Query psy4850
Match_columns 64
No_of_seqs 153 out of 1023
Neff 7.0
Searched_HMMs 46136
Date Fri Aug 16 19:17:35 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4850.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4850hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG1253 TlyC Hemolysins and re 99.5 1E-14 2.3E-19 101.4 5.3 58 6-64 183-240 (429)
2 PRK11573 hypothetical protein; 99.5 8.2E-15 1.8E-19 101.9 3.6 54 10-64 168-221 (413)
3 TIGR03520 GldE gliding motilit 99.5 4.9E-14 1.1E-18 97.8 4.6 56 7-64 170-225 (408)
4 PRK15094 magnesium/cobalt effl 99.4 1.9E-13 4E-18 91.6 4.7 58 6-64 44-101 (292)
5 COG4535 CorC Putative Mg2+ and 99.3 2.6E-13 5.6E-18 90.1 1.6 58 6-64 44-101 (293)
6 COG4536 CorB Putative Mg2+ and 99.1 3.5E-11 7.5E-16 83.8 3.3 57 7-64 178-234 (423)
7 KOG2118|consensus 98.4 1E-07 2.2E-12 68.2 1.4 55 10-64 185-239 (498)
8 TIGR00400 mgtE Mg2+ transporte 97.1 0.00072 1.6E-08 47.7 3.7 48 10-60 112-159 (449)
9 PF00571 CBS: CBS domain CBS d 95.9 0.0027 5.9E-08 32.0 0.5 31 31-64 1-31 (57)
10 TIGR01302 IMP_dehydrog inosine 94.0 0.079 1.7E-06 37.6 3.6 50 7-64 58-112 (450)
11 COG4109 Predicted transcriptio 93.0 0.055 1.2E-06 38.4 1.5 46 18-64 172-222 (432)
12 PRK10892 D-arabinose 5-phospha 88.0 0.29 6.2E-06 32.8 1.3 36 27-63 200-235 (326)
13 cd04801 CBS_pair_M50_like This 87.3 0.51 1.1E-05 26.0 1.9 35 28-63 56-90 (114)
14 cd04604 CBS_pair_KpsF_GutQ_ass 86.4 0.68 1.5E-05 25.3 2.1 51 10-63 39-90 (114)
15 COG2239 MgtE Mg/Co/Ni transpor 84.5 1.6 3.5E-05 31.5 3.7 49 11-62 114-162 (451)
16 PRK07107 inosine 5-monophospha 84.5 0.73 1.6E-05 33.5 2.0 37 26-63 158-194 (502)
17 cd04597 CBS_pair_DRTGG_assoc2 83.3 1.1 2.3E-05 25.4 2.0 51 9-63 31-89 (113)
18 cd04617 CBS_pair_4 The CBS dom 81.7 1 2.3E-05 25.1 1.5 37 26-63 55-91 (118)
19 TIGR01137 cysta_beta cystathio 81.6 0.8 1.7E-05 32.0 1.2 39 20-63 328-366 (454)
20 cd04623 CBS_pair_10 The CBS do 81.4 1 2.3E-05 24.4 1.4 34 27-63 57-90 (113)
21 PTZ00314 inosine-5'-monophosph 81.2 0.94 2E-05 32.8 1.5 36 27-63 157-192 (495)
22 PLN02274 inosine-5'-monophosph 80.9 1 2.2E-05 32.7 1.6 36 27-63 161-196 (505)
23 cd04585 CBS_pair_ACT_assoc2 Th 79.1 1.4 3.1E-05 24.1 1.5 35 27-64 65-99 (122)
24 PRK11543 gutQ D-arabinose 5-ph 78.8 0.76 1.7E-05 30.6 0.4 35 28-63 196-230 (321)
25 cd04584 CBS_pair_ACT_assoc Thi 77.6 1.3 2.9E-05 24.4 1.1 35 26-63 64-98 (121)
26 cd04603 CBS_pair_KefB_assoc Th 76.8 2.4 5.2E-05 23.4 2.0 34 28-64 55-88 (111)
27 PRK05567 inosine 5'-monophosph 76.7 4.2 9.1E-05 29.2 3.6 43 14-64 77-119 (486)
28 cd04592 CBS_pair_EriC_assoc_eu 76.3 1.8 3.9E-05 25.5 1.4 32 31-63 71-109 (133)
29 PRK10892 D-arabinose 5-phospha 74.9 3.2 7E-05 27.8 2.5 36 25-63 265-300 (326)
30 cd04613 CBS_pair_SpoIVFB_EriC_ 73.8 3.3 7.1E-05 22.3 2.1 35 26-63 55-89 (114)
31 cd04802 CBS_pair_3 The CBS dom 71.1 3.5 7.5E-05 22.4 1.7 34 27-63 56-89 (112)
32 cd04621 CBS_pair_8 The CBS dom 70.6 3.2 6.9E-05 24.0 1.6 33 28-63 80-112 (135)
33 cd04615 CBS_pair_2 The CBS dom 70.4 3.5 7.6E-05 22.4 1.7 34 26-62 55-88 (113)
34 COG3620 Predicted transcriptio 68.1 3.4 7.4E-05 26.6 1.4 54 8-64 39-97 (187)
35 cd04589 CBS_pair_CAP-ED_DUF294 67.8 3.3 7.1E-05 22.5 1.2 34 27-63 55-88 (111)
36 cd04594 CBS_pair_EriC_assoc_ar 67.7 4.9 0.00011 21.7 1.9 32 29-63 50-81 (104)
37 cd04582 CBS_pair_ABC_OpuCA_ass 67.4 6.7 0.00015 21.0 2.4 32 29-63 51-82 (106)
38 cd04640 CBS_pair_27 The CBS do 67.4 2.4 5.2E-05 23.9 0.5 37 26-63 61-101 (126)
39 cd04633 CBS_pair_20 The CBS do 67.0 3.7 8.1E-05 22.6 1.3 35 26-63 64-98 (121)
40 PF14044 NETI: NETI protein 66.9 5 0.00011 21.3 1.7 22 42-64 2-23 (57)
41 cd04636 CBS_pair_23 The CBS do 66.7 4 8.6E-05 23.1 1.4 31 30-63 79-109 (132)
42 cd04586 CBS_pair_BON_assoc Thi 66.0 4 8.6E-05 23.2 1.3 35 26-63 78-112 (135)
43 cd04595 CBS_pair_DHH_polyA_Pol 65.8 5.8 0.00013 21.4 1.9 34 27-63 54-87 (110)
44 cd04622 CBS_pair_9 The CBS dom 65.2 5.1 0.00011 21.7 1.6 36 25-63 54-89 (113)
45 cd04599 CBS_pair_GGDEF_assoc2 64.8 4.6 9.9E-05 21.5 1.4 33 28-63 50-82 (105)
46 PRK01862 putative voltage-gate 64.2 3 6.5E-05 30.3 0.7 35 26-63 444-478 (574)
47 cd04625 CBS_pair_12 The CBS do 63.7 5.1 0.00011 21.7 1.4 34 27-63 56-89 (112)
48 cd04610 CBS_pair_ParBc_assoc T 63.7 5 0.00011 21.5 1.4 33 28-63 51-83 (107)
49 cd04632 CBS_pair_19 The CBS do 61.5 4.2 9.1E-05 22.8 0.8 35 26-63 68-102 (128)
50 cd04643 CBS_pair_30 The CBS do 60.6 4 8.7E-05 22.2 0.6 32 28-62 62-93 (116)
51 cd04601 CBS_pair_IMPDH This cd 59.2 7.7 0.00017 20.7 1.6 33 28-63 53-86 (110)
52 cd04630 CBS_pair_17 The CBS do 59.0 7.8 0.00017 21.1 1.7 35 26-63 57-91 (114)
53 COG3448 CBS-domain-containing 58.8 6.8 0.00015 27.7 1.6 36 25-63 241-276 (382)
54 cd04587 CBS_pair_CAP-ED_DUF294 57.6 10 0.00023 20.4 2.0 32 29-63 58-89 (113)
55 cd04634 CBS_pair_21 The CBS do 56.2 6.7 0.00015 22.7 1.1 34 27-63 87-120 (143)
56 PRK14869 putative manganese-de 55.5 8.6 0.00019 27.7 1.8 34 28-63 245-278 (546)
57 cd04600 CBS_pair_HPP_assoc Thi 55.4 9 0.0002 21.1 1.5 33 27-62 67-99 (124)
58 cd04596 CBS_pair_DRTGG_assoc T 55.1 8.3 0.00018 20.8 1.3 34 27-63 51-84 (108)
59 cd04803 CBS_pair_15 The CBS do 54.7 9.7 0.00021 20.9 1.6 34 27-63 65-98 (122)
60 cd04598 CBS_pair_GGDEF_assoc T 54.6 7.9 0.00017 21.1 1.2 33 27-62 59-91 (119)
61 PRK14869 putative manganese-de 54.4 6.6 0.00014 28.3 1.0 33 28-63 67-99 (546)
62 cd04629 CBS_pair_16 The CBS do 53.6 9.5 0.0002 20.6 1.4 33 27-62 58-90 (114)
63 cd04800 CBS_pair_CAP-ED_DUF294 53.2 10 0.00022 20.4 1.5 33 28-63 56-88 (111)
64 cd04635 CBS_pair_22 The CBS do 53.2 9.8 0.00021 20.8 1.4 34 27-63 65-98 (122)
65 cd04607 CBS_pair_NTP_transfera 53.0 11 0.00024 20.5 1.6 33 28-63 57-89 (113)
66 cd04611 CBS_pair_PAS_GGDEF_DUF 52.9 9.5 0.00021 20.4 1.3 34 27-63 54-87 (111)
67 cd04631 CBS_pair_18 The CBS do 52.6 7.9 0.00017 21.3 1.0 33 28-63 69-101 (125)
68 TIGR00400 mgtE Mg2+ transporte 51.4 8.9 0.00019 27.2 1.3 34 27-63 193-226 (449)
69 cd04619 CBS_pair_6 The CBS dom 51.3 10 0.00022 20.8 1.3 34 27-63 57-90 (114)
70 cd04626 CBS_pair_13 The CBS do 50.1 13 0.00028 20.0 1.6 33 28-63 56-88 (111)
71 cd04602 CBS_pair_IMPDH_2 This 49.8 12 0.00026 20.4 1.5 35 28-63 56-90 (114)
72 COG0517 FOG: CBS domain [Gener 49.7 28 0.0006 18.7 2.9 41 17-60 48-90 (117)
73 TIGR01302 IMP_dehydrog inosine 49.6 10 0.00022 27.1 1.3 35 27-63 141-175 (450)
74 cd04618 CBS_pair_5 The CBS dom 49.5 21 0.00045 19.4 2.4 24 39-63 1-24 (98)
75 COG2524 Predicted transcriptio 48.9 7.8 0.00017 26.7 0.6 40 21-63 164-203 (294)
76 PF08899 DUF1844: Domain of un 47.6 20 0.00043 19.9 2.0 18 7-24 50-67 (74)
77 PF04545 Sigma70_r4: Sigma-70, 45.8 17 0.00038 17.6 1.5 23 11-34 4-26 (50)
78 cd04593 CBS_pair_EriC_assoc_ba 45.7 17 0.00036 19.8 1.6 33 28-63 57-89 (115)
79 TIGR00393 kpsF KpsF/GutQ famil 45.2 13 0.00029 23.9 1.3 34 27-63 218-251 (268)
80 cd04641 CBS_pair_28 The CBS do 45.2 23 0.0005 19.4 2.2 24 40-64 2-25 (120)
81 cd04590 CBS_pair_CorC_HlyC_ass 45.1 25 0.00053 18.8 2.2 24 39-63 1-24 (111)
82 cd04639 CBS_pair_26 The CBS do 44.4 14 0.00031 19.8 1.2 34 27-63 54-87 (111)
83 cd04583 CBS_pair_ABC_OpuCA_ass 43.4 20 0.00043 19.0 1.7 31 29-62 54-84 (109)
84 TIGR01303 IMP_DH_rel_1 IMP deh 41.9 16 0.00036 26.5 1.4 32 29-63 146-177 (475)
85 cd04638 CBS_pair_25 The CBS do 41.7 30 0.00065 18.4 2.2 23 40-63 2-24 (106)
86 cd04620 CBS_pair_7 The CBS dom 41.4 26 0.00057 18.9 2.0 33 27-62 56-90 (115)
87 cd04642 CBS_pair_29 The CBS do 38.5 35 0.00075 18.9 2.2 24 40-64 2-25 (126)
88 KOG2550|consensus 38.5 19 0.00042 26.4 1.3 34 12-51 158-191 (503)
89 PRK07807 inosine 5-monophospha 38.0 22 0.00047 25.9 1.6 32 29-63 148-179 (479)
90 PF04504 DUF573: Protein of un 37.1 16 0.00035 20.9 0.6 18 13-30 9-26 (98)
91 cd04605 CBS_pair_MET2_assoc Th 35.7 38 0.00081 18.0 2.0 23 40-63 3-25 (110)
92 PRK05567 inosine 5'-monophosph 35.7 26 0.00055 25.3 1.6 34 28-63 146-179 (486)
93 smart00116 CBS Domain in cysta 35.2 43 0.00094 14.3 1.9 21 42-63 3-23 (49)
94 cd04606 CBS_pair_Mg_transporte 33.0 29 0.00063 18.6 1.3 32 28-62 52-83 (109)
95 cd04624 CBS_pair_11 The CBS do 32.7 31 0.00067 18.4 1.3 32 28-62 56-87 (112)
96 cd04591 CBS_pair_EriC_assoc_eu 30.0 59 0.0013 17.6 2.2 25 38-63 1-25 (105)
97 cd04627 CBS_pair_14 The CBS do 29.2 56 0.0012 17.9 2.1 25 38-63 75-99 (123)
98 cd04614 CBS_pair_1 The CBS dom 29.1 50 0.0011 17.6 1.8 23 40-63 2-24 (96)
99 cd07178 terB_like_YebE telluri 28.6 55 0.0012 18.4 1.9 19 7-25 11-29 (95)
100 TIGR02698 CopY_TcrY copper tra 28.5 13 0.00027 22.2 -0.8 50 12-63 2-51 (130)
101 KOG0626|consensus 27.6 26 0.00057 26.1 0.6 27 1-27 312-338 (524)
102 PF02318 FYVE_2: FYVE-type zin 26.7 38 0.00083 19.7 1.1 15 11-25 2-16 (118)
103 cd02205 CBS_pair The CBS domai 26.5 68 0.0015 16.4 2.0 23 40-63 2-24 (113)
104 cd04637 CBS_pair_24 The CBS do 25.9 70 0.0015 17.3 2.0 23 40-63 2-24 (122)
105 cd04588 CBS_pair_CAP-ED_DUF294 25.2 75 0.0016 16.8 2.1 23 40-63 2-24 (110)
106 PRK04323 hypothetical protein; 25.0 71 0.0015 18.4 2.0 29 33-62 11-41 (91)
107 PF08934 Rb_C: Rb C-terminal d 24.5 78 0.0017 19.9 2.2 18 32-50 51-68 (155)
108 cd04609 CBS_pair_PALP_assoc2 T 23.9 84 0.0018 16.4 2.1 22 41-63 3-24 (110)
109 KOG0474|consensus 23.1 44 0.00096 25.9 1.0 35 26-63 579-613 (762)
No 1
>COG1253 TlyC Hemolysins and related proteins containing CBS domains [General function prediction only]
Probab=99.53 E-value=1e-14 Score=101.43 Aligned_cols=58 Identities=26% Similarity=0.413 Sum_probs=55.4
Q ss_pred ccccCCCCHHHHHHHHhhhcccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCCC
Q psy4850 6 TTEFNDLEKDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSESK 64 (64)
Q Consensus 6 ~~~~g~l~~~e~~ml~~~l~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~S 64 (64)
+.+.|.++++|++|++|+|+|++++|++|||||++|++++.+.+.+ ++++.+.++|||
T Consensus 183 ~~~~g~~~~~E~~mi~~v~~l~~~~v~eiMtPR~~i~~l~~~~~~~-~~~~~~~~~~~S 240 (429)
T COG1253 183 SAEEGVLEEEEREMINNVLDLDDRTVREIMTPRTDIVALDLTDTVE-ELIELILESGHS 240 (429)
T ss_pred HHhcCCcCHHHHHHHHHHhccCCcEeeeEeeecccEEEEcCCCCHH-HHHHHHHhCCCC
Confidence 4578999999999999999999999999999999999999999998 799999999998
No 2
>PRK11573 hypothetical protein; Provisional
Probab=99.52 E-value=8.2e-15 Score=101.87 Aligned_cols=54 Identities=11% Similarity=0.282 Sum_probs=52.0
Q ss_pred CCCCHHHHHHHHhhhcccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCCC
Q psy4850 10 NDLEKDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSESK 64 (64)
Q Consensus 10 g~l~~~e~~ml~~~l~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~S 64 (64)
+.++++|++|++|+|+|++++|+||||||.+|++++.+.+++ ++++.+.++|||
T Consensus 168 ~~l~~~e~~mi~~vl~l~~~~v~eiMtPr~~i~~l~~~~~~~-e~~~~~~~~~~S 221 (413)
T PRK11573 168 SQISRRNQDMLLSVLDLEKVTVDDIMVPRNEIVGIDINDDWK-SILRQLTHSPHG 221 (413)
T ss_pred hhcCHHHHHHHHHHhccCCCChhhcCCccceEEEEECCCCHH-HHHHHHHhCCCc
Confidence 369999999999999999999999999999999999999998 799999999998
No 3
>TIGR03520 GldE gliding motility-associated protein GldE. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldC is a protein linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. GldE was discovered because of its adjacency to GldD in F. johnsonii. Overexpression of GldE partially supresses the effects of a GldB point mutant suggesting that GldB and GldE interact. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Not all Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility and in fact some do not appear to express the gliding phenotype.
Probab=99.47 E-value=4.9e-14 Score=97.79 Aligned_cols=56 Identities=20% Similarity=0.341 Sum_probs=52.5
Q ss_pred cccCCCCHHHHHHHHhhhcccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCCC
Q psy4850 7 TEFNDLEKDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSESK 64 (64)
Q Consensus 7 ~~~g~l~~~e~~ml~~~l~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~S 64 (64)
+++| ++++|++|++|+|+|++++|+||||||.++++++.+.+++ ++++.+.++|||
T Consensus 170 ~~~g-~~~~E~~~i~~vl~l~~~~v~diMtpr~~v~~l~~~~~~~-e~~~~~~~~~~s 225 (408)
T TIGR03520 170 DEED-TTKEEQKILQGIVSFGNTDTKQVMRPRLDIFALDIETSFS-EIIPKIIENGYS 225 (408)
T ss_pred hhcC-CChHHHHHHHHHhccCCCEeeeeCCchHhEEEEECCCCHH-HHHHHHHhCCCC
Confidence 4445 6899999999999999999999999999999999999998 799999999998
No 4
>PRK15094 magnesium/cobalt efflux protein CorC; Provisional
Probab=99.42 E-value=1.9e-13 Score=91.59 Aligned_cols=58 Identities=19% Similarity=0.384 Sum_probs=55.2
Q ss_pred ccccCCCCHHHHHHHHhhhcccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCCC
Q psy4850 6 TTEFNDLEKDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSESK 64 (64)
Q Consensus 6 ~~~~g~l~~~e~~ml~~~l~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~S 64 (64)
+.++|.|+++|++||.|+|+|++++|++||+||.++++++.+.+++ ++++.+.++|||
T Consensus 44 ~~~~g~l~~~e~~~i~~vl~l~~~~V~diMtpr~~i~~l~~~~sl~-e~~~~i~~~~~s 101 (292)
T PRK15094 44 SEQNDLIDEDTRDMLEGVMDIADQRVRDIMIPRSQMITLKRNQTLD-ECLDVIIESAHS 101 (292)
T ss_pred HhhcCCCCHHHHHHHHHHhccCCCEEeEEccchHHEEEEeCCCCHH-HHHHHHHhcCCc
Confidence 3568999999999999999999999999999999999999999999 799999999987
No 5
>COG4535 CorC Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]
Probab=99.35 E-value=2.6e-13 Score=90.12 Aligned_cols=58 Identities=19% Similarity=0.369 Sum_probs=55.7
Q ss_pred ccccCCCCHHHHHHHHhhhcccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCCC
Q psy4850 6 TTEFNDLEKDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSESK 64 (64)
Q Consensus 6 ~~~~g~l~~~e~~ml~~~l~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~S 64 (64)
++.++.++.+.+.||.|++++++++|+|||+||++|++|..+.+++ +++..+.+++||
T Consensus 44 se~n~LiD~dt~~mlEGvm~iadl~vrDiMIPRSQM~~l~~~~~l~-~~l~~iiesaHS 101 (293)
T COG4535 44 SEQNELIDADTLDMLEGVMDIADLRVRDIMIPRSQMITLKRNQTLD-ECLDVIIESAHS 101 (293)
T ss_pred hhhccccChhHHHHHHHHHHHHHhhHhhhcccHHHheeccccCCHH-HHHHHHHHhccc
Confidence 4778899999999999999999999999999999999999999999 799999999998
No 6
>COG4536 CorB Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]
Probab=99.13 E-value=3.5e-11 Score=83.78 Aligned_cols=57 Identities=19% Similarity=0.337 Sum_probs=52.9
Q ss_pred cccCCCCHHHHHHHHhhhcccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCCC
Q psy4850 7 TEFNDLEKDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSESK 64 (64)
Q Consensus 7 ~~~g~l~~~e~~ml~~~l~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~S 64 (64)
+.+|...+.+++||.|+|+|.+.+|+||||||.+|.+++.+.+++ ++++++..+.|+
T Consensus 178 ~~e~~~~~~~rdmL~gvLDLe~~tV~DIMvpR~~i~~id~d~~~e-~iv~ql~~s~Ht 234 (423)
T COG4536 178 GSEGSVNKIDRDMLLGVLDLENLTVSDIMVPRNEIIGIDIDDPWE-EIVRQLLHSPHT 234 (423)
T ss_pred hcccccccccHHHHhcccccccceeeeeeccccceeeecCCCCHH-HHHHHHhhCCCC
Confidence 566777777899999999999999999999999999999999999 799999999885
No 7
>KOG2118|consensus
Probab=98.40 E-value=1e-07 Score=68.19 Aligned_cols=55 Identities=53% Similarity=0.745 Sum_probs=52.8
Q ss_pred CCCCHHHHHHHHhhhcccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCCC
Q psy4850 10 NDLEKDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSESK 64 (64)
Q Consensus 10 g~l~~~e~~ml~~~l~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~S 64 (64)
|.+..++..++.|+++|.++.|++||||..++|+++.+..++.+.+..+.++|||
T Consensus 185 g~~~~~e~~ii~g~l~l~ek~~~evmtpi~~~f~l~~n~~l~~~~~~~i~~~g~s 239 (498)
T KOG2118|consen 185 GDLTYDELTIITGALELTEKLVGEVMTPIEDVFALDANTKLDRETVGEIVKHGYS 239 (498)
T ss_pred CcccchhhhHhhhhHHHHHHHHHHhccchhhheeeccccccchHHHhhHhhcCcc
Confidence 6689999999999999999999999999999999999999998899999999997
No 8
>TIGR00400 mgtE Mg2+ transporter (mgtE). This family of prokaryotic proteins models a class of Mg++ transporter first described in Bacillus firmus. May form a homodimer.
Probab=97.07 E-value=0.00072 Score=47.70 Aligned_cols=48 Identities=19% Similarity=0.203 Sum_probs=43.9
Q ss_pred CCCCHHHHHHHHhhhcccCeeecceeeecccEEEEeCCCCCCHHHHHHHHh
Q psy4850 10 NDLEKDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMK 60 (64)
Q Consensus 10 g~l~~~e~~ml~~~l~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~ 60 (64)
+.+++++++.+++++++.+.+|+++|+ .++.+++.+.++. ++++.+.+
T Consensus 112 ~~l~~~er~~i~~ll~~~e~tvg~iMt--~~~~~v~~~~tv~-eal~~l~~ 159 (449)
T TIGR00400 112 ASSTEEERKAINLLLSYSDDSAGRIMT--IEYVELKEDYTVG-KALDYIRR 159 (449)
T ss_pred HcCCHHHHHHHHHHhCCCcchHHHhCc--CceEEECCCCcHH-HHHHHHHh
Confidence 468999999999999999999999998 5799999999999 79998875
No 9
>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=95.91 E-value=0.0027 Score=31.97 Aligned_cols=31 Identities=32% Similarity=0.392 Sum_probs=27.8
Q ss_pred ecceeeecccEEEEeCCCCCCHHHHHHHHhcCCC
Q psy4850 31 VGDVMTKLEDVYMLSYDAILDFETVSEIMKSESK 64 (64)
Q Consensus 31 v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~S 64 (64)
|+++|+| +...++.+.++. ++++.+.+.+++
T Consensus 1 v~~~m~~--~~~~v~~~~~l~-~~~~~~~~~~~~ 31 (57)
T PF00571_consen 1 VGDIMTP--PPITVSPDDSLE-EALEIMRKNGIS 31 (57)
T ss_dssp HHHHSBS--SSEEEETTSBHH-HHHHHHHHHTSS
T ss_pred CeECCcC--CCEEEcCcCcHH-HHHHHHHHcCCc
Confidence 5789999 999999999999 799999998874
No 10
>TIGR01302 IMP_dehydrog inosine-5'-monophosphate dehydrogenase. This model describes a rather tightly conserved cluster of IMP dehydrogenase sequences, many of which are characterized. The model excludes two related families of proteins proposed also to be IMP dehydrogenases, but without characterized members. These are related families are the subject of separate models.
Probab=93.99 E-value=0.079 Score=37.63 Aligned_cols=50 Identities=6% Similarity=0.142 Sum_probs=40.8
Q ss_pred cccCCCC-----HHHHHHHHhhhcccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCCC
Q psy4850 7 TEFNDLE-----KDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSESK 64 (64)
Q Consensus 7 ~~~g~l~-----~~e~~ml~~~l~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~S 64 (64)
+..|.|+ +++.+++++++++.+..++ ++++++.+.++. ++++.+.+++||
T Consensus 58 gg~GvI~~n~~~e~q~~~V~~Vk~~~~~~~~-------~~vtl~~~~tv~-eal~~m~~~~~s 112 (450)
T TIGR01302 58 GGIGVIHRNMSIEEQAEQVKRVKRAENGIIS-------DPVTISPETTVA-DVLELMERKGIS 112 (450)
T ss_pred CCCceeecCCCHHHHHHHHhhhccccCceec-------CceEeCCCCCHH-HHHHHHHHcCCC
Confidence 3466777 4899999999988876443 678999999999 799999988875
No 11
>COG4109 Predicted transcriptional regulator containing CBS domains [Transcription]
Probab=93.04 E-value=0.055 Score=38.43 Aligned_cols=46 Identities=26% Similarity=0.306 Sum_probs=38.3
Q ss_pred HHHHhhh-----cccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCCC
Q psy4850 18 NIISGAL-----ELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSESK 64 (64)
Q Consensus 18 ~ml~~~l-----~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~S 64 (64)
.||.+|+ .=.=.+|.|||+|..+-..|..+.+++ ++.+...+.|||
T Consensus 172 tmIN~Al~n~lIKkdI~~Vedi~~P~~~~~yL~~~d~v~-d~~~l~~kt~~s 222 (432)
T COG4109 172 TMINKALSNQLIKKDIITVEDIMTPLEDTSYLRETDTVE-DWLDLVEKTGHS 222 (432)
T ss_pred HHHHHHHHHhhhhhheeeHHHhccccccceeccccccHH-HHHHHHHHcCCC
Confidence 4555544 334468999999999999999999999 799999999997
No 12
>PRK10892 D-arabinose 5-phosphate isomerase; Provisional
Probab=87.98 E-value=0.29 Score=32.82 Aligned_cols=36 Identities=22% Similarity=0.227 Sum_probs=31.2
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
...+|+++|++..++..++.+.++. ++++.+.++++
T Consensus 200 ~~~~V~dim~~~~~~~~v~~~~sl~-~a~~~~~~~~~ 235 (326)
T PRK10892 200 LLLRVSDIMHTGDEIPHVSKTASLR-DALLEITRKNL 235 (326)
T ss_pred ccCcHHHHhCCCCCCeEECCCCCHH-HHHHHHHhcCC
Confidence 6678999999877999999999999 79998877664
No 13
>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=87.30 E-value=0.51 Score=26.04 Aligned_cols=35 Identities=17% Similarity=0.137 Sum_probs=29.9
Q ss_pred CeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 28 RKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
+.++.++|.|......++.+.++. ++++.+.+++.
T Consensus 56 ~~~v~~~~~~~~~~~~v~~~~~l~-~a~~~~~~~~~ 90 (114)
T cd04801 56 QTTVIQVMTPAAKLVTVLSEESLA-EVLKLLEEQGL 90 (114)
T ss_pred ccchhhhhcccccceEECCCCcHH-HHHHHHHHCCC
Confidence 567999999877778999999998 79999988764
No 14
>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=86.44 E-value=0.68 Score=25.26 Aligned_cols=51 Identities=18% Similarity=0.212 Sum_probs=35.8
Q ss_pred CCCCHHH-HHHHHhhhcccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 10 NDLEKDE-VNIISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 10 g~l~~~e-~~ml~~~l~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
|.++... .+.+.+.......++.++|.|. +..++.+.++. ++++.+.+++.
T Consensus 39 G~v~~~~i~~~~~~~~~~~~~~v~~~~~~~--~~~v~~~~~~~-~~~~~~~~~~~ 90 (114)
T cd04604 39 GIFTDGDLRRALEKGLDILTLPVADVMTRN--PKTIDPDALAA-EALELMEENKI 90 (114)
T ss_pred EEechHHHHHHHhccCccccCCHHHhhccC--CeEECCCCcHH-HHHHHHHHcCC
Confidence 3455433 4455555555667899999874 56789999999 79999887664
No 15
>COG2239 MgtE Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]
Probab=84.51 E-value=1.6 Score=31.50 Aligned_cols=49 Identities=22% Similarity=0.329 Sum_probs=44.9
Q ss_pred CCCHHHHHHHHhhhcccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcC
Q psy4850 11 DLEKDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSE 62 (64)
Q Consensus 11 ~l~~~e~~ml~~~l~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g 62 (64)
.++++++..++..+...+-+|.-+|++ +.++++.+.+.. +++..+++.+
T Consensus 114 ~l~~~~r~~v~~~l~y~e~taG~~Mt~--e~v~l~~~~Tv~-~al~~ir~~~ 162 (451)
T COG2239 114 LLDPEERARVRQLLSYPEDTAGRIMTT--EFVTLPEDVTVD-EALDRIRERA 162 (451)
T ss_pred hCCHHHHHHHHHhcCCChhhhhcccee--eeEEeccCcCHH-HHHHHHHHhc
Confidence 478899999999999999999999996 789999999999 7999998765
No 16
>PRK07107 inosine 5-monophosphate dehydrogenase; Validated
Probab=84.50 E-value=0.73 Score=33.49 Aligned_cols=37 Identities=22% Similarity=0.152 Sum_probs=32.2
Q ss_pred ccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 26 LRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 26 ~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
..+.+|+++|+|..++++++.+.++. ++++.+.+++.
T Consensus 158 ~~~~~V~dIMt~~~~~itv~~d~~l~-eAl~lM~e~~i 194 (502)
T PRK07107 158 SLDTKVKDFMTPFEKLVTANEGTTLK-EANDIIWDHKL 194 (502)
T ss_pred CCCCCHHHHhCCCCCeEEECCCCcHH-HHHHHHHHcCC
Confidence 45678999999988899999999999 79999888764
No 17
>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=83.31 E-value=1.1 Score=25.40 Aligned_cols=51 Identities=12% Similarity=0.144 Sum_probs=36.0
Q ss_pred cCCCCHHHHHHHHhhhccc------C--eeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 9 FNDLEKDEVNIISGALELR------R--KIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 9 ~g~l~~~e~~ml~~~l~~~------~--~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.|...++ .+.+..-|.+. + .+|+++|.+ ++..++.+.++. ++++.+.+.++
T Consensus 31 ~g~~n~e-~~~vl~~~~~~~p~ll~~v~~~v~dim~~--~~~~v~~~~~l~-~a~~~~~~~~~ 89 (113)
T cd04597 31 LGEPNPQ-TRYVLEYLGIEPPILLADVHPRVRDVINR--KPVTARPNDPLR-EALNLMHEHNI 89 (113)
T ss_pred cCCCCHH-HHHHHHHcCCCCchhhcchhhhHHHhcCC--CCCEECCcCcHH-HHHHHHHHcCC
Confidence 3444444 45555555532 2 679999986 677889999998 79999887765
No 18
>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=81.68 E-value=1 Score=25.08 Aligned_cols=37 Identities=16% Similarity=0.336 Sum_probs=30.4
Q ss_pred ccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 26 LRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 26 ~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
+...++.++|+.-..+..++.++++. ++++.+.++++
T Consensus 55 ~~~~~~~~~~~~~~~~~~v~~~~~l~-~~~~~~~~~~~ 91 (118)
T cd04617 55 LQKVPVGVIMTRMPNITTTTPEESVL-EAAKKLIEHQV 91 (118)
T ss_pred ccCCCHHHHhCCCCCcEEECCCCcHH-HHHHHHHHcCC
Confidence 45677889997545688999999998 79999998875
No 19
>TIGR01137 cysta_beta cystathionine beta-synthase. Members of this family closely resemble cysteine synthase but contain an additional C-terminal CBS domain. The function of any bacterial member included in this family is proposed but not proven.
Probab=81.58 E-value=0.8 Score=31.99 Aligned_cols=39 Identities=8% Similarity=0.077 Sum_probs=32.4
Q ss_pred HHhhhcccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 20 ISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 20 l~~~l~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
+.++ |+..+|+++|.| ++..++.+.++. ++++.+.+.++
T Consensus 328 ~~~~--l~~~~v~~im~~--~~~~v~~~~tl~-ea~~~m~~~~~ 366 (454)
T TIGR01137 328 VFDV--LKNATVKDLHLP--APVTVHPTETVG-DAIEILREYGF 366 (454)
T ss_pred HHHH--hccCCHHHhCcC--CCeEECCCCcHH-HHHHHHHHcCC
Confidence 5555 888999999976 588999999999 79998887765
No 20
>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=81.39 E-value=1 Score=24.37 Aligned_cols=34 Identities=21% Similarity=0.330 Sum_probs=28.3
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.+.++.++|.+ .+..++.+.++. ++++.+.++++
T Consensus 57 ~~~~~~~~~~~--~~~~v~~~~~~~-~~l~~~~~~~~ 90 (113)
T cd04623 57 LDTPVSEIMTR--NVITVTPDDTVD-EAMALMTERRF 90 (113)
T ss_pred cccCHHHhcCC--CcEEECCCCcHH-HHHHHHHHcCC
Confidence 35689999966 688899999998 79999988775
No 21
>PTZ00314 inosine-5'-monophosphate dehydrogenase; Provisional
Probab=81.21 E-value=0.94 Score=32.79 Aligned_cols=36 Identities=22% Similarity=0.220 Sum_probs=31.1
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.+..|+++|+|+.+++.++.+.++. ++++.+.+++.
T Consensus 157 ~~~~V~diMt~~~~lvtv~~~~sl~-eAl~lm~e~~i 192 (495)
T PTZ00314 157 KSTPVSEVMTPREKLVVGNTPISLE-EANEVLRESRK 192 (495)
T ss_pred CCCCHHHhhCCcCCceEeCCCCCHH-HHHHHHHHcCC
Confidence 3567999999999999999999998 79998887654
No 22
>PLN02274 inosine-5'-monophosphate dehydrogenase
Probab=80.89 E-value=1 Score=32.72 Aligned_cols=36 Identities=22% Similarity=0.260 Sum_probs=31.3
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.+.+|.++|+|...+..++.+.++. ++++.+.+++.
T Consensus 161 ~~~~V~eIMt~~~~lvtv~~~~sL~-eAl~~m~~~~~ 196 (505)
T PLN02274 161 RETKLSEVMTSDDDLVTAPAGIDLE-EAEAVLKDSKK 196 (505)
T ss_pred cCCcHHHHhccCCCcEEECCCCCHH-HHHHHHHHcCC
Confidence 4677999999988899999999999 79999888764
No 23
>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=79.08 E-value=1.4 Score=24.09 Aligned_cols=35 Identities=26% Similarity=0.375 Sum_probs=28.4
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSESK 64 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~S 64 (64)
...++.++|.+ +..+++.+.++. +++..+.+.+++
T Consensus 65 ~~~~~~~~~~~--~~~~v~~~~~l~-~~~~~~~~~~~~ 99 (122)
T cd04585 65 SKIKVSDIMTR--DPITVSPDASVE-EAAELMLERKIS 99 (122)
T ss_pred cccCHHHhccC--CCeEeCCCCcHH-HHHHHHHHcCCC
Confidence 45778899976 688999999998 799988877653
No 24
>PRK11543 gutQ D-arabinose 5-phosphate isomerase; Provisional
Probab=78.84 E-value=0.76 Score=30.60 Aligned_cols=35 Identities=11% Similarity=0.157 Sum_probs=29.8
Q ss_pred CeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 28 RKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
..+|+++|.+..++..++.+.++. ++++.+.+++.
T Consensus 196 ~~~V~~im~~~~~~~~v~~~~sv~-~a~~~~~~~~~ 230 (321)
T PRK11543 196 LNKVHHLMRRDDAIPQVALTASVM-DAMLELSRTGL 230 (321)
T ss_pred HhHHHHHhccCCCCcEeCCCCCHH-HHHHHHHHcCC
Confidence 578999999987789999999999 78888876653
No 25
>cd04584 CBS_pair_ACT_assoc 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 in
Probab=77.64 E-value=1.3 Score=24.36 Aligned_cols=35 Identities=23% Similarity=0.224 Sum_probs=28.9
Q ss_pred ccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 26 LRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 26 ~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
..+.++.++|.+ ...+++.+.++. ++++.+.+.++
T Consensus 64 ~~~~~v~~~~~~--~~~~i~~~~~l~-~~~~~~~~~~~ 98 (121)
T cd04584 64 LLKMPVKEIMTK--DVITVHPLDTVE-EAALLMREHRI 98 (121)
T ss_pred hcCcCHHHHhhC--CCeEECCCCcHH-HHHHHHHHcCC
Confidence 456789999976 678999999999 69988887765
No 26
>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=76.81 E-value=2.4 Score=23.35 Aligned_cols=34 Identities=15% Similarity=0.132 Sum_probs=27.4
Q ss_pred CeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCCC
Q psy4850 28 RKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSESK 64 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~S 64 (64)
+.++.++|.+ ...+++.+.++. ++++.+.+++.+
T Consensus 55 ~~~v~~~~~~--~~~~v~~~~~l~-~al~~m~~~~~~ 88 (111)
T cd04603 55 TLKVCEVYIV--PVPIVYCDSKVT-DLLRIFRETEPP 88 (111)
T ss_pred ccChhheeec--CCcEECCCCcHH-HHHHHHHHcCCC
Confidence 3569999954 467899999998 799999988753
No 27
>PRK05567 inosine 5'-monophosphate dehydrogenase; Reviewed
Probab=76.69 E-value=4.2 Score=29.22 Aligned_cols=43 Identities=9% Similarity=0.121 Sum_probs=35.0
Q ss_pred HHHHHHHHhhhcccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCCC
Q psy4850 14 KDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSESK 64 (64)
Q Consensus 14 ~~e~~ml~~~l~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~S 64 (64)
+++.+++.++.++. ++|+ .++.+++.+.++. ++++.+.+.+|+
T Consensus 77 e~~~~~I~~vk~~~-----dim~--~~~v~i~~~~tv~-ea~~~m~~~~~~ 119 (486)
T PRK05567 77 EEQAEEVRKVKRSE-----SGVV--TDPVTVTPDTTLA-EALALMARYGIS 119 (486)
T ss_pred HHHHHHHHHhhhhh-----hccc--CCCeEeCCCCCHH-HHHHHHHHhCCC
Confidence 57789999988865 4555 6788899999999 799999888764
No 28
>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=76.26 E-value=1.8 Score=25.45 Aligned_cols=32 Identities=19% Similarity=0.096 Sum_probs=26.3
Q ss_pred ecceeee-------cccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 31 VGDVMTK-------LEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 31 v~dvM~P-------r~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
+.++|+| +..+.++..++++. ++++.+.++++
T Consensus 71 v~~i~~~~~~~~~~~~~~~~v~~~~~l~-ea~~~m~~~~~ 109 (133)
T cd04592 71 VSSVCTKGISYGGQECGLWTCTPDTDLT-TAKKLMEAKGV 109 (133)
T ss_pred HHHHhhhhhhhcccCCCCEEECCCCCHH-HHHHHHHHcCC
Confidence 4568875 46799999999999 79999988775
No 29
>PRK10892 D-arabinose 5-phosphate isomerase; Provisional
Probab=74.86 E-value=3.2 Score=27.77 Aligned_cols=36 Identities=17% Similarity=0.212 Sum_probs=29.9
Q ss_pred cccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 25 ELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 25 ~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.+.+.+|.++|++ ++.+++.+.++. ++++.+.+++.
T Consensus 265 ~~~~~~v~~im~~--~~~~v~~~~~l~-~a~~~m~~~~~ 300 (326)
T PRK10892 265 DLRQASIADVMTP--GGIRVRPGILAV-DALNLMQSRHI 300 (326)
T ss_pred CcccCCHHHhcCC--CCEEECCCCCHH-HHHHHHHHCCC
Confidence 3556789999987 678999999999 79999888764
No 30
>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=73.81 E-value=3.3 Score=22.35 Aligned_cols=35 Identities=17% Similarity=0.255 Sum_probs=28.0
Q ss_pred ccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 26 LRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 26 ~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
+...++.++|.+. ..+++.+.++. ++++.+.++++
T Consensus 55 ~~~~~v~~~~~~~--~~~v~~~~~~~-~~~~~~~~~~~ 89 (114)
T cd04613 55 YDLVVASDIMTKP--PVVVYPEDSLE-DALKKFEDSDY 89 (114)
T ss_pred cccEEHHHhccCC--CcEEcCCCCHH-HHHHHHhhCCc
Confidence 3447899999775 78888999998 79988887764
No 31
>cd04802 CBS_pair_3 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=71.07 E-value=3.5 Score=22.37 Aligned_cols=34 Identities=26% Similarity=0.350 Sum_probs=27.6
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.+.++.++|.+ .+.+++.+.++. ++++.+.+++.
T Consensus 56 ~~~~~~~~~~~--~~~~v~~~~~l~-~~~~~~~~~~~ 89 (112)
T cd04802 56 REVPVGEVMST--PLITIDPNASLN-EAAKLMAKHGI 89 (112)
T ss_pred ccCCHHHhcCC--CcEEECCCCCHH-HHHHHHHHcCC
Confidence 45689999965 588889999998 79999887664
No 32
>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=70.59 E-value=3.2 Score=24.05 Aligned_cols=33 Identities=12% Similarity=0.254 Sum_probs=26.9
Q ss_pred CeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 28 RKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
+.+++++|++ ....++.+.++. ++++.+.+.++
T Consensus 80 ~~~v~~~~~~--~~~~v~~~~~l~-~~~~~~~~~~~ 112 (135)
T cd04621 80 PLVAEDIMTE--EIITVSPNDDVV-DAAKLMLEANI 112 (135)
T ss_pred cccHHHhcCC--CCeEECCCCCHH-HHHHHHHHcCC
Confidence 5689999976 567899999998 79999887765
No 33
>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=70.44 E-value=3.5 Score=22.37 Aligned_cols=34 Identities=15% Similarity=0.196 Sum_probs=27.6
Q ss_pred ccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcC
Q psy4850 26 LRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSE 62 (64)
Q Consensus 26 ~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g 62 (64)
+.+..+.++|.+ .+.+++.+.++. ++++.+.+++
T Consensus 55 ~~~~~i~~~~~~--~~~~v~~~~~l~-~~~~~~~~~~ 88 (113)
T cd04615 55 LKDAKVREVMNS--PVITIDANDSIA-KARWLMSNNN 88 (113)
T ss_pred hcCCcHHHhccC--CceEECCCCcHH-HHHHHHHHcC
Confidence 456789999975 578899999998 7999887765
No 34
>COG3620 Predicted transcriptional regulator with C-terminal CBS domains [Transcription]
Probab=68.09 E-value=3.4 Score=26.62 Aligned_cols=54 Identities=17% Similarity=0.161 Sum_probs=37.1
Q ss_pred ccCCCCHHH---HHHHHhhhcc--cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCCC
Q psy4850 8 EFNDLEKDE---VNIISGALEL--RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSESK 64 (64)
Q Consensus 8 ~~g~l~~~e---~~ml~~~l~~--~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~S 64 (64)
+.|.+++.- ++|+.-..+- ...+++.+|+ ..++.+..+.++. ++++.+.+.|||
T Consensus 39 E~G~vdPrlSt~k~Il~aL~e~e~~~ita~~iM~--spvv~v~pdDsi~-~vv~lM~~~g~S 97 (187)
T COG3620 39 EAGKVDPRLSTVKRILEALEEAEKTRITAKTIMH--SPVVSVSPDDSIS-DVVNLMRDKGIS 97 (187)
T ss_pred hcCCCCccHHHHHHHHHHHHHhhcceEeHhhhcc--CCeeEECchhhHH-HHHHHHHHcCCc
Confidence 345555432 3333333333 3356778887 5789999999999 799999999998
No 35
>cd04589 CBS_pair_CAP-ED_DUF294_assoc_bac This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the bacterial 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. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or
Probab=67.84 E-value=3.3 Score=22.48 Aligned_cols=34 Identities=15% Similarity=0.166 Sum_probs=27.7
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.+.+++++|.+ +...++.+.++. ++++.+.++++
T Consensus 55 ~~~~i~~~~~~--~~~~v~~~~~l~-~~~~~~~~~~~ 88 (111)
T cd04589 55 SSTPVGEIATF--PLITVDPDDFLF-NALLLMTRHRI 88 (111)
T ss_pred CCCCHHHHhCC--CcEEECCCCcHH-HHHHHHHHhCc
Confidence 35678899965 688999999998 79999888765
No 36
>cd04594 CBS_pair_EriC_assoc_archaea This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the EriC CIC-type chloride channels in 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 do
Probab=67.74 E-value=4.9 Score=21.74 Aligned_cols=32 Identities=16% Similarity=0.174 Sum_probs=25.6
Q ss_pred eeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 29 KIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 29 ~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.++.++|.+. ..+++.+.++. ++++.+.+++.
T Consensus 50 ~~~~~~~~~~--~~~v~~~~~l~-~a~~~~~~~~~ 81 (104)
T cd04594 50 GDVVDYIVRG--IPYVRLTSTAE-EAWEVMMKNKT 81 (104)
T ss_pred cchhhhhhcC--CcEEcCCCCHH-HHHHHHHHcCc
Confidence 4578888654 67899999998 79999887764
No 37
>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=67.41 E-value=6.7 Score=20.95 Aligned_cols=32 Identities=19% Similarity=0.189 Sum_probs=25.2
Q ss_pred eeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 29 KIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 29 ~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.++.++|.|. ...++.+.++. ++++.+.+.++
T Consensus 51 ~~~~~~~~~~--~~~~~~~~~~~-~~~~~~~~~~~ 82 (106)
T cd04582 51 GCCGDHAEPF--KVTVSVDDDLR-IVLSRMFAHDM 82 (106)
T ss_pred cchhhhcccC--CEEECCCCCHH-HHHHHHHHCCC
Confidence 3588999764 56688999998 79999888765
No 38
>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=67.40 E-value=2.4 Score=23.91 Aligned_cols=37 Identities=30% Similarity=0.304 Sum_probs=27.6
Q ss_pred ccCeeecceeeecccEEEEe----CCCCCCHHHHHHHHhcCC
Q psy4850 26 LRRKIVGDVMTKLEDVYMLS----YDAILDFETVSEIMKSES 63 (64)
Q Consensus 26 ~~~~~v~dvM~Pr~~v~~l~----~~~~~~~e~l~~i~~~g~ 63 (64)
..+.++.++|.+...+..++ .++++. ++++.+.+++.
T Consensus 61 ~~~~~v~~im~~~~~~~~~~~~~~~~~~l~-~~l~~m~~~~~ 101 (126)
T cd04640 61 RSELTVADVMTPKEDLKALDLEELENASVG-DVVETLKASGR 101 (126)
T ss_pred chheEHHHhcCchhhhccccHHHhccCcHH-HHHHHHHHCCC
Confidence 35677999998766555654 577887 69999988775
No 39
>cd04633 CBS_pair_20 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=66.96 E-value=3.7 Score=22.57 Aligned_cols=35 Identities=23% Similarity=0.382 Sum_probs=28.4
Q ss_pred ccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 26 LRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 26 ~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
+.+.++.++|.+ ....++.+.++. ++++.+.+.++
T Consensus 64 ~~~~~~~~~~~~--~~~~v~~~~~l~-~~~~~~~~~~~ 98 (121)
T cd04633 64 IRNLPVSDIMTR--PVITIEPDTSVS-DVASLMLENNI 98 (121)
T ss_pred hhccCHHHHccC--CceEECCCCcHH-HHHHHHHHcCC
Confidence 356688899964 688999999999 79999988775
No 40
>PF14044 NETI: NETI protein
Probab=66.94 E-value=5 Score=21.30 Aligned_cols=22 Identities=5% Similarity=0.202 Sum_probs=18.9
Q ss_pred EEEeCCCCCCHHHHHHHHhcCCC
Q psy4850 42 YMLSYDAILDFETVSEIMKSESK 64 (64)
Q Consensus 42 ~~l~~~~~~~~e~l~~i~~~g~S 64 (64)
|-+..+.+++ +.|+++.+.||.
T Consensus 2 FeV~enETI~-~CL~RM~~eGY~ 23 (57)
T PF14044_consen 2 FEVEENETIS-DCLARMKKEGYM 23 (57)
T ss_pred eeccCCCcHH-HHHHHHHHcCCC
Confidence 4567889999 799999999995
No 41
>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=66.68 E-value=4 Score=23.10 Aligned_cols=31 Identities=23% Similarity=0.347 Sum_probs=25.6
Q ss_pred eecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 30 IVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 30 ~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
++.++|.+ ++..++.+.++. ++++.+.+.|+
T Consensus 79 ~v~~~~~~--~~~~v~~~~~l~-~~~~~~~~~~~ 109 (132)
T cd04636 79 KVEEIMTK--KVITVDEDTTIE-DVARIMSKKNI 109 (132)
T ss_pred CHHHhccC--CceEECCCCcHH-HHHHHHHHCCC
Confidence 78889964 578899999998 79998888765
No 42
>cd04586 CBS_pair_BON_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection proteins. It is also found in some secretins and a group of potential haemolysins. Its likely function is attachment to phospholipid membranes. 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=66.04 E-value=4 Score=23.20 Aligned_cols=35 Identities=26% Similarity=0.266 Sum_probs=28.9
Q ss_pred ccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 26 LRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 26 ~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
....++.++|.+ ...+++.+.++. ++++.+.+.|.
T Consensus 78 ~~~~~v~~~~~~--~~~~v~~~~~~~-~~~~~~~~~~~ 112 (135)
T cd04586 78 SHGRKVADVMTR--PVVTVGEDTPLA-EVAELMEEHRI 112 (135)
T ss_pred hcCCCHHHHhCC--CceEeCCCCcHH-HHHHHHHHcCC
Confidence 456789999965 678899999998 79999888775
No 43
>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=65.77 E-value=5.8 Score=21.42 Aligned_cols=34 Identities=24% Similarity=0.262 Sum_probs=27.9
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.+.++.++|.+ ...+++.+.++. ++++.+.+.+.
T Consensus 54 ~~~~~~~~~~~--~~~~v~~~~~l~-~~~~~~~~~~~ 87 (110)
T cd04595 54 GHAPVKDYMST--DVVTVPPDTPLS-EVQELMVEHDI 87 (110)
T ss_pred ccCcHHHHhcC--CCEEECCCCcHH-HHHHHHHHcCC
Confidence 56789999975 678899999998 69998887764
No 44
>cd04622 CBS_pair_9 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=65.21 E-value=5.1 Score=21.66 Aligned_cols=36 Identities=28% Similarity=0.375 Sum_probs=27.3
Q ss_pred cccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 25 ELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 25 ~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.....++.++|.+ ....++.+.++. ++++.+.++++
T Consensus 54 ~~~~~~~~~~~~~--~~~~v~~~~~~~-~~~~~~~~~~~ 89 (113)
T cd04622 54 DPDTTTVGDVMTR--GVVTVTEDDDVD-EAARLMREHQV 89 (113)
T ss_pred CcccCCHHHhccC--CccEECCCCCHH-HHHHHHHHcCC
Confidence 3344459999965 577889999998 69988877664
No 45
>cd04599 CBS_pair_GGDEF_assoc2 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and is thought to be involved in regulating cell surface adhesiveness in bacteria. 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=64.82 E-value=4.6 Score=21.54 Aligned_cols=33 Identities=27% Similarity=0.348 Sum_probs=27.2
Q ss_pred CeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 28 RKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
+..+.++|.+ ....++.+.++. ++++.+.++++
T Consensus 50 ~~~~~~~~~~--~~~~v~~~~~l~-~~~~~~~~~~~ 82 (105)
T cd04599 50 NRLVADAMTR--EVVTISPEASLL-EAKRLMEEKKI 82 (105)
T ss_pred cCCHHHHccC--CCEEECCCCCHH-HHHHHHHHcCC
Confidence 4568899965 688899999998 79999988875
No 46
>PRK01862 putative voltage-gated ClC-type chloride channel ClcB; Provisional
Probab=64.19 E-value=3 Score=30.31 Aligned_cols=35 Identities=9% Similarity=0.131 Sum_probs=28.0
Q ss_pred ccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 26 LRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 26 ~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
++..+|+|+|+|. ...++.+.++. ++++.+.++++
T Consensus 444 L~~~~V~dim~~~--~~~v~~~~tl~-ea~~~l~~~~~ 478 (574)
T PRK01862 444 LRTTQMRELIQPA--QTVVPPTASVA-DMTRVFLEYPV 478 (574)
T ss_pred HhhCcHHHHhcCC--CceeCCCCCHH-HHHHHHHhCCC
Confidence 5678999999874 45688899998 68988887764
No 47
>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=63.72 E-value=5.1 Score=21.69 Aligned_cols=34 Identities=18% Similarity=0.180 Sum_probs=26.9
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.+.++.++|.+ ....++.+.++. ++++.+.+++.
T Consensus 56 ~~~~v~~~~~~--~~~~v~~~~~l~-~a~~~m~~~~~ 89 (112)
T cd04625 56 LDTTVRAIMNP--EPIVASPDDSID-EVRRLMVERHL 89 (112)
T ss_pred hcCCHHHHhCC--CCeEECCCCCHH-HHHHHHHHcCC
Confidence 45679999954 577899999998 79999887654
No 48
>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=63.66 E-value=5 Score=21.46 Aligned_cols=33 Identities=9% Similarity=0.161 Sum_probs=25.6
Q ss_pred CeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 28 RKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
+..++++|.++ ...++.+.++. ++++.+.+++.
T Consensus 51 ~~~~~~~~~~~--~~~v~~~~~l~-~~~~~~~~~~~ 83 (107)
T cd04610 51 DETVEEIMSKD--LVVAVPEMDIM-DAARVMFRTGI 83 (107)
T ss_pred cccHHHhCCCC--CeEECCCCCHH-HHHHHHHHhCC
Confidence 45688999654 67788999998 68988877653
No 49
>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=61.48 E-value=4.2 Score=22.76 Aligned_cols=35 Identities=17% Similarity=0.238 Sum_probs=27.8
Q ss_pred ccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 26 LRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 26 ~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
+.+..++++|.+ ++.+++.+.++. ++++.+.++++
T Consensus 68 ~~~~~~~~~~~~--~~~~v~~~~~l~-~~l~~~~~~~~ 102 (128)
T cd04632 68 MLDLPVYDAMSS--PVITASPNDSVR-DAVDRMLENDD 102 (128)
T ss_pred hccCcHHHHhcC--CCceECCCCcHH-HHHHHHHhCCC
Confidence 345678999964 588899999998 79998887764
No 50
>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=60.57 E-value=4 Score=22.20 Aligned_cols=32 Identities=25% Similarity=0.206 Sum_probs=26.0
Q ss_pred CeeecceeeecccEEEEeCCCCCCHHHHHHHHhcC
Q psy4850 28 RKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSE 62 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g 62 (64)
+.++.++|.|. ..+++.+.++. ++++.+.+.+
T Consensus 62 ~~~v~~~~~~~--~~~v~~~~~l~-~a~~~~~~~~ 93 (116)
T cd04643 62 DLKVIDVMNTD--VPVIIDDADIE-EILHLLIDQP 93 (116)
T ss_pred CCcHHHHhcCC--CceecCCCCHH-HHHHHHhcCC
Confidence 67899999774 77788999998 6888887654
No 51
>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=59.16 E-value=7.7 Score=20.73 Aligned_cols=33 Identities=21% Similarity=0.227 Sum_probs=24.0
Q ss_pred CeeecceeeecccEEEEeC-CCCCCHHHHHHHHhcCC
Q psy4850 28 RKIVGDVMTKLEDVYMLSY-DAILDFETVSEIMKSES 63 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~-~~~~~~e~l~~i~~~g~ 63 (64)
+.++.++|.+...+ +.. +.++. ++++.+.+.++
T Consensus 53 ~~~v~~~~~~~~~~--~~~~~~~l~-~~~~~~~~~~~ 86 (110)
T cd04601 53 DKPVSEVMTPENLL--TTVEGTSLE-EALELLHEHKI 86 (110)
T ss_pred CCCHHHhcccCceE--EecCCCCHH-HHHHHHHHhCC
Confidence 46788999665433 344 88888 79999988775
No 52
>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=59.01 E-value=7.8 Score=21.14 Aligned_cols=35 Identities=20% Similarity=0.135 Sum_probs=27.5
Q ss_pred ccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 26 LRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 26 ~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
..+.++.++|.+ .+..++.+.++. ++++.+.+.+.
T Consensus 57 ~~~~~v~~~~~~--~~~~v~~~~~l~-~~~~~~~~~~~ 91 (114)
T cd04630 57 PDRVNVYEIMTK--PLISVSPDMDIK-YCARLMERTNI 91 (114)
T ss_pred CCccCHHHHhcC--CCeeECCCCCHH-HHHHHHHHcCC
Confidence 345678999953 688999999998 79998877653
No 53
>COG3448 CBS-domain-containing membrane protein [Signal transduction mechanisms]
Probab=58.80 E-value=6.8 Score=27.67 Aligned_cols=36 Identities=19% Similarity=0.315 Sum_probs=31.7
Q ss_pred cccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 25 ELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 25 ~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.+++.+..+||.+ +|++++.+++++ ...+++.+++.
T Consensus 241 ~~~~LtcadIMSr--dVvtv~~~ts~d-hA~~ll~~H~i 276 (382)
T COG3448 241 RMGELTCADIMSR--DVVTVSTDTSID-HARKLLQEHRI 276 (382)
T ss_pred HhccccHHHhcCc--cceecCCcCChH-HHHHHHHHcCc
Confidence 5789999999986 799999999999 69999988864
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=57.58 E-value=10 Score=20.37 Aligned_cols=32 Identities=19% Similarity=0.205 Sum_probs=25.6
Q ss_pred eeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 29 KIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 29 ~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
+++.++|.+ ...+++.+.++. ++++.+.+++.
T Consensus 58 ~~v~~i~~~--~~~~v~~~~~l~-~~~~~~~~~~~ 89 (113)
T cd04587 58 TLVERVMTP--NPVCATSDTPVL-EALHLMVQGKF 89 (113)
T ss_pred CCHHHhcCC--CCeEEcCCCCHH-HHHHHHHHcCC
Confidence 678899954 567899999998 69999887663
No 55
>cd04634 CBS_pair_21 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=56.18 E-value=6.7 Score=22.71 Aligned_cols=34 Identities=26% Similarity=0.398 Sum_probs=27.2
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
....+.++|.+ ...+++.+.++. +++..+.+.++
T Consensus 87 ~~~~v~~~~~~--~~~~v~~~~~l~-~a~~~~~~~~~ 120 (143)
T cd04634 87 GKMKVRDIMTK--KVITISPDASIE-DAAELMVRHKI 120 (143)
T ss_pred hcCCHHHHcCC--CCeEECCCCcHH-HHHHHHHHcCC
Confidence 45678889965 578999999998 79998887765
No 56
>PRK14869 putative manganese-dependent inorganic pyrophosphatase; Provisional
Probab=55.51 E-value=8.6 Score=27.73 Aligned_cols=34 Identities=29% Similarity=0.336 Sum_probs=29.2
Q ss_pred CeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 28 RKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
...|+++|+ +.+...++.+.++. ++.+.+.++++
T Consensus 245 ~~~V~~iM~-~~~~~~~~~~~~~~-~~~~~m~~~~~ 278 (546)
T PRK14869 245 SIPVSYIMT-TEDLVTFSKDDYLE-DVKEVMLKSRY 278 (546)
T ss_pred CCCHHHhcc-CCCcEEECCCCcHH-HHHHHHHhcCC
Confidence 578999998 46789999999999 79999988775
No 57
>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=55.38 E-value=9 Score=21.05 Aligned_cols=33 Identities=24% Similarity=0.361 Sum_probs=26.6
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSE 62 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g 62 (64)
....+.++|.+ ...+++.+.++. ++++.+.+.+
T Consensus 67 ~~~~i~~~~~~--~~~~~~~~~~l~-~~~~~~~~~~ 99 (124)
T cd04600 67 KPETVGDIMSP--PVVTVRPDTPIA-ELVPLLADGG 99 (124)
T ss_pred ccccHHHhccC--CCeeeCCCCcHH-HHHHHHHhcC
Confidence 34578899965 688899999999 7999988765
No 58
>cd04596 CBS_pair_DRTGG_assoc 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=55.13 E-value=8.3 Score=20.83 Aligned_cols=34 Identities=12% Similarity=0.112 Sum_probs=27.2
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.+..+.++|.+ ...+++.+.++. ++++.+.+++.
T Consensus 51 ~~~~v~~~~~~--~~~~v~~~~~l~-~~~~~~~~~~~ 84 (108)
T cd04596 51 PDTTIEKVMTK--NPITVNPKTSVA-SVAHMMIWEGI 84 (108)
T ss_pred ccccHHHHhcC--CCeEECCCCCHH-HHHHHHHHcCC
Confidence 45679999975 577899999998 79998887653
No 59
>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=54.72 E-value=9.7 Score=20.86 Aligned_cols=34 Identities=26% Similarity=0.353 Sum_probs=26.8
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
....+.++|. .....++.+.++. ++++.+.+.+.
T Consensus 65 ~~~~v~~~~~--~~~~~v~~~~~~~-~~~~~~~~~~~ 98 (122)
T cd04803 65 RDVPVAEVMK--TDVLTVTPDTPLR-EAAEIMVENKI 98 (122)
T ss_pred cCcCHHHhhC--CCCeEeCCCCcHH-HHHHHHHHcCC
Confidence 4667888884 4677899999998 79998887664
No 60
>cd04598 CBS_pair_GGDEF_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and is thought to be involved in regulating cell surface adhesiveness in bacteria. 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=54.56 E-value=7.9 Score=21.14 Aligned_cols=33 Identities=24% Similarity=0.306 Sum_probs=26.7
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSE 62 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g 62 (64)
.+.++.++|.+ ....++.+.++. +++..+.+++
T Consensus 59 ~~~~v~~~~~~--~~~~v~~~~~~~-~~~~~~~~~~ 91 (119)
T cd04598 59 GKKPVSEVMDP--DPLIVEADTPLE-EVSRLATGRD 91 (119)
T ss_pred cCCcHHHhcCC--CcEEecCCCCHH-HHHHHHHcCC
Confidence 56789999965 588899999998 6888887665
No 61
>PRK14869 putative manganese-dependent inorganic pyrophosphatase; Provisional
Probab=54.40 E-value=6.6 Score=28.30 Aligned_cols=33 Identities=18% Similarity=0.145 Sum_probs=28.5
Q ss_pred CeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 28 RKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
..+|+++|++ ++..++.+.++. ++++.+.++++
T Consensus 67 ~~~V~dim~~--~~~~v~~~~~l~-~a~~~m~~~~~ 99 (546)
T PRK14869 67 KPQVRDLEID--KPVTVSPDTSLK-EAWNLMDENNV 99 (546)
T ss_pred CCcHHHhcCC--CCcEECCCCcHH-HHHHHHHHcCC
Confidence 3689999985 789999999999 79999988775
No 62
>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=53.59 E-value=9.5 Score=20.57 Aligned_cols=33 Identities=24% Similarity=0.322 Sum_probs=26.9
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSE 62 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g 62 (64)
.+..+.++|.+ ....++.+.++. ++++.+.+.+
T Consensus 58 ~~~~v~~~~~~--~~~~v~~~~~l~-~~~~~~~~~~ 90 (114)
T cd04629 58 GVATVRDIMTT--EVLTVSPDDSIV-DLAQLMLKAK 90 (114)
T ss_pred CCccHHHHhcc--CceEECCCCcHH-HHHHHHHHhC
Confidence 35678899975 578899999999 7999888765
No 63
>cd04800 CBS_pair_CAP-ED_DUF294_PBI_assoc2 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 pa
Probab=53.22 E-value=10 Score=20.37 Aligned_cols=33 Identities=21% Similarity=0.188 Sum_probs=26.8
Q ss_pred CeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 28 RKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
+.++.++|.+ .+.+++.+.++. ++++.+.+++.
T Consensus 56 ~~~i~~~~~~--~~~~v~~~~~l~-~~~~~~~~~~~ 88 (111)
T cd04800 56 DTPVSEVMTA--PPITIPPDATVF-EALLLMLERGI 88 (111)
T ss_pred cCCHHHHhCC--CCeEECCCCcHH-HHHHHHHHcCC
Confidence 4678898854 688999999999 79999888764
No 64
>cd04635 CBS_pair_22 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=53.22 E-value=9.8 Score=20.83 Aligned_cols=34 Identities=18% Similarity=0.323 Sum_probs=26.9
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
...++.++|. .+..+++.+.++. ++++.+.+++.
T Consensus 65 ~~~~~~~~~~--~~~~~v~~~~~l~-~~~~~~~~~~~ 98 (122)
T cd04635 65 ASPTVEKIMS--TPVYSVTPDDSIA-TAVELMLEHDI 98 (122)
T ss_pred ccCcHHHHhc--CCCeeECCCCCHH-HHHHHHHHcCC
Confidence 4567888885 4678899999998 79998888764
No 65
>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=52.96 E-value=11 Score=20.46 Aligned_cols=33 Identities=12% Similarity=0.155 Sum_probs=26.3
Q ss_pred CeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 28 RKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
+..+.++|.+ .+..++.+.++. ++++.+.+++.
T Consensus 57 ~~~v~~~~~~--~~~~v~~~~~l~-~~~~~~~~~~~ 89 (113)
T cd04607 57 DDPVSEVMNR--NPITAKVGSSRE-EILALMRERSI 89 (113)
T ss_pred CCCHHHhhcC--CCEEEcCCCCHH-HHHHHHHHCCC
Confidence 3568899964 477899999998 79999888754
No 66
>cd04611 CBS_pair_PAS_GGDEF_DUF1_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and is thought to be involved in regulating cell surface adhesiveness in bacteria. 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 CB
Probab=52.87 E-value=9.5 Score=20.39 Aligned_cols=34 Identities=18% Similarity=0.217 Sum_probs=27.2
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.+..+.++|.+ .+..++.+.++. ++++.+.+.+.
T Consensus 54 ~~~~v~~~~~~--~~~~~~~~~~l~-~~l~~~~~~~~ 87 (111)
T cd04611 54 LQTPVGEVMSS--PLLTVPADTSLY-DARQLMREHGI 87 (111)
T ss_pred CCcCHHHhcCC--CceEECCCCCHH-HHHHHHHHcCC
Confidence 46778999865 678899999998 69998887653
No 67
>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=52.57 E-value=7.9 Score=21.32 Aligned_cols=33 Identities=15% Similarity=0.331 Sum_probs=26.5
Q ss_pred CeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 28 RKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
..++.++|.+ .+..++.+.++. ++++.+.+.+.
T Consensus 69 ~~~~~~~~~~--~~~~v~~~~~l~-~~~~~~~~~~~ 101 (125)
T cd04631 69 NEPVRSIMTR--NVITITPDDSIK-DAAELMLEKRV 101 (125)
T ss_pred hcCHHHHhcC--CceEeCCCCcHH-HHHHHHHHcCC
Confidence 4578888864 689999999998 68988887653
No 68
>TIGR00400 mgtE Mg2+ transporter (mgtE). This family of prokaryotic proteins models a class of Mg++ transporter first described in Bacillus firmus. May form a homodimer.
Probab=51.39 E-value=8.9 Score=27.23 Aligned_cols=34 Identities=18% Similarity=0.189 Sum_probs=28.2
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.+..++++|+| +.++++.+.++. ++++.+.++++
T Consensus 193 ~~~~v~~im~~--~~~~v~~~~~~~-eal~~m~~~~~ 226 (449)
T TIGR00400 193 PEEILSSIMRS--SVFSIVGVNDQE-EVARLIQKYDF 226 (449)
T ss_pred CCCcHHHHhCC--CCeeECCCCCHH-HHHHHHHHcCC
Confidence 45689999987 577899999998 79999887764
No 69
>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=51.30 E-value=10 Score=20.78 Aligned_cols=34 Identities=18% Similarity=0.130 Sum_probs=27.4
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.+.++.++|.+ ....++.+.++. ++++.+.+++.
T Consensus 57 ~~~~v~~~~~~--~~~~v~~~~~l~-~a~~~m~~~~~ 90 (114)
T cd04619 57 CTAPVENVMTR--AVVSCRPGDLLH-DVWQVMKQRGL 90 (114)
T ss_pred ccCCHHHHhcC--CCeeECCCCCHH-HHHHHHHHcCC
Confidence 34678999954 677899999998 79999888765
No 70
>cd04626 CBS_pair_13 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=50.10 E-value=13 Score=20.04 Aligned_cols=33 Identities=18% Similarity=0.384 Sum_probs=26.6
Q ss_pred CeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 28 RKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
+.++.++|. ..+..++.+.++. ++++.+.+++.
T Consensus 56 ~~~v~~~~~--~~~~~v~~~~~l~-~~~~~~~~~~~ 88 (111)
T cd04626 56 EKKVFNIVS--QDVFYVNEEDTID-EALDIMREKQI 88 (111)
T ss_pred cCcHHHHhc--CCcEEEcCCCcHH-HHHHHHHHcCC
Confidence 457888885 4678899999998 79999888764
No 71
>cd04602 CBS_pair_IMPDH_2 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 pigmentos
Probab=49.79 E-value=12 Score=20.40 Aligned_cols=35 Identities=20% Similarity=0.204 Sum_probs=26.8
Q ss_pred CeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 28 RKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
...++++|.+....+..+.+.++. ++++.+.+++.
T Consensus 56 ~~~v~~~~~~~~~~~~~~~~~~l~-~~l~~~~~~~~ 90 (114)
T cd04602 56 ETPLSEVMTPREVLVVAPTGITLE-EANEILRESKK 90 (114)
T ss_pred CCCHHHhcCCCceEEECCCCCCHH-HHHHHHHhcCC
Confidence 345889998777766666699998 69998887764
No 72
>COG0517 FOG: CBS domain [General function prediction only]
Probab=49.69 E-value=28 Score=18.68 Aligned_cols=41 Identities=24% Similarity=0.319 Sum_probs=29.6
Q ss_pred HHHHHhhhcccCe--eecceeeecccEEEEeCCCCCCHHHHHHHHh
Q psy4850 17 VNIISGALELRRK--IVGDVMTKLEDVYMLSYDAILDFETVSEIMK 60 (64)
Q Consensus 17 ~~ml~~~l~~~~~--~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~ 60 (64)
++++.....-... .+.++|++ .+++++.+.++. ++.+.+.+
T Consensus 48 ~di~~~~~~~~~~~~~v~~v~~~--~~~~~~~~~~~~-~~~~~m~~ 90 (117)
T COG0517 48 RDILRALAAGGKRLLPVKEVMTK--PVVTVDPDTPLE-EALELMVE 90 (117)
T ss_pred HHHHHHHhccCCccccHHHhccC--CcEEECCCCCHH-HHHHHHHH
Confidence 3444444433333 58999998 888999999998 68888776
No 73
>TIGR01302 IMP_dehydrog inosine-5'-monophosphate dehydrogenase. This model describes a rather tightly conserved cluster of IMP dehydrogenase sequences, many of which are characterized. The model excludes two related families of proteins proposed also to be IMP dehydrogenases, but without characterized members. These are related families are the subject of separate models.
Probab=49.62 E-value=10 Score=27.06 Aligned_cols=35 Identities=26% Similarity=0.355 Sum_probs=29.0
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.+.+++++|+| .++.+++.+.++. ++++.+.+++.
T Consensus 141 ~~~~V~dvm~~-~~~~~V~~~~sl~-eal~~m~~~~~ 175 (450)
T TIGR01302 141 KGKPVSEVMTR-EEVITVPEGIDLE-EALKVLHEHRI 175 (450)
T ss_pred CCCCHHHhhCC-CCCEEECCCCcHH-HHHHHHHHcCC
Confidence 35679999986 5889999999999 79998887764
No 74
>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=49.48 E-value=21 Score=19.42 Aligned_cols=24 Identities=0% Similarity=0.131 Sum_probs=19.5
Q ss_pred ccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 39 EDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 39 ~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
++++.++.+.++. ++.+.+.++++
T Consensus 1 ~~~~~v~~~~~l~-~a~~~~~~~~~ 24 (98)
T cd04618 1 SKLVVFDTKLPVK-KAFNALVENGI 24 (98)
T ss_pred CeEEEECCCCcHH-HHHHHHHHcCC
Confidence 3678899999998 68888887764
No 75
>COG2524 Predicted transcriptional regulator, contains C-terminal CBS domains [Transcription]
Probab=48.89 E-value=7.8 Score=26.67 Aligned_cols=40 Identities=18% Similarity=0.248 Sum_probs=33.3
Q ss_pred HhhhcccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 21 SGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 21 ~~~l~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.++..+...+|.++|++ +..++..+.++. |....+.+.|.
T Consensus 164 ~~m~siPk~~V~~~~s~--~~i~v~~d~tl~-eaak~f~~~~i 203 (294)
T COG2524 164 SKMVSIPKEKVKNLMSK--KLITVRPDDTLR-EAAKLFYEKGI 203 (294)
T ss_pred eeeeecCcchhhhhccC--CceEecCCccHH-HHHHHHHHcCc
Confidence 45567788889999986 678899999999 79999998875
No 76
>PF08899 DUF1844: Domain of unknown function (DUF1844); InterPro: IPR014995 This group of proteins are functionally uncharacterised.
Probab=47.62 E-value=20 Score=19.88 Aligned_cols=18 Identities=22% Similarity=0.455 Sum_probs=15.6
Q ss_pred cccCCCCHHHHHHHHhhh
Q psy4850 7 TEFNDLEKDEVNIISGAL 24 (64)
Q Consensus 7 ~~~g~l~~~e~~ml~~~l 24 (64)
.-.|-|+++|.++|.+++
T Consensus 50 KTkGNL~~~E~~lL~~~L 67 (74)
T PF08899_consen 50 KTKGNLDEEEERLLESAL 67 (74)
T ss_pred HHccCCCHHHHHHHHHHH
Confidence 457889999999999986
No 77
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=45.82 E-value=17 Score=17.60 Aligned_cols=23 Identities=13% Similarity=0.196 Sum_probs=15.3
Q ss_pred CCCHHHHHHHHhhhcccCeeecce
Q psy4850 11 DLEKDEVNIISGALELRRKIVGDV 34 (64)
Q Consensus 11 ~l~~~e~~ml~~~l~~~~~~v~dv 34 (64)
.|++.|+++|.-.+ +.+.+..+|
T Consensus 4 ~L~~~er~vi~~~y-~~~~t~~eI 26 (50)
T PF04545_consen 4 QLPPREREVIRLRY-FEGLTLEEI 26 (50)
T ss_dssp TS-HHHHHHHHHHH-TST-SHHHH
T ss_pred hCCHHHHHHHHHHh-cCCCCHHHH
Confidence 57888899888887 666665554
No 78
>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=45.73 E-value=17 Score=19.77 Aligned_cols=33 Identities=15% Similarity=0.169 Sum_probs=26.0
Q ss_pred CeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 28 RKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
...++++|.+ ....++.+.++. ++++.+.+++.
T Consensus 57 ~~~~~~~~~~--~~~~v~~~~~l~-~~l~~~~~~~~ 89 (115)
T cd04593 57 PSAVDEVATP--PLLTVHPDEPLA-HALDRMASRGL 89 (115)
T ss_pred cccHHHhccC--CceEECCCCCHH-HHHHHHHHcCC
Confidence 3447888864 688899999998 79999887764
No 79
>TIGR00393 kpsF KpsF/GutQ family protein. This model describes a number of closely related proteins with the phosphosugar-binding domain SIS (Sugar ISomerase) followed by two copies of the CBS (named after Cystathionine Beta Synthase) domain. One is GutQ, a protein of the glucitol operon. Another is KpsF, a virulence factor involved in capsular polysialic acid biosynthesis in some pathogenic strains of E. coli.
Probab=45.22 E-value=13 Score=23.86 Aligned_cols=34 Identities=24% Similarity=0.221 Sum_probs=27.6
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.+.+++++|.+ ....++.+.++. ++++.+.+.+.
T Consensus 218 ~~~~v~~im~~--~~~~v~~~~~l~-~a~~~m~~~~~ 251 (268)
T TIGR00393 218 LKSEVRDFMTL--GPKTFKLDALLL-EALEFLERRKI 251 (268)
T ss_pred ccCcHHHhCCC--CCeEECCCCcHH-HHHHHHHHcCC
Confidence 35679999965 477899999998 79999988764
No 80
>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=45.19 E-value=23 Score=19.43 Aligned_cols=24 Identities=8% Similarity=0.124 Sum_probs=19.1
Q ss_pred cEEEEeCCCCCCHHHHHHHHhcCCC
Q psy4850 40 DVYMLSYDAILDFETVSEIMKSESK 64 (64)
Q Consensus 40 ~v~~l~~~~~~~~e~l~~i~~~g~S 64 (64)
++..++.+.++. ++++.+.+++++
T Consensus 2 ~~~~i~~~~~l~-~a~~~~~~~~~~ 25 (120)
T cd04641 2 NIATARPDTPLI-DVLDMLVERRVS 25 (120)
T ss_pred CcEEEcCCCCHH-HHHHHHHHcCCC
Confidence 567888899998 688888887754
No 81
>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=45.10 E-value=25 Score=18.81 Aligned_cols=24 Identities=29% Similarity=0.371 Sum_probs=17.2
Q ss_pred ccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 39 EDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 39 ~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
+++..++.+.++. ++++.+.+.++
T Consensus 1 ~~~~~i~~~~~i~-~a~~~~~~~~~ 24 (111)
T cd04590 1 TDIVALDADDTLE-EILELIAESGH 24 (111)
T ss_pred CceEEEcCCCCHH-HHHHHHhhCCC
Confidence 3567788888888 67777766654
No 82
>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=44.36 E-value=14 Score=19.79 Aligned_cols=34 Identities=24% Similarity=0.215 Sum_probs=27.1
Q ss_pred cCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
.+..+.++|. ..+..++.+.++. ++++.+.+++.
T Consensus 54 ~~~~v~~~~~--~~~~~i~~~~~~~-~~~~~~~~~~~ 87 (111)
T cd04639 54 PDAPVRGVMR--RDFPTVSPSATLD-AVLRLMQQGGA 87 (111)
T ss_pred CCCcHHHHhc--CCCcEECCCCcHH-HHHHHHHhcCC
Confidence 3457889995 4688999999998 79988887654
No 83
>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=43.42 E-value=20 Score=19.02 Aligned_cols=31 Identities=29% Similarity=0.486 Sum_probs=24.8
Q ss_pred eeecceeeecccEEEEeCCCCCCHHHHHHHHhcC
Q psy4850 29 KIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSE 62 (64)
Q Consensus 29 ~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g 62 (64)
..+.++|.+ .+..++.+.++. ++++.+.+.+
T Consensus 54 ~~v~~~~~~--~~~~v~~~~~~~-~~~~~~~~~~ 84 (109)
T cd04583 54 KSLEDIMLE--DVFTVQPDASLR-DVLGLVLKRG 84 (109)
T ss_pred CcHhHhhcC--CceEECCCCcHH-HHHHHHHHcC
Confidence 568888965 578899999998 6888887754
No 84
>TIGR01303 IMP_DH_rel_1 IMP dehydrogenase family protein. This model represents a family of proteins, often annotated as a putative IMP dehydrogenase, related to IMP dehydrogenase and GMP reductase and restricted to the high GC Gram-positive bacteria. All species in which a member is found so far (Corynebacterium glutamicum, Mycobacterium tuberculosis, Streptomyces coelicolor, etc.) also have IMP dehydrogenase as described by TIGRFAMs entry TIGR01302.
Probab=41.85 E-value=16 Score=26.46 Aligned_cols=32 Identities=16% Similarity=0.184 Sum_probs=27.3
Q ss_pred eeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 29 KIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 29 ~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
..++++|++ ++.+++.+.++. ++++.+.+++.
T Consensus 146 ~~V~dIMt~--~litv~~~~sL~-eAl~lM~~~~i 177 (475)
T TIGR01303 146 TQVRDIMST--DLVTAPADTEPR-KAFDLLEHAPR 177 (475)
T ss_pred CCHHHHccC--CceEeCCCCcHH-HHHHHHHHcCC
Confidence 569999985 688999999998 79999888764
No 85
>cd04638 CBS_pair_25 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=41.73 E-value=30 Score=18.40 Aligned_cols=23 Identities=9% Similarity=0.177 Sum_probs=15.1
Q ss_pred cEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 40 DVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 40 ~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
++++++.+.++. +++..+.+.++
T Consensus 2 ~~~~~~~~~~~~-~~~~~~~~~~~ 24 (106)
T cd04638 2 NVVYVTLPGTRD-DVLELLKEYKV 24 (106)
T ss_pred CcEEECCCCCHH-HHHHHHHHcCC
Confidence 566777777776 56666665554
No 86
>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=41.40 E-value=26 Score=18.88 Aligned_cols=33 Identities=21% Similarity=0.206 Sum_probs=23.5
Q ss_pred cCeeecceeeecccEEEEeCC--CCCCHHHHHHHHhcC
Q psy4850 27 RRKIVGDVMTKLEDVYMLSYD--AILDFETVSEIMKSE 62 (64)
Q Consensus 27 ~~~~v~dvM~Pr~~v~~l~~~--~~~~~e~l~~i~~~g 62 (64)
.+.++.++|.+ .+..++.+ .++. ++++.+.+++
T Consensus 56 ~~~~i~~~~~~--~~~~v~~~~~~~l~-~a~~~~~~~~ 90 (115)
T cd04620 56 SDLPIGEVMTQ--PVVTLQESEIQDIF-TALSLFRQHQ 90 (115)
T ss_pred cccCHHHhcCC--CcEEEecccccCHH-HHHHHHHHhC
Confidence 45678899965 56667665 5676 6888888765
No 87
>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=38.53 E-value=35 Score=18.92 Aligned_cols=24 Identities=13% Similarity=0.109 Sum_probs=18.1
Q ss_pred cEEEEeCCCCCCHHHHHHHHhcCCC
Q psy4850 40 DVYMLSYDAILDFETVSEIMKSESK 64 (64)
Q Consensus 40 ~v~~l~~~~~~~~e~l~~i~~~g~S 64 (64)
++..++.+.++. ++++.+.+.+++
T Consensus 2 ~~~~v~~~~~~~-~a~~~~~~~~~~ 25 (126)
T cd04642 2 KVVSIDSDERVL-DAFKLMRKNNIS 25 (126)
T ss_pred CeEEECCCccHH-HHHHHHHHhCCC
Confidence 567788888888 688877766653
No 88
>KOG2550|consensus
Probab=38.45 E-value=19 Score=26.43 Aligned_cols=34 Identities=24% Similarity=0.277 Sum_probs=25.1
Q ss_pred CCHHHHHHHHhhhcccCeeecceeeecccEEEEeCCCCCC
Q psy4850 12 LEKDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAILD 51 (64)
Q Consensus 12 l~~~e~~ml~~~l~~~~~~v~dvM~Pr~~v~~l~~~~~~~ 51 (64)
++..+.+.+ +=..+-+.+||+|+. +..+.+.+++
T Consensus 158 vtsrdi~f~----~~~~~~~~~vmt~~~--~~~~~gi~l~ 191 (503)
T KOG2550|consen 158 ITSRDIQFL----EDNSLLVSDVMTKNP--VTGAQGITLK 191 (503)
T ss_pred Eehhhhhhh----hcccchhhhhccccc--ccccccccHH
Confidence 445555555 556778999999999 7777787776
No 89
>PRK07807 inosine 5-monophosphate dehydrogenase; Validated
Probab=38.04 E-value=22 Score=25.88 Aligned_cols=32 Identities=22% Similarity=0.198 Sum_probs=27.2
Q ss_pred eeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 29 KIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 29 ~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
..++++|++ ++.+++.+.++. ++++.+.+++.
T Consensus 148 ~~V~diMt~--~~itV~~d~sL~-eAl~lM~~~~i 179 (479)
T PRK07807 148 TQVRDVMST--DLVTLPAGTDPR-EAFDLLEAARV 179 (479)
T ss_pred CCHHHhccC--CceEECCCCcHH-HHHHHHHhcCC
Confidence 569999985 788999999998 79999888764
No 90
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=37.07 E-value=16 Score=20.92 Aligned_cols=18 Identities=39% Similarity=0.752 Sum_probs=14.9
Q ss_pred CHHHHHHHHhhhcccCee
Q psy4850 13 EKDEVNIISGALELRRKI 30 (64)
Q Consensus 13 ~~~e~~ml~~~l~~~~~~ 30 (64)
++||..||+++++|...+
T Consensus 9 ~eDEi~iL~gl~~~~~~~ 26 (98)
T PF04504_consen 9 EEDEIVILQGLIDFRAKT 26 (98)
T ss_pred chHHHHHHHHHHHHHHhc
Confidence 479999999999995544
No 91
>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=35.70 E-value=38 Score=18.01 Aligned_cols=23 Identities=22% Similarity=0.277 Sum_probs=15.6
Q ss_pred cEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 40 DVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 40 ~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
++..++.+.++. ++++.+.++|+
T Consensus 3 ~~~~~~~~~~~~-~~~~~~~~~~~ 25 (110)
T cd04605 3 PVVTISEDASIK-EAAKLMIEENI 25 (110)
T ss_pred CCEEECCCCCHH-HHHHHHHhCCC
Confidence 455677777777 57777766664
No 92
>PRK05567 inosine 5'-monophosphate dehydrogenase; Reviewed
Probab=35.67 E-value=26 Score=25.27 Aligned_cols=34 Identities=24% Similarity=0.323 Sum_probs=27.9
Q ss_pred CeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 28 RKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
...+.++|++ ..++.++.+.++. ++++.+.++++
T Consensus 146 ~~~V~dim~~-~~~v~v~~~~sl~-eal~~m~~~~~ 179 (486)
T PRK05567 146 SQPVSEVMTK-ERLVTVPEGTTLE-EALELLHEHRI 179 (486)
T ss_pred CCcHHHHcCC-CCCEEECCCCCHH-HHHHHHHHcCC
Confidence 4578999984 4688899999998 79999888765
No 93
>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=35.22 E-value=43 Score=14.31 Aligned_cols=21 Identities=19% Similarity=0.216 Sum_probs=12.9
Q ss_pred EEEeCCCCCCHHHHHHHHhcCC
Q psy4850 42 YMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 42 ~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
..++.+.++. ++++.+.+.++
T Consensus 3 ~~~~~~~~~~-~~~~~~~~~~~ 23 (49)
T smart00116 3 VTVSPDTTLE-EALELLREHGI 23 (49)
T ss_pred eEecCCCcHH-HHHHHHHHhCC
Confidence 4456666766 57776665543
No 94
>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=33.02 E-value=29 Score=18.60 Aligned_cols=32 Identities=28% Similarity=0.277 Sum_probs=25.2
Q ss_pred CeeecceeeecccEEEEeCCCCCCHHHHHHHHhcC
Q psy4850 28 RKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSE 62 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g 62 (64)
+.+++++|.| ....++.+.++. ++++.+.+.+
T Consensus 52 ~~~v~~~~~~--~~~~i~~~~~~~-~~~~~~~~~~ 83 (109)
T cd04606 52 DTPVSDIMDT--DVISVSADDDQE-EVARLFEKYD 83 (109)
T ss_pred cchHHHHhCC--CCeEEcCCCCHH-HHHHHHHHcC
Confidence 4578899865 478899999998 6888887654
No 95
>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=32.67 E-value=31 Score=18.44 Aligned_cols=32 Identities=22% Similarity=0.328 Sum_probs=25.1
Q ss_pred CeeecceeeecccEEEEeCCCCCCHHHHHHHHhcC
Q psy4850 28 RKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSE 62 (64)
Q Consensus 28 ~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g 62 (64)
+..+.++|.+ ....++.+.++. ++++.+.+++
T Consensus 56 ~~~v~~~~~~--~~~~v~~~~~~~-~~~~~~~~~~ 87 (112)
T cd04624 56 DTPVSEIMTR--DLVTVDPDEPVA-EAAKLMRKNN 87 (112)
T ss_pred ccCHHHhccC--CCEEECCCCcHH-HHHHHHHHcC
Confidence 3578888864 578899999998 6888887655
No 96
>cd04591 CBS_pair_EriC_assoc_euk_bac This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the EriC CIC-type chloride channels in eukaryotes and bacteria. 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
Probab=29.95 E-value=59 Score=17.60 Aligned_cols=25 Identities=12% Similarity=0.126 Sum_probs=18.0
Q ss_pred cccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 38 LEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 38 r~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
++++..++.+.++. ++.+.+.+.++
T Consensus 1 ~~~~~~~~~~~~~~-~~~~~~~~~~~ 25 (105)
T cd04591 1 VPLVVLLPEGMTVE-DLESLLSTTSH 25 (105)
T ss_pred CCceEEecccccHH-HHHHHHHhCCC
Confidence 35677788888888 67777766554
No 97
>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=29.23 E-value=56 Score=17.90 Aligned_cols=25 Identities=16% Similarity=0.114 Sum_probs=21.0
Q ss_pred cccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 38 LEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 38 r~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
...+.+++.+.++. ++++.+.+++.
T Consensus 75 ~~~~~~v~~~~~l~-~a~~~m~~~~~ 99 (123)
T cd04627 75 TSDVISINGDQPLI-DALHLMHNEGI 99 (123)
T ss_pred cCCceEeCCCCCHH-HHHHHHHHcCC
Confidence 45688999999998 79999988765
No 98
>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=29.09 E-value=50 Score=17.61 Aligned_cols=23 Identities=13% Similarity=0.007 Sum_probs=16.7
Q ss_pred cEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 40 DVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 40 ~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
++..++.+.++. ++++.+.+.++
T Consensus 2 ~~~~v~~~~~i~-~a~~~~~~~~~ 24 (96)
T cd04614 2 NVPTVWEETPLP-VAVRIMELANV 24 (96)
T ss_pred CccEeCCCCcHH-HHHHHHHHcCC
Confidence 456778888888 68877776664
No 99
>cd07178 terB_like_YebE tellurium resistance terB-like protein, subgroup 3. This family includes several uncharacterized bacterial proteins including an Escherichia coli protein called YebE. Protein sequence homology analysis shows they are similar to tellurium resistance protein terB, but the function of this family is unknown.
Probab=28.60 E-value=55 Score=18.44 Aligned_cols=19 Identities=21% Similarity=0.237 Sum_probs=16.0
Q ss_pred cccCCCCHHHHHHHHhhhc
Q psy4850 7 TEFNDLEKDEVNIISGALE 25 (64)
Q Consensus 7 ~~~g~l~~~e~~ml~~~l~ 25 (64)
...|.++++|++.|.+.++
T Consensus 11 kADG~id~~E~~~I~~~~~ 29 (95)
T cd07178 11 KADGHIDEAERARILGELG 29 (95)
T ss_pred HhcCCCCHHHHHHHHHHHH
Confidence 4578899999999998776
No 100
>TIGR02698 CopY_TcrY copper transport repressor, CopY/TcrY family. This family includes metal-fist type transcriptional repressors of copper transport systems such as copYZAB of Enterococcus hirae and tcrYAZB (transferble copper resistance) of an Enterocuccus faecium plasmid. High levels of copper can displace zinc and prevent binding by the repressor, activating efflux by copper resistance transporters. The most closely related proteins excluded by this model are antibiotic resistance regulators including the methicillin resistance regulatory protein MecI.
Probab=28.53 E-value=13 Score=22.21 Aligned_cols=50 Identities=12% Similarity=0.207 Sum_probs=31.7
Q ss_pred CCHHHHHHHHhhhcccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 12 LEKDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 12 l~~~e~~ml~~~l~~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
|++.|.+++.-+-+-+..++++|+--..+-..+. ..++. .++..+.+.||
T Consensus 2 Lt~~E~~VM~vlW~~~~~t~~eI~~~l~~~~~~~-~tTv~-T~L~rL~~KG~ 51 (130)
T TIGR02698 2 ISDAEWEVMRVVWTLGETTSRDIIRILAEKKDWS-DSTIK-TLLGRLVDKGC 51 (130)
T ss_pred CCHHHHHHHHHHHcCCCCCHHHHHHHHhhccCCc-HHHHH-HHHHHHHHCCc
Confidence 5678888888877888888888765443332222 23444 36666777664
No 101
>KOG0626|consensus
Probab=27.60 E-value=26 Score=26.09 Aligned_cols=27 Identities=15% Similarity=0.423 Sum_probs=20.8
Q ss_pred CccccccccCCCCHHHHHHHHhhhccc
Q psy4850 1 MVDLVTTEFNDLEKDEVNIISGALELR 27 (64)
Q Consensus 1 ~~~~~~~~~g~l~~~e~~ml~~~l~~~ 27 (64)
|.+.++..--.++++|.++|+|..+|=
T Consensus 312 Mk~~vg~rLP~FT~ee~~~lKGS~DFv 338 (524)
T KOG0626|consen 312 MKERVGSRLPKFTEEESKLLKGSYDFV 338 (524)
T ss_pred HHHHhcccCCCCCHHHHHHhcCchhhc
Confidence 445666655668899999999999874
No 102
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=26.73 E-value=38 Score=19.74 Aligned_cols=15 Identities=33% Similarity=0.477 Sum_probs=11.0
Q ss_pred CCCHHHHHHHHhhhc
Q psy4850 11 DLEKDEVNIISGALE 25 (64)
Q Consensus 11 ~l~~~e~~ml~~~l~ 25 (64)
.|+++|+++|.+||.
T Consensus 2 ~Lt~eE~~~I~~Vl~ 16 (118)
T PF02318_consen 2 HLTEEEREIILQVLQ 16 (118)
T ss_dssp TS-CHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHH
Confidence 477888888888874
No 103
>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=26.47 E-value=68 Score=16.43 Aligned_cols=23 Identities=22% Similarity=0.281 Sum_probs=14.6
Q ss_pred cEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 40 DVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 40 ~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
++..++.+.++. ++++.+.+.++
T Consensus 2 ~~~~~~~~~~~~-~~~~~~~~~~~ 24 (113)
T cd02205 2 DVVTVSPDDTVA-EALRLMLEHGI 24 (113)
T ss_pred CceEecCCCCHH-HHHHHHHhcCC
Confidence 355667777777 57766665543
No 104
>cd04637 CBS_pair_24 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=25.86 E-value=70 Score=17.32 Aligned_cols=23 Identities=22% Similarity=0.167 Sum_probs=15.7
Q ss_pred cEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 40 DVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 40 ~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
++..++.+.++. ++++.+.+.++
T Consensus 2 ~~~~~~~~~~~~-~~~~~~~~~~~ 24 (122)
T cd04637 2 RVVTVEMDDRLE-EVREIFEKHKF 24 (122)
T ss_pred CceEeCCCCCHH-HHHHHHHhCCC
Confidence 456677777777 57777766654
No 105
>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=25.21 E-value=75 Score=16.77 Aligned_cols=23 Identities=17% Similarity=0.117 Sum_probs=14.2
Q ss_pred cEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 40 DVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 40 ~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
+++.++.+.++. ++++.+.+.++
T Consensus 2 ~~~~~~~~~~~~-~~~~~~~~~~~ 24 (110)
T cd04588 2 PLITLNPNATLR-EAARLFNTHHI 24 (110)
T ss_pred CcEEECCCCCHH-HHHHHHHHcCC
Confidence 345566677776 56666665554
No 106
>PRK04323 hypothetical protein; Provisional
Probab=25.02 E-value=71 Score=18.36 Aligned_cols=29 Identities=7% Similarity=0.111 Sum_probs=18.4
Q ss_pred ceeeecccEEEEeC--CCCCCHHHHHHHHhcC
Q psy4850 33 DVMTKLEDVYMLSY--DAILDFETVSEIMKSE 62 (64)
Q Consensus 33 dvM~Pr~~v~~l~~--~~~~~~e~l~~i~~~g 62 (64)
+.|+|..+|+++=. +++.. .+++...+.|
T Consensus 11 gn~V~~~rIIAIv~~~Sap~K-r~~~~ak~~g 41 (91)
T PRK04323 11 GNIVSANRIIAIVSPESAPIK-RIIQEARERG 41 (91)
T ss_pred CcEEEcccEEEEECCCcHHHH-HHHHHHHHcC
Confidence 57999999998743 33333 4555555555
No 107
>PF08934 Rb_C: Rb C-terminal domain; InterPro: IPR015030 The Rb C-terminal domain is required for high-affinity binding to E2F-DP complexes and for maximal repression of E2F-responsive promoters, thereby acting as a growth suppressor by blocking the G1-S transition of the cell cycle. This domain has a strand-loop-helix structure, which directly interacts with both E2F1 and DP1, followed by a tail segment that lacks regular secondary structure []. ; PDB: 1H25_E 1GUX_B 3POM_A 1GH6_B 2AZE_C 1N4M_A 1O9K_H 4ELL_B 2R7G_C 4ELJ_A ....
Probab=24.50 E-value=78 Score=19.90 Aligned_cols=18 Identities=17% Similarity=0.086 Sum_probs=7.2
Q ss_pred cceeeecccEEEEeCCCCC
Q psy4850 32 GDVMTKLEDVYMLSYDAIL 50 (64)
Q Consensus 32 ~dvM~Pr~~v~~l~~~~~~ 50 (64)
..+||||..+. +..+.++
T Consensus 51 ~~~mTPRSr~L-y~iGeS~ 68 (155)
T PF08934_consen 51 PSKMTPRSRML-YSIGESF 68 (155)
T ss_dssp --------EEE-EESS-TT
T ss_pred CcccCccchhh-eeecCCc
Confidence 45899999998 7777776
No 108
>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=23.88 E-value=84 Score=16.42 Aligned_cols=22 Identities=9% Similarity=0.170 Sum_probs=14.1
Q ss_pred EEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 41 VYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 41 v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
+..++.+.++. ++++.+.+.++
T Consensus 3 ~~~v~~~~~~~-~~~~~~~~~~~ 24 (110)
T cd04609 3 VVSVAPDDTVS-QAIERMREYGV 24 (110)
T ss_pred cEEECCCCcHH-HHHHHHHHcCC
Confidence 45566777776 57777666554
No 109
>KOG0474|consensus
Probab=23.08 E-value=44 Score=25.88 Aligned_cols=35 Identities=23% Similarity=0.295 Sum_probs=29.1
Q ss_pred ccCeeecceeeecccEEEEeCCCCCCHHHHHHHHhcCC
Q psy4850 26 LRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKSES 63 (64)
Q Consensus 26 ~~~~~v~dvM~Pr~~v~~l~~~~~~~~e~l~~i~~~g~ 63 (64)
++..+|+|||.+ .+++++.-.... .+.+.+..+-|
T Consensus 579 mr~L~a~ev~~~--pvi~l~~~ekV~-~Iv~vLk~t~H 613 (762)
T KOG0474|consen 579 MRNLTAGEVMSK--PVICLNRVEKVA-VIVDVLKSTNH 613 (762)
T ss_pred hhhhhHhhhccC--CeEEEechhhHH-HHHHHHHhcCc
Confidence 467889999999 999999999988 57777776655
Done!