GREMLIN Database
YDJH - UPF0603 protein YdjH
UniProt: O35004 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 254 (236)
Sequences: 2138 (1986)
Seq/√Len: 129.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
139_N142_E5.1531.00
87_Y247_Y4.4061.00
135_L143_A3.7721.00
40_A70_T3.6901.00
125_N129_N3.5391.00
54_L149_Q3.5241.00
47_E141_F3.4741.00
98_L131_I3.4321.00
69_I86_F3.1081.00
41_H48_I3.0531.00
119_L124_L2.7911.00
120_D124_L2.5901.00
134_D146_T2.5471.00
54_L145_E2.4941.00
44_S47_E2.4091.00
96_A119_L2.3791.00
61_K156_G2.3261.00
87_Y97_I2.3071.00
131_I147_Y2.3061.00
44_S141_F2.2431.00
80_A108_F2.1951.00
96_A151_S2.1841.00
100_I144_F2.1181.00
55_S148_I2.1171.00
42_L102_M2.0381.00
119_L154_D2.0051.00
63_D94_S1.9631.00
58_L152_Y1.9541.00
101_D104_N1.9511.00
113_K248_S1.9361.00
134_D139_N1.9341.00
215_Y218_Y1.9161.00
111_G115_A1.8461.00
35_H59_G1.8291.00
128_R131_I1.8161.00
98_L144_F1.7571.00
83_T99_T1.7351.00
57_K61_K1.7291.00
120_D123_R1.6991.00
79_I99_T1.6801.00
78_D81_D1.6721.00
84_G87_Y1.6301.00
216_D219_I1.6011.00
35_H56_A1.5941.00
107_V128_R1.5881.00
107_V132_S1.5531.00
68_I144_F1.5471.00
107_V131_I1.5341.00
182_G186_S1.5041.00
77_E85_D1.5021.00
84_G247_Y1.4871.00
80_A110_A1.4831.00
183_I187_I1.4751.00
124_L252_G1.4731.00
84_G110_A1.4541.00
142_E146_T1.4431.00
119_L151_S1.4311.00
134_D142_E1.4221.00
74_T104_N1.4181.00
79_I108_F1.4171.00
42_L70_T1.4131.00
50_K145_E1.3811.00
123_R154_D1.3221.00
84_G88_D1.3211.00
109_I151_S1.3181.00
116_E248_S1.3151.00
88_D93_G1.3061.00
58_L64_T1.2831.00
214_Q217_T1.2411.00
132_S136_S1.2291.00
134_D137_N1.2271.00
56_A60_A1.1990.99
224_T229_P1.1940.99
231_D234_S1.1910.99
34_Q52_E1.1890.99
70_T74_T1.1820.99
111_G121_N1.1800.99
102_M140_Y1.1790.99
58_L66_F1.1590.99
113_K116_E1.1490.99
175_I179_A1.1410.99
81_D84_G1.1370.99
212_I216_D1.1270.99
98_L107_V1.1170.99
29_A86_F1.1140.99
145_E149_Q1.1080.99
74_T101_D1.1010.99
215_Y219_I1.1000.99
54_L152_Y1.0900.99
74_T79_I1.0850.99
51_L141_F1.0840.99
47_E51_L1.0780.99
86_F90_Y1.0680.99
177_A181_G1.0670.99
173_Q177_A1.0650.99
230_S233_D1.0640.99
48_I52_E1.0550.99
43_L141_F1.0450.98
217_T220_R1.0410.98
223_V228_K1.0260.98
81_D85_D1.0190.98
132_S147_Y1.0070.98
178_I182_G0.9860.98
111_G248_S0.9860.98
43_L144_F0.9860.98
228_K231_D0.9820.98
110_A247_Y0.9760.98
141_F145_E0.9690.97
85_D89_R0.9690.97
221_T224_T0.9650.97
66_F151_S0.9640.97
146_T149_Q0.9620.97
213_D216_D0.9600.97
216_D220_R0.9570.97
37_Y67_I0.9420.97
40_A102_M0.9390.97
211_V215_Y0.9390.97
154_D157_I0.9370.97
184_A188_M0.9350.97
36_V51_L0.9330.97
87_Y246_S0.9320.97
226_E229_P0.9290.97
222_T225_R0.9280.97
39_R70_T0.9270.97
43_L47_E0.9240.97
212_I215_Y0.9220.97
79_I83_T0.9200.97
83_T87_Y0.9170.96
91_G242_K0.9110.96
73_S76_G0.9060.96
66_F152_Y0.9040.96
82_Y99_T0.9040.96
23_G26_A0.8970.96
49_G53_S0.8960.96
128_R252_G0.8950.96
111_G116_E0.8920.96
10_F17_I0.8860.96
108_F251_R0.8840.96
128_R147_Y0.8810.96
29_A69_I0.8770.95
32_L37_Y0.8760.95
32_L35_H0.8720.95
223_V226_E0.8710.95
35_H52_E0.8710.95
109_I128_R0.8700.95
213_D217_T0.8660.95
135_L140_Y0.8620.95
224_T227_R0.8490.95
42_L100_I0.8490.95
47_E50_K0.8450.94
211_V214_Q0.8420.94
93_G112_F0.8380.94
233_D236_S0.8290.94
74_T106_E0.8280.94
179_A183_I0.8280.94
43_L70_T0.8260.94
96_A115_A0.8240.94
219_I222_T0.8140.93
109_I127_I0.8080.93
66_F96_A0.8060.93
195_K198_V0.8050.93
98_L147_Y0.7990.93
122_S126_S0.7970.93
126_S130_T0.7970.93
128_R132_S0.7960.93
112_F116_E0.7950.92
232_K235_G0.7940.92
56_A59_G0.7940.92
82_Y86_F0.7890.92
164_D168_F0.7830.92
73_S101_D0.7750.91
185_V189_L0.7730.91
218_Y223_V0.7710.91
170_W180_V0.7670.91
212_I218_Y0.7650.91
62_R155_M0.7640.91
171_W175_I0.7630.91
107_V147_Y0.7580.91
50_K54_L0.7530.90
70_T102_M0.7510.90
45_K48_I0.7490.90
70_T144_F0.7470.90
100_I135_L0.7450.90
63_D157_I0.7440.90
222_T226_E0.7430.90
93_G113_K0.7400.90
194_G200_G0.7390.89
47_E145_E0.7390.89
223_V227_R0.7380.89
150_L153_K0.7370.89
47_E144_F0.7360.89
186_S189_L0.7330.89
111_G120_D0.7320.89
214_Q218_Y0.7320.89
229_P232_K0.7300.89
181_G185_V0.7270.89
47_E139_N0.7260.89
64_T155_M0.7250.89
214_Q219_I0.7240.88
55_S59_G0.7240.88
59_G63_D0.7230.88
225_R228_K0.7210.88
43_L48_I0.7200.88
226_E231_D0.7200.88
33_Q37_Y0.7170.88
84_G97_I0.7130.88
83_T247_Y0.7130.88
212_I217_T0.7120.88
241_T246_S0.7090.87
67_I70_T0.7070.87
83_T108_F0.7070.87
238_G241_T0.7030.87
58_L155_M0.7010.87
113_K246_S0.6990.87
40_A74_T0.6990.87
115_A155_M0.6970.87
71_T101_D0.6970.87
53_S57_K0.6970.87
20_P23_G0.6970.87
197_T200_G0.6950.86
20_P25_E0.6950.86
100_I107_V0.6920.86
85_D88_D0.6900.86
124_L250_S0.6890.86
162_N165_N0.6830.85
225_R229_P0.6820.85
97_I110_A0.6820.85
112_F245_T0.6810.85
227_R231_D0.6790.85
57_K60_A0.6730.85
83_T110_A0.6730.85
93_G114_K0.6710.84
77_E100_I0.6670.84
77_E81_D0.6660.84
245_T251_R0.6660.84
64_T115_A0.6660.84
124_L128_R0.6610.84
116_E121_N0.6580.83
183_I186_S0.6580.83
220_R223_V0.6580.83
189_L193_G0.6560.83
171_W174_L0.6550.83
28_R31_E0.6540.83
122_S125_N0.6540.83
123_R129_N0.6530.83
72_K103_T0.6520.83
64_T94_S0.6510.83
209_S213_D0.6510.83
100_I131_I0.6510.83
219_I223_V0.6500.82
45_K49_G0.6450.82
30_S90_Y0.6440.82
51_L68_I0.6430.82
215_Y220_R0.6410.82
214_Q220_R0.6390.81
215_Y221_T0.6390.81
185_V188_M0.6300.81
101_D105_R0.6290.80
84_G108_F0.6270.80
221_T229_P0.6220.80
127_I147_Y0.6190.79
32_L59_G0.6180.79
79_I101_D0.6140.79
196_V199_N0.6100.78
14_A17_I0.6100.78
227_R230_S0.6090.78
149_Q152_Y0.6080.78
80_A83_T0.6070.78
62_R94_S0.6060.78
239_G242_K0.6030.78
129_N132_S0.6020.77
97_I247_Y0.6020.77
127_I151_S0.6010.77
127_I150_L0.6010.77
67_I90_Y0.5990.77
147_Y150_L0.5970.77
226_E230_S0.5960.77
223_V229_P0.5960.77
64_T118_Y0.5960.77
218_Y226_E0.5930.76
134_D147_Y0.5910.76
84_G111_G0.5910.76
134_D138_E0.5880.76
172_F176_A0.5830.75
22_L25_E0.5830.75
59_G65_D0.5830.75
52_E56_A0.5790.75
133_S147_Y0.5780.75
106_E132_S0.5770.74
228_K236_S0.5750.74
76_G106_E0.5740.74
229_P235_G0.5730.74
69_I82_Y0.5730.74
29_A32_L0.5720.74
186_S190_Y0.5710.74
18_M23_G0.5710.74
79_I110_A0.5710.74
42_L155_M0.5660.73
177_A185_V0.5640.73
110_A124_L0.5610.72
170_W187_I0.5600.72
123_R126_S0.5580.72
37_Y86_F0.5540.71
173_Q187_I0.5500.71
88_D113_K0.5470.70
158_K163_P0.5450.70
118_Y155_M0.5440.70
90_Y147_Y0.5440.70
36_V52_E0.5430.70
17_I20_P0.5410.70
64_T126_S0.5400.70
32_L52_E0.5380.69
46_A50_K0.5380.69
105_R136_S0.5380.69
42_L143_A0.5380.69
66_F148_I0.5370.69
11_V14_A0.5370.69
153_K157_I0.5360.69
213_D218_Y0.5350.69
209_S216_D0.5350.69
42_L140_Y0.5340.69
225_R231_D0.5310.68
123_R127_I0.5300.68
170_W175_I0.5290.68
100_I143_A0.5280.68
170_W176_A0.5260.68
101_D106_E0.5250.67
35_H65_D0.5230.67
74_T82_Y0.5230.67
87_Y112_F0.5210.67
84_G246_S0.5200.67
93_G140_Y0.5190.67
119_L147_Y0.5190.67
31_E34_Q0.5180.66
208_T211_V0.5180.66
220_R224_T0.5180.66
228_K232_K0.5170.66
187_I190_Y0.5130.66
225_R232_K0.5130.66
122_S154_D0.5120.65
242_K245_T0.5110.65
51_L55_S0.5110.65
84_G113_K0.5110.65
240_V245_T0.5110.65
216_D221_T0.5100.65
93_G246_S0.5090.65
21_L180_V0.5070.65
225_R230_S0.5060.65
235_G239_G0.5060.65
148_I152_Y0.5050.64
171_W178_I0.5040.64
182_G189_L0.5040.64
173_Q180_V0.5000.64
34_Q91_G0.5000.64
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  
2kptA 1 0.5827 99.9 0.569 Contact Map
2kw7A 1 0.5945 99.9 0.572 Contact Map
4oa3A 1 0.5354 99.9 0.583 Contact Map
3pvhA 1 0.563 99.9 0.59 Contact Map
2pk2A 3 0.6654 94.3 0.903 Contact Map
4fybB 1 0.4528 84.6 0.922 Contact Map
4kblA 2 0 82.8 0.923 Contact Map
2zvfA 2 0.5118 69.9 0.931 Contact Map
4oe8C 1 0.126 62.1 0.935 Contact Map
1w7fA 1 0.3268 55.5 0.937 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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