GREMLIN Database
DsbD - Cytochrome C biogenesis protein transmembrane region
PFAM: PF02683 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 213 (209)
Sequences: 55902 (36748)
Seq/√Len: 2541.9
META: 0.875

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
55_L123_F4.3711.00
194_R198_R3.9641.00
2_F170_L2.9131.00
195_W198_R2.8871.00
102_L105_E2.6051.00
192_W195_W2.5021.00
76_P80_I2.3831.00
77_W80_I2.3231.00
74_Y77_W2.3071.00
105_E108_L2.2861.00
48_A119_L2.2851.00
187_P190_G2.2481.00
62_A158_A2.2161.00
151_Q156_R2.1911.00
50_V169_G2.1441.00
76_P79_R2.1321.00
188_R192_W2.0721.00
103_S106_R2.0681.00
68_G71_L2.0301.00
104_R107_R2.0221.00
95_G98_E1.9841.00
77_W81_V1.9231.00
58_V162_L1.8591.00
80_I84_V1.8371.00
32_D35_A1.8331.00
79_R82_A1.8291.00
195_W199_V1.7421.00
99_I102_L1.7191.00
50_V173_L1.7021.00
8_S164_Y1.6911.00
194_R197_K1.6511.00
103_S107_R1.6391.00
101_L104_R1.6221.00
42_A45_L1.6031.00
54_A58_V1.5631.00
45_L122_A1.5351.00
90_G94_L1.5281.00
41_R44_L1.4901.00
189_L192_W1.4791.00
87_I205_I1.4581.00
41_R45_L1.4431.00
143_A146_A1.4351.00
198_R202_V1.4291.00
146_A149_A1.4241.00
54_A165_S1.4101.00
185_R188_R1.4001.00
43_L177_L1.3901.00
190_G193_M1.3771.00
48_A52_G1.3651.00
189_L193_M1.3591.00
67_L70_L1.3571.00
180_G183_L1.3471.00
11_S14_V1.3431.00
90_G205_I1.3301.00
202_V206_A1.3251.00
100_P103_S1.3241.00
104_R108_L1.3241.00
188_R191_R1.3231.00
140_I143_A1.3151.00
78_L81_V1.3151.00
112_S115_R1.3121.00
56_V127_L1.3071.00
91_L96_V1.3001.00
63_L66_A1.2931.00
159_L163_A1.2811.00
48_A123_F1.2751.00
87_I208_G1.2741.00
101_L105_E1.2691.00
100_P104_R1.2381.00
109_A112_S1.2351.00
45_L49_F1.2341.00
69_S72_G1.2281.00
44_L48_A1.2261.00
153_S156_R1.2041.00
50_V53_F1.2031.00
46_S176_A1.1991.00
110_R113_R1.1851.00
113_R116_G1.1781.00
118_G121_G1.1531.00
155_L158_A1.1521.00
73_A76_P1.1511.00
192_W196_V1.1421.00
155_L159_L1.1341.00
92_S95_G1.1281.00
142_G146_A1.1221.00
143_A147_L1.1181.00
58_V165_S1.1151.00
158_A161_L1.1151.00
84_V88_L1.1131.00
2_F163_A1.0991.00
184_R187_P1.0921.00
50_V54_A1.0911.00
4_A140_I1.0911.00
123_F127_L1.0901.00
144_I160_L1.0871.00
33_R36_G1.0851.00
66_A69_S1.0851.00
154_A158_A1.0851.00
99_I103_S1.0841.00
111_L114_R1.0751.00
138_G141_L1.0671.00
191_R194_R1.0521.00
53_F57_F1.0431.00
65_A68_G1.0401.00
156_R160_L1.0391.00
183_L186_L1.0391.00
94_L205_I1.0351.00
162_L166_L1.0321.00
47_L51_L1.0321.00
193_M197_K1.0301.00
46_S49_F1.0211.00
48_A122_A1.0161.00
75_Q79_R1.0051.00
148_A157_G1.0011.00
105_E109_A1.0001.00
53_F56_V1.0001.00
181_R185_R0.9981.00
2_F167_G0.9931.00
43_L47_L0.9841.00
102_L107_R0.9811.00
97_F100_P0.9811.00
29_S32_D0.9781.00
51_L123_F0.9731.00
58_V158_A0.9721.00
23_S26_S0.9671.00
181_R184_R0.9661.00
31_G35_A0.9661.00
81_V85_L0.9621.00
61_G64_A0.9621.00
3_L7_L0.9591.00
99_I105_E0.9541.00
49_F53_F0.9541.00
45_L48_A0.9531.00
147_L151_Q0.9501.00
75_Q78_L0.9491.00
47_L173_L0.9371.00
102_L106_R0.9351.00
78_L82_A0.9321.00
61_G161_L0.9321.00
72_G75_Q0.9301.00
171_P174_L0.9281.00
68_G72_G0.9231.00
186_L189_L0.9171.00
106_R109_A0.9101.00
44_L119_L0.9001.00
44_L47_L0.9001.00
79_R83_G0.8901.00
175_L186_L0.8791.00
106_R110_R0.8791.00
64_A67_L0.8731.00
49_F57_F0.8641.00
29_S33_R0.8621.00
107_R110_R0.8611.00
17_L20_I0.8611.00
196_V200_S0.8581.00
88_L97_F0.8571.00
32_D36_G0.8531.00
156_R159_L0.8491.00
65_A154_A0.8401.00
77_W82_A0.8391.00
154_A157_G0.8381.00
206_A210_L0.8371.00
52_G56_V0.8351.00
67_L71_L0.8341.00
63_L67_L0.8331.00
178_F181_R0.8321.00
61_G65_A0.8291.00
90_G93_L0.8231.00
59_A62_A0.8201.00
92_S97_F0.8171.00
62_A65_A0.8161.00
92_S98_E0.8151.00
98_E103_S0.8111.00
100_P105_E0.8061.00
182_L186_L0.8051.00
147_L150_T0.8011.00
88_L92_S0.7941.00
57_F61_G0.7881.00
47_L50_V0.7881.00
191_R195_W0.7831.00
48_A51_L0.7821.00
75_Q80_I0.7731.00
58_V61_G0.7711.00
186_L190_G0.7571.00
43_L46_S0.7541.00
30_A33_R0.7531.00
52_G123_F0.7511.00
141_L164_Y0.7511.00
54_A162_L0.7491.00
187_P192_W0.7461.00
51_L162_L0.7461.00
140_I144_I0.7451.00
73_A77_W0.7441.00
109_A113_R0.7431.00
59_A63_L0.7411.00
46_S50_V0.7391.00
51_L55_L0.7351.00
168_L172_F0.7291.00
175_L178_F0.7271.00
99_I104_R0.7261.00
179_P183_L0.7211.00
42_A46_S0.7201.00
69_S73_A0.7191.00
36_G39_R0.7191.00
8_S11_S0.7191.00
13_C136_C0.7171.00
56_V59_A0.7151.00
40_L44_L0.7141.00
115_R118_G0.7131.00
65_A69_S0.7111.00
178_F182_L0.7101.00
94_L198_R0.7011.00
98_E197_K0.7001.00
28_Q32_D0.7001.00
193_M196_V0.6991.00
83_G87_I0.6981.00
38_G41_R0.6911.00
80_I83_G0.6911.00
108_L112_S0.6821.00
103_S108_L0.6741.00
124_L127_L0.6721.00
92_S96_V0.6711.00
190_G194_R0.6701.00
52_G57_F0.6671.00
64_A69_S0.6671.00
65_A71_L0.6611.00
31_G36_G0.6611.00
119_L122_A0.6571.00
64_A68_G0.6511.00
185_R189_L0.6511.00
81_V84_V0.6511.00
158_A162_L0.6331.00
64_A70_L0.6311.00
98_E101_L0.6301.00
22_L25_I0.6241.00
114_R117_G0.6231.00
31_G34_R0.6191.00
55_L58_V0.6191.00
89_F92_S0.6181.00
89_F142_G0.6171.00
24_Y27_G0.6161.00
137_T168_L0.6151.00
196_V199_V0.6091.00
199_V202_V0.6061.00
86_L211_L0.6021.00
187_P191_R0.5991.00
173_L176_A0.5981.00
71_L74_Y0.5971.00
157_G160_L0.5941.00
100_P106_R0.5941.00
43_L48_A0.5941.00
112_S117_G0.5901.00
183_L187_P0.5891.00
64_A71_L0.5891.00
152_G156_R0.5881.00
180_G184_R0.5871.00
49_F52_G0.5871.00
120_L123_F0.5851.00
145_L149_A0.5841.00
2_F6_L0.5801.00
4_A7_L0.5761.00
60_L64_A0.5741.00
34_R38_G0.5741.00
35_A38_G0.5721.00
41_R46_S0.5671.00
188_R193_M0.5661.00
113_R117_G0.5641.00
153_S157_G0.5601.00
12_P15_L0.5591.00
203_L207_V0.5581.00
41_R49_F0.5571.00
133_W137_T0.5561.00
127_L131_L0.5541.00
21_Y24_Y0.5511.00
94_L202_V0.5511.00
120_L124_L0.5491.00
43_L173_L0.5481.00
89_F93_L0.5481.00
139_P143_A0.5471.00
175_L179_P0.5471.00
182_L185_R0.5411.00
201_G205_I0.5411.00
102_L108_L0.5391.00
5_G167_G0.5381.00
108_L111_L0.5371.00
119_L123_F0.5371.00
2_F166_L0.5351.00
62_A66_A0.5351.00
146_A150_T0.5331.00
161_L165_S0.5321.00
22_L175_L0.5311.00
43_L49_F0.5311.00
94_L97_F0.5301.00
133_W138_G0.5291.00
21_Y25_I0.5281.00
9_F21_Y0.5251.00
20_I24_Y0.5241.00
110_R114_R0.5241.00
20_I23_S0.5181.00
61_G68_G0.5171.00
85_L89_F0.5161.00
86_L90_G0.5161.00
159_L162_L0.5151.00
91_L94_L0.5151.00
52_G55_L0.5141.00
9_F171_P0.5131.00
124_L128_L0.5121.00
114_R118_G0.5091.00
49_F61_G0.5071.00
83_G86_L0.5071.00
78_L83_G0.5061.00
51_L54_A0.5051.00
101_L107_R0.5031.00
66_A70_L0.5001.00
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  
3wdoA 1 0.8545 6.7 0.934 Contact Map
2gfpA 2 0.8592 5.9 0.935 Contact Map
4lz6A 1 0.8404 4.2 0.94 Contact Map
1pw4A 1 0.8592 4.1 0.94 Contact Map
3rlbA 1 0.446 3.5 0.942 Contact Map
2xq2A 2 0.8357 3.4 0.943 Contact Map
2mmuA 1 0.2347 2.3 0.947 Contact Map
3hzqA 3 0.3662 1.9 0.95 Contact Map
3dh4A 3 0.4225 1.9 0.95 Contact Map
4dveA 3 0.4742 1.9 0.95 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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