GREMLIN Database
DsbD_2 - Cytochrome C biogenesis protein transmembrane region
PFAM: PF13386 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 199 (196)
Sequences: 41550 (30037)
Seq/√Len: 2145.5
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
44_L122_F4.3681.00
183_R186_V3.2271.00
183_R187_R2.8211.00
51_A153_A2.7871.00
81_G85_G2.7471.00
47_T157_F2.7181.00
184_R187_R2.6301.00
78_G81_G2.5921.00
73_L77_L2.2431.00
37_L118_L2.1921.00
77_L81_G2.1601.00
43_A160_G2.1361.00
190_G193_L2.1311.00
74_G78_G2.0911.00
103_R106_R2.0551.00
148_S151_L2.0451.00
98_E101_G2.0131.00
47_T153_A1.9571.00
39_V164_G1.9411.00
29_P32_A1.8561.00
75_I79_L1.7741.00
96_R99_R1.7711.00
41_G122_F1.7521.00
74_G81_G1.7301.00
45_T126_L1.7031.00
107_R110_P1.6951.00
189_A193_L1.6091.00
93_G96_R1.5921.00
43_A47_T1.5791.00
35_S171_G1.5601.00
116_G120_G1.5571.00
95_L98_E1.5391.00
135_P138_A1.5351.00
68_W71_G1.5321.00
190_G194_I1.5301.00
39_V168_L1.5191.00
37_L122_F1.5021.00
103_R107_R1.5011.00
9_G135_P1.4901.00
100_L103_R1.4641.00
51_A149_A1.4581.00
150_L153_A1.4431.00
70_R74_G1.4411.00
12_P17_C1.4311.00
2_A155_L1.4111.00
37_L121_A1.4071.00
72_I75_I1.4051.00
108_L111_L1.3971.00
189_A192_L1.3801.00
4_L8_L1.3711.00
104_L107_R1.3701.00
102_R105_S1.3691.00
97_L100_L1.3631.00
12_P16_P1.3581.00
85_G88_L1.3561.00
71_G75_I1.3461.00
85_G89_L1.3441.00
9_G159_F1.3401.00
106_R109_G1.3341.00
186_V189_A1.3311.00
10_S166_P1.3211.00
137_Y141_L1.3201.00
117_G120_G1.3141.00
178_L182_R1.3141.00
12_P15_L1.3011.00
56_L59_L1.2851.00
92_R95_L1.2741.00
69_L73_L1.2651.00
149_A153_A1.2641.00
3_F165_P1.2461.00
146_T151_L1.2301.00
47_T160_G1.2261.00
99_R102_R1.2251.00
71_G74_G1.2231.00
37_L41_G1.2091.00
52_L55_L1.2081.00
134_G137_Y1.2021.00
101_G105_S1.2021.00
3_F162_G1.1921.00
102_R106_R1.1731.00
34_L121_A1.1721.00
68_W72_I1.1651.00
39_V42_R1.1611.00
5_A139_A1.1601.00
75_I78_G1.1451.00
83_L87_S1.1431.00
80_L84_L1.1381.00
141_L145_A1.1341.00
84_L87_S1.1141.00
38_Y128_F1.1111.00
122_F126_L1.1081.00
55_L59_L1.1041.00
179_P182_R1.0951.00
67_P70_R1.0901.00
138_A141_L1.0871.00
191_V195_L1.0861.00
74_G77_L1.0841.00
43_A157_F1.0791.00
54_G149_A1.0681.00
109_G113_K1.0681.00
188_V191_V1.0521.00
21_V24_Y1.0521.00
45_T129_G1.0421.00
54_G57_G1.0371.00
138_A142_L1.0271.00
3_F158_A1.0211.00
97_L101_G1.0201.00
90_G93_G1.0141.00
104_L108_L1.0121.00
49_L140_L1.0061.00
42_R46_Y1.0001.00
72_I76_L0.9981.00
84_L88_L0.9961.00
173_L176_R0.9931.00
67_P71_G0.9831.00
136_L140_L0.9771.00
111_L114_R0.9751.00
79_L83_L0.9671.00
25_I28_Q0.9631.00
17_C20_I0.9591.00
50_G156_L0.9481.00
77_L80_L0.9471.00
135_P139_A0.9461.00
120_G123_L0.9441.00
21_V25_I0.9391.00
151_L154_L0.9391.00
110_P113_K0.9341.00
109_G112_S0.9311.00
2_A139_A0.9291.00
78_G82_L0.9281.00
150_L154_L0.9271.00
123_L126_L0.9191.00
178_L181_L0.9141.00
106_R110_P0.9081.00
99_R103_R0.9001.00
105_S108_L0.9001.00
73_L81_G0.8991.00
142_L145_A0.8921.00
136_L139_A0.8761.00
98_E102_R0.8751.00
169_L173_L0.8681.00
151_L155_L0.8581.00
101_G104_L0.8581.00
105_S112_S0.8561.00
153_A157_F0.8511.00
184_R188_V0.8411.00
78_G197_G0.8371.00
140_L144_A0.8351.00
187_R190_G0.8231.00
61_G64_G0.8231.00
188_V192_L0.8221.00
59_L63_A0.8161.00
92_R96_R0.8141.00
98_E103_R0.8141.00
86_L89_L0.8131.00
96_R100_L0.8121.00
91_L95_L0.8091.00
56_L60_L0.8091.00
58_S62_L0.8091.00
18_G21_V0.7901.00
107_R111_L0.7841.00
164_G167_L0.7771.00
85_G90_G0.7751.00
166_P170_L0.7731.00
105_S109_G0.7701.00
24_Y35_S0.7691.00
20_I23_A0.7591.00
4_L7_L0.7571.00
103_R108_L0.7571.00
69_L72_I0.7521.00
71_G81_G0.7511.00
119_L122_F0.7491.00
36_L40_L0.7481.00
166_P169_L0.7451.00
141_L144_A0.7421.00
40_L157_F0.7371.00
35_S39_V0.7361.00
36_L168_L0.7341.00
52_L56_L0.7291.00
40_L122_F0.7291.00
34_L118_L0.7241.00
176_R179_P0.7211.00
175_G178_L0.7191.00
3_F7_L0.7161.00
185_I189_A0.7091.00
100_L104_L0.7061.00
172_L176_R0.7051.00
55_L58_S0.7041.00
96_R101_G0.7031.00
10_S21_V0.6961.00
94_L97_L0.6951.00
50_G152_G0.6951.00
170_L174_A0.6921.00
70_R73_L0.6771.00
98_E105_S0.6741.00
153_A156_L0.6711.00
85_G194_I0.6691.00
157_F161_L0.6681.00
15_L18_G0.6681.00
40_L44_L0.6661.00
31_R34_L0.6631.00
17_C21_V0.6631.00
154_L158_A0.6621.00
20_I24_Y0.6581.00
185_I193_L0.6541.00
192_L195_L0.6521.00
43_A164_G0.6511.00
42_R45_T0.6491.00
94_L98_E0.6491.00
192_L196_L0.6481.00
117_G121_A0.6471.00
121_A125_G0.6461.00
140_L156_L0.6451.00
82_L197_G0.6421.00
169_L172_L0.6411.00
48_L51_A0.6411.00
53_A140_L0.6391.00
19_P22_L0.6381.00
158_A162_G0.6361.00
35_S172_L0.6351.00
193_L196_L0.6341.00
107_R112_S0.6301.00
39_V167_L0.6281.00
118_L121_A0.6271.00
91_L94_L0.6261.00
180_K184_R0.6191.00
134_G159_F0.6121.00
185_I188_V0.6111.00
22_L26_A0.6111.00
81_G194_I0.6081.00
95_L99_R0.6031.00
6_G9_G0.5991.00
139_A143_A0.5971.00
87_S90_G0.5941.00
73_L80_L0.5941.00
170_L173_L0.5931.00
14_V166_P0.5931.00
19_P23_A0.5901.00
45_T48_L0.5901.00
81_G87_S0.5861.00
2_A158_A0.5841.00
93_G97_L0.5821.00
17_C42_R0.5811.00
76_L79_L0.5791.00
80_L83_L0.5781.00
168_L171_G0.5781.00
72_I81_G0.5761.00
37_L40_L0.5731.00
44_L48_L0.5721.00
40_L43_A0.5711.00
99_R105_S0.5711.00
146_T149_A0.5681.00
42_R163_T0.5681.00
110_P114_R0.5631.00
119_L123_L0.5621.00
143_A152_G0.5611.00
83_L86_L0.5611.00
44_L47_T0.5591.00
39_V171_G0.5551.00
108_L112_S0.5541.00
12_P18_G0.5521.00
28_Q34_L0.5521.00
64_G67_P0.5511.00
49_L53_A0.5461.00
101_G108_L0.5461.00
137_Y140_L0.5451.00
39_V43_A0.5441.00
2_A6_G0.5441.00
9_G17_C0.5431.00
65_Q68_W0.5421.00
142_L146_T0.5401.00
53_A144_A0.5381.00
191_V194_I0.5371.00
73_L76_L0.5341.00
182_R186_V0.5331.00
66_L71_G0.5241.00
173_L177_L0.5231.00
168_L172_L0.5221.00
101_G106_R0.5211.00
185_I190_G0.5211.00
50_G54_G0.5211.00
22_L174_A0.5201.00
155_L158_A0.5161.00
54_G147_G0.5121.00
70_R80_L0.5121.00
73_L79_L0.5111.00
77_L84_L0.5111.00
181_L184_R0.5091.00
16_P21_V0.5091.00
54_G152_G0.5071.00
95_L101_G0.5051.00
87_S91_L0.5041.00
72_I78_G0.5011.00
142_L155_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  
4m64A 1 0.9397 60.3 0.89 Contact Map
3o7qA 1 0.9648 55.4 0.893 Contact Map
2gfpA 2 0.9196 40.7 0.902 Contact Map
3wdoA 1 0.9246 33.5 0.907 Contact Map
1pw4A 1 0.9146 31.2 0.908 Contact Map
2cfqA 1 0.9146 21.5 0.915 Contact Map
4p6vE 1 0.8593 18.1 0.918 Contact Map
4xnjA 1 0.9146 16.8 0.919 Contact Map
2xq2A 2 0.4523 15 0.921 Contact Map
3llqA 3 0.4121 11.6 0.925 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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