GREMLIN Database
RIMP - Ribosome maturation factor RimP
UniProt: P0A8A8 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11179
Length: 150 (143)
Sequences: 3224 (2274)
Seq/√Len: 190.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
118_K128_T2.8261.00
16_V54_V2.7581.00
13_T17_E2.5901.00
124_M135_V2.4121.00
103_L113_W2.3961.00
88_A138_L2.3371.00
137_A140_N2.1671.00
28_F36_L2.1581.00
25_G86_F2.1091.00
40_I54_V1.9901.00
38_I58_V1.9521.00
126_T135_V1.9261.00
98_E116_V1.9041.00
120_V138_L1.8771.00
12_I58_V1.8181.00
9_T13_T1.8131.00
24_V90_H1.8071.00
95_V119_A1.6651.00
121_D124_M1.6561.00
47_N50_D1.6461.00
61_V64_V1.6011.00
119_A126_T1.5971.00
129_V132_K1.5801.00
87_T90_H1.5711.00
16_V23_L1.5651.00
39_Y77_S1.5621.00
116_V128_T1.5411.00
89_E92_A1.5351.00
22_E93_R1.4991.00
19_L57_Q1.4951.00
128_T131_G1.4811.00
42_S50_D1.4701.00
27_E37_R1.4351.00
52_A56_H1.4311.00
88_A120_V1.4301.00
49_D52_A1.4281.00
121_D135_V1.4181.00
18_A57_Q1.4141.00
24_V84_P1.4141.00
115_G127_V1.4101.00
125_I141_I1.3991.00
7_K10_E1.3901.00
41_D46_I1.3771.00
91_Y144_A1.3671.00
21_F46_I1.3621.00
40_I46_I1.3571.00
99_V117_I1.3311.00
94_F146_L1.3211.00
104_R142_Q1.3111.00
118_K126_T1.3111.00
9_T87_T1.2951.00
105_M140_N1.2801.00
22_E89_E1.2671.00
141_I144_A1.2671.00
60_A64_V1.2661.00
6_Q10_E1.2421.00
99_V144_A1.2311.00
37_R75_E1.2021.00
51_C55_S1.1941.00
11_M61_V1.1931.00
88_A92_A1.1881.00
46_I78_S1.1861.00
19_L54_V1.1511.00
61_V65_E1.1501.00
114_Q147_V1.1371.00
28_F70_V1.1201.00
130_E133_D1.1151.00
12_I38_I1.1101.00
102_V112_K1.1041.00
9_T23_L1.0881.00
81_L148_P1.0861.00
95_V120_V1.0851.00
21_F50_D1.0811.00
30_R34_S1.0581.00
100_T112_K1.0571.00
19_L53_D1.0551.00
105_M111_R1.0431.00
33_T73_N1.0361.00
28_F34_S1.0351.00
103_L107_V1.0301.00
99_V127_V1.0241.00
94_F97_E1.0221.00
8_L12_I1.0171.00
118_K133_D1.0111.00
24_V94_F1.0101.00
121_D126_T1.0061.00
79_P83_R0.9990.99
91_Y138_L0.9950.99
48_V51_C0.9850.99
85_L90_H0.9800.99
98_E147_V0.9640.99
12_I16_V0.9640.99
51_C78_S0.9630.99
15_P61_V0.9540.99
55_S59_S0.9500.99
7_K65_E0.9490.99
100_T147_V0.9450.99
107_V140_N0.9440.99
59_S63_D0.9270.99
58_V74_L0.9250.99
6_Q9_T0.9210.99
27_E39_Y0.9190.99
103_L136_F0.9070.99
34_S70_V0.9030.99
88_A123_E0.8940.99
102_V143_K0.8930.99
100_T114_Q0.8830.99
90_H93_R0.8810.99
21_F53_D0.8750.99
11_M14_A0.8530.98
14_A17_E0.8480.98
123_E139_S0.8360.98
124_M138_L0.8360.98
41_D93_R0.8280.98
16_V19_L0.8250.98
128_T134_E0.8120.98
7_K67_P0.8030.98
91_Y125_I0.7900.97
90_H146_L0.7760.97
54_V58_V0.7710.97
82_D148_P0.7680.97
8_L26_I0.7600.97
42_S45_G0.7580.97
39_Y86_F0.7550.97
43_E93_R0.7530.97
36_L62_L0.7510.96
122_G138_L0.7360.96
130_E134_E0.7350.96
90_H94_F0.7290.96
104_R111_R0.7280.96
11_M65_E0.7270.96
82_D146_L0.7230.96
15_P57_Q0.7200.95
84_P94_F0.7170.95
59_S74_L0.7040.95
129_V134_E0.6990.95
87_T91_Y0.6990.95
101_L141_I0.6950.95
126_T133_D0.6940.95
82_D147_V0.6880.94
23_L26_I0.6860.94
81_L145_N0.6850.94
37_R77_S0.6850.94
50_D53_D0.6820.94
13_T87_T0.6750.94
113_W136_F0.6740.94
5_E9_T0.6690.93
24_V48_V0.6680.93
131_G134_E0.6680.93
92_A122_G0.6600.93
35_T73_N0.6570.93
85_L146_L0.6550.93
84_P90_H0.6530.93
15_P54_V0.6420.92
102_V142_Q0.6420.92
28_F68_I0.6340.91
101_L127_V0.6300.91
91_Y117_I0.6280.91
29_I35_T0.6270.91
30_R70_V0.6210.91
42_S46_I0.6180.90
92_A119_A0.6170.90
145_N148_P0.6120.90
49_D53_D0.6080.90
29_I37_R0.6050.89
71_A77_S0.6040.89
123_E137_A0.6040.89
62_L72_Y0.6030.89
15_P19_L0.6000.89
59_S66_D0.6000.89
86_F90_H0.5980.89
31_G34_S0.5970.89
138_L144_A0.5940.89
85_L91_Y0.5930.88
84_P144_A0.5860.88
88_A122_G0.5810.87
57_Q60_A0.5800.87
81_L94_F0.5800.87
101_L136_F0.5800.87
25_G39_Y0.5770.87
48_V52_A0.5730.87
10_E14_A0.5700.86
91_Y141_I0.5680.86
92_A95_V0.5640.86
115_G136_F0.5640.86
101_L144_A0.5600.85
51_C146_L0.5580.85
32_R70_V0.5560.85
52_A55_S0.5550.85
16_V20_G0.5520.85
62_L67_P0.5520.85
22_E41_D0.5520.85
120_V125_I0.5500.84
129_V133_D0.5440.84
98_E114_Q0.5400.83
89_E94_F0.5350.83
48_V78_S0.5350.83
12_I54_V0.5350.83
33_T59_S0.5340.83
14_A62_L0.5290.82
72_Y142_Q0.5290.82
9_T16_V0.5280.82
22_E43_E0.5250.82
103_L111_R0.5220.81
36_L72_Y0.5210.81
136_F140_N0.5180.81
45_G51_C0.5160.81
82_D94_F0.5140.80
57_Q61_V0.5140.80
117_I127_V0.5120.80
48_V61_V0.5050.79
63_D67_P0.5050.79
22_E87_T0.5040.79
95_V118_K0.5000.78
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  
1ib8A 1 0.9933 100 0.069 Contact Map
3pgwB 1 0.3933 70.3 0.907 Contact Map
1y96A 1 0.4467 55.4 0.916 Contact Map
4c92A 1 0.3867 53.9 0.916 Contact Map
3fb9A 1 0.52 52.9 0.917 Contact Map
1m5qA 8 0.3933 41.9 0.922 Contact Map
4m7dA 1 0.36 39.6 0.923 Contact Map
4a53A 1 0.4133 39.4 0.923 Contact Map
4m77A 1 0.3733 39.4 0.923 Contact Map
4f7uG 1 0.3667 38.9 0.924 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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