GREMLIN Database
NAPF - Ferredoxin-type protein NapF
UniProt: P0AAL0 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12068
Length: 164 (131)
Sequences: 1802 (1355)
Seq/√Len: 118.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
123_I137_N4.1161.00
74_A77_Q4.0111.00
93_D110_C3.2071.00
42_A45_N3.1471.00
125_R135_Q2.7601.00
73_Y76_A2.3341.00
68_E71_F2.2741.00
69_C72_C2.1861.00
119_P142_N2.1211.00
137_N140_L2.0731.00
120_M123_I2.0151.00
89_T112_R1.9951.00
52_L56_A1.9911.00
79_C110_C1.9511.00
41_D44_I1.8671.00
69_C79_C1.8631.00
73_Y77_Q1.8571.00
148_A158_A1.8191.00
124_F134_P1.8151.00
120_M140_L1.7971.00
72_C77_Q1.7821.00
82_S86_P1.7551.00
28_G36_H1.6211.00
75_C79_C1.6151.00
53_Q56_A1.5961.00
42_A80_P1.5501.00
69_C83_L1.5401.00
30_E34_L1.4671.00
58_G61_S1.4331.00
59_Y63_N1.4211.00
58_G63_N1.4111.00
49_N70_S1.4091.00
44_I54_R1.3811.00
47_C50_N1.3801.00
116_S150_S1.3561.00
143_G148_A1.3251.00
39_R59_Y1.3221.00
94_L153_V1.3201.00
28_G32_H1.3121.00
59_Y62_V1.3071.00
114_Q123_I1.3031.00
118_E146_A1.2981.00
47_C75_C1.2670.99
76_A79_C1.2670.99
108_V153_V1.2630.99
43_C46_A1.2460.99
123_I135_Q1.2060.99
76_A86_P1.2030.99
33_F36_H1.2030.99
79_C83_L1.1960.99
85_S88_H1.1700.99
103_L106_Q1.1570.99
111_R114_Q1.1420.99
69_C110_C1.1390.99
72_C80_P1.1140.99
74_A79_C1.1080.99
76_A84_F1.1030.99
145_G158_A1.1020.99
121_A140_L1.0860.98
32_H36_H1.0730.98
43_C69_C1.0650.98
44_I52_L1.0610.98
80_P83_L1.0450.98
146_A150_S1.0400.98
59_Y64_F1.0380.98
114_Q124_F1.0240.98
79_C84_F1.0170.98
25_P33_F1.0010.97
51_I67_N0.9990.97
47_C79_C0.9750.97
51_I70_S0.9620.97
111_R115_D0.9600.96
43_C79_C0.9530.96
72_C76_A0.9510.96
52_L62_V0.9370.96
114_Q122_I0.9360.96
38_T81_E0.9180.95
83_L86_P0.9120.95
72_C78_A0.9100.95
51_I54_R0.9000.95
111_R132_Y0.9000.95
143_G158_A0.8980.95
73_Y79_C0.8950.95
141_C151_C0.8940.95
72_C79_C0.8880.95
60_P64_F0.8840.94
75_C110_C0.8820.94
67_N71_F0.8810.94
55_G59_Y0.8770.94
111_R124_F0.8770.94
125_R130_G0.8740.94
121_A136_L0.8730.94
109_E119_P0.8620.94
89_T97_T0.8430.93
43_C110_C0.8330.92
109_E112_R0.8080.91
94_L148_A0.7950.91
148_A156_I0.7920.90
41_D54_R0.7900.90
46_A74_A0.7890.90
147_C151_C0.7870.90
29_D32_H0.7820.90
93_D98_I0.7810.90
91_A95_Q0.7790.90
93_D97_T0.7650.89
36_H83_L0.7610.89
50_N54_R0.7570.88
90_R93_D0.7540.88
51_I62_V0.7530.88
114_Q125_R0.7460.88
41_D118_E0.7310.87
94_L97_T0.7290.86
39_R56_A0.7270.86
39_R87_R0.7270.86
25_P30_E0.7270.86
58_G62_V0.7240.86
65_K69_C0.7170.86
130_G137_N0.7160.85
43_C83_L0.6920.84
72_C159_E0.6910.83
51_I65_K0.6900.83
117_C151_C0.6870.83
68_E149_A0.6800.82
91_A94_L0.6770.82
63_N66_N0.6700.82
130_G133_Q0.6680.81
75_C80_P0.6670.81
27_S84_F0.6660.81
100_D139_Q0.6640.81
46_A83_L0.6580.80
96_F110_C0.6540.80
69_C76_A0.6540.80
51_I149_A0.6490.79
54_R57_G0.6480.79
48_E145_G0.6450.79
82_S96_F0.6440.79
41_D46_A0.6360.78
98_I156_I0.6220.76
95_Q98_I0.6210.76
60_P69_C0.6210.76
52_L55_G0.6150.76
47_C122_I0.6140.76
88_H110_C0.6130.75
109_E133_Q0.6060.75
120_M152_P0.6020.74
144_C147_C0.6000.74
60_P63_N0.6000.74
69_C80_P0.6000.74
102_C134_P0.5980.74
115_D118_E0.5950.73
141_C144_C0.5940.73
47_C51_I0.5930.73
38_T80_P0.5930.73
72_C84_F0.5900.73
79_C102_C0.5880.72
74_A78_A0.5860.72
141_C147_C0.5790.71
118_E142_N0.5740.71
112_R115_D0.5720.70
117_C141_C0.5720.70
32_H35_T0.5710.70
93_D102_C0.5690.70
36_H111_R0.5670.70
27_S33_F0.5640.69
77_Q82_S0.5630.69
122_I134_P0.5630.69
71_F142_N0.5630.69
47_C72_C0.5610.69
44_I136_L0.5560.68
117_C121_A0.5560.68
109_E116_S0.5490.67
146_A149_A0.5450.67
59_Y65_K0.5430.66
43_C80_P0.5410.66
108_V145_G0.5410.66
109_E130_G0.5400.66
103_L152_P0.5390.66
113_C117_C0.5380.66
95_Q102_C0.5360.65
99_G120_M0.5340.65
66_N154_S0.5320.65
32_H54_R0.5280.64
66_N70_S0.5280.64
100_D110_C0.5220.63
42_A47_C0.5190.63
52_L57_G0.5170.63
125_R134_P0.5140.62
114_Q119_P0.5130.62
99_G105_Y0.5110.62
65_K148_A0.5100.62
87_R92_W0.5100.62
144_C151_C0.5040.61
91_A120_M0.5020.60
103_L155_A0.5020.60
108_V133_Q0.5020.60
52_L69_C0.5000.60
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  
1kqfB 3 0.8963 99.9 0.516 Contact Map
2ivfB 1 0.7683 99.8 0.548 Contact Map
1h0hB 1 0.7561 99.8 0.549 Contact Map
2vpzB 2 0.7561 99.8 0.558 Contact Map
1ti6B 2 0.7561 99.8 0.569 Contact Map
4z3xE 2 0.7378 99.7 0.598 Contact Map
1q16B 2 0.7866 99.6 0.627 Contact Map
3or1B 2 0.9756 99.4 0.669 Contact Map
2c42A 2 0.9024 99.4 0.676 Contact Map
2v2kA 1 0.3659 99.2 0.696 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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