0.5081.00
177_I182_H0.5051.00
10_F21_Y0.5041.00
123_K126_S0.5021.00
162_A166_I0.5011.00
15_I19_F0.5001.00
97_V182_H0.5001.00
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  
1i60A 1 0.9542 100 0.193 Contact Map
3kwsA 2 0.9733 100 0.199 Contact Map
2qulA 2 0.9847 100 0.201 Contact Map
3vniA 4 0.9771 100 0.206 Contact Map
2hk0A 3 0.9733 100 0.206 Contact Map
3vylA 4 0.9695 100 0.209 Contact Map
2zdsA 5 0.9885 100 0.211 Contact Map
3qc0A 2 0.9542 100 0.215 Contact Map
4ovxA 1 0.9389 100 0.219 Contact Map
3cqjA 2 0.9542 100 0.224 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.

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