GREMLIN Database
XKDP - Phage-like element PBSX protein XkdP
UniProt: P54335 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 219 (196)
Sequences: 278 (243)
Seq/√Len: 17.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
182_Q185_K8.1671.00
170_W180_S4.0201.00
187_W192_T3.6461.00
163_V172_I3.6431.00
59_S128_D3.5251.00
177_Y189_A3.5011.00
187_W194_M3.4771.00
161_Y176_F3.3921.00
168_T171_D3.3420.99
54_K133_E2.8500.98
187_W191_K2.7430.98
204_Q207_H2.4650.95
189_A217_I2.3490.94
96_Q107_T2.3210.94
60_S127_F2.3210.94
118_G126_S2.2720.93
82_I113_F2.2330.92
48_I109_S2.2000.92
163_V213_Q2.0880.89
204_Q208_W1.9520.86
179_N182_Q1.9510.86
98_L105_N1.8990.84
107_T136_T1.8600.83
177_Y185_K1.8240.82
162_T214_K1.7890.81
161_Y167_D1.7790.80
210_F213_Q1.6780.76
46_T111_E1.6590.75
56_I106_L1.6490.75
185_K189_A1.6410.74
191_K194_M1.6220.73
176_F217_I1.6200.73
209_I213_Q1.5870.72
44_D52_G1.5740.71
205_P213_Q1.5580.70
76_P81_A1.5530.70
82_I115_Y1.5290.69
187_W193_A1.5050.68
62_F78_P1.4640.65
82_I127_F1.4550.65
177_Y182_Q1.4170.63
97_F131_L1.4050.62
34_N109_S1.4040.62
205_P208_W1.3900.61
27_S114_S1.3760.60
11_S14_K1.3760.60
46_T132_K1.3520.59
78_P123_G1.3440.59
33_Q38_K1.3360.58
155_K164_K1.3250.57
57_S164_K1.2990.56
113_F127_F1.2770.55
208_W211_P1.2740.54
177_Y215_L1.2620.54
19_L127_F1.2550.53
191_K216_K1.2290.52
60_S113_F1.2220.51
207_H211_P1.2200.51
26_L120_Q1.2170.51
120_Q123_G1.2130.51
85_I110_I1.2000.50
87_K165_K1.1990.50
12_Q107_T1.1920.49
24_D120_Q1.1860.49
12_Q136_T1.1790.49
189_A192_T1.1700.48
179_N185_K1.1660.48
182_Q189_A1.1500.47
17_L217_I1.1440.47
111_E132_K1.1360.46
67_S122_I1.1170.45
21_V69_I1.1120.45
46_T109_S1.1040.44
160_T214_K1.0930.43
163_V210_F1.0930.43
34_N46_T1.0930.43
36_T44_D1.0910.43
19_L22_L1.0900.43
89_M113_F1.0840.43
173_A186_I1.0830.43
53_A133_E1.0740.42
11_S136_T1.0740.42
34_N111_E1.0640.42
114_S128_D1.0570.41
48_I88_W1.0520.41
32_V138_S1.0480.41
61_F126_S1.0380.40
177_Y217_I1.0340.40
165_K179_N1.0240.39
96_Q105_N1.0180.39
131_L160_T1.0120.39
19_L95_V1.0090.39
56_I97_F1.0070.38
90_K213_Q1.0020.38
171_D175_R0.9990.38
188_N191_K0.9970.38
207_H213_Q0.9960.38
109_S132_K0.9870.37
60_S129_I0.9830.37
192_T216_K0.9740.37
110_I113_F0.9720.36
61_F69_I0.9430.35
176_F186_I0.9260.34
22_L120_Q0.9250.34
15_D85_I0.9240.34
88_W95_V0.9230.34
163_V209_I0.9180.33
88_W134_Y0.9110.33
135_K181_T0.9110.33
88_W110_I0.9100.33
180_S184_R0.9090.33
169_L172_I0.9050.33
94_P134_Y0.9020.33
62_F81_A0.8920.32
31_T114_S0.8900.32
39_V89_M0.8840.32
62_F110_I0.8740.31
18_R22_L0.8700.31
25_Q116_S0.8690.31
31_T52_G0.8670.31
53_A81_A0.8600.30
186_I215_L0.8580.30
65_K69_I0.8560.30
37_V93_K0.8450.30
172_I211_P0.8440.30
147_K153_P0.8420.30
162_T170_W0.8410.29
58_F98_L0.8290.29
167_D172_I0.8270.29
170_W185_K0.8260.29
51_Q216_K0.8260.29
106_L133_E0.8210.28
163_V169_L0.8140.28
75_F81_A0.8130.28
68_P75_F0.8110.28
42_F88_W0.8090.28
85_I113_F0.8010.27
55_E110_I0.7990.27
172_I209_I0.7990.27
112_G130_Q0.7890.27
64_K78_P0.7860.27
21_V60_S0.7820.27
173_A180_S0.7820.27
12_Q15_D0.7810.27
85_I127_F0.7780.26
147_K165_K0.7770.26
79_E125_R0.7740.26
172_I213_Q0.7670.26
146_K156_A0.7640.26
53_A111_E0.7640.26
161_Y164_K0.7630.26
97_F193_A0.7620.26
163_V167_D0.7600.26
17_L81_A0.7590.26
111_E139_P0.7550.25
114_S157_A0.7540.25
19_L139_P0.7520.25
128_D145_K0.7420.25
123_G217_I0.7380.25
116_S126_S0.7350.24
11_S48_I0.7320.24
39_V118_G0.7310.24
110_I129_I0.7310.24
26_L79_E0.7290.24
60_S85_I0.7270.24
168_T210_F0.7250.24
152_R155_K0.7240.24
92_K148_T0.7240.24
68_P142_I0.7130.23
183_W209_I0.7070.23
31_T151_K0.6970.23
70_A125_R0.6970.23
163_V215_L0.6950.23
25_Q59_S0.6920.23
149_K152_R0.6920.23
151_K164_K0.6900.22
170_W174_G0.6890.22
61_F127_F0.6870.22
185_K217_I0.6860.22
77_S154_S0.6800.22
39_V101_G0.6710.22
170_W178_G0.6700.22
24_D52_G0.6630.21
93_K136_T0.6550.21
57_S112_G0.6520.21
209_I212_G0.6490.21
48_I132_K0.6490.21
91_A162_T0.6470.21
173_A183_W0.6460.21
89_M135_K0.6460.21
116_S120_Q0.6460.21
32_V49_D0.6450.21
86_E115_Y0.6430.21
164_K184_R0.6420.21
39_V42_F0.6410.20
124_D131_L0.6370.20
42_F180_S0.6280.20
41_K89_M0.6270.20
72_Y75_F0.6260.20
130_Q168_T0.6240.20
85_I129_I0.6230.20
64_K76_P0.6230.20
98_L181_T0.6210.20
94_P109_S0.6200.20
30_N47_F0.6130.19
30_N127_F0.6120.19
66_Y75_F0.6090.19
207_H210_F0.6040.19
77_S146_K0.6040.19
28_I155_K0.6020.19
28_I86_E0.6010.19
56_I111_E0.6000.19
50_E189_A0.5990.19
117_E138_S0.5970.19
150_A189_A0.5900.19
166_G172_I0.5880.18
109_S134_Y0.5830.18
69_I120_Q0.5820.18
49_D126_S0.5810.18
63_P124_D0.5800.18
67_S111_E0.5800.18
174_G180_S0.5790.18
26_L125_R0.5790.18
187_W205_P0.5780.18
150_A188_N0.5770.18
33_Q183_W0.5760.18
162_T181_T0.5760.18
162_T184_R0.5750.18
165_K216_K0.5740.18
59_S80_N0.5740.18
31_T55_E0.5720.18
194_M209_I0.5720.18
11_S95_V0.5720.18
188_N192_T0.5710.18
30_N130_Q0.5700.18
91_A145_K0.5690.18
72_Y76_P0.5690.18
34_N48_I0.5680.18
49_D180_S0.5620.18
30_N54_K0.5590.17
192_T210_F0.5590.17
176_F183_W0.5580.17
17_L186_I0.5570.17
43_G88_W0.5540.17
67_S120_Q0.5530.17
131_L138_S0.5530.17
50_E109_S0.5500.17
150_A182_Q0.5500.17
81_A144_Q0.5500.17
70_A137_A0.5470.17
97_F204_Q0.5460.17
163_V187_W0.5450.17
23_P78_P0.5440.17
157_A182_Q0.5430.17
44_D68_P0.5420.17
66_Y129_I0.5420.17
28_I164_K0.5420.17
66_Y69_I0.5380.17
173_A179_N0.5380.17
32_V189_A0.5380.17
92_K164_K0.5370.17
173_A215_L0.5360.17
45_L87_K0.5350.17
94_P159_K0.5340.17
62_F123_G0.5340.17
33_Q52_G0.5330.17
152_R158_P0.5330.17
30_N133_E0.5300.16
150_A184_R0.5290.16
59_S141_K0.5270.16
189_A216_K0.5260.16
151_K191_K0.5240.16
41_K71_E0.5240.16
208_W213_Q0.5220.16
191_K210_F0.5200.16
48_I134_Y0.5190.16
17_L85_I0.5180.16
123_G162_T0.5170.16
78_P97_F0.5120.16
151_K156_A0.5100.16
157_A176_F0.5090.16
112_G143_K0.5060.16
30_N52_G0.5060.16
148_T173_A0.5060.16
95_V153_P0.5050.16
163_V194_M0.5040.16
61_F214_K0.5040.16
66_Y191_K0.5030.16
37_V47_F0.5030.16
95_V110_I0.5030.16
96_Q129_I0.5030.16
128_D175_R0.5000.15
58_F96_Q0.5000.15
187_W211_P0.5000.15
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  
2ltfA 1 0.2329 99.3 0.811 Contact Map
2djpA 1 0.2831 99.2 0.818 Contact Map
2mkxA 1 0.2237 99.1 0.828 Contact Map
4pxvA 1 0.2192 99 0.833 Contact Map
2mpwA 1 0.347 99 0.835 Contact Map
2l9yA 1 0.4977 98.8 0.842 Contact Map
1e0gA 1 0.2146 98.8 0.845 Contact Map
4uz3A 1 0.2146 98.7 0.852 Contact Map
4b8vA 2 0.242 98.5 0.858 Contact Map
4ebyA 1 0.2648 98.5 0.858 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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