GREMLIN Database
Caa3_CtaG - Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG)
PFAM: PF09678 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 233 (227)
Sequences: 19637 (13233)
Seq/√Len: 878.3
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
121_A128_V3.4601.00
103_W168_A3.2271.00
31_A35_V2.8971.00
30_L60_A2.8451.00
109_V139_A2.7141.00
7_V20_T2.6441.00
4_L24_L2.6221.00
18_W22_A2.5621.00
111_W172_P2.5481.00
199_S202_A2.3941.00
26_G64_L2.3541.00
29_L55_L2.2911.00
109_V135_S2.2761.00
111_W176_L2.2371.00
16_P19_R2.1801.00
17_R21_A2.1481.00
33_A55_L2.1281.00
105_L139_A2.1141.00
120_D190_A2.0341.00
143_F169_A1.9971.00
107_A172_P1.9581.00
29_L60_A1.9481.00
146_P165_Y1.9281.00
26_G67_G1.9221.00
20_T24_L1.9051.00
113_W135_S1.8661.00
22_A63_L1.8621.00
25_A63_L1.8551.00
202_A205_Q1.8391.00
120_D124_R1.8101.00
46_F207_A1.8041.00
112_A118_L1.7901.00
180_L187_L1.7851.00
108_A112_A1.7401.00
103_W165_Y1.7251.00
29_L59_V1.6881.00
39_D42_A1.6871.00
121_A125_S1.6701.00
2_L6_G1.6241.00
22_A66_L1.6221.00
47_S51_V1.6021.00
98_H101_V1.6001.00
120_D189_P1.5991.00
113_W136_F1.5661.00
25_A29_L1.5381.00
60_A137_L1.5351.00
181_T208_G1.5271.00
186_P201_L1.5191.00
194_A198_R1.5021.00
5_R9_R1.4921.00
7_V11_R1.4621.00
105_L142_L1.4621.00
21_A25_A1.4431.00
101_V105_L1.4191.00
123_L190_A1.4111.00
24_L28_A1.3851.00
26_G60_A1.3731.00
124_R190_A1.3711.00
38_L48_A1.3671.00
66_L148_L1.3621.00
177_G208_G1.3521.00
194_A197_P1.3491.00
103_W169_A1.3391.00
41_L48_A1.3311.00
100_L104_L1.3251.00
85_L89_R1.3161.00
8_R12_R1.2921.00
201_L205_Q1.2901.00
101_V104_L1.2891.00
32_L36_S1.2771.00
147_V166_L1.2661.00
15_W20_T1.2651.00
157_L161_A1.2651.00
87_A92_V1.2481.00
22_A25_A1.2471.00
159_Y229_R1.2461.00
126_P130_A1.2341.00
183_S187_L1.2251.00
51_V210_I1.2221.00
61_P65_V1.2211.00
183_S186_P1.2161.00
102_A146_P1.2071.00
127_A130_A1.2041.00
224_L228_F1.1971.00
23_F67_G1.1911.00
185_R201_L1.1891.00
218_V221_V1.1821.00
45_L48_A1.1811.00
65_V141_L1.1741.00
186_P189_P1.1721.00
122_A132_E1.1481.00
143_F165_Y1.1361.00
158_S161_A1.1321.00
217_L221_V1.1321.00
47_S203_D1.1311.00
24_L27_L1.1221.00
195_T198_R1.1171.00
50_M53_H1.1031.00
128_V131_L1.0981.00
39_D43_E1.0931.00
102_A142_L1.0901.00
113_W132_E1.0811.00
47_S210_I1.0791.00
4_L8_R1.0791.00
225_V229_R1.0771.00
82_R85_L1.0731.00
61_P140_G1.0721.00
55_L60_A1.0711.00
37_P41_L1.0701.00
78_P81_L1.0691.00
125_S128_V1.0611.00
6_G9_R1.0541.00
8_R11_R1.0421.00
162_R226_L1.0251.00
34_L56_L1.0251.00
114_H211_M1.0231.00
224_L227_F1.0161.00
30_L137_L1.0121.00
134_L138_A1.0091.00
157_L165_Y1.0091.00
30_L64_L1.0091.00
41_L45_L1.0061.00
6_G10_L1.0041.00
202_A206_L1.0031.00
221_V225_V1.0001.00
159_Y162_R0.9941.00
9_R13_R0.9901.00
11_R14_G0.9811.00
11_R20_T0.9791.00
18_W21_A0.9731.00
7_V15_W0.9711.00
107_A169_A0.9691.00
49_H53_H0.9651.00
53_H129_H0.9641.00
127_A131_L0.9611.00
132_E136_F0.9581.00
95_V101_V0.9521.00
135_S139_A0.9491.00
2_L5_R0.9441.00
61_P137_L0.9381.00
45_L203_D0.9251.00
68_A71_T0.9241.00
84_L88_L0.9191.00
115_L118_L0.9161.00
92_V96_L0.9151.00
144_W222_A0.9071.00
131_L135_S0.9051.00
55_L59_V0.8961.00
172_P176_L0.8951.00
225_V228_F0.8931.00
178_A181_T0.8891.00
159_Y226_L0.8871.00
87_A90_S0.8861.00
118_L121_A0.8831.00
103_W107_A0.8771.00
11_R15_W0.8761.00
92_V95_V0.8741.00
106_F140_G0.8731.00
60_A64_L0.8731.00
166_L226_L0.8711.00
57_M140_G0.8671.00
7_V24_L0.8551.00
47_S206_L0.8531.00
160_G230_W0.8521.00
52_Q133_H0.8461.00
42_A45_L0.8421.00
33_A60_A0.8421.00
110_L173_H0.8401.00
58_M106_F0.8361.00
74_L78_P0.8361.00
109_V112_A0.8321.00
43_E133_H0.8281.00
7_V72_L0.8271.00
49_H129_H0.8191.00
30_L56_L0.8191.00
174_T177_G0.8161.00
122_A128_V0.8161.00
75_R78_P0.8081.00
210_I214_P0.8051.00
106_F139_A0.7991.00
90_S94_R0.7981.00
84_L91_R0.7951.00
72_L76_A0.7861.00
135_S138_A0.7851.00
170_M173_H0.7801.00
15_W72_L0.7771.00
120_D191_Y0.7741.00
50_M211_M0.7741.00
85_L88_L0.7681.00
186_P200_P0.7631.00
186_P194_A0.7611.00
149_G155_R0.7581.00
156_R162_R0.7561.00
68_A150_P0.7551.00
96_L99_P0.7531.00
5_R8_R0.7481.00
121_A124_R0.7451.00
88_L91_R0.7441.00
104_L108_A0.7441.00
44_Y47_S0.7441.00
54_L210_I0.7381.00
62_P140_G0.7361.00
16_P21_A0.7351.00
175_V178_A0.7291.00
177_G212_W0.7271.00
218_V222_A0.7231.00
172_P175_V0.7231.00
23_F27_L0.7201.00
53_H133_H0.7201.00
27_L64_L0.7111.00
91_R94_R0.7081.00
72_L75_R0.7061.00
168_A172_P0.7051.00
29_L33_A0.7041.00
61_P141_L0.7031.00
49_H114_H0.7031.00
104_L107_A0.7031.00
64_L141_L0.7021.00
181_T212_W0.7021.00
45_L199_S0.7011.00
58_M218_V0.7001.00
86_R90_S0.6971.00
50_M114_H0.6961.00
163_L223_A0.6961.00
64_L67_G0.6901.00
71_T75_R0.6891.00
117_A121_A0.6881.00
188_Y191_Y0.6861.00
129_H133_H0.6851.00
113_W118_L0.6851.00
84_L87_A0.6771.00
186_P204_Q0.6741.00
89_R94_R0.6701.00
137_L141_L0.6701.00
107_A111_W0.6671.00
4_L20_T0.6661.00
178_A182_F0.6641.00
10_L13_R0.6631.00
33_A38_L0.6601.00
48_A51_V0.6591.00
28_A32_L0.6591.00
71_T74_L0.6521.00
3_Y67_G0.6511.00
160_G164_L0.6491.00
50_M136_F0.6471.00
43_E129_H0.6461.00
212_W216_G0.6431.00
73_L76_A0.6391.00
53_H211_M0.6391.00
138_A141_L0.6381.00
64_L137_L0.6371.00
96_L142_L0.6361.00
161_A164_L0.6331.00
130_A134_L0.6331.00
124_R127_A0.6321.00
199_S203_D0.6281.00
54_L215_G0.6281.00
222_A226_L0.6271.00
93_L97_T0.6241.00
87_A91_R0.6241.00
113_W122_A0.6211.00
98_H157_L0.6201.00
95_V98_H0.6201.00
111_W115_L0.6191.00
179_L183_S0.6141.00
216_G220_L0.6121.00
54_L214_P0.6121.00
7_V10_L0.6111.00
110_L176_L0.6081.00
96_L101_V0.6041.00
213_V217_L0.6041.00
39_D52_Q0.6031.00
57_M61_P0.6031.00
226_L229_R0.6021.00
33_A56_L0.6011.00
151_D154_P0.5991.00
138_A142_L0.5971.00
22_A67_G0.5941.00
97_T142_L0.5911.00
167_F170_M0.5861.00
21_A24_L0.5841.00
65_V148_L0.5841.00
40_A43_E0.5831.00
174_T216_G0.5831.00
36_S40_A0.5821.00
70_G74_L0.5791.00
170_M212_W0.5791.00
169_A219_Y0.5781.00
169_A173_H0.5761.00
123_L129_H0.5761.00
149_G162_R0.5741.00
106_F110_L0.5721.00
15_W19_R0.5711.00
170_M174_T0.5711.00
119_Y191_Y0.5681.00
119_Y133_H0.5681.00
119_Y123_L0.5661.00
223_A227_F0.5661.00
120_D188_Y0.5641.00
23_F64_L0.5631.00
209_L213_V0.5631.00
46_F180_L0.5591.00
228_F231_L0.5581.00
181_T209_L0.5581.00
177_G181_T0.5581.00
173_H215_G0.5571.00
37_P40_A0.5571.00
32_L37_P0.5571.00
132_E135_S0.5561.00
54_L132_E0.5541.00
77_L81_L0.5511.00
105_L109_V0.5501.00
88_L92_V0.5491.00
38_L55_L0.5481.00
29_L63_L0.5481.00
167_F171_L0.5481.00
17_R20_T0.5451.00
97_T102_A0.5441.00
115_L179_L0.5431.00
179_L187_L0.5391.00
180_L183_S0.5361.00
5_R10_L0.5311.00
169_A172_P0.5291.00
74_L153_E0.5291.00
65_V146_P0.5271.00
85_L91_R0.5251.00
206_L210_I0.5231.00
171_L174_T0.5231.00
9_R12_R0.5211.00
27_L30_L0.5201.00
213_V216_G0.5191.00
209_L216_G0.5181.00
153_E156_R0.5151.00
41_L44_Y0.5141.00
118_L132_E0.5131.00
113_W116_P0.5111.00
82_R87_A0.5061.00
114_H132_E0.5041.00
27_L31_A0.5031.00
35_V39_D0.5001.00
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  
2kncB 1 0.1588 3.9 0.955 Contact Map
3pjzA 2 0.5665 3.6 0.956 Contact Map
2m20A 2 0.1245 2.8 0.959 Contact Map
1kf6D 2 0.3519 2.4 0.96 Contact Map
4mt1A 3 0.3047 2.2 0.961 Contact Map
2l6wA 2 0.1502 2.1 0.961 Contact Map
2l2tA 2 0.1545 1.6 0.964 Contact Map
4b19A 1 0.1116 1.6 0.964 Contact Map
2kluA 1 0.1545 1.6 0.964 Contact Map
4o6yA 2 0.5966 1.6 0.964 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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