Query 033584
Match_columns 116
No_of_seqs 105 out of 1024
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 03:57:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033584.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033584hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 CHL00160 rpl9 ribosomal protei 100.0 1.4E-36 3.1E-41 218.9 14.4 115 1-115 38-152 (153)
2 TIGR00158 L9 ribosomal protein 100.0 2.8E-35 6.1E-40 211.2 14.8 113 1-115 33-147 (148)
3 COG0359 RplI Ribosomal protein 100.0 3.6E-35 7.9E-40 210.0 13.8 113 1-115 33-146 (148)
4 PRK00137 rplI 50S ribosomal pr 100.0 2E-33 4.3E-38 201.4 15.6 114 1-116 33-147 (147)
5 PF03948 Ribosomal_L9_C: Ribos 100.0 2.9E-31 6.2E-36 175.3 10.9 85 30-115 1-86 (87)
6 PRK14538 putative bifunctional 100.0 3.7E-30 8.1E-35 223.5 14.8 114 1-115 720-834 (838)
7 KOG4607 Mitochondrial ribosoma 98.7 3E-08 6.5E-13 74.8 6.4 114 1-116 81-195 (222)
8 PF01281 Ribosomal_L9_N: Ribos 92.8 0.11 2.3E-06 30.6 2.4 16 1-16 33-48 (48)
9 PF10045 DUF2280: Uncharacteri 84.1 0.58 1.2E-05 31.9 1.2 29 63-91 21-50 (104)
10 PF00571 CBS: CBS domain CBS d 78.2 3 6.4E-05 23.6 2.8 21 52-72 36-56 (57)
11 PF08766 DEK_C: DEK C terminal 74.9 1.4 3.1E-05 26.0 0.8 25 59-83 18-42 (54)
12 PF07523 Big_3: Bacterial Ig-l 73.3 9.3 0.0002 23.0 4.2 25 88-113 43-67 (67)
13 PF07718 Coatamer_beta_C: Coat 69.2 5 0.00011 28.7 2.6 19 45-63 118-136 (140)
14 cd08505 PBP2_NikA_DppA_OppA_li 58.7 22 0.00047 29.8 5.0 56 41-104 63-126 (528)
15 PF13592 HTH_33: Winged helix- 54.2 8.1 0.00017 23.1 1.3 33 60-93 3-35 (60)
16 smart00116 CBS Domain in cysta 53.8 13 0.00028 18.9 2.0 18 54-71 31-48 (49)
17 COG1356 tfx Transcriptional re 48.3 75 0.0016 22.6 5.5 43 7-55 35-77 (143)
18 PF01282 Ribosomal_S24e: Ribos 47.8 18 0.00038 23.4 2.2 44 60-105 11-57 (84)
19 cd03081 TRX_Fd_NuoE_FDH_gamma 46.9 19 0.0004 22.6 2.2 19 55-73 61-79 (80)
20 PF14221 DUF4330: Domain of un 44.6 20 0.00043 26.1 2.3 20 53-72 5-24 (168)
21 cd04608 CBS_pair_PALP_assoc Th 40.6 17 0.00037 23.8 1.3 19 53-71 106-124 (124)
22 cd02980 TRX_Fd_family Thioredo 38.5 32 0.0007 20.7 2.3 20 54-73 57-76 (77)
23 cd04632 CBS_pair_19 The CBS do 37.4 36 0.00077 21.9 2.5 21 52-72 30-50 (128)
24 cd08506 PBP2_clavulanate_OppA2 37.0 58 0.0012 26.3 4.1 45 45-104 65-112 (466)
25 cd04623 CBS_pair_10 The CBS do 36.7 40 0.00087 20.8 2.6 21 54-74 32-52 (113)
26 cd04592 CBS_pair_EriC_assoc_eu 36.5 40 0.00088 22.7 2.7 22 53-74 31-52 (133)
27 cd04590 CBS_pair_CorC_HlyC_ass 36.0 42 0.00092 20.8 2.6 18 56-73 35-52 (111)
28 cd03082 TRX_Fd_NuoE_W_FDH_beta 35.9 33 0.00073 21.2 2.0 18 55-72 53-70 (72)
29 cd04629 CBS_pair_16 The CBS do 35.6 46 0.00099 20.7 2.7 22 53-74 31-52 (114)
30 COG2524 Predicted transcriptio 35.4 33 0.00071 27.4 2.3 23 51-73 207-229 (294)
31 cd04624 CBS_pair_11 The CBS do 34.8 45 0.00097 20.7 2.6 21 53-73 31-51 (112)
32 cd04639 CBS_pair_26 The CBS do 34.6 48 0.001 20.5 2.7 20 54-73 32-51 (111)
33 PF10826 DUF2551: Protein of u 34.6 24 0.00053 23.1 1.3 23 60-84 24-46 (83)
34 cd04630 CBS_pair_17 The CBS do 34.3 88 0.0019 19.5 4.0 19 56-74 35-53 (114)
35 cd03064 TRX_Fd_NuoE TRX-like [ 34.0 42 0.00091 20.7 2.3 19 55-73 61-79 (80)
36 cd08490 PBP2_NikA_DppA_OppA_li 33.4 1E+02 0.0022 24.8 5.0 60 41-104 54-117 (470)
37 cd04643 CBS_pair_30 The CBS do 33.3 48 0.001 20.6 2.5 20 54-73 32-51 (116)
38 COG3620 Predicted transcriptio 32.9 37 0.0008 25.3 2.1 19 54-72 166-184 (187)
39 cd04619 CBS_pair_6 The CBS dom 32.9 49 0.0011 20.9 2.6 21 53-73 31-51 (114)
40 PRK07639 acyl carrier protein; 32.7 15 0.00033 23.6 0.1 34 60-93 39-72 (86)
41 PF12167 DUF3596: Domain of un 32.7 63 0.0014 19.6 2.9 23 3-25 26-48 (64)
42 cd03063 TRX_Fd_FDH_beta TRX-li 32.5 58 0.0013 21.4 2.9 21 54-74 56-77 (92)
43 cd04582 CBS_pair_ABC_OpuCA_ass 32.4 45 0.00097 20.5 2.3 19 53-71 31-49 (106)
44 cd04607 CBS_pair_NTP_transfera 32.4 44 0.00094 20.9 2.3 20 53-72 32-51 (113)
45 cd04606 CBS_pair_Mg_transporte 32.4 68 0.0015 19.9 3.2 19 53-71 91-109 (109)
46 COG5556 Uncharacterized conser 32.4 22 0.00047 24.1 0.8 25 63-87 21-45 (110)
47 PHA02119 hypothetical protein 31.9 32 0.00069 22.1 1.4 34 45-83 41-74 (87)
48 cd04801 CBS_pair_M50_like This 31.4 48 0.001 20.7 2.3 19 54-72 33-51 (114)
49 PF13565 HTH_32: Homeodomain-l 31.3 35 0.00076 20.6 1.6 19 61-79 48-66 (77)
50 COG1438 ArgR Arginine represso 31.0 31 0.00067 24.9 1.5 34 63-98 22-55 (150)
51 COG3620 Predicted transcriptio 30.4 47 0.001 24.7 2.3 23 52-74 101-123 (187)
52 cd08502 PBP2_NikA_DppA_OppA_li 30.3 1.2E+02 0.0025 24.7 4.9 57 45-104 59-120 (472)
53 cd04593 CBS_pair_EriC_assoc_ba 29.8 55 0.0012 20.5 2.4 20 54-73 32-51 (115)
54 cd04587 CBS_pair_CAP-ED_DUF294 29.4 28 0.0006 21.7 0.9 17 53-69 96-112 (113)
55 cd04604 CBS_pair_KpsF_GutQ_ass 29.3 61 0.0013 20.0 2.5 20 54-73 33-52 (114)
56 COG0757 AroQ 3-dehydroquinate 29.3 49 0.0011 23.8 2.2 27 57-83 20-49 (146)
57 cd04620 CBS_pair_7 The CBS dom 29.0 63 0.0014 20.1 2.6 19 55-73 33-51 (115)
58 PF01257 2Fe-2S_thioredx: Thio 28.8 37 0.00081 23.8 1.6 19 55-73 125-143 (145)
59 PRK15109 antimicrobial peptide 28.7 1E+02 0.0022 25.9 4.4 59 45-103 95-174 (547)
60 cd04605 CBS_pair_MET2_assoc Th 28.5 68 0.0015 19.7 2.7 20 54-73 33-52 (110)
61 cd03083 TRX_Fd_NuoE_hoxF TRX-l 28.4 56 0.0012 20.4 2.2 18 55-72 61-78 (80)
62 cd04597 CBS_pair_DRTGG_assoc2 28.4 43 0.00093 21.6 1.7 18 52-69 95-112 (113)
63 cd04583 CBS_pair_ABC_OpuCA_ass 28.2 61 0.0013 19.8 2.4 18 54-71 33-50 (109)
64 COG2047 Uncharacterized protei 27.9 57 0.0012 25.5 2.5 26 54-80 133-158 (258)
65 cd08496 PBP2_NikA_DppA_OppA_li 27.8 1.4E+02 0.0029 24.1 4.8 57 45-104 59-120 (454)
66 PF14420 Clr5: Clr5 domain 27.4 45 0.00098 19.5 1.5 23 62-84 21-43 (54)
67 cd04641 CBS_pair_28 The CBS do 27.4 68 0.0015 20.3 2.6 21 53-73 31-51 (120)
68 PF05157 T2SE_Nter: Type II se 27.0 41 0.00088 21.2 1.4 26 60-85 5-31 (109)
69 PF11221 Med21: Subunit 21 of 26.9 2E+02 0.0044 20.0 5.1 33 11-43 105-137 (144)
70 cd04614 CBS_pair_1 The CBS dom 26.7 53 0.0011 20.4 1.9 19 53-71 31-49 (96)
71 PF13954 PapC_N: PapC N-termin 26.6 1.6E+02 0.0035 20.3 4.5 25 91-115 28-52 (146)
72 cd04601 CBS_pair_IMPDH This cd 26.6 85 0.0018 19.2 2.8 18 52-69 92-109 (110)
73 COG2239 MgtE Mg/Co/Ni transpor 26.5 99 0.0022 26.1 3.9 41 33-74 215-255 (451)
74 PF05198 IF3_N: Translation in 26.5 95 0.0021 19.6 3.0 27 52-79 18-44 (76)
75 cd04625 CBS_pair_12 The CBS do 26.5 66 0.0014 19.9 2.3 20 54-73 31-50 (112)
76 PF13833 EF-hand_8: EF-hand do 26.4 41 0.00088 18.8 1.2 24 60-84 3-27 (54)
77 COG0112 GlyA Glycine/serine hy 26.2 2.8E+02 0.0061 23.4 6.3 62 25-89 285-352 (413)
78 cd04585 CBS_pair_ACT_assoc2 Th 26.1 54 0.0012 20.4 1.9 16 54-69 106-121 (122)
79 cd04618 CBS_pair_5 The CBS dom 25.9 1.7E+02 0.0036 18.2 4.2 17 55-71 34-50 (98)
80 smart00089 PKD Repeats in poly 25.9 1.3E+02 0.0028 17.9 3.5 25 89-113 51-78 (79)
81 cd04603 CBS_pair_KefB_assoc Th 25.9 1E+02 0.0023 19.2 3.2 17 53-69 94-110 (111)
82 cd04636 CBS_pair_23 The CBS do 25.8 72 0.0016 20.7 2.5 21 53-73 31-51 (132)
83 PF03484 B5: tRNA synthetase B 25.8 72 0.0016 19.4 2.3 21 61-82 18-38 (70)
84 cd08518 PBP2_NikA_DppA_OppA_li 25.7 1.1E+02 0.0025 24.7 4.1 57 45-104 58-118 (464)
85 cd04803 CBS_pair_15 The CBS do 25.5 72 0.0016 20.1 2.4 20 54-73 32-51 (122)
86 cd05886 Ig1_Nectin-1_like Firs 25.2 1.8E+02 0.004 18.8 4.3 31 83-113 64-98 (99)
87 PF11548 Receptor_IA-2: Protei 25.0 1.2E+02 0.0027 20.0 3.4 24 45-73 46-69 (91)
88 cd04631 CBS_pair_18 The CBS do 24.9 74 0.0016 20.1 2.4 19 55-73 34-52 (125)
89 cd04627 CBS_pair_14 The CBS do 24.5 85 0.0018 19.9 2.6 18 56-73 35-52 (123)
90 cd04609 CBS_pair_PALP_assoc2 T 24.5 77 0.0017 19.3 2.3 18 56-73 33-50 (110)
91 cd08503 PBP2_NikA_DppA_OppA_li 24.5 1.6E+02 0.0034 23.8 4.7 56 45-103 66-128 (460)
92 cd04600 CBS_pair_HPP_assoc Thi 23.7 75 0.0016 20.0 2.2 20 54-73 33-52 (124)
93 cd04640 CBS_pair_27 The CBS do 23.6 1.4E+02 0.0031 19.1 3.6 34 34-69 90-125 (126)
94 PRK05087 D-alanine--poly(phosp 23.5 29 0.00064 21.9 0.2 35 59-93 34-68 (78)
95 KOG1058 Vesicle coat complex C 23.3 73 0.0016 29.2 2.6 38 45-90 783-820 (948)
96 cd04615 CBS_pair_2 The CBS dom 23.3 86 0.0019 19.4 2.4 19 54-72 32-50 (113)
97 cd04617 CBS_pair_4 The CBS dom 23.3 84 0.0018 19.9 2.4 20 54-73 32-51 (118)
98 cd08497 PBP2_NikA_DppA_OppA_li 23.2 1.7E+02 0.0036 24.0 4.6 56 45-103 77-138 (491)
99 PF00496 SBP_bac_5: Bacterial 22.9 1.1E+02 0.0025 23.4 3.5 57 45-104 19-83 (374)
100 KOG1494 NAD-dependent malate d 22.9 46 0.00099 27.0 1.2 16 54-70 166-181 (345)
101 smart00874 B5 tRNA synthetase 22.7 58 0.0012 19.5 1.4 24 57-81 13-37 (71)
102 PTZ00373 60S Acidic ribosomal 22.6 48 0.001 22.8 1.1 25 61-86 19-43 (112)
103 PRK05988 formate dehydrogenase 22.6 81 0.0018 22.6 2.4 19 55-73 135-153 (156)
104 PRK07081 acyl carrier protein; 22.4 25 0.00054 22.3 -0.3 34 59-92 33-66 (83)
105 cd04642 CBS_pair_29 The CBS do 22.4 81 0.0018 20.2 2.2 20 53-72 31-50 (126)
106 PF13344 Hydrolase_6: Haloacid 22.3 68 0.0015 20.8 1.8 27 60-87 40-66 (101)
107 PRK00441 argR arginine repress 22.1 45 0.00098 23.7 1.0 36 60-97 17-52 (149)
108 PF04282 DUF438: Family of unk 21.9 36 0.00079 21.5 0.4 23 57-80 24-49 (71)
109 PF10668 Phage_terminase: Phag 21.9 58 0.0013 19.9 1.3 12 60-71 21-32 (60)
110 cd04621 CBS_pair_8 The CBS dom 21.9 90 0.0019 20.7 2.4 21 53-73 31-51 (135)
111 KOG2639 Sodium sulfate symport 21.8 90 0.002 27.6 2.8 33 50-83 623-655 (685)
112 PF01316 Arg_repressor: Argini 21.8 39 0.00084 21.1 0.5 34 63-98 21-54 (70)
113 cd02205 CBS_pair The CBS domai 21.8 1.9E+02 0.0041 17.1 4.6 21 54-74 32-52 (113)
114 cd08512 PBP2_NikA_DppA_OppA_li 21.7 1.8E+02 0.004 23.4 4.5 57 45-104 64-130 (476)
115 cd04610 CBS_pair_ParBc_assoc T 21.6 57 0.0012 20.0 1.3 18 52-69 89-106 (107)
116 PRK05395 3-dehydroquinate dehy 21.6 82 0.0018 22.7 2.2 27 57-83 21-50 (146)
117 PF04552 Sigma54_DBD: Sigma-54 21.6 39 0.00085 24.4 0.5 22 62-84 122-143 (160)
118 PF01835 A2M_N: MG2 domain; I 21.5 2.2E+02 0.0048 17.8 4.6 31 83-113 67-99 (99)
119 cd08489 PBP2_NikA The substrat 21.3 2.1E+02 0.0045 23.2 4.8 58 45-105 57-121 (488)
120 cd05833 Ribosomal_P2 Ribosomal 21.2 54 0.0012 22.3 1.1 25 61-86 17-41 (109)
121 PRK07539 NADH dehydrogenase su 21.1 90 0.0019 22.1 2.3 19 55-73 134-152 (154)
122 TIGR02294 nickel_nikA nickel A 20.9 2.2E+02 0.0047 23.4 4.9 57 45-104 64-127 (500)
123 cd08492 PBP2_NikA_DppA_OppA_li 20.8 2.6E+02 0.0057 22.5 5.3 57 45-104 61-125 (484)
124 cd04613 CBS_pair_SpoIVFB_EriC_ 20.8 1.1E+02 0.0023 18.7 2.5 19 54-72 32-50 (114)
125 cd04595 CBS_pair_DHH_polyA_Pol 20.5 1E+02 0.0022 19.0 2.3 17 56-72 34-50 (110)
126 cd04588 CBS_pair_CAP-ED_DUF294 20.5 1.5E+02 0.0033 18.0 3.2 16 54-69 94-109 (110)
127 TIGR01088 aroQ 3-dehydroquinat 20.3 79 0.0017 22.6 1.9 27 57-83 19-48 (141)
128 cd00466 DHQase_II Dehydroquina 20.3 80 0.0017 22.6 1.9 27 57-83 19-48 (140)
No 1
>CHL00160 rpl9 ribosomal protein L9; Provisional
Probab=100.00 E-value=1.4e-36 Score=218.89 Aligned_cols=115 Identities=34% Similarity=0.546 Sum_probs=111.0
Q ss_pred CCceeecCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCeEEEEEecCCCCeeEeeeCHHHHHHHHHHhcCCcee
Q 033584 1 MGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVD 80 (116)
Q Consensus 1 ~glA~~aT~~n~k~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~~~l~i~~k~g~~GklfGSVt~~dIa~~L~~~~g~~id 80 (116)
||+|++||++|+++++.+++.+++++++.+++|++++++|+++++++|++++|++|+||||||++||+++|++++|++||
T Consensus 38 ~glA~~AT~~n~~~~e~~~~~~~~~~~~~~~~a~~la~~l~~~~~~~i~~k~ge~gklfGSVt~~dIa~~l~~~~g~~id 117 (153)
T CHL00160 38 NKMAKVATQGSLKQQKMYQKILDLKLKEAKEKCLKVKQLLEEIQKFSVKKKVGENNQIFGSVTEKEISQIIKNKTNIDLE 117 (153)
T ss_pred cCchhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCceEEEEEEeCCCCeEEcccCHHHHHHHHHHhhCCccc
Confidence 69999999999999999999999999999999999999999964599999999999999999999999999988899999
Q ss_pred cccccccCccceeeEEEEEEecCCeEEEEEEEEee
Q 033584 81 KKIVDLPEIRETGEYIAQLKLHPEVTARIRLNVFA 115 (116)
Q Consensus 81 kk~I~l~~Ik~lG~y~V~i~L~~~V~a~i~v~V~~ 115 (116)
|++|.||+||++|+|+|+|+||++|+|+++|+|++
T Consensus 118 k~~I~l~~Ik~~G~~~v~v~L~~~V~a~i~v~V~~ 152 (153)
T CHL00160 118 KQNIELPEIKTIGIYNIEIKLTSDVKANINLQILP 152 (153)
T ss_pred cceeehhhccccEeEEEEEEecCCcEEEEEEEEEE
Confidence 99999988999999999999999999999999987
No 2
>TIGR00158 L9 ribosomal protein L9. Ribosomal protein L9 appears to be universal in, but restricted to, eubacteria and chloroplast.
Probab=100.00 E-value=2.8e-35 Score=211.16 Aligned_cols=113 Identities=31% Similarity=0.448 Sum_probs=109.2
Q ss_pred CCceeecCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCeEEEEEecCCCCeeEeeeCHHHHHHHHHHhcCCcee
Q 033584 1 MGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVD 80 (116)
Q Consensus 1 ~glA~~aT~~n~k~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~~~l~i~~k~g~~GklfGSVt~~dIa~~L~~~~g~~id 80 (116)
||+|++||++|+++++.+++.+++++++.+++|++++++|++. +++|++++|++|+||||||++||+++|.++ |++||
T Consensus 33 ~g~A~~aT~~nl~~~e~~~~~~~~~~~~~~~~a~~l~~~l~~~-~~~i~~k~ge~gklfGSVt~~~I~~~l~~~-g~~id 110 (148)
T TIGR00158 33 KGLAVPATKKNIEFFEARRKKLEEKLAANKAAAARLKEVLELG-TLTISKKVGDEGKLFGSITTKQIADALKAA-GLDLD 110 (148)
T ss_pred cCchhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc-EEEEEEEeCCCCeEEEeECHHHHHHHHHHc-CCccc
Confidence 6999999999999999999999999999999999999999997 799999999999999999999999999888 99999
Q ss_pred ccccccc-C-ccceeeEEEEEEecCCeEEEEEEEEee
Q 033584 81 KKIVDLP-E-IRETGEYIAQLKLHPEVTARIRLNVFA 115 (116)
Q Consensus 81 kk~I~l~-~-Ik~lG~y~V~i~L~~~V~a~i~v~V~~ 115 (116)
|++|.|| + ||++|+|+|+|+||++|+|+|+|+|++
T Consensus 111 k~~I~l~~~~Ik~~G~y~v~i~L~~~V~a~i~v~V~~ 147 (148)
T TIGR00158 111 KKKIELPDGVIRTTGEHEVTIKLHEEVFAVLKVIVVP 147 (148)
T ss_pred HhhEECCCCceeceEEEEEEEEEcCCcEEEEEEEEEE
Confidence 9999997 4 999999999999999999999999986
No 3
>COG0359 RplI Ribosomal protein L9 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.6e-35 Score=210.04 Aligned_cols=113 Identities=33% Similarity=0.463 Sum_probs=109.8
Q ss_pred CCceeecCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCeEEEEEecCCCCeeEeeeCHHHHHHHHHHhcCCcee
Q 033584 1 MGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVD 80 (116)
Q Consensus 1 ~glA~~aT~~n~k~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~~~l~i~~k~g~~GklfGSVt~~dIa~~L~~~~g~~id 80 (116)
||+|++||+.|++.++.++++++++..+.+++|++++++|++. +++|.+++|++|+||||||++||+++|.++ |++||
T Consensus 33 kglAv~At~~n~~~~e~~r~~~e~~~~~~~~~a~~lk~~Le~~-~~~i~~kag~~GklfGSVt~~dIa~~l~~~-g~~id 110 (148)
T COG0359 33 KGLAVPATKGNLKLLEARRAKLEKKAAEELAEAEALKEKLEGK-TVEIAVKAGEDGKLFGSVTSKDIAEALKAA-GFKLD 110 (148)
T ss_pred ccchhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCc-eEEEEEEcCCCCceeccccHHHHHHHHHHc-CCCcc
Confidence 6999999999999999999999999999999999999999994 899999999999999999999999999999 99999
Q ss_pred cccccccC-ccceeeEEEEEEecCCeEEEEEEEEee
Q 033584 81 KKIVDLPE-IRETGEYIAQLKLHPEVTARIRLNVFA 115 (116)
Q Consensus 81 kk~I~l~~-Ik~lG~y~V~i~L~~~V~a~i~v~V~~ 115 (116)
|++|.+|+ ||++|.|+|+|+||++|+++++|.|++
T Consensus 111 k~~i~l~~~ik~~G~~~V~vkLh~eV~a~v~v~V~~ 146 (148)
T COG0359 111 KRKIRLPNGIKTLGEHEVEVKLHEEVTATVKVNVVA 146 (148)
T ss_pred hheeEcCchhhhcceeEEEEEecCceEEEEEEEEEe
Confidence 99999997 999999999999999999999999986
No 4
>PRK00137 rplI 50S ribosomal protein L9; Reviewed
Probab=100.00 E-value=2e-33 Score=201.37 Aligned_cols=114 Identities=39% Similarity=0.589 Sum_probs=109.8
Q ss_pred CCceeecCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCeEEEEEecCCCCeeEeeeCHHHHHHHHHHhcCCcee
Q 033584 1 MGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVD 80 (116)
Q Consensus 1 ~glA~~aT~~n~k~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~~~l~i~~k~g~~GklfGSVt~~dIa~~L~~~~g~~id 80 (116)
+|+|++||++|+++++.+++..++++++.+++|+++++.|++. +++|.+++|++|+||||||++||+++|.++ |++||
T Consensus 33 ~~lA~~aT~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~-~l~i~~k~g~~gklfGsVt~~~I~~~l~~~-g~~id 110 (147)
T PRK00137 33 QGKAVRATKGNLKQLEARRAELEAKAAEELAEAEALAEKLEGL-TVTIKAKAGEDGKLFGSVTTKDIAEALKKQ-GIEID 110 (147)
T ss_pred CCceeeCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC-EEEEEEEcCCCCeEEeeeCHHHHHHHHHHc-CCccC
Confidence 6999999999999999999999999999999999999999986 799999999999999999999999999998 99999
Q ss_pred ccccccc-CccceeeEEEEEEecCCeEEEEEEEEeeC
Q 033584 81 KKIVDLP-EIRETGEYIAQLKLHPEVTARIRLNVFAN 116 (116)
Q Consensus 81 kk~I~l~-~Ik~lG~y~V~i~L~~~V~a~i~v~V~~~ 116 (116)
|+.|.|| +||++|+|+|+|+||++|+|+++|+|++.
T Consensus 111 k~~I~l~~~Ik~~G~y~v~i~L~~~v~a~l~v~V~~~ 147 (147)
T PRK00137 111 KRKIELPGPIKTLGEYEVPVKLHPEVTATIKVNVVAE 147 (147)
T ss_pred HHHeECCCcccccEEEEEEEEECCCcEEEEEEEEEEC
Confidence 9999998 59999999999999999999999999863
No 5
>PF03948 Ribosomal_L9_C: Ribosomal protein L9, C-terminal domain; InterPro: IPR020069 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L9 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L9 is known to bind directly to the 23S rRNA. It belongs to a family of ribosomal proteins grouped on the basis of sequence similarities [, ]. The crystal structure of Bacillus stearothermophilus L9 shows the 149-residue protein comprises two globular domains connected by a rigid linker []. Each domain contains an rRNA binding site, and the protein functions as a structural protein in the large subunit of the ribosome. The C-terminal domain consists of two loops, an alpha-helix and a three-stranded mixed parallel, anti-parallel beta-sheet packed against the central alpha-helix. The long central alpha-helix is exposed to solvent in the middle and participates in the hydrophobic cores of the two domains at both ends. ; PDB: 3D5B_I 3PYV_H 3F1H_I 3PYR_H 3MRZ_H 1VSP_G 3MS1_H 1VSA_G 3PYT_H 2WH4_I ....
Probab=99.97 E-value=2.9e-31 Score=175.33 Aligned_cols=85 Identities=47% Similarity=0.777 Sum_probs=81.9
Q ss_pred HHHHHHHHHHhhccCeEEEEEecCCCCeeEeeeCHHHHHHHHHHhcCCceecccccccC-ccceeeEEEEEEecCCeEEE
Q 033584 30 KEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETGEYIAQLKLHPEVTAR 108 (116)
Q Consensus 30 ~~~a~~l~~~l~~~~~l~i~~k~g~~GklfGSVt~~dIa~~L~~~~g~~idkk~I~l~~-Ik~lG~y~V~i~L~~~V~a~ 108 (116)
+++|++++++|++. +++|.+++|++|+||||||++||+++|++++|++|||++|.|+. ||++|+|+|+|+||++|+|+
T Consensus 1 k~~A~~l~~~l~~~-~l~i~~k~g~~gklfGSVt~~dIa~~l~~~~g~~Idk~~I~l~~~IK~~G~~~v~v~L~~~V~a~ 79 (87)
T PF03948_consen 1 KAEAQALAEKLEGI-TLTIKRKAGENGKLFGSVTSKDIAKALKEQTGIEIDKKKIELPEPIKSLGEYEVKVKLHPEVSAK 79 (87)
T ss_dssp HHHHHHHHHHHCSS-EEEEEECBSSCSSBSSEBSHHHHHHHHHHCCSSSSSSSSBCSSSTBESSEEEEEEEEEETTEEEE
T ss_pred CHHHHHHHHHhcCC-EEEEEEEecCCcceecCcCHHHHHHHHHHhhCCeEeccEEECCCchhccEEEEEEEEeCCCeEEE
Confidence 47899999999997 79999999999999999999999999999999999999999996 99999999999999999999
Q ss_pred EEEEEee
Q 033584 109 IRLNVFA 115 (116)
Q Consensus 109 i~v~V~~ 115 (116)
|+|+|.+
T Consensus 80 i~v~V~~ 86 (87)
T PF03948_consen 80 IKVNVVA 86 (87)
T ss_dssp EEEEEEE
T ss_pred EEEEEEe
Confidence 9999985
No 6
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=99.97 E-value=3.7e-30 Score=223.48 Aligned_cols=114 Identities=20% Similarity=0.259 Sum_probs=110.3
Q ss_pred CCceeecCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCeEEEEEecCCCCeeEeeeCHHHHHHHHHHhcCCcee
Q 033584 1 MGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVD 80 (116)
Q Consensus 1 ~glA~~aT~~n~k~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~~~l~i~~k~g~~GklfGSVt~~dIa~~L~~~~g~~id 80 (116)
||+|++||++|+++++.+++++++++++.+++|++++++|+++ +++|++++|++|+||||||++||+++|++++|++||
T Consensus 720 ~~~A~~aT~~nlk~~e~~~~~~~~~~~~~~~~a~~l~~~l~~~-~~~i~~k~ge~gklfGSVt~~~I~~~l~~~~g~~id 798 (838)
T PRK14538 720 NKKALLADKENLAKIKKKKILEQEKKRNHELLMKKLKSEIDNK-KITLDIQLGPKGKIYGKITLKQIVEEFHKIHNITID 798 (838)
T ss_pred CCchhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCc-EEEEEEEeCCCCeeeeccCHHHHHHHHHHhhCCccc
Confidence 7999999999999999999999999999999999999999997 799999999999999999999999999998899999
Q ss_pred ccccccc-CccceeeEEEEEEecCCeEEEEEEEEee
Q 033584 81 KKIVDLP-EIRETGEYIAQLKLHPEVTARIRLNVFA 115 (116)
Q Consensus 81 kk~I~l~-~Ik~lG~y~V~i~L~~~V~a~i~v~V~~ 115 (116)
|++|.|+ |||++|+|+|+|+||++|+|+++|+|+.
T Consensus 799 k~~I~l~~~Ik~~G~~~v~i~L~~~V~a~i~v~V~~ 834 (838)
T PRK14538 799 RKKISLENEIISVGIYPVDVFLTDQIKATFFLNVIE 834 (838)
T ss_pred cceeeCCCcccccEEEEEEEEEcCCeEEEEEEEEEE
Confidence 9999998 4999999999999999999999999974
No 7
>KOG4607 consensus Mitochondrial ribosomal protein L9 [Translation, ribosomal structure and biogenesis]
Probab=98.73 E-value=3e-08 Score=74.77 Aligned_cols=114 Identities=39% Similarity=0.489 Sum_probs=96.1
Q ss_pred CCceeecCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCeEEEEEecCCCCe-eEeeeCHHHHHHHHHHhcCCce
Q 033584 1 MGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQ-IFGSVTAQDVVDIIKAQLQRDV 79 (116)
Q Consensus 1 ~glA~~aT~~n~k~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~~~l~i~~k~g~~Gk-lfGSVt~~dIa~~L~~~~g~~i 79 (116)
+|+|+++||.|.+.+..+.++......+..++++-++ -|+.. .+.+.+.-+..+. -+++|+++..-....++.-+++
T Consensus 81 ~glAvy~tp~~~~~~k~~~~e~~~~k~~vk~e~k~V~-~lqt~-v~~~~~~k~~kw~l~~~~V~~~l~~gv~~~~~t~~l 158 (222)
T KOG4607|consen 81 KGLAVYNTPLNLKKYKLREQEEEAEKIRVKEEAKVVA-VLQTV-VLFKVMNKGGKWKLNPNLVKASLRKGVIVAELTIKL 158 (222)
T ss_pred ccccccCChhhHHHHHHHHHHHHhhhhccHHHHHHHH-HHHhh-hhhheeccCCceeecHHHHHHHHhcceEeccccccC
Confidence 5899999999999988888888888888888888888 77765 3555555555554 4799999998888877778899
Q ss_pred ecccccccCccceeeEEEEEEecCCeEEEEEEEEeeC
Q 033584 80 DKKIVDLPEIRETGEYIAQLKLHPEVTARIRLNVFAN 116 (116)
Q Consensus 80 dkk~I~l~~Ik~lG~y~V~i~L~~~V~a~i~v~V~~~ 116 (116)
|++-|..|.++.-|+|.+.|++++++++.+...|+.+
T Consensus 159 ~k~~vs~P~~k~e~~~~~~V~in~~~~vr~~~~v~~~ 195 (222)
T KOG4607|consen 159 DKELVSGPITKEEGEYICEVKINPDVTVRVKIRVTHN 195 (222)
T ss_pred cccccCCCcccccceEEEEEEECCcceEEeeeeeecc
Confidence 9999999989999999999999999999999988753
No 8
>PF01281 Ribosomal_L9_N: Ribosomal protein L9, N-terminal domain; InterPro: IPR020070 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L9 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L9 is known to bind directly to the 23S rRNA. It belongs to a family of ribosomal proteins grouped on the basis of sequence similarities [, ]. The crystal structure of Bacillus stearothermophilus L9 shows the 149-residue protein comprises two globular domains connected by a rigid linker []. Each domain contains an rRNA binding site, and the protein functions as a structural protein in the large subunit of the ribosome. The C-terminal domain consists of two loops, an alpha-helix and a three-stranded mixed parallel, anti-parallel beta-sheet packed against the central alpha-helix. The long central alpha-helix is exposed to solvent in the middle and participates in the hydrophobic cores of the two domains at both ends. ; PDB: 3D5B_I 3PYV_H 3F1H_I 3PYR_H 3MRZ_H 1VSP_G 3MS1_H 1VSA_G 3PYT_H 2WH4_I ....
Probab=92.82 E-value=0.11 Score=30.63 Aligned_cols=16 Identities=38% Similarity=0.439 Sum_probs=14.6
Q ss_pred CCceeecCHHHHHHHH
Q 033584 1 MGKAQIVTPLLLKEMK 16 (116)
Q Consensus 1 ~glA~~aT~~n~k~~~ 16 (116)
+|+|++||++|+++++
T Consensus 33 ~~~A~~at~~~~~~~e 48 (48)
T PF01281_consen 33 QGLAVYATPENLKQLE 48 (48)
T ss_dssp TTSEEECSHHHHHHHH
T ss_pred CCceeeCCHHHHHhcC
Confidence 6899999999999885
No 9
>PF10045 DUF2280: Uncharacterized conserved protein (DUF2280); InterPro: IPR018738 This entry is represented by Burkholderia phage Bups phi1, Orf2.36. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=84.11 E-value=0.58 Score=31.89 Aligned_cols=29 Identities=21% Similarity=0.363 Sum_probs=24.5
Q ss_pred CHHHHHHHHHHhcCCceeccccccc-Cccc
Q 033584 63 TAQDVVDIIKAQLQRDVDKKIVDLP-EIRE 91 (116)
Q Consensus 63 t~~dIa~~L~~~~g~~idkk~I~l~-~Ik~ 91 (116)
|++++++++++.||++|+|.+++.- |=|.
T Consensus 21 TPs~v~~aVk~eFgi~vsrQqve~yDPTK~ 50 (104)
T PF10045_consen 21 TPSEVAEAVKEEFGIDVSRQQVESYDPTKR 50 (104)
T ss_pred CHHHHHHHHHHHhCCccCHHHHHHcCchHH
Confidence 8999999999999999999998753 3443
No 10
>PF00571 CBS: CBS domain CBS domain web page. Mutations in the CBS domain of Swiss:P35520 lead to homocystinuria.; InterPro: IPR000644 CBS (cystathionine-beta-synthase) domains are small intracellular modules, mostly found in two or four copies within a protein, that occur in a variety of proteins in bacteria, archaea, and eukaryotes [, ]. Tandem pairs of CBS domains can act as binding domains for adenosine derivatives and may regulate the activity of attached enzymatic or other domains []. In some cases, CBS domains may act as sensors of cellular energy status by being activated by AMP and inhibited by ATP []. In chloride ion channels, the CBS domains have been implicated in intracellular targeting and trafficking, as well as in protein-protein interactions, but results vary with different channels: in the CLC-5 channel, the CBS domain was shown to be required for trafficking [], while in the CLC-1 channel, the CBS domain was shown to be critical for channel function, but not necessary for trafficking []. Recent experiments revealing that CBS domains can bind adenosine-containing ligands such ATP, AMP, or S-adenosylmethionine have led to the hypothesis that CBS domains function as sensors of intracellular metabolites [, ]. Crystallographic studies of CBS domains have shown that pairs of CBS sequences form a globular domain where each CBS unit adopts a beta-alpha-beta-beta-alpha pattern []. Crystal structure of the CBS domains of the AMP-activated protein kinase in complexes with AMP and ATP shows that the phosphate groups of AMP/ATP lie in a surface pocket at the interface of two CBS domains, which is lined with basic residues, many of which are associated with disease-causing mutations []. In humans, mutations in conserved residues within CBS domains cause a variety of human hereditary diseases, including (with the gene mutated in parentheses): homocystinuria (cystathionine beta-synthase); Wolff-Parkinson-White syndrome (gamma 2 subunit of AMP-activated protein kinase); retinitis pigmentosa (IMP dehydrogenase-1); congenital myotonia, idiopathic generalized epilepsy, hypercalciuric nephrolithiasis, and classic Bartter syndrome (CLC chloride channel family members).; GO: 0005515 protein binding; PDB: 3JTF_A 3TE5_C 3TDH_C 3T4N_C 2QLV_C 3OI8_A 3LV9_A 2QH1_B 1PVM_B 3LQN_A ....
Probab=78.25 E-value=3 Score=23.65 Aligned_cols=21 Identities=10% Similarity=0.305 Sum_probs=18.2
Q ss_pred cCCCCeeEeeeCHHHHHHHHH
Q 033584 52 GGKGKQIFGSVTAQDVVDIIK 72 (116)
Q Consensus 52 ~g~~GklfGSVt~~dIa~~L~ 72 (116)
.+++|++-|.||..||..++.
T Consensus 36 ~d~~~~~~G~is~~dl~~~l~ 56 (57)
T PF00571_consen 36 VDEDGKLVGIISRSDLLKALL 56 (57)
T ss_dssp ESTTSBEEEEEEHHHHHHHHH
T ss_pred EecCCEEEEEEEHHHHHhhhh
Confidence 456799999999999999875
No 11
>PF08766 DEK_C: DEK C terminal domain; InterPro: IPR014876 DEK is a chromatin associated protein that is linked with cancers and autoimmune disease. This domain is found at the C-terminal of DEK and is of clinical importance since it can reverse the characteristic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients []. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family []. This domain is also found in chitin synthase proteins like Q8TF96 from SWISSPROT, and in protein phosphatases such as Q6NN85 from SWISSPROT. ; PDB: 1Q1V_A.
Probab=74.93 E-value=1.4 Score=25.97 Aligned_cols=25 Identities=16% Similarity=0.347 Sum_probs=17.2
Q ss_pred EeeeCHHHHHHHHHHhcCCceeccc
Q 033584 59 FGSVTAQDVVDIIKAQLQRDVDKKI 83 (116)
Q Consensus 59 fGSVt~~dIa~~L~~~~g~~idkk~ 83 (116)
+.+||.++|-..|.+.+|+++.-++
T Consensus 18 l~~vT~k~vr~~Le~~~~~dL~~~K 42 (54)
T PF08766_consen 18 LDTVTKKQVREQLEERFGVDLSSRK 42 (54)
T ss_dssp GGG--HHHHHHHHHHH-SS--SHHH
T ss_pred HhHhhHHHHHHHHHHHHCCCcHHHH
Confidence 5679999999999999999987554
No 12
>PF07523 Big_3: Bacterial Ig-like domain (group 3); InterPro: IPR011080 This entry represents bacterial domains with an Ig-like fold. These domains are found in a variety of bacterial surface proteins.; PDB: 2L7Y_A 2KPN_A.
Probab=73.32 E-value=9.3 Score=23.05 Aligned_cols=25 Identities=24% Similarity=0.417 Sum_probs=20.3
Q ss_pred CccceeeEEEEEEecCCeEEEEEEEE
Q 033584 88 EIRETGEYIAQLKLHPEVTARIRLNV 113 (116)
Q Consensus 88 ~Ik~lG~y~V~i~L~~~V~a~i~v~V 113 (116)
+-...|.|.|.+.... .+++++|.|
T Consensus 43 d~~~~G~y~Vt~~y~~-~t~t~~VtV 67 (67)
T PF07523_consen 43 DTSKAGTYTVTYTYKG-VTATFTVTV 67 (67)
T ss_dssp -TTS-CCEEEEEEECT-EEEEEEEEE
T ss_pred ecCCCceEEEEEEECC-EEEEEEEEC
Confidence 3678899999999887 888988876
No 13
>PF07718 Coatamer_beta_C: Coatomer beta C-terminal region; InterPro: IPR011710 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the C-terminal domain of the beta subunit from coatomer proteins (Beta-coat proteins). The C-terminal domain probably adapts the function of the N-terminal IPR002553 from INTERPRO domain. Coatomer protein complex I (COPI)-coated vesicles are involved in transport between the endoplasmic reticulum and the Golgi but also participate in transport from early to late endosomes within the endocytic pathway []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030126 COPI vesicle coat
Probab=69.18 E-value=5 Score=28.70 Aligned_cols=19 Identities=21% Similarity=0.356 Sum_probs=16.8
Q ss_pred eEEEEEecCCCCeeEeeeC
Q 033584 45 AFKVKRKGGKGKQIFGSVT 63 (116)
Q Consensus 45 ~l~i~~k~g~~GklfGSVt 63 (116)
..+|+..+.++|-+||.|+
T Consensus 118 ~~~iKVsStetGvIfG~I~ 136 (140)
T PF07718_consen 118 KATIKVSSTETGVIFGNIV 136 (140)
T ss_pred EEEEEEEeccCCEEEEEEE
Confidence 5788888999999999986
No 14
>cd08505 PBP2_NikA_DppA_OppA_like_18 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=58.68 E-value=22 Score=29.82 Aligned_cols=56 Identities=23% Similarity=0.351 Sum_probs=42.5
Q ss_pred hccCeEEEEEecCC---CCeeE-----eeeCHHHHHHHHHHhcCCceecccccccCccceeeEEEEEEecCC
Q 033584 41 ETVGAFKVKRKGGK---GKQIF-----GSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLKLHPE 104 (116)
Q Consensus 41 ~~~~~l~i~~k~g~---~Gklf-----GSVt~~dIa~~L~~~~g~~idkk~I~l~~Ik~lG~y~V~i~L~~~ 104 (116)
++. +++|..+-|- ||..| ..||+.|++-.+..-. +. .+..|+.++.|+|.|+|..-
T Consensus 63 D~~-t~tf~LR~~v~fsDG~~~~~~~G~p~TA~Dv~~s~~~~~----~~---~i~~v~~~d~~tv~~~l~~p 126 (528)
T cd08505 63 DGS-VYTIRIKPGIYFQPDPAFPKGKTRELTAEDYVYSIKRLA----DP---PLEGVEAVDRYTLRIRLTGP 126 (528)
T ss_pred Cce-EEEEEEcCCCEeeCCcccccCCCcccchHHhhhhHhhhh----cC---cccceEeccCcEEEEEecCC
Confidence 344 7999999876 77777 5689999999986542 22 23458999999999999764
No 15
>PF13592 HTH_33: Winged helix-turn helix
Probab=54.20 E-value=8.1 Score=23.05 Aligned_cols=33 Identities=15% Similarity=0.195 Sum_probs=24.7
Q ss_pred eeeCHHHHHHHHHHhcCCceecccccccCcccee
Q 033584 60 GSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETG 93 (116)
Q Consensus 60 GSVt~~dIa~~L~~~~g~~idkk~I~l~~Ik~lG 93 (116)
|--|..+|++.|.+.+|+.+....|.- -++.+|
T Consensus 3 ~~wt~~~i~~~I~~~fgv~ys~~~v~~-lL~r~G 35 (60)
T PF13592_consen 3 GRWTLKEIAAYIEEEFGVKYSPSGVYR-LLKRLG 35 (60)
T ss_pred CcccHHHHHHHHHHHHCCEEcHHHHHH-HHHHcC
Confidence 557899999999999999988776631 145554
No 16
>smart00116 CBS Domain in cystathionine beta-synthase and other proteins. Domain present in all 3 forms of cellular life. Present in two copies in inosine monophosphate dehydrogenase, of which one is disordered in the crystal structure [3]. A number of disease states are associated with CBS-containing proteins including homocystinuria, Becker's and Thomsen disease.
Probab=53.79 E-value=13 Score=18.86 Aligned_cols=18 Identities=22% Similarity=0.532 Sum_probs=14.9
Q ss_pred CCCeeEeeeCHHHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVDII 71 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L 71 (116)
++|++.|.++..++...+
T Consensus 31 ~~~~~~g~i~~~~l~~~~ 48 (49)
T smart00116 31 EEGRLVGIVTRRDIIKAL 48 (49)
T ss_pred CCCeEEEEEEHHHHHHhh
Confidence 457899999999987765
No 17
>COG1356 tfx Transcriptional regulator [DNA replication, recombination and repair]
Probab=48.33 E-value=75 Score=22.64 Aligned_cols=43 Identities=9% Similarity=0.062 Sum_probs=27.1
Q ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCeEEEEEecCCC
Q 033584 7 VTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKVKRKGGKG 55 (116)
Q Consensus 7 aT~~n~k~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~~~l~i~~k~g~~ 55 (116)
-|..|+..+|.+... ..+.-..-..+.++|.+ ++.|..++|++
T Consensus 35 TTraNvSaIEkrA~e----nIekarnTL~l~~~i~s--pv~i~v~aGe~ 77 (143)
T COG1356 35 TTRANVSAIEKRALE----NIEKARNTLLLWEQINS--PVSITVKAGED 77 (143)
T ss_pred cchhhHHHHHHHHHH----HHHHHHHHHHHHHHhCC--CeEEEecCCCc
Confidence 366777777633222 22222333567888886 69999999975
No 18
>PF01282 Ribosomal_S24e: Ribosomal protein S24e; InterPro: IPR001976 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the S24e ribosomal proteins from eukaryotes and archaebacteria. These proteins have 101 to 148 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V94_B 1YWX_A 2G1D_A 3IZ6_U 1XN9_A 2XZM_P 2XZN_P 3U5G_Y 3J16_D 3IZB_U ....
Probab=47.79 E-value=18 Score=23.41 Aligned_cols=44 Identities=16% Similarity=0.196 Sum_probs=31.0
Q ss_pred eeeCHHHHHHHHHHhcCCceecccccccCcc-ceeeE--EEEEEecCCe
Q 033584 60 GSVTAQDVVDIIKAQLQRDVDKKIVDLPEIR-ETGEY--IAQLKLHPEV 105 (116)
Q Consensus 60 GSVt~~dIa~~L~~~~g~~idkk~I~l~~Ik-~lG~y--~V~i~L~~~V 105 (116)
++.+-.||.+.|.+.+|. |+..|.+..|+ ..|.. ....++|.+.
T Consensus 11 ~Tpsr~ei~~klA~~~~~--~~~~ivv~~~~t~fG~~~s~g~a~IYd~~ 57 (84)
T PF01282_consen 11 PTPSRKEIREKLAAMLNV--DPDLIVVFGIKTEFGGGKSTGFAKIYDSA 57 (84)
T ss_dssp SS--HHHHHHHHHHHHTS--TGCCEEEEEEEESSSSSEEEEEEEEESSH
T ss_pred CCCCHHHHHHHHHHHhCC--CCCeEEEeccEecCCCceEEEEEEEeCCH
Confidence 678999999999999875 77788877655 66655 5555666654
No 19
>cd03081 TRX_Fd_NuoE_FDH_gamma TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of formate to carbon dioxide accompanied by the reduction of NAD+ to NADH. FDH is a heteromeric enzyme composed of four nonidentical subunits (alpha, beta, gamma and delta). The FDH gamma subunit is closely related to NuoE, which is part of a multisubunit complex (Nuo) catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster present in NuoE. Similarly, the FDH gamma subunit is hypothesized to be involved in an electron transport chain involving other FDH subunits, upon the oxidat
Probab=46.95 E-value=19 Score=22.64 Aligned_cols=19 Identities=11% Similarity=0.319 Sum_probs=16.7
Q ss_pred CCeeEeeeCHHHHHHHHHH
Q 033584 55 GKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 55 ~GklfGSVt~~dIa~~L~~ 73 (116)
||.+|+.+|+.+|.+.+.+
T Consensus 61 ~~~~~~~~~~e~i~~il~~ 79 (80)
T cd03081 61 DGEVHGRVDPEKFDALLAE 79 (80)
T ss_pred CCEEECCCCHHHHHHHHHc
Confidence 7899999999999988754
No 20
>PF14221 DUF4330: Domain of unknown function (DUF4330)
Probab=44.60 E-value=20 Score=26.05 Aligned_cols=20 Identities=20% Similarity=0.501 Sum_probs=15.7
Q ss_pred CCCCeeEeeeCHHHHHHHHH
Q 033584 53 GKGKQIFGSVTAQDVVDIIK 72 (116)
Q Consensus 53 g~~GklfGSVt~~dIa~~L~ 72 (116)
.+.|+|||.|+.=|+.-.|.
T Consensus 5 D~kGrlFgkiniiDl~~~lv 24 (168)
T PF14221_consen 5 DSKGRLFGKINIIDLLAILV 24 (168)
T ss_pred ccCCcEeeeEeHHHHHHHHH
Confidence 35799999999999665543
No 21
>cd04608 CBS_pair_PALP_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well as the 5'-phosphate esters of pyridoxal (PALP) and pyridoxamine, the last two being the biologically active coenzyme derivatives. The members of the PALP family are principally involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and other amine-containing compounds. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a poten
Probab=40.55 E-value=17 Score=23.84 Aligned_cols=19 Identities=32% Similarity=0.405 Sum_probs=15.8
Q ss_pred CCCCeeEeeeCHHHHHHHH
Q 033584 53 GKGKQIFGSVTAQDVVDII 71 (116)
Q Consensus 53 g~~GklfGSVt~~dIa~~L 71 (116)
.++|++-|-||..||.+++
T Consensus 106 ~~~~~~~Givt~~Dl~~~~ 124 (124)
T cd04608 106 EKQEKPIGIVTKIDLLSYI 124 (124)
T ss_pred ccccceEEEEehhHhhhhC
Confidence 3568999999999998763
No 22
>cd02980 TRX_Fd_family Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:ubiquinone oxidoreductase (NuoE). TRX-like Fds are soluble low-potential electron carriers containing a single [2Fe-2S] cluster. The exact role of TRX-like Fd is still unclear. It has been suggested that it may be involved in nitrogen fixation. Its homologous domains in large redox enzymes (such as Nuo and hydrogenases) function as electron carriers.
Probab=38.52 E-value=32 Score=20.69 Aligned_cols=20 Identities=30% Similarity=0.529 Sum_probs=16.5
Q ss_pred CCCeeEeeeCHHHHHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L~~ 73 (116)
++|.+||-||+.++.+.|.+
T Consensus 57 ~~~~~y~~v~~~~~~~il~~ 76 (77)
T cd02980 57 PDGVWYGRVTPEDVEEIVEE 76 (77)
T ss_pred CCCeEEccCCHHHHHHHHHh
Confidence 35899999999999887753
No 23
>cd04632 CBS_pair_19 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=37.40 E-value=36 Score=21.92 Aligned_cols=21 Identities=29% Similarity=0.450 Sum_probs=16.9
Q ss_pred cCCCCeeEeeeCHHHHHHHHH
Q 033584 52 GGKGKQIFGSVTAQDVVDIIK 72 (116)
Q Consensus 52 ~g~~GklfGSVt~~dIa~~L~ 72 (116)
.+++|++.|.||..|+...+.
T Consensus 30 v~~~~~~~G~it~~dl~~~~~ 50 (128)
T cd04632 30 VDDNGKLTGIVTRHDIVDFVV 50 (128)
T ss_pred ECCCCcEEEEEEHHHHHHHHh
Confidence 345689999999999987653
No 24
>cd08506 PBP2_clavulanate_OppA2 The substrate-binding domain of an oligopeptide binding protein (OppA2) from the biosynthesis pathway of the beta-lactamase inhibitor clavulanic acid contains the type 2 periplasmic binding fold. Clavulanic acid (CA), a clinically important beta-lactamase inhibitor, is one of a family of clavams produced as secondary metabolites by fermentation of Streptomyces clavuligeru. The biosynthesis of CA proceeds via multiple steps from the precursors, glyceraldehyde-3-phosphate and arginine. CA possesses a characteristic (3R,5R) stereochemistry essential for reaction with penicillin-binding proteins and beta-lactamases. Two genes (oppA1 and oppA2) in the clavulanic acid gene cluster encode oligopeptide-binding proteins that are required for CA biosynthesis. OppA1/2 is involved in the binding and transport of peptides across the cell membrane of Streptomyces clavuligerus. Most of other periplasmic binding proteins are comprised of only two globular subdomains cor
Probab=37.01 E-value=58 Score=26.34 Aligned_cols=45 Identities=18% Similarity=0.214 Sum_probs=35.2
Q ss_pred eEEEEEecCC---CCeeEeeeCHHHHHHHHHHhcCCceecccccccCccceeeEEEEEEecCC
Q 033584 45 AFKVKRKGGK---GKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLKLHPE 104 (116)
Q Consensus 45 ~l~i~~k~g~---~GklfGSVt~~dIa~~L~~~~g~~idkk~I~l~~Ik~lG~y~V~i~L~~~ 104 (116)
+++|+.+-|- ||.. +|+.|++..+....+ ++.++.|+|.|+|...
T Consensus 65 ~~tf~Lr~~vkf~dG~p---~TA~Dv~~s~~~~~~------------v~~~d~~tv~i~l~~p 112 (466)
T cd08506 65 TWTYTLRDGLKFEDGTP---ITAKDVKYGIERSFA------------IETPDDKTIVFHLNRP 112 (466)
T ss_pred EEEEEECCCCEeCCCCe---eeHHHHHHhhhheEE------------EEecCCCeEEEEecCC
Confidence 6999998774 7766 899999999975422 6777888888888754
No 25
>cd04623 CBS_pair_10 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=36.68 E-value=40 Score=20.78 Aligned_cols=21 Identities=19% Similarity=0.479 Sum_probs=17.6
Q ss_pred CCCeeEeeeCHHHHHHHHHHh
Q 033584 54 KGKQIFGSVTAQDVVDIIKAQ 74 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L~~~ 74 (116)
++|++.|.||..|+...+...
T Consensus 32 ~~~~~~Giv~~~~l~~~~~~~ 52 (113)
T cd04623 32 DGGRLVGIFSERDIVRKVALR 52 (113)
T ss_pred CCCCEEEEEehHHHHHHHhhc
Confidence 457999999999999887653
No 26
>cd04592 CBS_pair_EriC_assoc_euk This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the EriC CIC-type chloride channels in eukaryotes. These ion channels are proteins with a seemingly simple task of allowing the passive flow of chloride ions across biological membranes. CIC-type chloride channels come from all kingdoms of life, have several gene families, and can be gated by voltage. The members of the CIC-type chloride channel are double-barreled: two proteins forming homodimers at a broad interface formed by four helices from each protein. The two pores are not found at this interface, but are completely contained within each subunit, as deduced from the mutational analyses, unlike many other channels, in which four or five identical or structurally related subunits jointly form one pore. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually
Probab=36.46 E-value=40 Score=22.74 Aligned_cols=22 Identities=14% Similarity=0.181 Sum_probs=18.4
Q ss_pred CCCCeeEeeeCHHHHHHHHHHh
Q 033584 53 GKGKQIFGSVTAQDVVDIIKAQ 74 (116)
Q Consensus 53 g~~GklfGSVt~~dIa~~L~~~ 74 (116)
.++|++.|.||..|+..++...
T Consensus 31 D~~g~l~Givt~~Dl~~~~~~~ 52 (133)
T cd04592 31 DSDDFLEGILTLGDIQRFLFTN 52 (133)
T ss_pred CCCCeEEEEEEHHHHHHHHhhc
Confidence 3578999999999999988643
No 27
>cd04590 CBS_pair_CorC_HlyC_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in magnesium and cobalt efflux, and in association with some proteins of unknown function. The function of the CorC_HlyC domain is uncertain but it might be involved in modulating transport of ion substrates. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role,
Probab=36.03 E-value=42 Score=20.76 Aligned_cols=18 Identities=22% Similarity=0.484 Sum_probs=16.0
Q ss_pred CeeEeeeCHHHHHHHHHH
Q 033584 56 KQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 56 GklfGSVt~~dIa~~L~~ 73 (116)
|++.|.||..++...+..
T Consensus 35 ~~~~G~v~~~~l~~~~~~ 52 (111)
T cd04590 35 DNIIGVVHVKDLLRALAE 52 (111)
T ss_pred ceEEEEEEHHHHHHHHHc
Confidence 899999999999988754
No 28
>cd03082 TRX_Fd_NuoE_W_FDH_beta TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH is a heterodimeric NAD-dependent enzyme catalyzing the conversion of formate to carbon dioxide. The beta subunit is a fusion protein containing an N-terminal NuoE domain and a C-terminal NuoF domain. NuoE and NuoF are components of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster in NuoE and the [4Fe-4S] cluster in NuoF. In addition, NuoF is also the NADH- and FMN-binding subunit. Similarly, the beta subunit of W-FDH is most likely involved in the electron transport chain during the NAD-dependen
Probab=35.89 E-value=33 Score=21.21 Aligned_cols=18 Identities=17% Similarity=0.311 Sum_probs=15.9
Q ss_pred CCeeEeeeCHHHHHHHHH
Q 033584 55 GKQIFGSVTAQDVVDIIK 72 (116)
Q Consensus 55 ~GklfGSVt~~dIa~~L~ 72 (116)
+|++|+.+|+.+|-+.+.
T Consensus 53 ~~~~~~~~t~~~i~~~~~ 70 (72)
T cd03082 53 GQRPVDGATPAAVAAAVE 70 (72)
T ss_pred CCEEeCCcCHHHHHHHHh
Confidence 789999999999987764
No 29
>cd04629 CBS_pair_16 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=35.55 E-value=46 Score=20.66 Aligned_cols=22 Identities=14% Similarity=0.294 Sum_probs=17.8
Q ss_pred CCCCeeEeeeCHHHHHHHHHHh
Q 033584 53 GKGKQIFGSVTAQDVVDIIKAQ 74 (116)
Q Consensus 53 g~~GklfGSVt~~dIa~~L~~~ 74 (116)
.++|++.|.|+..++...+...
T Consensus 31 ~~~~~~~G~v~~~~l~~~~~~~ 52 (114)
T cd04629 31 DDNGNLVGFLSEQDCLKQLLES 52 (114)
T ss_pred CCCCeEEEEeehHHHHHHhhhh
Confidence 3578999999999999876543
No 30
>COG2524 Predicted transcriptional regulator, contains C-terminal CBS domains [Transcription]
Probab=35.44 E-value=33 Score=27.36 Aligned_cols=23 Identities=22% Similarity=0.289 Sum_probs=19.9
Q ss_pred ecCCCCeeEeeeCHHHHHHHHHH
Q 033584 51 KGGKGKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 51 k~g~~GklfGSVt~~dIa~~L~~ 73 (116)
.+-++|++-|-+|..||++++..
T Consensus 207 PVvd~dk~vGiit~~dI~~aia~ 229 (294)
T COG2524 207 PVVDDDKIVGIITLSDIAKAIAN 229 (294)
T ss_pred ceecCCceEEEEEHHHHHHHHHc
Confidence 34478899999999999999975
No 31
>cd04624 CBS_pair_11 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=34.81 E-value=45 Score=20.70 Aligned_cols=21 Identities=29% Similarity=0.447 Sum_probs=17.2
Q ss_pred CCCCeeEeeeCHHHHHHHHHH
Q 033584 53 GKGKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 53 g~~GklfGSVt~~dIa~~L~~ 73 (116)
.++|++.|.||..|+...+..
T Consensus 31 d~~~~~~G~v~~~~l~~~~~~ 51 (112)
T cd04624 31 DPDERPIGIVTERDIVRAVAA 51 (112)
T ss_pred CCCCCEEEEeeHHHHHHHHhc
Confidence 346899999999999887654
No 32
>cd04639 CBS_pair_26 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=34.64 E-value=48 Score=20.51 Aligned_cols=20 Identities=15% Similarity=0.368 Sum_probs=16.7
Q ss_pred CCCeeEeeeCHHHHHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L~~ 73 (116)
++|++.|.|+..++...+..
T Consensus 32 ~~~~~~G~v~~~~l~~~~~~ 51 (111)
T cd04639 32 GDGHLVGLLTRDDLIRALAE 51 (111)
T ss_pred CCCcEEEEeeHHHHHHHHHh
Confidence 45899999999999887654
No 33
>PF10826 DUF2551: Protein of unknown function (DUF2551) ; InterPro: IPR020501 This entry contains proteins with no known function.
Probab=34.62 E-value=24 Score=23.07 Aligned_cols=23 Identities=26% Similarity=0.328 Sum_probs=20.3
Q ss_pred eeeCHHHHHHHHHHhcCCceecccc
Q 033584 60 GSVTAQDVVDIIKAQLQRDVDKKIV 84 (116)
Q Consensus 60 GSVt~~dIa~~L~~~~g~~idkk~I 84 (116)
|+.|+.||-+.|.++ ++|..+.+
T Consensus 24 ~~~T~~di~e~L~~~--f~vs~~~V 46 (83)
T PF10826_consen 24 KKFTTDDIYERLKEK--FDVSYRGV 46 (83)
T ss_pred CCeeHHHHHHHHHHH--cCchHHHH
Confidence 789999999999987 77888876
No 34
>cd04630 CBS_pair_17 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=34.33 E-value=88 Score=19.52 Aligned_cols=19 Identities=26% Similarity=0.532 Sum_probs=16.2
Q ss_pred CeeEeeeCHHHHHHHHHHh
Q 033584 56 KQIFGSVTAQDVVDIIKAQ 74 (116)
Q Consensus 56 GklfGSVt~~dIa~~L~~~ 74 (116)
|++.|.||..|+...+...
T Consensus 35 ~~~~G~v~~~dl~~~~~~~ 53 (114)
T cd04630 35 SDAYGIVTMRDILKKVVAE 53 (114)
T ss_pred CcEEEEEehHHHHHHHHhC
Confidence 7999999999999876543
No 35
>cd03064 TRX_Fd_NuoE TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes. It is a multisubunit complex with at least 14 core subunits. It catalyzes the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane, providing the proton motive force required for energy-consuming processes. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster present in NuoE core subunit, also called the 24 kD subunit of Complex 1. This subfamily also include formate dehydrogenases, NiFe hydrogenases and NAD-reducing hydrogenases, that contain a NuoE domain. A subset of these proteins contain both NuoE and NuoF in a single chain. NuoF, also called the 51 kD subunit of Complex 1, contains one [4Fe-4S] clu
Probab=34.04 E-value=42 Score=20.70 Aligned_cols=19 Identities=26% Similarity=0.594 Sum_probs=16.2
Q ss_pred CCeeEeeeCHHHHHHHHHH
Q 033584 55 GKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 55 ~GklfGSVt~~dIa~~L~~ 73 (116)
+|.+|+-||+.+|.+.+.+
T Consensus 61 ~g~~y~~vt~~~i~~i~~~ 79 (80)
T cd03064 61 NDDVYGRLTPEKVDAILEA 79 (80)
T ss_pred CCEEECCCCHHHHHHHHHh
Confidence 5899999999999987753
No 36
>cd08490 PBP2_NikA_DppA_OppA_like_3 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=33.43 E-value=1e+02 Score=24.84 Aligned_cols=60 Identities=12% Similarity=0.182 Sum_probs=40.0
Q ss_pred hccCeEEEEEecCC---CCeeEeeeCHHHHHHHHHHhcCCceecccc-cccCccceeeEEEEEEecCC
Q 033584 41 ETVGAFKVKRKGGK---GKQIFGSVTAQDVVDIIKAQLQRDVDKKIV-DLPEIRETGEYIAQLKLHPE 104 (116)
Q Consensus 41 ~~~~~l~i~~k~g~---~GklfGSVt~~dIa~~L~~~~g~~idkk~I-~l~~Ik~lG~y~V~i~L~~~ 104 (116)
++. +++|..+-|- ||. -||+.|+.-.+........-.... .+..++.++.|+|.|+|...
T Consensus 54 d~~-~~tf~Lr~~~~wsDG~---plTA~Dv~~s~~~~~~~~~~~~~~~~~~~v~~~d~~tv~i~l~~p 117 (470)
T cd08490 54 DDT-TWEFTLRDGVKFHDGT---PLTAEAVKASLERALAKSPRAKGGALIISVIAVDDYTVTITTKEP 117 (470)
T ss_pred CCC-EEEEEECCCCCccCCC---CCCHHHHHHHHHHHhccCccccccccceEEEecCCCEEEEEeCCC
Confidence 554 7999998874 776 499999999887532211111101 12248889999999999764
No 37
>cd04643 CBS_pair_30 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=33.31 E-value=48 Score=20.65 Aligned_cols=20 Identities=20% Similarity=0.376 Sum_probs=16.9
Q ss_pred CCCeeEeeeCHHHHHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L~~ 73 (116)
++|++.|.|+..|+...+..
T Consensus 32 ~~~~~~Giv~~~dl~~~~~~ 51 (116)
T cd04643 32 KEGKYVGTISLTDILWKLKG 51 (116)
T ss_pred CCCcEEEEEeHHHHHHHhhc
Confidence 57899999999999887653
No 38
>COG3620 Predicted transcriptional regulator with C-terminal CBS domains [Transcription]
Probab=32.91 E-value=37 Score=25.29 Aligned_cols=19 Identities=16% Similarity=0.529 Sum_probs=17.4
Q ss_pred CCCeeEeeeCHHHHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVDIIK 72 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L~ 72 (116)
++|++-|.||..||.+-+.
T Consensus 166 e~G~~vGIITk~DI~k~~~ 184 (187)
T COG3620 166 ENGKVVGIITKADIMKLLA 184 (187)
T ss_pred eCCceEEEEeHHHHHHHHh
Confidence 7889999999999998875
No 39
>cd04619 CBS_pair_6 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic genera
Probab=32.90 E-value=49 Score=20.87 Aligned_cols=21 Identities=24% Similarity=0.297 Sum_probs=17.3
Q ss_pred CCCCeeEeeeCHHHHHHHHHH
Q 033584 53 GKGKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 53 g~~GklfGSVt~~dIa~~L~~ 73 (116)
.++|++.|.||..|+...+..
T Consensus 31 d~~g~~~G~vt~~dl~~~~~~ 51 (114)
T cd04619 31 DPHGKLAGVLTKTDVVRQMGR 51 (114)
T ss_pred CCCCCEEEEEehHHHHHHHhh
Confidence 467899999999999887653
No 40
>PRK07639 acyl carrier protein; Provisional
Probab=32.75 E-value=15 Score=23.57 Aligned_cols=34 Identities=21% Similarity=0.203 Sum_probs=25.4
Q ss_pred eeeCHHHHHHHHHHhcCCceecccccccCcccee
Q 033584 60 GSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETG 93 (116)
Q Consensus 60 GSVt~~dIa~~L~~~~g~~idkk~I~l~~Ik~lG 93 (116)
=|+..-++.-+|...||+.|+...+....+.++|
T Consensus 39 DSld~velv~~lE~~fgi~i~d~~~~~~~~~Tv~ 72 (86)
T PRK07639 39 DSVMMLQLIVYIEMDVKLCVPEDEVDPKAFLTVG 72 (86)
T ss_pred ChHHHHHHHHHHHHHHCCccCHHHccHHHhCCHH
Confidence 4778888888899999999987766444455554
No 41
>PF12167 DUF3596: Domain of unknown function (DUF3596); InterPro: IPR022000 This N-terminal domain is found in Bacteriophage P27p02, it is functionally uncharacterised, though it is considered to be an integrase. Integrase is necessary for integration of the phage into the host genome by site-specific recombination. In conjunction with excisionase, integrase is also necessary for excision of the prophage from the host genome. This domain is found in related proteins in other bacteriophage, and prophage regions of bacterial genomes. The domain is approximately 90 amino acids in length and is found is associated with the C-terminal domain characterised by PF00589 from PFAM.
Probab=32.66 E-value=63 Score=19.61 Aligned_cols=23 Identities=30% Similarity=0.144 Sum_probs=16.6
Q ss_pred ceeecCHHHHHHHHHHHHHHHHH
Q 033584 3 KAQIVTPLLLKEMKMEEERIEAE 25 (116)
Q Consensus 3 lA~~aT~~n~k~~~~~~~~~~~~ 25 (116)
+..+.|+.|++.++....+.+.+
T Consensus 26 l~l~dT~~N~k~a~~~~~~I~~~ 48 (64)
T PF12167_consen 26 LGLPDTPANRKKAERLRAEIEAE 48 (64)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHH
Confidence 45678999999887666555543
No 42
>cd03063 TRX_Fd_FDH_beta TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of formate to carbon dioxide accompanied by the reduction of NAD to NADH. FDH is a heteromeric enzyme composed of four nonidentical subunits (alpha, beta, gamma and delta). The FDH beta subunit contains a NADH:ubiquinone oxidoreductase (Nuo) F domain C-terminal to a Fd-like domain without the active site cysteines. The absence of conserved metal-binding residues in the putative active site suggests that members of this subfamily have lost the ability to bind iron-sulfur clusters in the N-terminal Fd-like domain. The C-terminal NuoF domain is a component of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. NuoF contains one [4Fe-4S] c
Probab=32.50 E-value=58 Score=21.41 Aligned_cols=21 Identities=33% Similarity=0.586 Sum_probs=17.4
Q ss_pred CCC-eeEeeeCHHHHHHHHHHh
Q 033584 54 KGK-QIFGSVTAQDVVDIIKAQ 74 (116)
Q Consensus 54 ~~G-klfGSVt~~dIa~~L~~~ 74 (116)
++| -+||-||+.|+.+.+.+.
T Consensus 56 p~g~v~Y~~V~~edv~~Iv~~~ 77 (92)
T cd03063 56 PGGRVAYGPVTPADVASLLDAG 77 (92)
T ss_pred CCCcEEEEeCCHHHHHHHHHHH
Confidence 345 899999999999888764
No 43
>cd04582 CBS_pair_ABC_OpuCA_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment but the function of the CBS domains in OpuCA remains unknown. In the related ABC transporter, OpuA, the tandem CBS domains have been shown to function as sensors for ionic strength, whereby they control the transport activity through an electronic switching mechanism. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. They are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzi
Probab=32.44 E-value=45 Score=20.46 Aligned_cols=19 Identities=21% Similarity=0.202 Sum_probs=15.6
Q ss_pred CCCCeeEeeeCHHHHHHHH
Q 033584 53 GKGKQIFGSVTAQDVVDII 71 (116)
Q Consensus 53 g~~GklfGSVt~~dIa~~L 71 (116)
.++|++.|.||..||....
T Consensus 31 d~~g~~~Giv~~~dl~~~~ 49 (106)
T cd04582 31 DADGQPLGFVTRREAARAS 49 (106)
T ss_pred CCCCCEEEEEeHHHHHHhc
Confidence 3578999999999998754
No 44
>cd04607 CBS_pair_NTP_transferase_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown.
Probab=32.43 E-value=44 Score=20.90 Aligned_cols=20 Identities=20% Similarity=0.418 Sum_probs=16.5
Q ss_pred CCCCeeEeeeCHHHHHHHHH
Q 033584 53 GKGKQIFGSVTAQDVVDIIK 72 (116)
Q Consensus 53 g~~GklfGSVt~~dIa~~L~ 72 (116)
.++|++.|.||..|+...+.
T Consensus 32 d~~~~~~G~v~~~dl~~~~~ 51 (113)
T cd04607 32 DENGRLLGTVTDGDIRRALL 51 (113)
T ss_pred CCCCCEEEEEEcHHHHHHHh
Confidence 35689999999999987664
No 45
>cd04606 CBS_pair_Mg_transporter This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other divalent cations into the cell via two highly conserved aspartates. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown.
Probab=32.39 E-value=68 Score=19.89 Aligned_cols=19 Identities=32% Similarity=0.671 Sum_probs=15.3
Q ss_pred CCCCeeEeeeCHHHHHHHH
Q 033584 53 GKGKQIFGSVTAQDVVDII 71 (116)
Q Consensus 53 g~~GklfGSVt~~dIa~~L 71 (116)
.++|++.|-||..|+.++|
T Consensus 91 ~~~~~~~Gvit~~dll~~~ 109 (109)
T cd04606 91 DEEGRLVGIITVDDVIDVI 109 (109)
T ss_pred CCCCcEEEEEEhHHhhhhC
Confidence 4568999999999988653
No 46
>COG5556 Uncharacterized conserved protein [Function unknown]
Probab=32.37 E-value=22 Score=24.15 Aligned_cols=25 Identities=20% Similarity=0.351 Sum_probs=21.1
Q ss_pred CHHHHHHHHHHhcCCceeccccccc
Q 033584 63 TAQDVVDIIKAQLQRDVDKKIVDLP 87 (116)
Q Consensus 63 t~~dIa~~L~~~~g~~idkk~I~l~ 87 (116)
|++-++++.++.+|++|.+..++-.
T Consensus 21 s~S~Va~aVkkEfGi~VsrQlvesh 45 (110)
T COG5556 21 SPSVVAAAVKKEFGIDVSRQLVESH 45 (110)
T ss_pred cHHHHHHHHHHHhcchHHHHHHHhc
Confidence 5778999999999999999887643
No 47
>PHA02119 hypothetical protein
Probab=31.92 E-value=32 Score=22.06 Aligned_cols=34 Identities=21% Similarity=0.394 Sum_probs=24.9
Q ss_pred eEEEEEecCCCCeeEeeeCHHHHHHHHHHhcCCceeccc
Q 033584 45 AFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKI 83 (116)
Q Consensus 45 ~l~i~~k~g~~GklfGSVt~~dIa~~L~~~~g~~idkk~ 83 (116)
.++|.-. |--|-.|-++||++.|... |+++.-..
T Consensus 41 ~f~isf~----~~kfp~i~~~divdylr~l-gy~~~~~s 74 (87)
T PHA02119 41 SFKISFD----VAKFPAIMPKDIVDYLRSL-GYDAKSDS 74 (87)
T ss_pred eeEEEec----cccCCccccHHHHHHHHHc-cchhcccc
Confidence 4555543 3467779999999999987 98875443
No 48
>cd04801 CBS_pair_M50_like This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the metalloprotease peptidase M50. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown.
Probab=31.39 E-value=48 Score=20.73 Aligned_cols=19 Identities=16% Similarity=0.239 Sum_probs=16.3
Q ss_pred CCCeeEeeeCHHHHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVDIIK 72 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L~ 72 (116)
++|++.|.||..|+...+.
T Consensus 33 ~~~~~~G~v~~~dl~~~~~ 51 (114)
T cd04801 33 NEGRYVGIISLADLRAIPT 51 (114)
T ss_pred CCCcEEEEEEHHHHHHHHH
Confidence 4689999999999988765
No 49
>PF13565 HTH_32: Homeodomain-like domain
Probab=31.31 E-value=35 Score=20.56 Aligned_cols=19 Identities=11% Similarity=0.310 Sum_probs=16.5
Q ss_pred eeCHHHHHHHHHHhcCCce
Q 033584 61 SVTAQDVVDIIKAQLQRDV 79 (116)
Q Consensus 61 SVt~~dIa~~L~~~~g~~i 79 (116)
--|+.+|++.|..++|+.+
T Consensus 48 ~wt~~~i~~~L~~~~g~~~ 66 (77)
T PF13565_consen 48 RWTPREIAEYLEEEFGISV 66 (77)
T ss_pred CCCHHHHHHHHHHHhCCCC
Confidence 4789999999999989866
No 50
>COG1438 ArgR Arginine repressor [Transcription]
Probab=31.03 E-value=31 Score=24.91 Aligned_cols=34 Identities=18% Similarity=0.416 Sum_probs=25.0
Q ss_pred CHHHHHHHHHHhcCCceecccccccCccceeeEEEE
Q 033584 63 TAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQ 98 (116)
Q Consensus 63 t~~dIa~~L~~~~g~~idkk~I~l~~Ik~lG~y~V~ 98 (116)
|-.||++.|++. |++|.--.+. .+||++|-..|+
T Consensus 22 TQ~Elv~~L~~~-Gi~vTQaTvS-RDlkelglvKv~ 55 (150)
T COG1438 22 TQEELVELLQEE-GIEVTQATVS-RDLKELGLVKVR 55 (150)
T ss_pred CHHHHHHHHHHc-CCeEehHHHH-HHHHHcCCEEec
Confidence 567899999887 9888755442 148888887776
No 51
>COG3620 Predicted transcriptional regulator with C-terminal CBS domains [Transcription]
Probab=30.40 E-value=47 Score=24.70 Aligned_cols=23 Identities=22% Similarity=0.330 Sum_probs=19.2
Q ss_pred cCCCCeeEeeeCHHHHHHHHHHh
Q 033584 52 GGKGKQIFGSVTAQDVVDIIKAQ 74 (116)
Q Consensus 52 ~g~~GklfGSVt~~dIa~~L~~~ 74 (116)
+-++|++-||||-.+|.+++.+.
T Consensus 101 Vi~~~k~VGsItE~~iv~~~le~ 123 (187)
T COG3620 101 VIEEDKVVGSITENDIVRALLEG 123 (187)
T ss_pred eeeCCeeeeeecHHHHHHHHhcc
Confidence 33568999999999999998654
No 52
>cd08502 PBP2_NikA_DppA_OppA_like_16 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=30.33 E-value=1.2e+02 Score=24.72 Aligned_cols=57 Identities=19% Similarity=0.326 Sum_probs=38.6
Q ss_pred eEEEEEecC---CCCeeEeeeCHHHHHHHHHHhcCCcee-ccccc-ccCccceeeEEEEEEecCC
Q 033584 45 AFKVKRKGG---KGKQIFGSVTAQDVVDIIKAQLQRDVD-KKIVD-LPEIRETGEYIAQLKLHPE 104 (116)
Q Consensus 45 ~l~i~~k~g---~~GklfGSVt~~dIa~~L~~~~g~~id-kk~I~-l~~Ik~lG~y~V~i~L~~~ 104 (116)
+++|..+-| .||. .||+.|++-.+..-.+.... +.... +..|..+|.|+|.|+|...
T Consensus 59 ~~tf~LR~~v~wsdG~---~lTA~Dv~~s~~~~~~~~~~~~~~~~~i~~v~~~d~~tv~~~l~~p 120 (472)
T cd08502 59 TYTFTLRDGLKFHDGS---PVTAADVVASLKRWAKRDAMGQALMAAVESLEAVDDKTVVITLKEP 120 (472)
T ss_pred EEEEEEcCCCEecCCc---cCcHHHHHHHHHHHhccCcccccccccceeEEecCCCEEEEEeCCC
Confidence 688998887 3674 59999999888743222211 11222 2348899999999999753
No 53
>cd04593 CBS_pair_EriC_assoc_bac_arch This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the EriC CIC-type chloride channels in bacteria and archaea. These ion channels are proteins with a seemingly simple task of allowing the passive flow of chloride ions across biological membranes. CIC-type chloride channels come from all kingdoms of life, have several gene families, and can be gated by voltage. The members of the CIC-type chloride channel are double-barreled: two proteins forming homodimers at a broad interface formed by four helices from each protein. The two pores are not found at this interface, but are completely contained within each subunit, as deduced from the mutational analyses, unlike many other channels, in which four or five identical or structurally related subunits jointly form one pore. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS d
Probab=29.82 E-value=55 Score=20.50 Aligned_cols=20 Identities=20% Similarity=0.443 Sum_probs=16.9
Q ss_pred CCCeeEeeeCHHHHHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L~~ 73 (116)
++|++.|.|+..|+...+..
T Consensus 32 ~~~~~~G~v~~~dl~~~~~~ 51 (115)
T cd04593 32 RDGGVVGIITLPDLLRALEA 51 (115)
T ss_pred CCCCEEEEEEHHHHHHHHhc
Confidence 46899999999999987754
No 54
>cd04587 CBS_pair_CAP-ED_DUF294_PBI_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain. Members of CAP_ED, include CAP which binds cAMP, FNR (fumarate and nitrate reductase) which uses an iron-sulfur cluster to sense oxygen, and CooA a heme containing CO sensor. In all cases binding of the effector leads to conformational changes and the ability to activate transcription. DUF294 is a putative nucleotidyltransferase with a conserved DxD motif. The PB1 domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pai
Probab=29.41 E-value=28 Score=21.66 Aligned_cols=17 Identities=18% Similarity=0.347 Sum_probs=14.0
Q ss_pred CCCCeeEeeeCHHHHHH
Q 033584 53 GKGKQIFGSVTAQDVVD 69 (116)
Q Consensus 53 g~~GklfGSVt~~dIa~ 69 (116)
.++|++.|.||..||..
T Consensus 96 ~~~~~~~Gvvs~~dl~~ 112 (113)
T cd04587 96 DKSGQVVGLLDVTKLTH 112 (113)
T ss_pred CCCCCEEEEEEHHHhcc
Confidence 34689999999999864
No 55
>cd04604 CBS_pair_KpsF_GutQ_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway intermediate D-ribulose 5-phosphate into A5P, a precursor of 3-deoxy-D-manno-octulosonate, which is an integral carbohydrate component of various glycolipids coating the surface of the outer membrane of Gram-negative bacteria, including lipopolysaccharide and many group 2 K-antigen capsules. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other funct
Probab=29.34 E-value=61 Score=20.00 Aligned_cols=20 Identities=15% Similarity=0.297 Sum_probs=16.9
Q ss_pred CCCeeEeeeCHHHHHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L~~ 73 (116)
++|++.|.|+..++...+..
T Consensus 33 ~~~~~~G~v~~~~i~~~~~~ 52 (114)
T cd04604 33 EDGRLVGIFTDGDLRRALEK 52 (114)
T ss_pred CCCCEEEEechHHHHHHHhc
Confidence 45799999999999988764
No 56
>COG0757 AroQ 3-dehydroquinate dehydratase II [Amino acid transport and metabolism]
Probab=29.31 E-value=49 Score=23.83 Aligned_cols=27 Identities=26% Similarity=0.427 Sum_probs=21.7
Q ss_pred eeEeeeCHHHHHHHHHH---hcCCceeccc
Q 033584 57 QIFGSVTAQDVVDIIKA---QLQRDVDKKI 83 (116)
Q Consensus 57 klfGSVt~~dIa~~L~~---~~g~~idkk~ 83 (116)
.+||+.|-.||.+.++. +.|++++=++
T Consensus 20 ~iYG~~Tl~di~~~~~~~a~~~g~~v~~~Q 49 (146)
T COG0757 20 GIYGSTTLEDIEADLEEEAAKLGVEVEFRQ 49 (146)
T ss_pred CccCcccHHHHHHHHHHHHHHcCceEEEEe
Confidence 59999999999998874 4477777655
No 57
>cd04620 CBS_pair_7 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic genera
Probab=28.95 E-value=63 Score=20.14 Aligned_cols=19 Identities=21% Similarity=0.438 Sum_probs=16.0
Q ss_pred CCeeEeeeCHHHHHHHHHH
Q 033584 55 GKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 55 ~GklfGSVt~~dIa~~L~~ 73 (116)
+|++.|.||..|+...+..
T Consensus 33 ~~~~~G~v~~~dl~~~~~~ 51 (115)
T cd04620 33 KGRLLGIFTERDIVRLTAI 51 (115)
T ss_pred CCcEEEEEeHHHHHHHHhc
Confidence 5899999999999986643
No 58
>PF01257 2Fe-2S_thioredx: Thioredoxin-like [2Fe-2S] ferredoxin; InterPro: IPR002023 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. Among the many polypeptide subunits that make up complex I, there is one with a molecular weight of 24 kDa (in mammals), which is a component of the iron-sulphur (IP) fragment of the enzyme. It seems to bind a 2Fe-2S iron-sulphur cluster. The 24 kDa subunit is nuclear encoded, as a precursor form with a transit peptide in mammals and in Neurospora crassa. There is a highly conserved region located in the central section of this subunit that contains two conserved cysteines, that are probably involved in the binding of the 2Fe-2S centre. The 24 kDa subunit is highly similar to [, ]: Subunit E of Escherichia coli NADH-ubiquinone oxidoreductase (gene nuoE) Subunit NQO2 of Paracoccus denitrificans NADH-ubiquinone oxidoreductase ; GO: 0016491 oxidoreductase activity, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 1M2D_A 1M2A_B 1F37_B 1M2B_B 2FUG_B 3M9S_B 3IAM_B 3IAS_K 2YBB_2 3I9V_B ....
Probab=28.83 E-value=37 Score=23.76 Aligned_cols=19 Identities=26% Similarity=0.546 Sum_probs=16.8
Q ss_pred CCeeEeeeCHHHHHHHHHH
Q 033584 55 GKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 55 ~GklfGSVt~~dIa~~L~~ 73 (116)
||.+||-+|+.+|.+.|.+
T Consensus 125 ~~~~y~~vt~e~v~~il~~ 143 (145)
T PF01257_consen 125 DGEWYGNVTPEKVDEILEE 143 (145)
T ss_dssp CCCEEESSSCCHHHHHHHH
T ss_pred CCEEECCCCHHHHHHHHHh
Confidence 7899999999999888764
No 59
>PRK15109 antimicrobial peptide ABC transporter periplasmic binding protein SapA; Provisional
Probab=28.71 E-value=1e+02 Score=25.93 Aligned_cols=59 Identities=15% Similarity=0.318 Sum_probs=38.1
Q ss_pred eEEEEEecCC---CCeeEe---eeCHHHHHHHHHHhcCCceecc--------------cc-cccCccceeeEEEEEEecC
Q 033584 45 AFKVKRKGGK---GKQIFG---SVTAQDVVDIIKAQLQRDVDKK--------------IV-DLPEIRETGEYIAQLKLHP 103 (116)
Q Consensus 45 ~l~i~~k~g~---~GklfG---SVt~~dIa~~L~~~~g~~idkk--------------~I-~l~~Ik~lG~y~V~i~L~~ 103 (116)
+++|+.+-|- ||..|| -||+.|++..+..-.+...... .. .+..++..+.|+|.|+|..
T Consensus 95 t~tf~LR~gvkfsDG~~~~~G~pvTA~DV~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~d~~Tv~~~l~~ 174 (547)
T PRK15109 95 TYRFHLRRDVPFQKTDWFTPTRKMNADDVVFSFQRIFDRNHPWHNVNGGNYPYFDSLQFADNVKSVRKLDNYTVEFRLAQ 174 (547)
T ss_pred EEEEEecCCCeecCCcccCCCccccHHHhhhhHHHHhCcccccccccccccccccccccccceeEEEEeCCCeEEEEecC
Confidence 6888888764 554443 6999999998875422221100 00 1224778899999998865
No 60
>cd04605 CBS_pair_MET2_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the MET2 domain. Met2 is a key enzyme in the biosynthesis of methionine. It encodes a homoserine transacetylase involved in converting homoserine to O-acetyl homoserine. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown.
Probab=28.49 E-value=68 Score=19.73 Aligned_cols=20 Identities=20% Similarity=0.373 Sum_probs=16.4
Q ss_pred CCCeeEeeeCHHHHHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L~~ 73 (116)
++|++.|.||.+++...+..
T Consensus 33 ~~~~~~G~v~~~~l~~~~~~ 52 (110)
T cd04605 33 EDGRLVGIVTSWDISKAVAR 52 (110)
T ss_pred CCCcEEEEEeHHHHHHHHhh
Confidence 46899999999999876653
No 61
>cd03083 TRX_Fd_NuoE_hoxF TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, hoxF; composed of proteins similar to the NAD-reducing hydrogenase (hoxS) alpha subunit of Alcaligenes eutrophus H16. HoxS is a cytoplasmic hydrogenase catalyzing the oxidation of molecular hydrogen accompanied by the reduction of NAD. It is composed of four structural subunits encoded by the genes hoxF, hoxU, hoxY and hoxH. The hoxF protein (or alpha subunit) is a fusion protein containing an N-terminal NuoE-like domain and a C-terminal NuoF domain. NuoE and NuoF are components of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster in NuoE and the [4Fe-4S] cluster in NuoF. In addition, NuoF is also the NADH- and FMN-binding subunit. HoxF may be involved
Probab=28.45 E-value=56 Score=20.41 Aligned_cols=18 Identities=17% Similarity=0.377 Sum_probs=15.5
Q ss_pred CCeeEeeeCHHHHHHHHH
Q 033584 55 GKQIFGSVTAQDVVDIIK 72 (116)
Q Consensus 55 ~GklfGSVt~~dIa~~L~ 72 (116)
+|.+||-||+.++.+.+.
T Consensus 61 ~~~~y~~v~~~~v~~iv~ 78 (80)
T cd03083 61 NNRVFTRLTPGRIDQIAE 78 (80)
T ss_pred CCEEECCCCHHHHHHHHh
Confidence 678999999999887764
No 62
>cd04597 CBS_pair_DRTGG_assoc2 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown.
Probab=28.36 E-value=43 Score=21.64 Aligned_cols=18 Identities=17% Similarity=0.156 Sum_probs=14.6
Q ss_pred cCCCCeeEeeeCHHHHHH
Q 033584 52 GGKGKQIFGSVTAQDVVD 69 (116)
Q Consensus 52 ~g~~GklfGSVt~~dIa~ 69 (116)
..++|++.|-||..||.+
T Consensus 95 vd~~~~l~Givt~~dl~~ 112 (113)
T cd04597 95 VDDDGTPAGIITLLDLAE 112 (113)
T ss_pred ECCCCeEEEEEEHHHhhc
Confidence 345789999999999864
No 63
>cd04583 CBS_pair_ABC_OpuCA_assoc2 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment but the function of the CBS domains in OpuCA remains unknown. In the related ABC transporter, OpuA, the tandem CBS domains have been shown to function as sensors for ionic strength, whereby they control the transport activity through an electronic switching mechanism. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. They are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyz
Probab=28.22 E-value=61 Score=19.82 Aligned_cols=18 Identities=17% Similarity=0.379 Sum_probs=15.2
Q ss_pred CCCeeEeeeCHHHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVDII 71 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L 71 (116)
++|++.|.|+..|+...+
T Consensus 33 ~~~~~~G~v~~~dl~~~~ 50 (109)
T cd04583 33 KDNKLLGIVSLESLEQAY 50 (109)
T ss_pred CCCcEEEEEEHHHHHHHh
Confidence 468999999999998764
No 64
>COG2047 Uncharacterized protein (ATP-grasp superfamily) [General function prediction only]
Probab=27.92 E-value=57 Score=25.48 Aligned_cols=26 Identities=15% Similarity=0.474 Sum_probs=21.4
Q ss_pred CCCeeEeeeCHHHHHHHHHHhcCCcee
Q 033584 54 KGKQIFGSVTAQDVVDIIKAQLQRDVD 80 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L~~~~g~~id 80 (116)
++-+++|++|++++++.|++. |+...
T Consensus 133 eep~VlGA~ts~eLi~~lke~-gV~fr 158 (258)
T COG2047 133 EEPRVLGAVTSKELIEELKEH-GVEFR 158 (258)
T ss_pred CCceeEEecCCHHHHHHHHHc-CeEec
Confidence 345899999999999999876 87654
No 65
>cd08496 PBP2_NikA_DppA_OppA_like_9 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA can bind peptides of a wide range of lengths (2-35 amino-acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most
Probab=27.76 E-value=1.4e+02 Score=24.12 Aligned_cols=57 Identities=9% Similarity=0.106 Sum_probs=38.4
Q ss_pred eEEEEEecCC---CCeeEeeeCHHHHHHHHHHhcCCceecc-cc-cccCccceeeEEEEEEecCC
Q 033584 45 AFKVKRKGGK---GKQIFGSVTAQDVVDIIKAQLQRDVDKK-IV-DLPEIRETGEYIAQLKLHPE 104 (116)
Q Consensus 45 ~l~i~~k~g~---~GklfGSVt~~dIa~~L~~~~g~~idkk-~I-~l~~Ik~lG~y~V~i~L~~~ 104 (116)
+++|+.+-|- ||.. ||+.|++-.+........... .+ .+..++.+|.|+|.|+|..-
T Consensus 59 t~tf~Lr~~~~f~DG~p---vTA~Dv~~s~~~~~~~~~~~~~~~~~i~~v~~~d~~tv~i~l~~p 120 (454)
T cd08496 59 TLTLHLREGLTFSDGTP---LDAAAVKANLDRGKSTGGSQVKQLASISSVEVVDDTTVTLTLSQP 120 (454)
T ss_pred EEEEEeCCCCCccCCCC---cCHHHHHHHHHHHhCCCcchhhhccccceEEecCCCEEEEEeCCC
Confidence 6888888774 6764 799999999875432221110 11 12248889999999999753
No 66
>PF14420 Clr5: Clr5 domain
Probab=27.44 E-value=45 Score=19.49 Aligned_cols=23 Identities=22% Similarity=0.299 Sum_probs=19.7
Q ss_pred eCHHHHHHHHHHhcCCceecccc
Q 033584 62 VTAQDVVDIIKAQLQRDVDKKIV 84 (116)
Q Consensus 62 Vt~~dIa~~L~~~~g~~idkk~I 84 (116)
-|..||++.+++.+||...+++.
T Consensus 21 ~tl~~v~~~M~~~~~F~at~rqy 43 (54)
T PF14420_consen 21 KTLEEVMEIMKEEHGFKATKRQY 43 (54)
T ss_pred CcHHHHHHHHHHHhCCCcCHHHH
Confidence 57899999999999999887764
No 67
>cd04641 CBS_pair_28 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=27.41 E-value=68 Score=20.32 Aligned_cols=21 Identities=14% Similarity=0.322 Sum_probs=17.3
Q ss_pred CCCCeeEeeeCHHHHHHHHHH
Q 033584 53 GKGKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 53 g~~GklfGSVt~~dIa~~L~~ 73 (116)
.++|++.|.||.+|+...+..
T Consensus 31 ~~~~~~~Giv~~~dl~~~~~~ 51 (120)
T cd04641 31 DENGKVVDVYSRFDVINLAKE 51 (120)
T ss_pred CCCCeEEEEEeHHHHHHHHhc
Confidence 357899999999999987643
No 68
>PF05157 T2SE_Nter: Type II secretion system (T2SS), protein E, N-terminal domain; InterPro: IPR007831 This domain is found at the N terminus of members of the general secretory system II protein E. Proteins in this subfamily are typically involved in Type IV pilus biogenesis (e.g. Q9X4G8 from SWISSPROT), though some are involved in other processes; for instance aggregation in Myxococcus xanthus (e.g. Q9RF11 from SWISSPROT) [].; GO: 0005524 ATP binding, 0006810 transport; PDB: 2D27_A 2D28_C.
Probab=27.03 E-value=41 Score=21.23 Aligned_cols=26 Identities=19% Similarity=0.341 Sum_probs=16.1
Q ss_pred eeeCHHHHHHHHHHhcCCc-eeccccc
Q 033584 60 GSVTAQDVVDIIKAQLQRD-VDKKIVD 85 (116)
Q Consensus 60 GSVt~~dIa~~L~~~~g~~-idkk~I~ 85 (116)
|-||..++.++|++++|++ +|.....
T Consensus 5 g~ise~~l~~~la~~~~l~~~~~~~~~ 31 (109)
T PF05157_consen 5 GLISEDQLLEALAEQLGLPFVDLDELP 31 (109)
T ss_dssp T-S-HHHHHHHHHHHHT--B--GGGS-
T ss_pred CCCCHHHHHHHHHHHhCCCeechhhcC
Confidence 7799999999999999997 4444443
No 69
>PF11221 Med21: Subunit 21 of Mediator complex; InterPro: IPR021384 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med21 has been known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in Drosophila. The heterodimer of the two subunits Med7 and Med21 appears to act as a hinge between the middle and the tail regions of Mediator []. ; PDB: 1YKE_B 1YKH_B.
Probab=26.90 E-value=2e+02 Score=20.03 Aligned_cols=33 Identities=27% Similarity=0.359 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 033584 11 LLKEMKMEEERIEAEKKRVKEEAQQLALIFETV 43 (116)
Q Consensus 11 n~k~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~ 43 (116)
.++.|+.+.+..+.+..+...++.++-+.+++.
T Consensus 105 ~i~~L~~E~~~~~~el~~~v~e~e~ll~~v~~~ 137 (144)
T PF11221_consen 105 RIKELEEENEEAEEELQEAVKEAEELLKQVQEL 137 (144)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 677788888888888888888888888887753
No 70
>cd04614 CBS_pair_1 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic genera
Probab=26.71 E-value=53 Score=20.38 Aligned_cols=19 Identities=16% Similarity=0.324 Sum_probs=15.6
Q ss_pred CCCCeeEeeeCHHHHHHHH
Q 033584 53 GKGKQIFGSVTAQDVVDII 71 (116)
Q Consensus 53 g~~GklfGSVt~~dIa~~L 71 (116)
.++|++.|.||..|+....
T Consensus 31 d~~~~~~Giv~~~dl~~~~ 49 (96)
T cd04614 31 DDDGKLSGIITERDLIAKS 49 (96)
T ss_pred CCCCCEEEEEEHHHHhcCC
Confidence 3578999999999998743
No 71
>PF13954 PapC_N: PapC N-terminal domain; PDB: 2VQI_B 3FIP_A 3RFZ_E 3OHN_A 1ZDV_A 1ZE3_D 3BWU_D 1ZDX_A.
Probab=26.65 E-value=1.6e+02 Score=20.30 Aligned_cols=25 Identities=16% Similarity=0.365 Sum_probs=20.1
Q ss_pred ceeeEEEEEEecCCeEEEEEEEEee
Q 033584 91 ETGEYIAQLKLHPEVTARIRLNVFA 115 (116)
Q Consensus 91 ~lG~y~V~i~L~~~V~a~i~v~V~~ 115 (116)
.-|+|.|.|.+...-..+..|.+..
T Consensus 28 ~pG~Y~vdv~vN~~~~~~~~i~f~~ 52 (146)
T PF13954_consen 28 PPGEYSVDVYVNGKFIGRYDIEFIN 52 (146)
T ss_dssp -SEEEEEEEEETTEEEEEEEEEEEE
T ss_pred CCeEEEEEEEECCeeeeeEEEEEEe
Confidence 4599999999999888888877654
No 72
>cd04601 CBS_pair_IMPDH This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key role in the regulation of cell proliferation and differentiation. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain in IMPDH have been associated with retinitis pigmentosa.
Probab=26.58 E-value=85 Score=19.16 Aligned_cols=18 Identities=17% Similarity=0.270 Sum_probs=13.7
Q ss_pred cCCCCeeEeeeCHHHHHH
Q 033584 52 GGKGKQIFGSVTAQDVVD 69 (116)
Q Consensus 52 ~g~~GklfGSVt~~dIa~ 69 (116)
..++|++.|-||..|+.+
T Consensus 92 v~~~~~~~Gvi~~~dil~ 109 (110)
T cd04601 92 VDDEGKLKGLITVKDIEK 109 (110)
T ss_pred EcCCCCEEEEEEhhhhhc
Confidence 345678999999988754
No 73
>COG2239 MgtE Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]
Probab=26.52 E-value=99 Score=26.11 Aligned_cols=41 Identities=20% Similarity=0.434 Sum_probs=31.3
Q ss_pred HHHHHHHhhccCeEEEEEecCCCCeeEeeeCHHHHHHHHHHh
Q 033584 33 AQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQ 74 (116)
Q Consensus 33 a~~l~~~l~~~~~l~i~~k~g~~GklfGSVt~~dIa~~L~~~ 74 (116)
.++.+..++.- .+..---+.++|+|-|.||-.||.+.+.++
T Consensus 215 qeevA~~~~~y-dl~a~PVVd~~~~LiG~itiDDiidvi~eE 255 (451)
T COG2239 215 QEEVARLFEKY-DLLAVPVVDEDNRLIGIITIDDIIDVIEEE 255 (451)
T ss_pred HHHHHHHHHHh-CCeecceECCCCceeeeeeHHHHHHHHHHH
Confidence 34556666664 465556677889999999999999998865
No 74
>PF05198 IF3_N: Translation initiation factor IF-3, N-terminal domain; InterPro: IPR019814 Initiation factor 3 (IF-3) (gene infC) is one of the three factors required for the initiation of protein biosynthesis in bacteria. IF-3 is thought to function as a fidelity factor during the assembly of the ternary initiation complex which consist of the 30S ribosomal subunit, the initiator tRNA and the messenger RNA. IF-3 is a basic protein that binds to the 30S ribosomal subunit []. The chloroplast initiation factor IF-3(chl) is a protein that enhances the poly(A,U,G)-dependent binding of the initiator tRNA to chloroplast ribosomal 30s subunits in which the central section is evolutionary related to the sequence of bacterial IF-3 []. ; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1TIF_A.
Probab=26.49 E-value=95 Score=19.61 Aligned_cols=27 Identities=11% Similarity=0.260 Sum_probs=18.4
Q ss_pred cCCCCeeEeeeCHHHHHHHHHHhcCCce
Q 033584 52 GGKGKQIFGSVTAQDVVDIIKAQLQRDV 79 (116)
Q Consensus 52 ~g~~GklfGSVt~~dIa~~L~~~~g~~i 79 (116)
.+++|..-|.++..+-...-... |+++
T Consensus 18 I~~~g~~lGv~~~~eAl~~A~~~-~lDL 44 (76)
T PF05198_consen 18 IDEDGEQLGVMSLREALRLAKEK-GLDL 44 (76)
T ss_dssp E-TTS-EEEEEEHHHHHHHHHHT-T-EE
T ss_pred ECCCCcEeceEEHHHHHHHHHHc-CCcE
Confidence 38899999999999877766555 7653
No 75
>cd04625 CBS_pair_12 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=26.47 E-value=66 Score=19.88 Aligned_cols=20 Identities=15% Similarity=0.361 Sum_probs=16.7
Q ss_pred CCCeeEeeeCHHHHHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L~~ 73 (116)
++|++.|.||..|+...+..
T Consensus 31 ~~~~~~G~v~~~dl~~~~~~ 50 (112)
T cd04625 31 ERGELVGLLTFREVLQAMAQ 50 (112)
T ss_pred eCCEEEEEEEHHHHHHHHHh
Confidence 35899999999999987753
No 76
>PF13833 EF-hand_8: EF-hand domain pair; PDB: 3KF9_A 1TTX_A 1WLZ_A 1ALV_A 1NX3_A 1ALW_A 1NX2_A 1NX1_A 1NX0_A 1DF0_A ....
Probab=26.44 E-value=41 Score=18.80 Aligned_cols=24 Identities=13% Similarity=0.231 Sum_probs=18.6
Q ss_pred eeeCHHHHHHHHHHhcCCc-eecccc
Q 033584 60 GSVTAQDVVDIIKAQLQRD-VDKKIV 84 (116)
Q Consensus 60 GSVt~~dIa~~L~~~~g~~-idkk~I 84 (116)
|.||..++..+|... |+. ++...+
T Consensus 3 G~i~~~~~~~~l~~~-g~~~~s~~e~ 27 (54)
T PF13833_consen 3 GKITREEFRRALSKL-GIKDLSEEEV 27 (54)
T ss_dssp SEEEHHHHHHHHHHT-TSSSSCHHHH
T ss_pred CEECHHHHHHHHHHh-CCCCCCHHHH
Confidence 789999999999544 887 766554
No 77
>COG0112 GlyA Glycine/serine hydroxymethyltransferase [Amino acid transport and metabolism]
Probab=26.20 E-value=2.8e+02 Score=23.35 Aligned_cols=62 Identities=23% Similarity=0.322 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHHHHHhhccCeEEEEEecCCCCeeE-e-----eeCHHHHHHHHHHhcCCceecccccccCc
Q 033584 25 EKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQIF-G-----SVTAQDVVDIIKAQLQRDVDKKIVDLPEI 89 (116)
Q Consensus 25 ~~~~~~~~a~~l~~~l~~~~~l~i~~k~g~~Gklf-G-----SVt~~dIa~~L~~~~g~~idkk~I~l~~I 89 (116)
=+++-...|++|++.|.+.+ +.+-- .|.+..++ = -+|-++....|.+. ||.++|..|-.++.
T Consensus 285 Ya~qVv~NAkaLAe~l~~~G-~~vvs-GgTdnHl~lVDl~~~~~~Gk~ae~~L~~~-~It~NKN~iP~D~~ 352 (413)
T COG0112 285 YAKQVVKNAKALAEALKERG-FKVVS-GGTDNHLVLVDLRSKGLTGKKAEAALERA-GITVNKNAIPFDPE 352 (413)
T ss_pred HHHHHHHHHHHHHHHHHHcC-CeEec-CCccceEEEEEcccCCCCHHHHHHHHHHc-CEeeccCCCCCCCC
Confidence 34567889999999999864 55544 33444443 1 26788888888776 99999998854433
No 78
>cd04585 CBS_pair_ACT_assoc2 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce acetoin as an external carbon storage compound and then later reuse it as a carbon and energy source during their stationary phase and sporulation. In addition these CBS domains are associated with a downstream ACT domain, which is linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. Pairs of ACT domains bind specifically to a particular amino acid leading to regulation of the linked enzyme. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The i
Probab=26.11 E-value=54 Score=20.41 Aligned_cols=16 Identities=19% Similarity=0.412 Sum_probs=13.7
Q ss_pred CCCeeEeeeCHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVD 69 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~ 69 (116)
++|++.|-||..||.+
T Consensus 106 ~~~~~~Gvvt~~di~~ 121 (122)
T cd04585 106 DQGRLVGIITESDLFR 121 (122)
T ss_pred CCCcEEEEEEHHHhhh
Confidence 4689999999999875
No 79
>cd04618 CBS_pair_5 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic genera
Probab=25.87 E-value=1.7e+02 Score=18.19 Aligned_cols=17 Identities=29% Similarity=0.464 Sum_probs=14.7
Q ss_pred CCeeEeeeCHHHHHHHH
Q 033584 55 GKQIFGSVTAQDVVDII 71 (116)
Q Consensus 55 ~GklfGSVt~~dIa~~L 71 (116)
+|++.|-||..|+...+
T Consensus 34 ~~~~~Givt~~Dl~~~~ 50 (98)
T cd04618 34 KQQFVGMLTITDFILIL 50 (98)
T ss_pred CCEEEEEEEHHHHhhhe
Confidence 57999999999998765
No 80
>smart00089 PKD Repeats in polycystic kidney disease 1 (PKD1) and other proteins. Polycystic kidney disease 1 protein contains 14 repeats, present elsewhere such as in microbial collagenases.
Probab=25.87 E-value=1.3e+02 Score=17.89 Aligned_cols=25 Identities=24% Similarity=0.426 Sum_probs=18.6
Q ss_pred ccceeeEEEEEEecCCe---EEEEEEEE
Q 033584 89 IRETGEYIAQLKLHPEV---TARIRLNV 113 (116)
Q Consensus 89 Ik~lG~y~V~i~L~~~V---~a~i~v~V 113 (116)
...-|.|.|.+.+..+. ++.+.|.|
T Consensus 51 y~~~G~y~v~l~v~n~~g~~~~~~~i~v 78 (79)
T smart00089 51 YTKPGTYTVTLTVTNAVGSASATVTVVV 78 (79)
T ss_pred eCCCcEEEEEEEEEcCCCcEEEEEEEEE
Confidence 67889999999988776 44555544
No 81
>cd04603 CBS_pair_KefB_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the KefB (Kef-type K+ transport systems) domain which is involved in inorganic ion transport and metabolism. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown.
Probab=25.85 E-value=1e+02 Score=19.22 Aligned_cols=17 Identities=12% Similarity=0.444 Sum_probs=13.1
Q ss_pred CCCCeeEeeeCHHHHHH
Q 033584 53 GKGKQIFGSVTAQDVVD 69 (116)
Q Consensus 53 g~~GklfGSVt~~dIa~ 69 (116)
.++|++.|-||..||..
T Consensus 94 d~~~~~~Giit~~di~~ 110 (111)
T cd04603 94 DKEGKLVGTIYERELLR 110 (111)
T ss_pred cCCCeEEEEEEhHHhhc
Confidence 34578999999998853
No 82
>cd04636 CBS_pair_23 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=25.79 E-value=72 Score=20.65 Aligned_cols=21 Identities=19% Similarity=0.336 Sum_probs=17.4
Q ss_pred CCCCeeEeeeCHHHHHHHHHH
Q 033584 53 GKGKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 53 g~~GklfGSVt~~dIa~~L~~ 73 (116)
.++|++.|.|+..++...+..
T Consensus 31 d~~~~~~G~i~~~~l~~~~~~ 51 (132)
T cd04636 31 DNEGRVVGIVSEGDLIRKIYK 51 (132)
T ss_pred CCCCCEEEEEeHHHHHHHHhc
Confidence 346899999999999987754
No 83
>PF03484 B5: tRNA synthetase B5 domain; InterPro: IPR005147 Domain B5 is found in phenylalanine-tRNA synthetase beta subunits. This domain has been shown to bind DNA through a winged helix-turn-helix motif []. Phenylalanine-tRNA synthetase may influence common cellular processes via DNA binding, in addition to its aminoacylation function.; GO: 0000287 magnesium ion binding, 0003723 RNA binding, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation; PDB: 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B 3PCO_D 2CXI_C 1JJC_B 1EIY_B ....
Probab=25.78 E-value=72 Score=19.39 Aligned_cols=21 Identities=19% Similarity=0.442 Sum_probs=13.8
Q ss_pred eeCHHHHHHHHHHhcCCceecc
Q 033584 61 SVTAQDVVDIIKAQLQRDVDKK 82 (116)
Q Consensus 61 SVt~~dIa~~L~~~~g~~idkk 82 (116)
+++..++.+.|... |+.++..
T Consensus 18 ~i~~~~i~~~L~~l-g~~~~~~ 38 (70)
T PF03484_consen 18 DISPEEIIKILKRL-GFKVEKI 38 (70)
T ss_dssp ---HHHHHHHHHHT-T-EEEE-
T ss_pred CCCHHHHHHHHHHC-CCEEEEC
Confidence 57888999998876 9988875
No 84
>cd08518 PBP2_NikA_DppA_OppA_like_19 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=25.71 E-value=1.1e+02 Score=24.66 Aligned_cols=57 Identities=14% Similarity=0.297 Sum_probs=38.7
Q ss_pred eEEEEEecC---CCCeeEeeeCHHHHHHHHHHhcCCceecccc-cccCccceeeEEEEEEecCC
Q 033584 45 AFKVKRKGG---KGKQIFGSVTAQDVVDIIKAQLQRDVDKKIV-DLPEIRETGEYIAQLKLHPE 104 (116)
Q Consensus 45 ~l~i~~k~g---~~GklfGSVt~~dIa~~L~~~~g~~idkk~I-~l~~Ik~lG~y~V~i~L~~~ 104 (116)
+++|..+-| .||. -||+.|++-.+....+........ .+..++.++.|+|.|+|..-
T Consensus 58 t~tf~LR~gv~fsDG~---p~TA~Dv~~s~~r~~~~~~~~~~~~~i~~v~~~d~~Tv~i~l~~p 118 (464)
T cd08518 58 TWTFTLRDDVKFSDGE---PLTAEDVAFTYNTAKDPGSASDILSNLEDVEAVDDYTVKFTLKKP 118 (464)
T ss_pred EEEEEECCCCEecCCc---CCchHHhhehHHHhhCCCCCcccccceeEEEecCCCEEEEEEcCC
Confidence 689999987 3776 489999999887543322111101 12348889999999998753
No 85
>cd04803 CBS_pair_15 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=25.53 E-value=72 Score=20.06 Aligned_cols=20 Identities=15% Similarity=0.336 Sum_probs=16.7
Q ss_pred CCCeeEeeeCHHHHHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L~~ 73 (116)
++|++.|.||..++...+..
T Consensus 32 ~~~~~~G~v~~~~l~~~~~~ 51 (122)
T cd04803 32 EDGKLVGLLTQRDLLRAALS 51 (122)
T ss_pred CCCCEEEEEEHHHHHHHhcc
Confidence 45899999999999887653
No 86
>cd05886 Ig1_Nectin-1_like First immunoglobulin (Ig) domain of nectin-1 (also known as poliovirus receptor related protein 1, or as CD111) and similar proteins. Ig1_Nectin-1_like: domain similar to the first immunoglobulin (Ig) domain of nectin-1 (also known as poliovirus receptor related protein 1, or as CD111). Nectin-1 belongs to the nectin family comprised of four transmembrane glycoproteins (nectins-1 through -4). Nectins are synaptic cell adhesion molecules (CAMs) which facilitate adhesion and signaling at various intracellular junctions. Nectins form homophilic cis-dimers, followed by homophilic and heterophilic trans-dimers involved in cell-cell adhesion. In addition nectins heterophilically trans-interact with other CAMs such as nectin-like molecules (Necls), nectin-1 for example, has been shown to trans-interact with Necl-1. Nectins also interact with various other proteins, including the actin filament (F-actin)-binding protein, afadin. Mutation in the human nectin-1 gene is
Probab=25.23 E-value=1.8e+02 Score=18.84 Aligned_cols=31 Identities=23% Similarity=0.554 Sum_probs=22.7
Q ss_pred cccccC--ccceeeEEEEEEecCC--eEEEEEEEE
Q 033584 83 IVDLPE--IRETGEYIAQLKLHPE--VTARIRLNV 113 (116)
Q Consensus 83 ~I~l~~--Ik~lG~y~V~i~L~~~--V~a~i~v~V 113 (116)
.|.|.+ +..-|.|.+.|+-+|+ -++++.+.|
T Consensus 64 Si~i~nl~~~D~G~Y~C~v~t~P~g~~~~~~~L~V 98 (99)
T cd05886 64 TISLSRLELEDEGVYICEFATFPTGNRESQLNLTV 98 (99)
T ss_pred eEEEcCCccccCEEEEEEEEeCCCCCeEEEEEEEE
Confidence 355554 7789999999999877 456666555
No 87
>PF11548 Receptor_IA-2: Protein-tyrosine phosphatase receptor IA-2; InterPro: IPR021613 IA-2 is a protein-tyrosine phosphatase receptor that upon exocytosis, the cytoplasmic domain is cleaved and moves to the nucleus where it enhances transcription of the insulin gene. The mature exodomain of IA-2 participates in adhesion to the extracellular matrix and is self-proteolyzed in vitro by reactive oxygen species which may be a new shedding mechanism. ; PDB: 2QT7_B 3N01_B 3N4W_B 3NG8_A.
Probab=24.97 E-value=1.2e+02 Score=20.05 Aligned_cols=24 Identities=21% Similarity=0.223 Sum_probs=14.5
Q ss_pred eEEEEEecCCCCeeEeeeCHHHHHHHHHH
Q 033584 45 AFKVKRKGGKGKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 45 ~l~i~~k~g~~GklfGSVt~~dIa~~L~~ 73 (116)
.++|....++.+ +|+.|+++..-.
T Consensus 46 avTFrv~~N~~n-----~taadVa~~a~~ 69 (91)
T PF11548_consen 46 AVTFRVRPNNKN-----LTAADVAKQAVD 69 (91)
T ss_dssp EEEEEE---TT--------HHHHHHHHHH
T ss_pred eEEEEeccCcCC-----CCHHHHHHHHHH
Confidence 588999888766 899999988643
No 88
>cd04631 CBS_pair_18 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=24.93 E-value=74 Score=20.10 Aligned_cols=19 Identities=21% Similarity=0.468 Sum_probs=16.3
Q ss_pred CCeeEeeeCHHHHHHHHHH
Q 033584 55 GKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 55 ~GklfGSVt~~dIa~~L~~ 73 (116)
+|++.|.|+..|+...+.+
T Consensus 34 ~~~~~G~v~~~dl~~~~~~ 52 (125)
T cd04631 34 TGKLVGIITATDILKYLGG 52 (125)
T ss_pred CCEEEEEEEHHHHHHHhhc
Confidence 3899999999999987754
No 89
>cd04627 CBS_pair_14 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=24.50 E-value=85 Score=19.95 Aligned_cols=18 Identities=11% Similarity=0.409 Sum_probs=15.3
Q ss_pred CeeEeeeCHHHHHHHHHH
Q 033584 56 KQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 56 GklfGSVt~~dIa~~L~~ 73 (116)
|++.|.||..|+...+..
T Consensus 35 ~~~~Giv~~~dl~~~~~~ 52 (123)
T cd04627 35 GEVIGILSQRRLVEFLWE 52 (123)
T ss_pred CcEEEEEEHHHHHHHHHH
Confidence 789999999999887643
No 90
>cd04609 CBS_pair_PALP_assoc2 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well as the 5'-phosphate esters of pyridoxal (PALP) and pyridoxamine, the last two being the biologically active coenzyme derivatives. The members of the PALP family are principally involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and other amine-containing compounds. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a pote
Probab=24.49 E-value=77 Score=19.31 Aligned_cols=18 Identities=22% Similarity=0.530 Sum_probs=15.9
Q ss_pred CeeEeeeCHHHHHHHHHH
Q 033584 56 KQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 56 GklfGSVt~~dIa~~L~~ 73 (116)
|++.|.||..|+...+..
T Consensus 33 ~~~~G~v~~~dl~~~~~~ 50 (110)
T cd04609 33 GRVVGSIDESDLLDALIE 50 (110)
T ss_pred CeeEEEEeHHHHHHHHhc
Confidence 799999999999998754
No 91
>cd08503 PBP2_NikA_DppA_OppA_like_17 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=24.48 E-value=1.6e+02 Score=23.78 Aligned_cols=56 Identities=18% Similarity=0.264 Sum_probs=37.6
Q ss_pred eEEEEEecCC---CCeeEeeeCHHHHHHHHHHhcCCceecc---c-ccccCccceeeEEEEEEecC
Q 033584 45 AFKVKRKGGK---GKQIFGSVTAQDVVDIIKAQLQRDVDKK---I-VDLPEIRETGEYIAQLKLHP 103 (116)
Q Consensus 45 ~l~i~~k~g~---~GklfGSVt~~dIa~~L~~~~g~~idkk---~-I~l~~Ik~lG~y~V~i~L~~ 103 (116)
+++|..+-|- ||. -||+.|++..+..-.+-..... . -.+..|+.++.|+|.|+|..
T Consensus 66 ~~tf~Lr~~~~wsdG~---pvTA~Dv~~s~~~~~~~~~~~~~~~~~~~i~~v~~~d~~tv~i~l~~ 128 (460)
T cd08503 66 TWTFKLRKGVTFHDGK---PLTADDVVASLNRHRDPASGSPAKTGLLDVGAIEAVDDHTVRFTLKR 128 (460)
T ss_pred EEEEEcCCCCCcCCCC---cCCHHHHHHHHHHhhCCcccCccchhhcccceeEecCCCeEEEEeCC
Confidence 6888887653 675 4999999999875433222111 1 12334888999999999953
No 92
>cd04600 CBS_pair_HPP_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is uncertain, but they are thought to be transporters. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown.
Probab=23.71 E-value=75 Score=20.03 Aligned_cols=20 Identities=20% Similarity=0.436 Sum_probs=16.5
Q ss_pred CCCeeEeeeCHHHHHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L~~ 73 (116)
++|++.|.||..++...+..
T Consensus 33 ~~~~~~Giv~~~~l~~~~~~ 52 (124)
T cd04600 33 GDRRLVGIVTQRDLLRHARP 52 (124)
T ss_pred CCCCEEEEEEHHHHHhhhcc
Confidence 35899999999999877654
No 93
>cd04640 CBS_pair_27 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=23.64 E-value=1.4e+02 Score=19.06 Aligned_cols=34 Identities=12% Similarity=0.159 Sum_probs=20.2
Q ss_pred HHHHHHhhccCeEE-EEEecCC-CCeeEeeeCHHHHHH
Q 033584 34 QQLALIFETVGAFK-VKRKGGK-GKQIFGSVTAQDVVD 69 (116)
Q Consensus 34 ~~l~~~l~~~~~l~-i~~k~g~-~GklfGSVt~~dIa~ 69 (116)
.++.+.+..- .+. +.. ..+ +|++.|-||..||..
T Consensus 90 ~~~l~~m~~~-~~~~lpV-vd~~~~~~~G~it~~di~~ 125 (126)
T cd04640 90 GDVVETLKAS-GRQHALV-VDREHHQIRGIISTSDIAR 125 (126)
T ss_pred HHHHHHHHHC-CCceEEE-EECCCCEEEEEEeHHHHhh
Confidence 4455555443 232 222 233 379999999999864
No 94
>PRK05087 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated
Probab=23.50 E-value=29 Score=21.92 Aligned_cols=35 Identities=9% Similarity=0.144 Sum_probs=25.8
Q ss_pred EeeeCHHHHHHHHHHhcCCceecccccccCcccee
Q 033584 59 FGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETG 93 (116)
Q Consensus 59 fGSVt~~dIa~~L~~~~g~~idkk~I~l~~Ik~lG 93 (116)
.=|...-++.-+|...||+.|+-..+....+.++|
T Consensus 34 lDSl~~veli~~lE~~fgi~i~~~e~~~~~f~Tv~ 68 (78)
T PRK05087 34 LDSMGTVELLVELENRFDIEVPVSEFDRDDWNTPN 68 (78)
T ss_pred cchHHHHHHHHHHHHHhCCccChHhcCHHhhcCHH
Confidence 45677777888888999999987776654465554
No 95
>KOG1058 consensus Vesicle coat complex COPI, beta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.34 E-value=73 Score=29.16 Aligned_cols=38 Identities=24% Similarity=0.357 Sum_probs=24.5
Q ss_pred eEEEEEecCCCCeeEeeeCHHHHHHHHHHhcCCceecccccccCcc
Q 033584 45 AFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIR 90 (116)
Q Consensus 45 ~l~i~~k~g~~GklfGSVt~~dIa~~L~~~~g~~idkk~I~l~~Ik 90 (116)
+.+++.-+.++|-+||+|+-.-= |..-|++-|.|.+|+
T Consensus 783 katvKVsStenGvIfGnIvY~~~--------~~a~~~~~VvLndIh 820 (948)
T KOG1058|consen 783 KATVKVSSTENGVIFGNIVYDTS--------EAANDRNVVVLNDIH 820 (948)
T ss_pred EEEEEEeeccCcEEEEEEEecCc--------cccccceEEEecccc
Confidence 56777888889999999974310 334455555555433
No 96
>cd04615 CBS_pair_2 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic genera
Probab=23.28 E-value=86 Score=19.37 Aligned_cols=19 Identities=26% Similarity=0.385 Sum_probs=15.6
Q ss_pred CCCeeEeeeCHHHHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVDIIK 72 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L~ 72 (116)
++|++.|.||..|+...+.
T Consensus 32 ~~~~~~G~v~~~dl~~~~~ 50 (113)
T cd04615 32 DKKRLVGIITRYDVLSYAL 50 (113)
T ss_pred CCCCEEEEEEHHHHHHhhh
Confidence 4689999999999987543
No 97
>cd04617 CBS_pair_4 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic genera
Probab=23.28 E-value=84 Score=19.87 Aligned_cols=20 Identities=15% Similarity=0.335 Sum_probs=16.7
Q ss_pred CCCeeEeeeCHHHHHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L~~ 73 (116)
++|++.|.||..|+...+..
T Consensus 32 ~~~~~~Givt~~dl~~~~~~ 51 (118)
T cd04617 32 EDGDLVGVVSRKDLLKASIG 51 (118)
T ss_pred CCCCEEEEEEHHHHHHHHHc
Confidence 45789999999999988753
No 98
>cd08497 PBP2_NikA_DppA_OppA_like_14 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=23.19 E-value=1.7e+02 Score=24.05 Aligned_cols=56 Identities=13% Similarity=0.110 Sum_probs=38.3
Q ss_pred eEEEEEecCC---CCeeEeeeCHHHHHHHHHHhcCCc-eecc-cc-cccCccceeeEEEEEEecC
Q 033584 45 AFKVKRKGGK---GKQIFGSVTAQDVVDIIKAQLQRD-VDKK-IV-DLPEIRETGEYIAQLKLHP 103 (116)
Q Consensus 45 ~l~i~~k~g~---~GklfGSVt~~dIa~~L~~~~g~~-idkk-~I-~l~~Ik~lG~y~V~i~L~~ 103 (116)
+++|..+-|- ||.. +|+.|++-.+....+.. .... .. .+..+..+|.|+|.|+|..
T Consensus 77 t~tf~Lr~gv~fsDG~p---~tA~DV~~s~~~~~~~~~~~~~~~~~~i~~v~~~d~~tv~i~l~~ 138 (491)
T cd08497 77 WVTFHLRPEARFSDGTP---VTAEDVVFSFETLKSKGPPYYRAYYADVEKVEALDDHTVRFTFKE 138 (491)
T ss_pred EEEEEECCCCCcCCCCc---ccHhHhhhHHHHHhCCCCchhhhhhhceeEEEEECCCEEEEEECC
Confidence 6889998765 6764 99999999887443321 1111 11 1224888999999999987
No 99
>PF00496 SBP_bac_5: Bacterial extracellular solute-binding proteins, family 5 Middle; InterPro: IPR000914 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane. The protein components of these traffic systems include one or two transmembrane protein components, one or two membrane-associated ATP-binding proteins and a high affinity periplasmic solute-binding protein. The latter are thought to bind the substrate in the vicinity of the inner membrane, and to transfer it to a complex of inner membrane proteins for concentration into Gram-positive bacteria which are surrounded by a single membrane and therefore have no periplasmic region the equivalent proteins are bound to the membrane via an N-terminal lipid anchor. These homologue proteins do not play an integral role in the transport process per se, but probably serve as receptors to trigger or initiate translocation of the solute throught the membrane by binding to external sites of the integral membrane proteins of the efflux system. In addition at least some solute-binding proteins function in the initiation of sensory transduction pathways. On the basis of sequence similarities, the vast majority of these solute-binding proteins can be grouped [] into eight families of clusters, which generally correlate with the nature of the solute bound. Family 5 currently includes periplasmic oligopeptide-binding proteins (oppA) of Gram-negative bacteria and homologous lipoproteins in Gram-positive bacteria (oppA, amiA or appA); periplasmic dipeptide-binding proteins of Escherichia coli (dppA) and Bacillus subtilis (dppE); periplasmic murein peptide-binding protein of E. coli (mppA); periplasmic peptide-binding proteins sapA of E. coli, Salmonella typhimurium and Haemophilus influenzae; periplasmic nickel-binding protein (nikA) of E. coli; haem-binding lipoprotein (hbpA or dppA) from H. influenzae; lipoprotein xP55 from Streptomyces lividans; and hypothetical proteins from H. influenzae (HI0213) and Rhizobium sp. (strain NGR234) symbiotic plasmid (y4tO and y4wM).; GO: 0005215 transporter activity, 0006810 transport; PDB: 1B51_A 1B0H_A 1QKA_A 1B9J_A 1B6H_A 1OLA_A 1B3L_C 1JEV_A 1B5H_A 1JET_A ....
Probab=22.92 E-value=1.1e+02 Score=23.44 Aligned_cols=57 Identities=18% Similarity=0.293 Sum_probs=36.9
Q ss_pred eEEEEEecCC---CCeeEeeeCHHHHHHHHHHhcCCceecccc-----cccCccceeeEEEEEEecCC
Q 033584 45 AFKVKRKGGK---GKQIFGSVTAQDVVDIIKAQLQRDVDKKIV-----DLPEIRETGEYIAQLKLHPE 104 (116)
Q Consensus 45 ~l~i~~k~g~---~GklfGSVt~~dIa~~L~~~~g~~idkk~I-----~l~~Ik~lG~y~V~i~L~~~ 104 (116)
+++|..+-|- ||. -||+.|+...+.......-....- .+..+..++.|+|.|+|...
T Consensus 19 ~~tf~Lr~g~~wsDG~---~lTA~Dv~~s~~~~~~~~~~~~~~~~~~~~~~~i~~~d~~tv~~~l~~p 83 (374)
T PF00496_consen 19 TYTFTLRDGLKWSDGE---PLTAEDVVFSFERLADPDYNSPWAYDFFDSIDSIEAPDDYTVVFTLKEP 83 (374)
T ss_dssp EEEEEE-TT-B-TTST---B-SHHHHHHHHHHHHHCCGSTTTCHHHHHHEEEEEEEETTEEEEEESST
T ss_pred EEEEEEeeeeeecCCC---cceeeEEeeeehhcccCCcccccccccccccccccccCCEEEEEEeecc
Confidence 6888888875 776 699999999876542222211111 12349999999999998753
No 100
>KOG1494 consensus NAD-dependent malate dehydrogenase [Energy production and conversion]
Probab=22.91 E-value=46 Score=27.01 Aligned_cols=16 Identities=50% Similarity=0.735 Sum_probs=13.7
Q ss_pred CCCeeEeeeCHHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVDI 70 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~ 70 (116)
+.++||| ||+-|++.+
T Consensus 166 dpkklfG-VTtLDvVRA 181 (345)
T KOG1494|consen 166 DPKKLFG-VTTLDVVRA 181 (345)
T ss_pred Cccceec-eehhhhhhH
Confidence 4579999 999999876
No 101
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=22.75 E-value=58 Score=19.47 Aligned_cols=24 Identities=21% Similarity=0.530 Sum_probs=18.6
Q ss_pred eeEe-eeCHHHHHHHHHHhcCCceec
Q 033584 57 QIFG-SVTAQDVVDIIKAQLQRDVDK 81 (116)
Q Consensus 57 klfG-SVt~~dIa~~L~~~~g~~idk 81 (116)
++-| +++..++.+.|... |++++.
T Consensus 13 ~llG~~i~~~ei~~~L~~l-g~~~~~ 37 (71)
T smart00874 13 RLLGLDLSAEEIEEILKRL-GFEVEV 37 (71)
T ss_pred HHHCCCCCHHHHHHHHHHC-CCeEEe
Confidence 3444 78899999999887 998864
No 102
>PTZ00373 60S Acidic ribosomal protein P2; Provisional
Probab=22.63 E-value=48 Score=22.77 Aligned_cols=25 Identities=24% Similarity=0.464 Sum_probs=21.1
Q ss_pred eeCHHHHHHHHHHhcCCceecccccc
Q 033584 61 SVTAQDVVDIIKAQLQRDVDKKIVDL 86 (116)
Q Consensus 61 SVt~~dIa~~L~~~~g~~idkk~I~l 86 (116)
++|..||-..|..- |+++|...+.+
T Consensus 19 ~pTaddI~kIL~Aa-GveVd~~~~~l 43 (112)
T PTZ00373 19 NPTKKEVKNVLSAV-NADVEDDVLDN 43 (112)
T ss_pred CCCHHHHHHHHHHc-CCCccHHHHHH
Confidence 49999999999887 99999876653
No 103
>PRK05988 formate dehydrogenase subunit gamma; Validated
Probab=22.61 E-value=81 Score=22.57 Aligned_cols=19 Identities=11% Similarity=0.324 Sum_probs=16.7
Q ss_pred CCeeEeeeCHHHHHHHHHH
Q 033584 55 GKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 55 ~GklfGSVt~~dIa~~L~~ 73 (116)
||.+||.+|+.++.+.|.+
T Consensus 135 n~~~~~~lt~~~~~~il~~ 153 (156)
T PRK05988 135 DGEVHGRLDPQRLDALLAE 153 (156)
T ss_pred CCEEeCCCCHHHHHHHHHH
Confidence 7899999999999888764
No 104
>PRK07081 acyl carrier protein; Provisional
Probab=22.43 E-value=25 Score=22.32 Aligned_cols=34 Identities=6% Similarity=0.183 Sum_probs=25.3
Q ss_pred EeeeCHHHHHHHHHHhcCCceecccccccCccce
Q 033584 59 FGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRET 92 (116)
Q Consensus 59 fGSVt~~dIa~~L~~~~g~~idkk~I~l~~Ik~l 92 (116)
+=|+..-++.-.|...||+.|+-..+....++++
T Consensus 33 lDSl~~v~li~~lE~~f~I~i~~~~~~~~~~~tv 66 (83)
T PRK07081 33 LSSLATVQLMLAIEDAFDIEIPDEMLNRKLFASI 66 (83)
T ss_pred CCHHHHHHHHHHHHHHhCCcCCHHHcCHHHhccH
Confidence 4688888889999999999998777653224443
No 105
>cd04642 CBS_pair_29 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=22.39 E-value=81 Score=20.20 Aligned_cols=20 Identities=15% Similarity=0.459 Sum_probs=16.8
Q ss_pred CCCCeeEeeeCHHHHHHHHH
Q 033584 53 GKGKQIFGSVTAQDVVDIIK 72 (116)
Q Consensus 53 g~~GklfGSVt~~dIa~~L~ 72 (116)
.++|++.|.|+..|+...+.
T Consensus 31 d~~~~~~Giv~~~dl~~~~~ 50 (126)
T cd04642 31 DEKGKLIGNISASDLKGLLL 50 (126)
T ss_pred CCCCcEEEEEEHHHhhhhhc
Confidence 35689999999999988764
No 106
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=22.29 E-value=68 Score=20.85 Aligned_cols=27 Identities=15% Similarity=0.110 Sum_probs=19.5
Q ss_pred eeeCHHHHHHHHHHhcCCceeccccccc
Q 033584 60 GSVTAQDVVDIIKAQLQRDVDKKIVDLP 87 (116)
Q Consensus 60 GSVt~~dIa~~L~~~~g~~idkk~I~l~ 87 (116)
++-|..++++.|... |++++...|-.+
T Consensus 40 s~~s~~~~~~~L~~~-Gi~~~~~~i~ts 66 (101)
T PF13344_consen 40 SSRSREEYAKKLKKL-GIPVDEDEIITS 66 (101)
T ss_dssp SSS-HHHHHHHHHHT-TTT--GGGEEEH
T ss_pred CCCCHHHHHHHHHhc-CcCCCcCEEECh
Confidence 357889999999775 999999888654
No 107
>PRK00441 argR arginine repressor; Provisional
Probab=22.14 E-value=45 Score=23.73 Aligned_cols=36 Identities=19% Similarity=0.186 Sum_probs=23.4
Q ss_pred eeeCHHHHHHHHHHhcCCceecccccccCccceeeEEE
Q 033584 60 GSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIA 97 (116)
Q Consensus 60 GSVt~~dIa~~L~~~~g~~idkk~I~l~~Ik~lG~y~V 97 (116)
|.+|..|+++.|++. |+.+.--.|.= +|+.+|...|
T Consensus 17 ~~~~q~eL~~~L~~~-G~~vSqaTisR-Dl~~L~lvKv 52 (149)
T PRK00441 17 EIETQEELAEELKKM-GFDVTQATVSR-DIKELKLIKV 52 (149)
T ss_pred CCCcHHHHHHHHHhc-CCCcCHHHHHH-HHHHcCcEEe
Confidence 567888999999888 98887554431 2444444433
No 108
>PF04282 DUF438: Family of unknown function (DUF438); InterPro: IPR007380 This is a a group of uncharacterised proteins.
Probab=21.87 E-value=36 Score=21.49 Aligned_cols=23 Identities=17% Similarity=0.411 Sum_probs=16.8
Q ss_pred eeEeeeCHHHHHHH---HHHhcCCcee
Q 033584 57 QIFGSVTAQDVVDI---IKAQLQRDVD 80 (116)
Q Consensus 57 klfGSVt~~dIa~~---L~~~~g~~id 80 (116)
++|++|++.+|+.+ |-+. |++++
T Consensus 24 ~~~~~Vs~~EI~~~Eq~Li~e-G~~~e 49 (71)
T PF04282_consen 24 KLFSDVSASEISAAEQELIQE-GMPVE 49 (71)
T ss_pred HHHCCCCHHHHHHHHHHHHHc-CCCHH
Confidence 68999999999875 3344 75543
No 109
>PF10668 Phage_terminase: Phage terminase small subunit; InterPro: IPR018925 This entry describes the terminase small subunit from Enterococcus phage phiFL1A, related proteins in other bacteriophage, and prophage regions of bacterial genomes. Packaging of double-stranded viral DNA concatemers requires interaction of the prohead with virus DNA. This process is mediated by a phage-encoded DNA recognition and terminase protein. The terminase enzymes described so far, which are hetero-oligomers composed of a small and a large subunit, do not have a significant level of sequence homology. The small terminase subunit is thought to form a nucleoprotein structure that helps to position the terminase large subunit at the packaging initiation site [].
Probab=21.85 E-value=58 Score=19.90 Aligned_cols=12 Identities=17% Similarity=0.598 Sum_probs=10.6
Q ss_pred eeeCHHHHHHHH
Q 033584 60 GSVTAQDVVDII 71 (116)
Q Consensus 60 GSVt~~dIa~~L 71 (116)
|.++.+|||+.|
T Consensus 21 g~i~lkdIA~~L 32 (60)
T PF10668_consen 21 GKIKLKDIAEKL 32 (60)
T ss_pred CCccHHHHHHHH
Confidence 679999999987
No 110
>cd04621 CBS_pair_8 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic genera
Probab=21.85 E-value=90 Score=20.68 Aligned_cols=21 Identities=14% Similarity=0.077 Sum_probs=17.6
Q ss_pred CCCCeeEeeeCHHHHHHHHHH
Q 033584 53 GKGKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 53 g~~GklfGSVt~~dIa~~L~~ 73 (116)
.++|++.|.||..|+...+..
T Consensus 31 d~~~~~~Giv~~~dl~~~~~~ 51 (135)
T cd04621 31 DDNGKPVGVITYRDLAFAEFE 51 (135)
T ss_pred CCCCCEEEEEeHHHHHHHhhc
Confidence 357899999999999987753
No 111
>KOG2639 consensus Sodium sulfate symporter and related arsenite permeases [Inorganic ion transport and metabolism]
Probab=21.78 E-value=90 Score=27.55 Aligned_cols=33 Identities=18% Similarity=0.080 Sum_probs=26.3
Q ss_pred EecCCCCeeEeeeCHHHHHHHHHHhcCCceeccc
Q 033584 50 RKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKI 83 (116)
Q Consensus 50 ~k~g~~GklfGSVt~~dIa~~L~~~~g~~idkk~ 83 (116)
.-.|.||-|+|| ++.-|+..+.+|||+.+.=.+
T Consensus 623 a~~gGNgTLiGa-sANvv~A~iAeqHGYkltF~~ 655 (685)
T KOG2639|consen 623 ACLGGNGTLIGA-SANVVAAGIAEQHGYKLTFTQ 655 (685)
T ss_pred hhhcCCceeech-hhHHHHHHHHHHcCceEEehh
Confidence 345779999996 677889999999999886443
No 112
>PF01316 Arg_repressor: Arginine repressor, DNA binding domain; InterPro: IPR020900 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes, an example of the latter being Giardia lamblia (Giardia intestinalis) []. The three-enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 10% of total cell protein []. Most prokaryotic arginine deiminase pathways are under the control of a repressor gene, termed ArgR []. This is a negative regulator, and will only release the arginine deiminase operon for expression in the presence of arginine []. The crystal structure of apo-ArgR from Bacillus stearothermophilus has been determined to 2.5A by means of X-ray crystallography []. The protein exists as a hexamer of identical subunits, and is shown to have six DNA-binding domains, clustered around a central oligomeric core when bound to arginine. It predominantly interacts with A.T residues in ARG boxes. This hexameric protein binds DNA at its N terminus to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbour-joining tree, some of these paralogous sequences show long branches and differ significantly from the well-conserved C-terminal region. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0006525 arginine metabolic process; PDB: 1AOY_A 3V4G_A 3LAJ_D 3FHZ_A 3LAP_B 3ERE_D 2P5L_C 1F9N_D 2P5K_A 1B4A_A ....
Probab=21.77 E-value=39 Score=21.15 Aligned_cols=34 Identities=12% Similarity=0.398 Sum_probs=21.6
Q ss_pred CHHHHHHHHHHhcCCceecccccccCccceeeEEEE
Q 033584 63 TAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQ 98 (116)
Q Consensus 63 t~~dIa~~L~~~~g~~idkk~I~l~~Ik~lG~y~V~ 98 (116)
|-.|+++.|.+. |+.+.=..|.= +|+.+|...|+
T Consensus 21 sQ~eL~~~L~~~-Gi~vTQaTiSR-DLkeL~~vKv~ 54 (70)
T PF01316_consen 21 SQEELVELLEEE-GIEVTQATISR-DLKELGAVKVP 54 (70)
T ss_dssp SHHHHHHHHHHT-T-T--HHHHHH-HHHHHT-EEEE
T ss_pred CHHHHHHHHHHc-CCCcchhHHHH-HHHHcCcEEee
Confidence 667899999887 98887554421 48888877765
No 113
>cd02205 CBS_pair The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic generali
Probab=21.76 E-value=1.9e+02 Score=17.09 Aligned_cols=21 Identities=19% Similarity=0.393 Sum_probs=17.5
Q ss_pred CCCeeEeeeCHHHHHHHHHHh
Q 033584 54 KGKQIFGSVTAQDVVDIIKAQ 74 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L~~~ 74 (116)
++|++.|.|+..|+...+...
T Consensus 32 ~~~~~~G~v~~~~l~~~~~~~ 52 (113)
T cd02205 32 DDGRLVGIVTERDLLRALAEG 52 (113)
T ss_pred CCCCEEEEEeHHHHHHHHHhc
Confidence 457999999999999887654
No 114
>cd08512 PBP2_NikA_DppA_OppA_like_7 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most si
Probab=21.72 E-value=1.8e+02 Score=23.44 Aligned_cols=57 Identities=19% Similarity=0.271 Sum_probs=38.0
Q ss_pred eEEEEEecCC---CCeeEeeeCHHHHHHHHHHhcCCceeccc------c-cccCccceeeEEEEEEecCC
Q 033584 45 AFKVKRKGGK---GKQIFGSVTAQDVVDIIKAQLQRDVDKKI------V-DLPEIRETGEYIAQLKLHPE 104 (116)
Q Consensus 45 ~l~i~~k~g~---~GklfGSVt~~dIa~~L~~~~g~~idkk~------I-~l~~Ik~lG~y~V~i~L~~~ 104 (116)
+++|..+-|- ||.. ||+.|++-.+............ . .+..+..++.|+|.|+|..-
T Consensus 64 ~~tf~LR~~~~wsDG~p---~TA~Dv~~s~~~~~~~~~~~~~~~~~~~~~~i~~v~~~d~~tv~i~l~~p 130 (476)
T cd08512 64 TYTFHLRDGVKFHDGNP---VTAEDVKYSFERALKLNKGPAFILTQTSLNVPETIKAVDDYTVVFKLDKP 130 (476)
T ss_pred EEEEEeCCCCEecCCCc---CCHHHhHhHHHHHhccCCCCcceeeccccccceeEEEcCCCeEEEEECCC
Confidence 6889888774 7764 8999999988643221111111 1 12247889999999999754
No 115
>cd04610 CBS_pair_ParBc_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a ParBc (ParB-like nuclease) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown.
Probab=21.60 E-value=57 Score=19.95 Aligned_cols=18 Identities=22% Similarity=0.442 Sum_probs=14.6
Q ss_pred cCCCCeeEeeeCHHHHHH
Q 033584 52 GGKGKQIFGSVTAQDVVD 69 (116)
Q Consensus 52 ~g~~GklfGSVt~~dIa~ 69 (116)
..++|++.|-||..+|..
T Consensus 89 v~~~g~~~Gvi~~~di~~ 106 (107)
T cd04610 89 VDENNNLVGIITNTDVIR 106 (107)
T ss_pred ECCCCeEEEEEEHHHhhc
Confidence 445689999999999864
No 116
>PRK05395 3-dehydroquinate dehydratase; Provisional
Probab=21.56 E-value=82 Score=22.69 Aligned_cols=27 Identities=22% Similarity=0.427 Sum_probs=20.6
Q ss_pred eeEeeeCHHHHHHHHHH---hcCCceeccc
Q 033584 57 QIFGSVTAQDVVDIIKA---QLQRDVDKKI 83 (116)
Q Consensus 57 klfGSVt~~dIa~~L~~---~~g~~idkk~ 83 (116)
.+||+.|-.||.+.+.+ ..|++++=++
T Consensus 21 ~iYG~~tl~~i~~~~~~~a~~~g~~v~~~Q 50 (146)
T PRK05395 21 EIYGSTTLADIEALLEEEAAELGVELEFFQ 50 (146)
T ss_pred CcCCCCCHHHHHHHHHHHHHHcCCEEEEEe
Confidence 58999999999998875 3477766443
No 117
>PF04552 Sigma54_DBD: Sigma-54, DNA binding domain; InterPro: IPR007634 This DNA-binding domain is based on peptide fragmentation data. This domain is proximal to DNA in the promoter/holoenzyme complex. Furthermore, this region contains a putative helix-turn-helix motif. At the C terminus, there is a highly conserved region known as the RpoN box and is the signature of the sigma-54 proteins [].; PDB: 2AHQ_A 2O9L_A 2O8K_A.
Probab=21.56 E-value=39 Score=24.44 Aligned_cols=22 Identities=14% Similarity=0.511 Sum_probs=14.7
Q ss_pred eCHHHHHHHHHHhcCCceecccc
Q 033584 62 VTAQDVVDIIKAQLQRDVDKKIV 84 (116)
Q Consensus 62 Vt~~dIa~~L~~~~g~~idkk~I 84 (116)
.|-.+|++.|.++ |+.|.||.|
T Consensus 122 lSD~~i~~~L~~~-gi~isRRTV 143 (160)
T PF04552_consen 122 LSDQEIAELLKEE-GIKISRRTV 143 (160)
T ss_dssp --HHHHHHHHTTT-TS---HHHH
T ss_pred CCHHHHHHHHHHc-CCCccHHHH
Confidence 5778899999888 999999876
No 118
>PF01835 A2M_N: MG2 domain; InterPro: IPR002890 The proteinase-binding alpha-macroglobulins (A2M) [] are large glycoproteins found in the plasma of vertebrates, in the hemolymph of some invertebrates and in reptilian and avian egg white. A2M-like proteins are able to inhibit all four classes of proteinases by a 'trapping' mechanism. They have a peptide stretch, called the 'bait region', which contains specific cleavage sites for different proteinases. When a proteinase cleaves the bait region, a conformational change is induced in the protein, thus trapping the proteinase. The entrapped enzyme remains active against low molecular weight substrates, whilst its activity toward larger substrates is greatly reduced, due to steric hindrance. Following cleavage in the bait region, a thiol ester bond, formed between the side chains of a cysteine and a glutamine, is cleaved and mediates the covalent binding of the A2M-like protein to the proteinase. This family includes the N-terminal region of the alpha-2-macroglobulin family. The inhibitor domains belong to MEROPS inhibitor family I39.; GO: 0004866 endopeptidase inhibitor activity; PDB: 2B39_B 3KLS_B 3PRX_C 3KM9_B 3PVM_C 3CU7_A 4E0S_A 4A5W_A 4ACQ_C 2P9R_B ....
Probab=21.47 E-value=2.2e+02 Score=17.80 Aligned_cols=31 Identities=19% Similarity=0.267 Sum_probs=18.2
Q ss_pred cccccCccceeeEEEEEEec--CCeEEEEEEEE
Q 033584 83 IVDLPEIRETGEYIAQLKLH--PEVTARIRLNV 113 (116)
Q Consensus 83 ~I~l~~Ik~lG~y~V~i~L~--~~V~a~i~v~V 113 (116)
.+.||+--.+|.|.|.+... .+..+.-.+.|
T Consensus 67 ~~~lp~~~~~G~y~i~~~~~~~~~~~~~~~F~V 99 (99)
T PF01835_consen 67 SFQLPDDAPLGTYTIRVKTDDDGGQSFSKTFQV 99 (99)
T ss_dssp EEE--SS---EEEEEEEEETTTTCEEEEEEEEE
T ss_pred EEECCCCCCCEeEEEEEEEccCCCCEEEEEEEC
Confidence 36777777899999999993 55555555544
No 119
>cd08489 PBP2_NikA The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold. This family represents the periplasmic substrate-binding domain of nickel transport system, which functions in the import of nickel and in the control of chemotactic response away from nickel. The ATP-binding cassette (ABC) type nickel transport system is comprised of five subunits NikABCDE: the two pore-forming integral inner membrane proteins NikB and NikC; the two inner membrane-associated proteins with ATPase activity NikD and NikE; and the periplasmic nickel binding NikA, the initial nickel receptor. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides,
Probab=21.33 E-value=2.1e+02 Score=23.24 Aligned_cols=58 Identities=17% Similarity=0.283 Sum_probs=38.5
Q ss_pred eEEEEEecC---CCCeeEeeeCHHHHHHHHHHhcCCc-eec--ccc-cccCccceeeEEEEEEecCCe
Q 033584 45 AFKVKRKGG---KGKQIFGSVTAQDVVDIIKAQLQRD-VDK--KIV-DLPEIRETGEYIAQLKLHPEV 105 (116)
Q Consensus 45 ~l~i~~k~g---~~GklfGSVt~~dIa~~L~~~~g~~-idk--k~I-~l~~Ik~lG~y~V~i~L~~~V 105 (116)
+++|..+-| .||.. ||+.|++-.+....... -.. ... .+..++.+|.|+|.++|....
T Consensus 57 t~tf~Lr~~~~fsdG~p---vTA~Dv~~s~~r~~~~~~~~~~~~~~~~i~~v~~~d~~tv~~~l~~p~ 121 (488)
T cd08489 57 TYTFHLRKGVKFSDGTP---FNAEAVKKNFDAVLANRDRHSWLELVNKIDSVEVVDEYTVRLHLKEPY 121 (488)
T ss_pred EEEEEeCCCCCccCCCc---CCHHHHHHHHHHHhccCCCCchhhcccceeeEEEccCCEEEEEECCCC
Confidence 688998876 47765 89999999986432211 000 001 123488999999999998753
No 120
>cd05833 Ribosomal_P2 Ribosomal protein P2. This subfamily represents the eukaryotic large ribosomal protein P2. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P2 is located in the L12 stalk, with proteins P1, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers). Bacteria may have four or six copies of L7/L12 (two or three homodimers) depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2
Probab=21.15 E-value=54 Score=22.31 Aligned_cols=25 Identities=28% Similarity=0.343 Sum_probs=21.1
Q ss_pred eeCHHHHHHHHHHhcCCceecccccc
Q 033584 61 SVTAQDVVDIIKAQLQRDVDKKIVDL 86 (116)
Q Consensus 61 SVt~~dIa~~L~~~~g~~idkk~I~l 86 (116)
++|..||...|+.- |+++|...+.+
T Consensus 17 ~pTa~dI~~IL~Aa-GveVe~~~~~l 41 (109)
T cd05833 17 SPSAADVKKILGSV-GVEVDDEKLNK 41 (109)
T ss_pred CCCHHHHHHHHHHc-CCCccHHHHHH
Confidence 69999999999887 99999876543
No 121
>PRK07539 NADH dehydrogenase subunit E; Validated
Probab=21.06 E-value=90 Score=22.06 Aligned_cols=19 Identities=5% Similarity=0.384 Sum_probs=16.3
Q ss_pred CCeeEeeeCHHHHHHHHHH
Q 033584 55 GKQIFGSVTAQDVVDIIKA 73 (116)
Q Consensus 55 ~GklfGSVt~~dIa~~L~~ 73 (116)
+|.+||.||+.++.+.|.+
T Consensus 134 ~~~~y~~vt~e~v~~il~~ 152 (154)
T PRK07539 134 NDDTYEDLTPEKIDELLDE 152 (154)
T ss_pred CCEEeCCCCHHHHHHHHHh
Confidence 6789999999999887754
No 122
>TIGR02294 nickel_nikA nickel ABC transporter, periplasmic nickel-binding protein. Members of this family are periplasmic nickel-binding proteins of nickel ABC transporters. Nickel is bound specifically, albeit weakly, through water molecules positioned in the binding site. The amino acids whose side chains line the binding site include Tyr-44, Met-49, Trp-122, Arg-159, Trp-420, and Tyr-424 (numbering based on the precursor sequence of E. coli NikA) with the Arg contributing a hydrogen bond indirectly through a water molecule. Sequences that exactly (or mostly) have the same binding site residues score above the trusted (or noise) cutoffs to this model. Most appear to be lipoproteins.
Probab=20.94 E-value=2.2e+02 Score=23.37 Aligned_cols=57 Identities=18% Similarity=0.249 Sum_probs=37.8
Q ss_pred eEEEEEecCC---CCeeEeeeCHHHHHHHHHHhcCCceecc---cc-cccCccceeeEEEEEEecCC
Q 033584 45 AFKVKRKGGK---GKQIFGSVTAQDVVDIIKAQLQRDVDKK---IV-DLPEIRETGEYIAQLKLHPE 104 (116)
Q Consensus 45 ~l~i~~k~g~---~GklfGSVt~~dIa~~L~~~~g~~idkk---~I-~l~~Ik~lG~y~V~i~L~~~ 104 (116)
+++|..+-|- ||.. ||+.|++..+.....-.-... .. .+..++.++.|+|.|+|..-
T Consensus 64 t~tf~LR~~~kfsDG~p---vTA~Dv~~s~~~~~~~~~~~~~~~~~~~i~~v~~~d~~Tv~i~l~~p 127 (500)
T TIGR02294 64 TYTFKLRDDVKFSDGTP---FDAEAVKKNFDAVLQNSQRHSWLELSNQLDNVKALDKYTFELVLKEA 127 (500)
T ss_pred EEEEEECCCCCcCCCCC---CCHHHHHHHHHHHhcCCcccchhhccccceeEEecCCCEEEEEECCC
Confidence 6889988764 7765 999999998874322110001 01 12248889999999998764
No 123
>cd08492 PBP2_NikA_DppA_OppA_like_15 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=20.81 E-value=2.6e+02 Score=22.55 Aligned_cols=57 Identities=9% Similarity=0.177 Sum_probs=37.9
Q ss_pred eEEEEEecCC---CCeeEeeeCHHHHHHHHHHhcCCceec----cccc-ccCccceeeEEEEEEecCC
Q 033584 45 AFKVKRKGGK---GKQIFGSVTAQDVVDIIKAQLQRDVDK----KIVD-LPEIRETGEYIAQLKLHPE 104 (116)
Q Consensus 45 ~l~i~~k~g~---~GklfGSVt~~dIa~~L~~~~g~~idk----k~I~-l~~Ik~lG~y~V~i~L~~~ 104 (116)
+++|+.+-|- ||. -||+.|++-.+.......... .... +..|..++.|+|.|+|...
T Consensus 61 ~~tf~Lr~~~~wsdG~---pvTA~Dv~~s~~~~~~~~~~~~~~~~~~~~~~~i~~~d~~tv~i~l~~p 125 (484)
T cd08492 61 TYTFHLRDGVTFSDGT---PLDAEAVKANFDRILDGSTKSGLAASYLGPYKSTEVVDPYTVKVHFSEP 125 (484)
T ss_pred EEEEEeCCCCEecCCC---CCCHHHHHHHHHHhcCCCcCCCccccccccceeEEeccCCEEEEEECCC
Confidence 6888888773 675 499999999987542211111 0111 1238889999999999753
No 124
>cd04613 CBS_pair_SpoIVFB_EriC_assoc2 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC. SpoIVFB is one of 4 proteins involved in endospore formation; the others are SpoIVFA (sporulation protein, stage IV cell wall formation, F locus, promoter-proximal A), BofA (bypass-of-forespore A ), and SpoIVB (sporulation protein, stage IV cell wall formation, B locus). SpoIVFB is negatively regulated by SpoIVFA and BofA and activated by SpoIVB. It is thought that SpoIVFB, SpoIVFA, and BofA are located in the mother-cell membrane that surrounds the forespore and that SpoIVB is secreted from the forespore into the space between the two where it activates SpoIVFB. EriC is involved in inorganic ion transport and metabolism. CBS is a small domain originally identified in cystathionine beta-synthase a
Probab=20.78 E-value=1.1e+02 Score=18.75 Aligned_cols=19 Identities=21% Similarity=0.445 Sum_probs=15.9
Q ss_pred CCCeeEeeeCHHHHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVDIIK 72 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~~L~ 72 (116)
++|++.|.|+..|+...+.
T Consensus 32 ~~~~~~G~v~~~~l~~~~~ 50 (114)
T cd04613 32 DDGRLVGIVSLDDIREILF 50 (114)
T ss_pred CCCCEEEEEEHHHHHHHHh
Confidence 4579999999999987664
No 125
>cd04595 CBS_pair_DHH_polyA_Pol_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown.
Probab=20.52 E-value=1e+02 Score=18.97 Aligned_cols=17 Identities=18% Similarity=0.497 Sum_probs=14.6
Q ss_pred CeeEeeeCHHHHHHHHH
Q 033584 56 KQIFGSVTAQDVVDIIK 72 (116)
Q Consensus 56 GklfGSVt~~dIa~~L~ 72 (116)
|++.|.|+..|+...+.
T Consensus 34 ~~~~G~v~~~dl~~~~~ 50 (110)
T cd04595 34 GRVVGIISRRDVEKALR 50 (110)
T ss_pred CEEEEEEEHHHHHHHHh
Confidence 79999999999987653
No 126
>cd04588 CBS_pair_CAP-ED_DUF294_assoc_arch This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the archaeal CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain. Members of CAP_ED, include CAP which binds cAMP, FNR (fumarate and nitrate reductase) which uses an iron-sulfur cluster to sense oxygen, and CooA a heme containing CO sensor. In all cases binding of the effector leads to conformational changes and the ability to activate transcription. DUF294 is a putative nucleotidyltransferase with a conserved DxD motif. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site.
Probab=20.51 E-value=1.5e+02 Score=18.03 Aligned_cols=16 Identities=19% Similarity=0.349 Sum_probs=12.7
Q ss_pred CCCeeEeeeCHHHHHH
Q 033584 54 KGKQIFGSVTAQDVVD 69 (116)
Q Consensus 54 ~~GklfGSVt~~dIa~ 69 (116)
++|++.|.||..|+..
T Consensus 94 ~~~~~~G~i~~~dl~~ 109 (110)
T cd04588 94 DEGRPVGIITRTDILR 109 (110)
T ss_pred CCCCEEEEEEhHHhhc
Confidence 4578999999988753
No 127
>TIGR01088 aroQ 3-dehydroquinate dehydratase, type II. This model specifies the type II enzyme. The type I enzyme, often found as part of a multifunctional protein, is described by TIGR01093.
Probab=20.29 E-value=79 Score=22.64 Aligned_cols=27 Identities=26% Similarity=0.470 Sum_probs=20.7
Q ss_pred eeEeeeCHHHHHHHHHHh---cCCceeccc
Q 033584 57 QIFGSVTAQDVVDIIKAQ---LQRDVDKKI 83 (116)
Q Consensus 57 klfGSVt~~dIa~~L~~~---~g~~idkk~ 83 (116)
.+||+.|-.||.+.+.+. .|++++=++
T Consensus 19 ~iYG~~tl~di~~~~~~~a~~~g~~v~~~Q 48 (141)
T TIGR01088 19 GVYGSQTLEEIVEIIETFAAQLNVELEFFQ 48 (141)
T ss_pred CcCCCCCHHHHHHHHHHHHHHcCCEEEEEe
Confidence 589999999999988864 367776443
No 128
>cd00466 DHQase_II Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway and the catabolic quinate pathway. There are two types of DHQases, which are distinct from each other in amino acid sequence and three-dimensional structure. Type I enzymes usually catalyze the biosynthetic reaction using a syn elimination mechanism. In contrast, type II enzymes, found in the quinate pathway of fungi and in the shikimate pathway of many bacteria, are dodecameric enzymes that employ an anti elimination reaction mechanism.
Probab=20.26 E-value=80 Score=22.58 Aligned_cols=27 Identities=22% Similarity=0.416 Sum_probs=21.1
Q ss_pred eeEeeeCHHHHHHHHHHh---cCCceeccc
Q 033584 57 QIFGSVTAQDVVDIIKAQ---LQRDVDKKI 83 (116)
Q Consensus 57 klfGSVt~~dIa~~L~~~---~g~~idkk~ 83 (116)
.+||+.|-.||.+.+.+. .|++++=++
T Consensus 19 ~iYG~~tl~~i~~~l~~~a~~~g~~v~~~Q 48 (140)
T cd00466 19 EIYGTTTLADIEALLRELAAELGVEVEFFQ 48 (140)
T ss_pred CcCCcCCHHHHHHHHHHHHHHcCCEEEEEe
Confidence 699999999999988863 377776444
Done!