GREMLIN Database
PBP7 - D-alanyl-D-alanine endopeptidase
UniProt: P0AFI5 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12015
Length: 310 (259)
Sequences: 6540 (4503)
Seq/√Len: 279.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
56_S59_P3.6091.00
60_D176_R3.4431.00
79_D150_K2.8861.00
137_P146_A2.8521.00
87_K110_E2.7541.00
113_R132_L2.6791.00
91_D134_H2.6751.00
150_K153_S2.6601.00
182_L230_T2.6561.00
228_Q245_R2.5111.00
86_E135_H2.4761.00
156_M181_L2.4221.00
118_L197_T2.3561.00
228_Q252_P2.2781.00
184_A187_Q2.2731.00
77_V132_L2.2601.00
92_I107_L2.2431.00
112_S115_D2.2171.00
43_A55_Y2.2101.00
62_V172_V2.1871.00
75_M184_A2.1861.00
58_H61_L2.0621.00
176_R180_K2.0451.00
226_N248_I2.0441.00
119_L125_E2.0431.00
120_A129_A2.0411.00
83_P86_E1.9831.00
71_L243_V1.9571.00
47_D251_K1.9281.00
42_S175_A1.9181.00
89_K110_E1.9071.00
142_A145_K1.9071.00
120_A132_L1.8881.00
72_M159_T1.8731.00
139_G142_A1.8621.00
45_I277_I1.8611.00
255_L270_A1.8601.00
48_L254_A1.8501.00
182_L243_V1.8201.00
114_K118_L1.8191.00
42_S63_R1.8051.00
60_D158_N1.7951.00
62_V158_N1.7641.00
140_Y164_P1.7641.00
88_L135_H1.7141.00
253_V277_I1.7101.00
90_V131_S1.7101.00
74_A121_L1.6761.00
247_V252_P1.6441.00
88_L131_S1.6351.00
159_T173_S1.6281.00
80_A146_A1.6051.00
235_T238_A1.5991.00
154_L184_A1.5841.00
82_L113_R1.5751.00
87_K112_S1.5711.00
45_I253_V1.5631.00
190_L193_Q1.5611.00
68_I243_V1.5611.00
94_Q134_H1.5601.00
85_D114_K1.5581.00
82_L135_H1.5551.00
246_T278_E1.5471.00
118_L200_D1.5401.00
72_M151_A1.5101.00
199_E212_P1.5061.00
73_T129_A1.5061.00
269_D272_R1.5031.00
160_R172_V1.4981.00
68_I178_L1.4911.00
65_I173_S1.4911.00
145_K149_A1.4811.00
119_L128_A1.4771.00
45_I255_L1.4591.00
69_S171_N1.4421.00
68_I258_M1.4291.00
118_L122_M1.4201.00
41_G259_D1.4081.00
46_V179_T1.4011.00
64_P168_S1.4001.00
168_S237_A1.3721.00
137_P142_A1.3721.00
201_M212_P1.3601.00
156_M180_K1.3561.00
162_V170_H1.3551.00
178_L243_V1.3521.00
175_A258_M1.3401.00
114_K194_L1.3381.00
49_N252_P1.3001.00
247_V250_N1.2881.00
244_M270_A1.2861.00
161_F178_L1.2801.00
44_M53_V1.2741.00
84_L117_L1.2671.00
74_A120_A1.2641.00
77_V113_R1.2201.00
75_M150_K1.2151.00
227_I244_M1.2031.00
90_V105_V1.2011.00
91_D94_Q1.1871.00
142_A146_A1.1831.00
75_M188_Y1.1661.00
51_N183_I1.1511.00
84_L114_K1.1331.00
223_D275_T1.1331.00
183_I254_A1.1311.00
162_V169_V1.1201.00
122_M197_T1.1011.00
144_I148_N1.0981.00
116_M128_A1.0941.00
71_L185_S1.0881.00
198_R221_Y1.0831.00
114_K193_Q1.0831.00
44_M176_R1.0821.00
162_V171_N1.0741.00
44_M59_P1.0741.00
136_Y146_A1.0691.00
158_N174_T1.0691.00
103_S119_L1.0611.00
146_A149_A1.0501.00
64_P237_A1.0441.00
42_S58_H1.0411.00
78_L191_I1.0401.00
243_V256_V1.0361.00
76_V150_K1.0351.00
248_I278_E1.0241.00
124_S231_K1.0231.00
149_A153_S1.0211.00
63_R258_M1.0131.00
178_L258_M1.0111.00
202_A213_F1.0061.00
44_M179_T1.0041.00
199_E214_R0.9971.00
195_S230_T0.9971.00
47_D50_T0.9901.00
43_A57_N0.9891.00
140_Y144_I0.9871.00
98_M130_A0.9851.00
151_A156_M0.9761.00
260_A269_D0.9711.00
90_V111_I0.9701.00
71_L230_T0.9681.00
262_G265_T0.9641.00
245_R252_P0.9601.00
74_A117_L0.9571.00
91_D95_T0.9451.00
257_V270_A0.9431.00
130_A140_Y0.9421.00
218_H267_F0.9391.00
271_S275_T0.9351.00
192_G252_P0.9341.00
85_D112_S0.9221.00
180_K183_I0.9221.00
222_R271_S0.9171.00
191_I195_S0.9171.00
59_P176_R0.9161.00
238_A241_C0.9151.00
144_I164_P0.9131.00
76_V80_A0.9051.00
65_I258_M0.9041.00
71_L182_L0.9031.00
150_K184_A0.8961.00
246_T274_R0.8901.00
133_A140_Y0.8891.00
148_N160_R0.8821.00
115_D118_L0.8791.00
179_T256_V0.8771.00
75_M187_Q0.8721.00
234_F240_H0.8681.00
195_S229_L0.8621.00
244_M274_R0.8571.00
192_G245_R0.8551.00
72_M76_V0.8521.00
111_I116_M0.8511.00
111_I115_D0.8411.00
185_S191_I0.8411.00
72_M161_F0.8391.00
80_A136_Y0.8361.00
60_D174_T0.8241.00
90_V116_M0.8221.00
67_S231_K0.8221.00
75_M79_D0.8160.99
105_V131_S0.8000.99
276_W280_G0.8000.99
76_V136_Y0.7950.99
148_N161_F0.7900.99
101_V125_E0.7880.99
161_F181_L0.7850.99
82_L86_E0.7850.99
106_R109_S0.7820.99
248_I275_T0.7810.99
117_L194_L0.7810.99
227_I274_R0.7810.99
79_D188_Y0.7790.99
121_L195_S0.7730.99
230_T245_R0.7710.99
72_M147_M0.7710.99
89_K135_H0.7650.99
111_I202_A0.7640.99
65_I171_N0.7620.99
22_Q25_A0.7620.99
226_N275_T0.7600.99
88_L116_M0.7590.99
183_I186_K0.7580.99
151_A181_L0.7580.99
146_A150_K0.7580.99
77_V120_A0.7570.99
46_V183_I0.7470.99
71_L181_L0.7440.99
92_I97_E0.7440.99
129_A164_P0.7420.99
193_Q196_T0.7420.99
49_N283_M0.7370.99
223_D227_I0.7330.99
191_I230_T0.7320.99
99_K102_Y0.7320.99
25_A29_A0.7290.99
261_F265_T0.7220.99
255_L273_L0.7210.99
77_V82_L0.7210.99
82_L132_L0.7180.99
217_N244_M0.7140.99
74_A78_L0.7100.99
41_G63_R0.7100.99
76_V147_M0.7080.99
44_M56_S0.7080.99
26_K29_A0.7070.99
103_S125_E0.7010.98
122_M200_D0.6980.98
62_V174_T0.6980.98
151_A154_L0.6970.98
124_S232_T0.6960.98
149_A152_K0.6960.98
244_M255_L0.6930.98
168_S235_T0.6920.98
255_L274_R0.6870.98
68_I241_C0.6870.98
272_R275_T0.6870.98
76_V79_D0.6830.98
75_M181_L0.6830.98
239_G261_F0.6820.98
228_Q247_V0.6810.98
88_L113_R0.6810.98
40_S260_A0.6810.98
182_L229_L0.6800.98
151_A161_F0.6800.98
77_V136_Y0.6790.98
130_A134_H0.6790.98
39_A269_D0.6760.98
242_L267_F0.6740.98
96_P107_L0.6740.98
67_S124_S0.6720.98
157_N176_R0.6690.98
265_T269_D0.6680.98
64_P169_V0.6670.98
78_L190_L0.6660.98
118_L194_L0.6640.98
66_A238_A0.6640.98
200_D213_F0.6630.98
173_S178_L0.6610.98
47_D52_K0.6570.98
84_L194_L0.6550.98
67_S233_G0.6550.98
103_S123_S0.6540.98
247_V278_E0.6530.97
37_E57_N0.6520.97
251_K283_M0.6480.97
223_D226_N0.6470.97
115_D200_D0.6440.97
242_L270_A0.6400.97
45_I273_L0.6390.97
92_I96_P0.6370.97
223_D274_R0.6360.97
44_M256_V0.6360.97
185_S230_T0.6360.97
47_D283_M0.6340.97
24_V29_A0.6330.97
48_L183_I0.6300.97
68_I71_L0.6250.97
21_P25_A0.6240.97
41_G61_L0.6230.97
102_Y105_V0.6230.97
160_R170_H0.6220.97
180_K184_A0.6210.97
192_G195_S0.6180.97
239_G259_D0.6170.96
84_L87_K0.6140.96
123_S216_T0.6140.96
119_L213_F0.6140.96
125_E128_A0.6130.96
251_K281_K0.6100.96
78_L188_Y0.6100.96
123_S213_F0.6080.96
24_V27_T0.6070.96
109_S211_L0.6050.96
40_S269_D0.6050.96
94_Q98_M0.6010.96
158_N177_D0.5980.96
115_D203_T0.5970.96
82_L88_L0.5970.96
163_E168_S0.5960.96
53_V56_S0.5960.96
62_V173_S0.5930.96
36_P276_W0.5920.96
144_I147_M0.5920.96
141_K145_K0.5900.95
168_S171_N0.5870.95
70_K126_N0.5870.95
54_I253_V0.5860.95
186_K192_G0.5850.95
147_M151_A0.5830.95
72_M181_L0.5830.95
189_P193_Q0.5780.95
82_L136_Y0.5770.95
192_G196_T0.5760.95
76_V146_A0.5750.95
232_T266_H0.5740.95
56_S176_R0.5720.95
130_A165_T0.5720.95
276_W281_K0.5700.95
38_I43_A0.5670.94
148_N152_K0.5670.94
182_L195_S0.5660.94
168_S238_A0.5660.94
65_I178_L0.5650.94
260_A265_T0.5650.94
147_M161_F0.5640.94
23_A27_T0.5600.94
109_S203_T0.5600.94
32_T35_Q0.5590.94
257_V273_L0.5580.94
32_T36_P0.5580.94
179_T254_A0.5570.94
103_S111_I0.5570.94
186_K228_Q0.5540.94
78_L194_L0.5510.94
46_V51_N0.5510.94
78_L117_L0.5480.93
73_T143_F0.5480.93
240_H266_H0.5470.93
94_Q97_E0.5450.93
94_Q130_A0.5430.93
72_M150_K0.5430.93
46_V254_A0.5420.93
48_L252_P0.5420.93
46_V53_V0.5410.93
97_E100_G0.5410.93
79_D153_S0.5410.93
71_L191_I0.5380.93
163_E171_N0.5370.93
257_V260_A0.5360.93
121_L191_I0.5360.93
24_V28_A0.5350.93
159_T177_D0.5340.92
114_K190_L0.5330.92
240_H262_G0.5310.92
42_S258_M0.5290.92
253_V278_E0.5290.92
122_M194_L0.5260.92
39_A265_T0.5260.92
67_S70_K0.5250.92
48_L51_N0.5240.92
223_D246_T0.5240.92
21_P26_K0.5230.92
98_M102_Y0.5210.92
268_A271_S0.5180.91
160_R171_N0.5170.91
91_D131_S0.5170.91
157_N180_K0.5140.91
89_K108_N0.5130.91
267_F270_A0.5100.91
116_M132_L0.5090.91
31_T34_S0.5080.91
98_M165_T0.5070.90
262_G268_A0.5060.90
198_R220_V0.5060.90
101_V123_S0.5050.90
38_I269_D0.5050.90
60_D180_K0.5050.90
84_L190_L0.5050.90
284_P287_A0.5030.90
218_H263_K0.5030.90
72_M156_M0.5020.90
21_P24_V0.5010.90
74_A185_S0.5010.90
22_Q26_K0.5000.90
157_N177_D0.5000.90
264_Y268_A0.5000.90
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  
3mfdA 1 0.8581 100 0.259 Contact Map
3mzfA 1 0.9 100 0.261 Contact Map
3itaA 1 0.8871 100 0.263 Contact Map
4k91A 1 0.8839 100 0.275 Contact Map
1xp4A 3 0.8645 100 0.276 Contact Map
3a3jA 1 0.8806 100 0.277 Contact Map
3hunA 1 0.8935 100 0.312 Contact Map
1tvfA 1 0.9548 100 0.334 Contact Map
4pprA 1 0.9387 100 0.368 Contact Map
4ryeA 1 0.8323 100 0.375 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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