GREMLIN Database
XKDC - Phage-like element PBSX protein XkdC
UniProt: P39782 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 266 (217)
Sequences: 2178 (1802)
Seq/√Len: 122.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
238_T255_A5.4991.00
138_A182_F4.0801.00
138_A149_V3.9661.00
102_T137_A3.2791.00
134_L221_S3.2641.00
83_F136_A3.0141.00
140_E143_R2.9051.00
132_H136_A2.7941.00
188_K235_A2.7441.00
154_F183_I2.7401.00
147_V179_D2.6151.00
121_A222_S2.5711.00
99_F103_K2.5271.00
254_A259_N2.4781.00
225_T228_G2.4181.00
35_C38_C2.3271.00
211_R218_I2.3101.00
134_L219_L2.2881.00
101_C245_S2.2641.00
37_R58_S2.2491.00
62_E66_K2.1981.00
179_D216_K2.1831.00
151_Y221_S2.1141.00
83_F106_V2.0731.00
56_M60_M2.0271.00
186_L220_L1.9741.00
103_K107_A1.9711.00
106_V140_E1.9231.00
220_L240_I1.9221.00
85_E132_H1.9171.00
150_I178_A1.8901.00
64_K68_L1.8791.00
54_W57_C1.8261.00
123_L222_S1.8191.00
212_Y242_E1.7981.00
173_N177_Q1.7951.00
149_V182_F1.7481.00
140_E144_T1.7381.00
106_V141_L1.7221.00
209_N213_L1.7011.00
148_P179_D1.6861.00
128_S253_G1.6721.00
104_E108_D1.6191.00
134_L182_F1.5961.00
128_S251_I1.5531.00
33_Y40_D1.5521.00
122_L251_I1.5481.00
62_E65_V1.5121.00
137_A219_L1.4971.00
158_F200_Q1.4961.00
187_F223_E1.4841.00
185_D221_S1.4791.00
98_A249_V1.4731.00
153_P209_N1.4151.00
176_K210_Y1.3851.00
105_Y217_P1.3531.00
50_G57_C1.3491.00
141_L180_V1.3071.00
84_K140_E1.3021.00
122_L249_V1.2941.00
55_T59_C1.2761.00
76_H79_R1.2741.00
119_S217_P1.2721.00
165_F199_W1.2651.00
157_G175_M1.2581.00
178_A181_L1.2430.99
86_F133_L1.2370.99
86_F132_H1.2370.99
53_V59_C1.2150.99
119_S243_M1.2150.99
105_Y109_Y1.2080.99
134_L180_V1.2080.99
94_A98_A1.1950.99
50_G53_V1.1900.99
63_R66_K1.1860.99
50_G59_C1.1610.99
164_D171_K1.1390.99
164_D168_L1.1340.99
50_G54_W1.1340.99
156_E210_Y1.1120.99
96_K100_E1.1050.99
153_P205_Y1.0930.99
35_C57_C1.0890.99
118_N245_S1.0890.99
53_V57_C1.0770.98
161_L168_L1.0760.98
56_M59_C1.0710.98
98_A102_T1.0520.98
139_N143_R1.0460.98
102_T120_I1.0440.98
169_E173_N1.0400.98
86_F95_I1.0290.98
132_H256_Y1.0280.98
205_Y209_N1.0150.98
77_A242_E1.0120.98
88_T99_F1.0060.98
91_K256_Y1.0000.98
108_D111_Q0.9960.97
87_R90_G0.9810.97
98_A133_L0.9750.97
59_C63_R0.9750.97
67_R71_A0.9720.97
153_P156_E0.9720.97
77_A215_H0.9700.97
68_L72_S0.9670.97
99_F106_V0.9660.97
156_E176_K0.9460.97
54_W59_C0.9450.97
110_E147_V0.9350.96
100_E104_E0.9250.96
123_L248_L0.9230.96
131_T135_T0.9170.96
228_G231_R0.9160.96
223_E235_A0.9140.96
81_L131_T0.9110.96
181_L207_V0.9110.96
39_K42_G0.9090.96
105_Y110_E0.9050.96
160_D171_K0.8970.95
155_V176_K0.8950.95
42_G59_C0.8940.95
154_F158_F0.8930.95
154_F204_M0.8890.95
135_T151_Y0.8860.95
97_D101_C0.8860.95
65_V143_R0.8860.95
41_Q44_Y0.8840.95
159_T206_S0.8820.95
210_Y214_N0.8810.95
152_F157_G0.8720.95
37_R44_Y0.8710.95
33_Y39_K0.8670.94
163_N169_E0.8640.94
196_A200_Q0.8620.94
40_D44_Y0.8610.94
256_Y259_N0.8610.94
157_G207_V0.8560.94
51_L55_T0.8540.94
150_I174_R0.8520.94
81_L132_H0.8510.94
224_L229_L0.8490.94
180_V217_P0.8420.93
182_F221_S0.8370.93
52_E57_C0.8360.93
159_T203_Q0.8360.93
208_L218_I0.8340.93
81_L135_T0.8310.93
162_K197_T0.8230.93
57_C60_M0.8050.92
175_M178_A0.7990.92
187_F194_P0.7950.91
162_K165_F0.7930.91
154_F161_L0.7920.91
175_M181_L0.7900.91
194_P232_V0.7900.91
251_I254_A0.7880.91
218_I244_C0.7860.91
82_G143_R0.7840.91
101_C249_V0.7830.91
158_F165_F0.7800.91
78_F81_L0.7790.91
61_A64_K0.7750.90
141_L147_V0.7720.90
172_L207_V0.7720.90
107_A140_E0.7710.90
80_Q215_H0.7690.90
68_L148_P0.7680.90
105_Y120_I0.7650.90
58_S62_E0.7630.90
68_L71_A0.7600.89
87_R256_Y0.7560.89
95_I251_I0.7550.89
76_H215_H0.7550.89
89_E256_Y0.7550.89
106_V137_A0.7540.89
194_P202_E0.7530.89
185_D194_P0.7510.89
44_Y47_R0.7500.89
104_E107_A0.7450.88
176_K206_S0.7440.88
237_G241_Y0.7400.88
61_A65_V0.7360.88
162_K166_A0.7310.88
154_F200_Q0.7300.87
210_Y216_K0.7290.87
181_L211_R0.7280.87
81_L85_E0.7270.87
131_T151_Y0.7250.87
53_V56_M0.7220.87
138_A205_Y0.7210.87
135_T139_N0.7160.86
151_Y223_E0.7150.86
253_G257_E0.7140.86
144_T147_V0.7130.86
30_A33_Y0.7080.86
35_C59_C0.7020.85
187_F224_L0.6960.85
185_D188_K0.6950.85
74_I135_T0.6920.85
253_G256_Y0.6900.84
66_K73_E0.6890.84
66_K70_G0.6860.84
235_A239_R0.6860.84
116_R144_T0.6850.84
37_R40_D0.6840.84
40_D43_G0.6720.83
229_L237_G0.6710.83
201_L236_L0.6690.82
165_F168_L0.6660.82
38_C41_Q0.6660.82
123_L225_T0.6640.82
123_L250_I0.6620.82
188_K223_E0.6610.82
78_F135_T0.6600.82
51_L59_C0.6590.82
88_T96_K0.6570.81
161_L207_V0.6570.81
36_L42_G0.6550.81
194_P200_Q0.6530.81
195_R198_D0.6520.81
82_G139_N0.6510.81
74_I78_F0.6490.81
154_F186_L0.6450.80
41_Q47_R0.6450.80
51_L54_W0.6400.80
162_K199_W0.6370.79
109_Y147_V0.6340.79
159_T163_N0.6330.79
123_L226_I0.6290.78
122_L248_L0.6270.78
186_L204_M0.6260.78
119_S216_K0.6260.78
153_P206_S0.6220.78
194_P199_W0.6210.78
83_F86_F0.6200.77
142_M149_V0.6150.77
41_Q46_V0.6140.77
68_L146_Y0.6110.76
110_E115_C0.6110.76
31_S34_D0.6070.76
183_I204_M0.6060.76
220_L244_C0.6060.76
187_F235_A0.6040.76
159_T162_K0.6030.76
76_H214_N0.6020.75
54_W58_S0.6000.75
38_C59_C0.5950.75
152_F175_M0.5950.75
177_Q214_N0.5950.75
77_A81_L0.5950.75
149_V179_D0.5940.74
83_F102_T0.5940.74
119_S187_F0.5930.74
80_Q85_E0.5860.73
168_L203_Q0.5850.73
188_K194_P0.5840.73
127_G257_E0.5810.73
95_I98_A0.5810.73
153_P213_L0.5790.73
42_G46_V0.5760.72
55_T58_S0.5750.72
69_L74_I0.5690.71
135_T138_A0.5680.71
100_E103_K0.5660.71
72_S185_D0.5640.71
32_R43_G0.5630.70
33_Y36_L0.5630.70
235_A240_I0.5630.70
83_F137_A0.5620.70
86_F99_F0.5620.70
163_N207_V0.5610.70
254_A258_L0.5610.70
212_Y243_M0.5610.70
124_G204_M0.5600.70
230_V237_G0.5570.70
211_R217_P0.5560.70
65_V68_L0.5540.69
207_V211_R0.5540.69
209_N239_R0.5530.69
161_L172_L0.5530.69
132_H135_T0.5520.69
91_K95_I0.5480.68
82_G136_A0.5460.68
28_S32_R0.5450.68
125_Q252_K0.5440.68
109_Y180_V0.5430.68
105_Y180_V0.5420.68
160_D174_R0.5420.68
30_A47_R0.5400.67
203_Q206_S0.5390.67
224_L235_A0.5380.67
104_E231_R0.5350.67
74_I151_Y0.5340.66
163_N167_L0.5330.66
102_T106_V0.5290.66
201_L233_D0.5290.66
153_P235_A0.5280.66
172_L176_K0.5280.66
197_T200_Q0.5270.65
119_S199_W0.5270.65
60_M67_R0.5260.65
115_C215_H0.5250.65
182_F219_L0.5240.65
83_F99_F0.5210.65
241_Y258_L0.5210.65
185_D239_R0.5200.64
30_A34_D0.5190.64
40_D59_C0.5190.64
178_A207_V0.5180.64
148_P178_A0.5180.64
101_C108_D0.5170.64
223_E257_E0.5160.64
98_A251_I0.5140.64
39_K44_Y0.5140.64
121_A240_I0.5110.63
36_L131_T0.5080.63
67_R80_Q0.5060.62
155_V203_Q0.5030.62
90_G95_I0.5020.62
38_C42_G0.5020.62
160_D164_D0.5020.62
164_D167_L0.5020.62
125_Q128_S0.5020.62
78_F131_T0.5010.62
59_C62_E0.5000.61
158_F199_W0.5000.61
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  
4m4wJ 3 0.8571 100 0.443 Contact Map
2qgzA 1 0.6541 100 0.47 Contact Map
2w58A 2 0.6842 100 0.534 Contact Map
3ec2A 1 0.6128 100 0.555 Contact Map
1l8qA 1 0.6579 99.9 0.644 Contact Map
2vhjA 3 0.8383 99.9 0.657 Contact Map
3bosA 2 0.6504 99.8 0.663 Contact Map
2z4sA 1 0.6617 99.8 0.67 Contact Map
1tueA 1 0.6692 99.7 0.723 Contact Map
1g5tA 2 0.4624 99.6 0.728 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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