GREMLIN Database
HDA - DnaA regulatory inactivator Hda
UniProt: P69931 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG14201
Length: 233 (184)
Sequences: 23892 (12001)
Seq/√Len: 884.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
166_S169_D3.5631.00
171_L191_R3.5521.00
175_Q190_G3.5451.00
171_L175_Q3.0631.00
167_D195_K2.9321.00
86_V90_L2.8151.00
177_R205_F2.6141.00
192_F196_R2.4871.00
100_C136_G2.3121.00
174_L204_L2.1221.00
86_V89_V2.1201.00
172_Q175_Q2.1161.00
48_L162_L2.0321.00
27_N30_L2.0101.00
116_A120_L1.8961.00
122_N126_E1.8821.00
35_Q39_R1.8551.00
178_A208_L1.8391.00
28_S35_Q1.7581.00
87_P90_L1.7541.00
167_D171_L1.7411.00
59_L162_L1.7281.00
171_L190_G1.7081.00
139_P142_Q1.7001.00
173_A201_M1.6221.00
104_I135_T1.5941.00
78_P81_K1.5911.00
49_W161_K1.5791.00
177_R180_L1.5711.00
91_D95_H1.5481.00
167_D191_R1.5111.00
36_N40_Q1.5041.00
152_S202_R1.5021.00
35_Q38_L1.4951.00
34_L37_V1.4881.00
167_D194_L1.4861.00
164_P200_E1.4651.00
90_L93_M1.4571.00
175_Q187_E1.4281.00
108_A150_L1.4111.00
32_A36_N1.4051.00
186_P189_V1.3991.00
31_L35_Q1.3671.00
93_M96_L1.3551.00
200_E203_T1.3531.00
112_L115_M1.3431.00
92_G96_L1.3421.00
51_R164_P1.3221.00
33_A37_V1.3181.00
172_Q176_L1.3081.00
86_V92_G1.3071.00
34_L38_L1.3041.00
27_N31_L1.3031.00
27_N35_Q1.3021.00
88_E92_G1.3011.00
178_A181_R1.2901.00
27_N37_V1.2881.00
205_F209_D1.2881.00
33_A36_N1.2821.00
86_V93_M1.2671.00
196_R199_R1.2661.00
191_R195_K1.2441.00
30_L35_Q1.2261.00
181_R208_L1.2251.00
64_C74_V1.2221.00
35_Q40_Q1.2191.00
170_K204_L1.2051.00
193_L197_L1.1981.00
28_S32_A1.1851.00
45_Y121_Y1.1781.00
28_S31_L1.1731.00
49_W159_I1.1731.00
73_A97_S1.1541.00
75_G97_S1.1431.00
190_G194_L1.1331.00
30_L38_L1.1211.00
57_S102_D1.1181.00
194_L197_L1.1181.00
33_A38_L1.1161.00
92_G95_H1.1161.00
67_L98_L1.1121.00
27_N32_A1.1011.00
115_M119_D1.1001.00
174_L190_G1.0941.00
37_V40_Q1.0881.00
193_L199_R1.0851.00
27_N33_A1.0691.00
165_L173_A1.0691.00
87_P91_D1.0591.00
67_L72_D1.0441.00
89_V93_M1.0321.00
135_T138_R1.0311.00
118_F122_N1.0211.00
131_R135_T1.0201.00
187_E190_G1.0171.00
193_L196_R1.0151.00
207_T211_L1.0141.00
191_R194_L1.0091.00
123_R126_E1.0081.00
31_L38_L1.0061.00
171_L187_E1.0051.00
185_L189_V0.9891.00
33_A39_R0.9881.00
192_F195_K0.9781.00
47_Y104_I0.9641.00
29_S36_N0.9641.00
169_D172_Q0.9631.00
109_G112_L0.9591.00
194_L199_R0.9501.00
28_S34_L0.9471.00
188_D191_R0.9421.00
111_E114_E0.9411.00
32_A37_V0.9331.00
27_N38_L0.9311.00
176_L180_L0.9301.00
62_A65_A0.9301.00
118_F121_Y0.9291.00
181_R212_D0.9241.00
47_Y154_L0.9231.00
168_E171_L0.9231.00
49_W140_P0.9231.00
170_K194_L0.9141.00
167_D198_D0.9081.00
109_G113_W0.8961.00
192_F199_R0.8941.00
34_L40_Q0.8911.00
51_R54_A0.8881.00
177_R181_R0.8871.00
176_L179_R0.8871.00
73_A96_L0.8841.00
31_L37_V0.8771.00
88_E91_D0.8721.00
74_V100_C0.8721.00
31_L34_L0.8681.00
134_I137_D0.8651.00
89_V92_G0.8641.00
206_M210_Q0.8641.00
210_Q214_A0.8601.00
214_A218_A0.8551.00
30_L40_Q0.8481.00
29_S32_A0.8471.00
61_H76_Y0.8421.00
30_L37_V0.8381.00
119_D122_N0.8351.00
30_L36_N0.8321.00
184_E187_E0.8321.00
115_M118_F0.8321.00
116_A119_D0.8311.00
34_L39_R0.8301.00
181_R209_D0.8301.00
75_G96_L0.8261.00
151_A159_I0.8211.00
31_L39_R0.8201.00
94_E120_L0.8191.00
28_S37_V0.8191.00
30_L34_L0.8131.00
27_N34_L0.7991.00
79_L107_I0.7981.00
60_L134_I0.7971.00
62_A66_E0.7931.00
171_L194_L0.7931.00
174_L193_L0.7931.00
28_S38_L0.7911.00
30_L33_A0.7851.00
168_E172_Q0.7821.00
90_L94_E0.7761.00
63_A98_L0.7731.00
134_I154_L0.7691.00
105_E137_D0.7681.00
214_A217_T0.7671.00
83_T109_G0.7541.00
183_F186_P0.7501.00
189_V192_F0.7451.00
122_N125_L0.7441.00
28_S39_R0.7431.00
187_E191_R0.7371.00
178_A183_F0.7271.00
33_A40_Q0.7221.00
178_A190_G0.7191.00
174_L208_L0.7101.00
200_E204_L0.7091.00
36_N39_R0.7061.00
189_V193_L0.7061.00
102_D153_R0.7051.00
140_P161_K0.7051.00
195_K198_D0.7031.00
140_P143_L0.7021.00
32_A35_Q0.7011.00
32_A40_Q0.7011.00
60_L100_C0.7001.00
210_Q213_R0.7001.00
117_I122_N0.6921.00
148_P151_A0.6841.00
209_D213_R0.6791.00
109_G114_E0.6751.00
29_S33_A0.6731.00
177_R208_L0.6681.00
30_L39_R0.6661.00
197_L204_L0.6651.00
213_R217_T0.6631.00
201_M204_L0.6621.00
131_R136_G0.6601.00
188_D192_F0.6581.00
41_E209_D0.6581.00
32_A39_R0.6571.00
31_L36_N0.6541.00
170_K174_L0.6481.00
110_D113_W0.6471.00
28_S40_Q0.6391.00
114_E118_F0.6371.00
178_A185_L0.6321.00
119_D123_R0.6281.00
134_I138_R0.6281.00
103_N153_R0.6281.00
27_N40_Q0.6241.00
77_V82_R0.6241.00
63_A134_I0.6201.00
185_L190_G0.6191.00
215_S219_Q0.6151.00
105_E149_D0.6141.00
123_R127_S0.6101.00
101_I117_I0.6061.00
127_S131_R0.6051.00
27_N39_R0.6011.00
45_Y154_L0.5971.00
211_L215_S0.5921.00
111_E115_M0.5911.00
120_L124_I0.5831.00
170_K198_D0.5811.00
208_L212_D0.5801.00
75_G92_G0.5791.00
77_V89_V0.5791.00
109_G115_M0.5761.00
83_T112_L0.5751.00
156_W159_I0.5751.00
202_R206_M0.5701.00
185_L188_D0.5701.00
212_D215_S0.5691.00
110_D114_E0.5671.00
206_M209_D0.5621.00
90_L96_L0.5601.00
110_D115_M0.5601.00
47_Y136_G0.5601.00
131_R134_I0.5591.00
50_A54_A0.5581.00
68_S72_D0.5541.00
58_H201_M0.5541.00
120_L123_R0.5511.00
190_G197_L0.5501.00
79_L82_R0.5491.00
167_D170_K0.5481.00
52_E103_N0.5471.00
189_V197_L0.5461.00
138_R142_Q0.5431.00
58_H62_A0.5421.00
29_S38_L0.5351.00
47_Y140_P0.5321.00
61_H74_V0.5301.00
87_P93_M0.5291.00
90_L133_L0.5281.00
35_Q66_E0.5241.00
72_D97_S0.5241.00
140_P151_A0.5231.00
29_S39_R0.5221.00
165_L169_D0.5221.00
174_L207_T0.5221.00
163_Q169_D0.5201.00
80_D106_C0.5181.00
131_R137_D0.5161.00
103_N138_R0.5151.00
104_I108_A0.5111.00
155_D206_M0.5091.00
170_K197_L0.5091.00
86_V91_D0.5061.00
86_V96_L0.5011.00
29_S37_V0.5001.00
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  
3bosA 2 0.9828 100 0.306 Contact Map
2z4sA 1 0.9528 100 0.334 Contact Map
1l8qA 1 0.9442 99.9 0.377 Contact Map
4ww0A 4 0.9313 99.9 0.391 Contact Map
4ko8A 3 0.9571 99.9 0.399 Contact Map
2qp9X 1 0.8712 99.9 0.41 Contact Map
4cr2I 1 0.9614 99.9 0.412 Contact Map
4cr2M 1 0.9571 99.9 0.413 Contact Map
2qz4A 1 0.8326 99.9 0.415 Contact Map
4cr2H 1 0.9571 99.9 0.415 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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