Query 043968
Match_columns 107
No_of_seqs 103 out of 1136
Neff 10.4
Searched_HMMs 46136
Date Fri Mar 29 10:07:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043968.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043968hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0156 Cytochrome P450 CYP2 s 99.8 1.8E-18 3.9E-23 117.8 10.7 72 32-103 25-97 (489)
2 PLN02687 flavonoid 3'-monooxyg 99.7 8.5E-16 1.8E-20 105.6 10.6 75 30-104 31-105 (517)
3 PLN03234 cytochrome P450 83B1; 99.6 6.1E-15 1.3E-19 100.9 11.0 81 24-104 19-100 (499)
4 PLN02183 ferulate 5-hydroxylas 99.6 4.2E-15 9.1E-20 102.2 9.9 80 25-104 28-107 (516)
5 PLN03112 cytochrome P450 famil 99.6 7.8E-15 1.7E-19 100.8 11.2 79 26-104 25-103 (514)
6 PLN02971 tryptophan N-hydroxyl 99.6 3.8E-15 8.2E-20 103.0 9.1 76 30-105 54-132 (543)
7 PTZ00404 cytochrome P450; Prov 99.6 2.2E-14 4.7E-19 97.9 11.0 78 27-104 23-100 (482)
8 PLN00168 Cytochrome P450; Prov 99.6 2.6E-14 5.6E-19 98.4 10.3 74 31-104 33-109 (519)
9 PLN00110 flavonoid 3',5'-hydro 99.6 6.6E-14 1.4E-18 96.2 11.5 79 26-104 24-102 (504)
10 PLN02966 cytochrome P450 83A1 99.5 1.3E-13 2.8E-18 94.6 10.5 80 24-103 20-100 (502)
11 PLN02394 trans-cinnamate 4-mon 99.5 1.9E-13 4.1E-18 93.7 10.9 79 25-103 22-101 (503)
12 PLN02500 cytochrome P450 90B1 99.5 1.3E-13 2.7E-18 94.4 7.6 74 28-101 33-111 (490)
13 PLN02196 abscisic acid 8'-hydr 99.5 4.5E-13 9.8E-18 91.2 8.9 71 28-98 30-101 (463)
14 PLN02987 Cytochrome P450, fami 99.5 3E-13 6.6E-18 92.3 7.9 76 27-102 24-104 (472)
15 PLN02655 ent-kaurene oxidase 99.5 2E-13 4.3E-18 93.0 6.7 70 35-104 1-71 (466)
16 KOG0158 Cytochrome P450 CYP3/C 99.5 9.1E-13 2E-17 90.0 9.7 84 19-102 17-102 (499)
17 PLN02774 brassinosteroid-6-oxi 99.4 4.2E-13 9.1E-18 91.3 7.4 69 31-99 29-97 (463)
18 PLN02290 cytokinin trans-hydro 99.4 2.1E-12 4.6E-17 88.9 8.2 74 30-104 39-131 (516)
19 PLN03141 3-epi-6-deoxocathaste 99.4 1.7E-12 3.6E-17 88.2 6.2 73 30-102 4-81 (452)
20 PLN03018 homomethionine N-hydr 99.3 2E-11 4.4E-16 84.6 10.4 72 33-104 40-114 (534)
21 PLN02302 ent-kaurenoic acid ox 99.3 4E-11 8.6E-16 82.0 10.5 72 28-100 37-115 (490)
22 PF00067 p450: Cytochrome P450 99.3 1.8E-12 3.9E-17 86.6 2.5 67 35-101 1-69 (463)
23 KOG0157 Cytochrome P450 CYP4/C 99.2 1.2E-10 2.6E-15 80.2 7.3 69 31-99 33-104 (497)
24 PLN03195 fatty acid omega-hydr 99.1 6.6E-10 1.4E-14 76.7 8.0 67 34-101 31-100 (516)
25 PLN02169 fatty acid (omega-1)- 99.1 2.3E-09 5.1E-14 73.9 9.7 73 30-102 28-106 (500)
26 KOG0684 Cytochrome P450 [Secon 99.0 3.1E-09 6.8E-14 71.5 8.6 65 33-97 31-96 (486)
27 PLN02936 epsilon-ring hydroxyl 98.8 1.4E-08 3E-13 69.9 5.6 68 36-103 15-87 (489)
28 PLN02648 allene oxide synthase 98.7 9.3E-09 2E-13 70.7 3.4 63 31-93 15-90 (480)
29 KOG0159 Cytochrome P450 CYP11/ 98.6 9.4E-08 2E-12 65.5 4.8 70 32-102 49-123 (519)
30 PLN02738 carotene beta-ring hy 98.5 2.7E-07 6E-12 65.5 6.0 60 44-103 142-202 (633)
31 PLN02426 cytochrome P450, fami 97.4 0.0015 3.2E-08 45.6 7.5 59 41-101 49-108 (502)
32 PF12273 RCR: Chitin synthesis 78.3 3.7 8E-05 23.6 3.1 12 22-33 18-29 (130)
33 PF13625 Helicase_C_3: Helicas 75.4 9.2 0.0002 21.9 4.2 41 52-94 74-114 (129)
34 KOG3653 Transforming growth fa 74.5 21 0.00045 25.7 6.2 48 52-100 209-258 (534)
35 PF05393 Hum_adeno_E3A: Human 73.6 8.6 0.00019 20.7 3.4 14 11-24 40-53 (94)
36 PF13893 RRM_5: RNA recognitio 66.9 12 0.00027 17.6 4.0 44 59-102 2-50 (56)
37 PLN03120 nucleic acid binding 61.8 43 0.00093 22.0 5.5 57 44-102 9-71 (260)
38 KOG0114 Predicted RNA-binding 59.2 31 0.00067 19.5 3.9 55 35-91 14-74 (124)
39 PLN03134 glycine-rich RNA-bind 58.1 36 0.00078 19.9 4.4 57 43-101 38-104 (144)
40 TIGR01661 ELAV_HUD_SF ELAV/HuD 57.1 55 0.0012 21.8 6.0 58 43-102 273-340 (352)
41 PF07912 ERp29_N: ERp29, N-ter 56.8 37 0.0008 19.7 5.8 44 59-102 71-126 (126)
42 PF14307 Glyco_tran_WbsX: Glyc 53.2 24 0.00052 23.9 3.4 55 39-97 43-102 (345)
43 PF15330 SIT: SHP2-interacting 50.1 45 0.00098 18.7 4.1 11 40-50 45-55 (107)
44 KOG0149 Predicted RNA-binding 48.8 73 0.0016 20.7 5.8 51 52-102 23-82 (247)
45 smart00362 RRM_2 RNA recogniti 48.7 30 0.00065 16.2 5.1 47 55-101 13-67 (72)
46 PF08675 RNA_bind: RNA binding 46.2 38 0.00082 18.3 2.8 39 55-93 22-61 (87)
47 PF14259 RRM_6: RNA recognitio 45.8 34 0.00075 16.6 2.7 46 56-101 13-67 (70)
48 PF05172 Nup35_RRM: Nup53/35/4 45.1 54 0.0012 18.1 4.4 50 51-100 15-80 (100)
49 COG2124 CypX Cytochrome P450 [ 44.5 32 0.0007 23.8 3.1 41 55-95 25-67 (411)
50 PF14605 Nup35_RRM_2: Nup53/35 42.3 41 0.0009 16.0 5.0 39 52-90 11-52 (53)
51 TIGR01642 U2AF_lg U2 snRNP aux 41.9 74 0.0016 22.5 4.6 48 55-102 433-493 (509)
52 PRK05591 rplQ 50S ribosomal pr 41.4 17 0.00037 20.6 1.1 27 80-106 66-92 (113)
53 TIGR00059 L17 ribosomal protei 40.7 19 0.0004 20.4 1.2 27 80-106 64-90 (112)
54 TIGR01622 SF-CC1 splicing fact 40.0 95 0.0021 21.7 4.8 48 55-102 386-439 (457)
55 PF00076 RRM_1: RNA recognitio 38.4 49 0.0011 15.7 3.7 47 55-101 12-67 (70)
56 KOG0107 Alternative splicing f 35.0 70 0.0015 19.9 3.1 46 43-90 14-63 (195)
57 PF03625 DUF302: Domain of unk 34.6 48 0.001 16.2 2.1 23 74-96 17-39 (65)
58 TIGR00603 rad25 DNA repair hel 33.7 1.2E+02 0.0026 23.3 4.6 43 52-94 91-133 (732)
59 PF06667 PspB: Phage shock pro 31.9 83 0.0018 16.5 3.7 13 85-97 59-71 (75)
60 PF12427 DUF3665: Branched-cha 31.6 43 0.00093 13.1 1.4 10 82-91 13-22 (23)
61 PF01196 Ribosomal_L17: Riboso 28.7 36 0.00077 18.7 1.1 25 82-106 52-76 (97)
62 PF06953 ArsD: Arsenical resis 28.2 68 0.0015 18.5 2.2 37 59-95 33-70 (123)
63 smart00360 RRM RNA recognition 27.0 78 0.0017 14.5 4.9 47 55-101 10-66 (71)
64 PRK02797 4-alpha-L-fucosyltran 25.5 2.1E+02 0.0046 19.6 4.4 55 43-99 150-204 (322)
65 cd00590 RRM RRM (RNA recogniti 25.5 86 0.0019 14.6 5.5 47 55-101 13-68 (74)
66 TIGR01628 PABP-1234 polyadenyl 25.4 2.7E+02 0.0058 20.2 5.6 59 43-103 289-356 (562)
67 PF03460 NIR_SIR_ferr: Nitrite 24.6 1E+02 0.0022 15.1 3.2 40 52-91 23-63 (69)
68 PF09722 DUF2384: Protein of u 22.5 36 0.00077 16.1 0.3 23 82-104 9-31 (54)
69 PF06884 DUF1264: Protein of u 21.6 1.1E+02 0.0023 18.8 2.3 19 55-73 100-118 (171)
70 TIGR01649 hnRNP-L_PTB hnRNP-L/ 20.9 3.2E+02 0.007 19.5 5.4 48 54-101 289-341 (481)
71 COG5329 Phosphoinositide polyp 20.7 2.2E+02 0.0049 21.2 4.0 39 54-92 295-333 (570)
72 COG0203 RplQ Ribosomal protein 20.4 1.1E+02 0.0024 17.5 2.0 24 82-105 71-94 (116)
No 1
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=99.79 E-value=1.8e-18 Score=117.80 Aligned_cols=72 Identities=54% Similarity=0.930 Sum_probs=69.3
Q ss_pred CCCCCCCCCCceeeeccccCCC-hHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCCCC
Q 043968 32 LNLPPGPTPWPFIGNLNLIGPL-PHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASRPA 103 (107)
Q Consensus 32 ~~~~p~~~~~p~~g~~~~~~~~-~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r~~ 103 (107)
.+.||||+++|++||++++... .+..+.++.++||+++.+|+|..|.++++|+|.++++|.+++..|++||.
T Consensus 25 ~~lPPGP~~lPiIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~~~~Vviss~~~akE~l~~~d~~fa~Rp~ 97 (489)
T KOG0156|consen 25 RNLPPGPPPLPIIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGSVPVVVISSYEAAKEVLVKQDLEFADRPD 97 (489)
T ss_pred CCCCcCCCCCCccccHHHcCCCchhHHHHHHHHHhCCeEEEEecCceEEEECCHHHHHHHHHhCCccccCCCC
Confidence 7789999999999999999765 99999999999999999999999999999999999999999999999997
No 2
>PLN02687 flavonoid 3'-monooxygenase
Probab=99.67 E-value=8.5e-16 Score=105.63 Aligned_cols=75 Identities=49% Similarity=0.962 Sum_probs=67.4
Q ss_pred CCCCCCCCCCCCceeeeccccCCChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCCCCc
Q 043968 30 RKLNLPPGPTPWPFIGNLNLIGPLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASRPAL 104 (107)
Q Consensus 30 ~~~~~~p~~~~~p~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r~~~ 104 (107)
+..+.||||+++|++|++.++..+++..+.++.++||+++++++|+.+.++++|||.++++|.++...|++|+..
T Consensus 31 ~~~~~pPgp~~~P~iG~~~~~~~~~~~~~~~~~~~yG~i~~~~~g~~~~vvv~~p~~~~~il~~~~~~f~~r~~~ 105 (517)
T PLN02687 31 HKRPLPPGPRGWPVLGNLPQLGPKPHHTMAALAKTYGPLFRLRFGFVDVVVAASASVAAQFLRTHDANFSNRPPN 105 (517)
T ss_pred CCCCCCccCCCCCccccHHhcCCchhHHHHHHHHHhCCeeEEecCCceEEEeCCHHHHHHHHHhcchhhhcCCCc
Confidence 334568899999999999888777889999999999999999999999999999999999999988899998754
No 3
>PLN03234 cytochrome P450 83B1; Provisional
Probab=99.63 E-value=6.1e-15 Score=100.94 Aligned_cols=81 Identities=43% Similarity=0.705 Sum_probs=69.5
Q ss_pred HHhhccCCCCCCCCCCCCceeeeccccC-CChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCCC
Q 043968 24 FRRQFSRKLNLPPGPTPWPFIGNLNLIG-PLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASRP 102 (107)
Q Consensus 24 ~~~~~~~~~~~~p~~~~~p~~g~~~~~~-~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r~ 102 (107)
.+...++..+.+|||+++|++||+.++. .++..++.+++++||+++++++|+.+.++++|||.+++++.++...|++||
T Consensus 19 ~~~~~~~~~~~pPgp~~~P~iG~~~~~~~~~~~~~~~~~~~~yG~~~~~~lg~~~~vvv~dpe~~~~il~~~~~~f~~r~ 98 (499)
T PLN03234 19 LRSTTKKSLRLPPGPKGLPIIGNLHQMEKFNPQHFLFRLSKLYGPIFTMKIGGRRLAVISSAELAKELLKTQDLNFTARP 98 (499)
T ss_pred HHHhcCCCCCCCcCCCCCCeeccHHhcCCCCccHHHHHHHHHcCCeEEEEecCcCEEEECCHHHHHHHHHhCCccccCCC
Confidence 3334445567789999999999998884 467888999999999999999999999999999999999999888899888
Q ss_pred Cc
Q 043968 103 AL 104 (107)
Q Consensus 103 ~~ 104 (107)
..
T Consensus 99 ~~ 100 (499)
T PLN03234 99 LL 100 (499)
T ss_pred Cc
Confidence 54
No 4
>PLN02183 ferulate 5-hydroxylase
Probab=99.63 E-value=4.2e-15 Score=102.23 Aligned_cols=80 Identities=38% Similarity=0.694 Sum_probs=68.9
Q ss_pred HhhccCCCCCCCCCCCCceeeeccccCCChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCCCCc
Q 043968 25 RRQFSRKLNLPPGPTPWPFIGNLNLIGPLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASRPAL 104 (107)
Q Consensus 25 ~~~~~~~~~~~p~~~~~p~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r~~~ 104 (107)
.++..+..+.+|||+++|++|++.++....+..+.+++++||+++++++|+.+.++++||+++++++.++...|++||..
T Consensus 28 ~~~~~~~~~~ppgp~~~Pl~G~l~~~~~~~~~~~~~~~~~yG~i~~~~~g~~~~vvv~dp~~i~~il~~~~~~f~~r~~~ 107 (516)
T PLN02183 28 ISRLRRRLPYPPGPKGLPIIGNMLMMDQLTHRGLANLAKQYGGLFHMRMGYLHMVAVSSPEVARQVLQVQDSVFSNRPAN 107 (516)
T ss_pred HhhccCCCCCCcCCCCCCeeccHHhcCCcchHHHHHHHHHhCCeeEEEeCCcceEEeCCHHHHHHHHHhhhhhhcCCCcc
Confidence 34444456789999999999999887555677889999999999999999999999999999999999888889888754
No 5
>PLN03112 cytochrome P450 family protein; Provisional
Probab=99.62 E-value=7.8e-15 Score=100.76 Aligned_cols=79 Identities=42% Similarity=0.812 Sum_probs=69.8
Q ss_pred hhccCCCCCCCCCCCCceeeeccccCCChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCCCCc
Q 043968 26 RQFSRKLNLPPGPTPWPFIGNLNLIGPLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASRPAL 104 (107)
Q Consensus 26 ~~~~~~~~~~p~~~~~p~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r~~~ 104 (107)
++.++..+.+|||+++|++||+.++..++...+.+++++||+++++++|+.+.++++|||.+++++.++...|++|+..
T Consensus 25 ~~~~~~~~~ppgp~~~pl~G~~~~~~~~~~~~~~~~~~kyG~v~~~~~g~~~~v~v~dpe~~~~vl~~~~~~f~~~~~~ 103 (514)
T PLN03112 25 ASMRKSLRLPPGPPRWPIVGNLLQLGPLPHRDLASLCKKYGPLVYLRLGSVDAITTDDPELIREILLRQDDVFASRPRT 103 (514)
T ss_pred ccccCCCCCccCCCCCCeeeeHHhcCCchHHHHHHHHHHhCCeEEEEecCccEEEECCHHHHHHHHHhCCcccccCCCc
Confidence 3444555778999999999999888767888999999999999999999999999999999999999888899988765
No 6
>PLN02971 tryptophan N-hydroxylase
Probab=99.62 E-value=3.8e-15 Score=103.03 Aligned_cols=76 Identities=28% Similarity=0.474 Sum_probs=65.8
Q ss_pred CCCCCCCCCCCCceeeeccccC-CC-hHHHHHHHHHHcC-CeeEEEcCCcCEEEecCHHHHHHHHhhccccccCCCCcc
Q 043968 30 RKLNLPPGPTPWPFIGNLNLIG-PL-PHVSIHSLSQKYG-PLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASRPALL 105 (107)
Q Consensus 30 ~~~~~~p~~~~~p~~g~~~~~~-~~-~~~~~~~~~~~~g-~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r~~~~ 105 (107)
++.+.||||+++|++||++++. .+ .+..+.++.++|| +++++|+|+.+.++++||+.++++|.+++..|++||...
T Consensus 54 r~~~lPPGP~~lPiiGnl~~l~~~~~~~~~l~~~~~~yg~~i~~~~~G~~~~vvv~dpe~ikevl~~~~~~f~~rp~~~ 132 (543)
T PLN02971 54 KLHPLPPGPTGFPIVGMIPAMLKNRPVFRWLHSLMKELNTEIACVRLGNTHVIPVTCPKIAREIFKQQDALFASRPLTY 132 (543)
T ss_pred CCCCCCcCCCCCCcccchHHhccCCcHhHHHHHHHHHhCCceEEEEcCCcceEEECCHHHHHHHHHhcchhhcCCCccc
Confidence 3456789999999999998873 22 4677889999999 799999999999999999999999999999999998643
No 7
>PTZ00404 cytochrome P450; Provisional
Probab=99.59 E-value=2.2e-14 Score=97.89 Aligned_cols=78 Identities=29% Similarity=0.462 Sum_probs=68.8
Q ss_pred hccCCCCCCCCCCCCceeeeccccCCChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCCCCc
Q 043968 27 QFSRKLNLPPGPTPWPFIGNLNLIGPLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASRPAL 104 (107)
Q Consensus 27 ~~~~~~~~~p~~~~~p~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r~~~ 104 (107)
..+.....+|||++.|++|++.++..+++..+.+++++||+++++++|+.+.++++||+.+++++.++...|.+|+..
T Consensus 23 ~~~~~~~~~pgp~~~p~~G~~~~~~~~~~~~~~~~~~~yG~i~~~~~g~~~~v~i~~p~~~~~il~~~~~~~~~r~~~ 100 (482)
T PTZ00404 23 YKKIHKNELKGPIPIPILGNLHQLGNLPHRDLTKMSKKYGGIFRIWFADLYTVVLSDPILIREMFVDNFDNFSDRPKI 100 (482)
T ss_pred hhhccCCCCCCCCCCCeeccHhhhcccHHHHHHHHHHHhCCeeEEEecCCCEEEECCHHHHHHHHHhcchhhcCCCCc
Confidence 344556778999999999999888678899999999999999999999999999999999999999887788887754
No 8
>PLN00168 Cytochrome P450; Provisional
Probab=99.58 E-value=2.6e-14 Score=98.40 Aligned_cols=74 Identities=28% Similarity=0.502 Sum_probs=65.2
Q ss_pred CCCCCCCCCCCceeeeccccC---CChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCCCCc
Q 043968 31 KLNLPPGPTPWPFIGNLNLIG---PLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASRPAL 104 (107)
Q Consensus 31 ~~~~~p~~~~~p~~g~~~~~~---~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r~~~ 104 (107)
..+.+|||+++|++|++..+. .+++..+.++.++||+++++++|+.+.++++|||.+++++.++...|++||..
T Consensus 33 ~~~lpPgp~~~pl~G~l~~~~~~~~~~~~~~~~~~~~yG~i~~~~~g~~~~vvv~dpe~~~~il~~~~~~f~~rp~~ 109 (519)
T PLN00168 33 GRRLPPGPPAVPLLGSLVWLTNSSADVEPLLRRLIARYGPVVSLRVGSRLSVFVADRRLAHAALVERGAALADRPAV 109 (519)
T ss_pred CCCCCcCCCCCcccccHHhhccccccHHHHHHHHHHHhCCeEEEEcCCccEEEECCHHHHHHHHHhcCCccccCCcc
Confidence 345688999999999997652 35778899999999999999999999999999999999999988899999864
No 9
>PLN00110 flavonoid 3',5'-hydroxylase (F3'5'H); Provisional
Probab=99.57 E-value=6.6e-14 Score=96.20 Aligned_cols=79 Identities=43% Similarity=0.848 Sum_probs=69.2
Q ss_pred hhccCCCCCCCCCCCCceeeeccccCCChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCCCCc
Q 043968 26 RQFSRKLNLPPGPTPWPFIGNLNLIGPLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASRPAL 104 (107)
Q Consensus 26 ~~~~~~~~~~p~~~~~p~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r~~~ 104 (107)
...++..+.+|+|+++|++|++..+..+.+..+.++.++||+++++++|+.+.++++|||.++++|.++...|++|+..
T Consensus 24 ~~~~~~~~~pPgp~~~Pl~G~l~~~~~~~~~~~~~~~~~yG~i~~~~~g~~~~vvv~dpe~~~~vl~~~~~~f~~r~~~ 102 (504)
T PLN00110 24 LLPKPSRKLPPGPRGWPLLGALPLLGNMPHVALAKMAKRYGPVMFLKMGTNSMVVASTPEAARAFLKTLDINFSNRPPN 102 (504)
T ss_pred HhhcccCCCcccCCCCCeeechhhcCCchHHHHHHHHHHhCCeEEEEcCCccEEEECCHHHHHHHHHhcchhhcCCCCc
Confidence 3444555678999999999999877666888999999999999999999999999999999999999988899998754
No 10
>PLN02966 cytochrome P450 83A1
Probab=99.53 E-value=1.3e-13 Score=94.63 Aligned_cols=80 Identities=41% Similarity=0.756 Sum_probs=68.0
Q ss_pred HHhhccCCCCCCCCCCCCceeeecccc-CCChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCCC
Q 043968 24 FRRQFSRKLNLPPGPTPWPFIGNLNLI-GPLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASRP 102 (107)
Q Consensus 24 ~~~~~~~~~~~~p~~~~~p~~g~~~~~-~~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r~ 102 (107)
+.+..++..+.+|||+++|++|++.++ ..++...+.+++++||+++++++|+.+.++++||+.+++++.++...|.+|+
T Consensus 20 ~~~~~~~~~~~ppgp~~~p~~G~l~~l~~~~~~~~~~~~~~~yG~v~~~~~g~~~~vvi~~p~~i~~vl~~~~~~~~~~~ 99 (502)
T PLN02966 20 YQKPKTKRYKLPPGPSPLPVIGNLLQLQKLNPQRFFAGWAKKYGPILSYRIGSRTMVVISSAELAKELLKTQDVNFADRP 99 (502)
T ss_pred HhccccCCCCCCcCCCCCCeeccHHhcCCCChhHHHHHHHHHhCCeEEEecCCCcEEEECCHHHHHHHHHhCcccccCCC
Confidence 334444455678999999999999888 4568889999999999999999999999999999999999998877787765
Q ss_pred C
Q 043968 103 A 103 (107)
Q Consensus 103 ~ 103 (107)
.
T Consensus 100 ~ 100 (502)
T PLN02966 100 P 100 (502)
T ss_pred C
Confidence 3
No 11
>PLN02394 trans-cinnamate 4-monooxygenase
Probab=99.53 E-value=1.9e-13 Score=93.72 Aligned_cols=79 Identities=35% Similarity=0.616 Sum_probs=67.5
Q ss_pred HhhccCCCCCCCCCCCCceeeeccccCCC-hHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCCCC
Q 043968 25 RRQFSRKLNLPPGPTPWPFIGNLNLIGPL-PHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASRPA 103 (107)
Q Consensus 25 ~~~~~~~~~~~p~~~~~p~~g~~~~~~~~-~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r~~ 103 (107)
++..+++.+.+|||+..|++|++.++..+ .+..+.+++++||+++++++|+.+.++++|||.+++++.++...|.+|+-
T Consensus 22 ~~~~~~~~~~pPgp~~~p~~g~l~~~~~~~~~~~~~~~~~~yG~v~~i~~g~~~~v~v~dpe~i~~il~~~~~~~~~r~~ 101 (503)
T PLN02394 22 SKLRGKKLKLPPGPAAVPIFGNWLQVGDDLNHRNLAEMAKKYGDVFLLRMGQRNLVVVSSPELAKEVLHTQGVEFGSRTR 101 (503)
T ss_pred HHHhcCcCCCCcCCCCCCeeeeHHhcCCCchhHHHHHHHHHhCCeEEEEcCCeeEEEeCCHHHHHHHHHhCCccccCCCC
Confidence 34455567789999999999999888543 56788999999999999999999999999999999999888778887763
No 12
>PLN02500 cytochrome P450 90B1
Probab=99.49 E-value=1.3e-13 Score=94.40 Aligned_cols=74 Identities=22% Similarity=0.419 Sum_probs=61.9
Q ss_pred ccCCCCCCCCCCCCceeeecccc-C----CChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCC
Q 043968 28 FSRKLNLPPGPTPWPFIGNLNLI-G----PLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASR 101 (107)
Q Consensus 28 ~~~~~~~~p~~~~~p~~g~~~~~-~----~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r 101 (107)
.++..+.||||+++|++||+..+ . ..+..++.++.++||+++++++|+.+.++++|||.++++|.++...|+++
T Consensus 33 ~~~~~~~PPgp~~~PiiGn~~~~~~~~~~~~~~~~~~~~~~~yG~v~~~~~g~~~~vvv~~p~~~~~vl~~~~~~f~~~ 111 (490)
T PLN02500 33 KQKRFNLPPGNMGWPFLGETIGYLKPYSATSIGEFMEQHISRYGKIYRSNLFGEPTIVSADAGLNRFILQNEGRLFECS 111 (490)
T ss_pred ccCCCCCCCCCcCCCchhhHHHHHhhcccCChHHHHHHHHHHhcccccccccCCCeEEecCHHHHHHHHhCCCCeEEee
Confidence 33445678899999999997654 1 35677889999999999999999999999999999999999887778654
No 13
>PLN02196 abscisic acid 8'-hydroxylase
Probab=99.47 E-value=4.5e-13 Score=91.21 Aligned_cols=71 Identities=34% Similarity=0.544 Sum_probs=61.3
Q ss_pred ccCCCCCCCCCCCCceeeecccc-CCChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccccc
Q 043968 28 FSRKLNLPPGPTPWPFIGNLNLI-GPLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISF 98 (107)
Q Consensus 28 ~~~~~~~~p~~~~~p~~g~~~~~-~~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~ 98 (107)
..+..+.||||++.|++|+..++ ..+++..+.+++++||+++++++++.+.++++||+.+++++.++...|
T Consensus 30 ~~~~~~~Ppgp~~~P~iG~~~~~~~~~~~~~~~~~~~~yG~i~~~~~~~~~~v~v~~p~~~~~vl~~~~~~~ 101 (463)
T PLN02196 30 SSTKLPLPPGTMGWPYVGETFQLYSQDPNVFFASKQKRYGSVFKTHVLGCPCVMISSPEAAKFVLVTKSHLF 101 (463)
T ss_pred CCCCCCCCCCCCCCCccchHHHHHhcCHHHHHHHHHHHhhhhheeeecCCceEEEcCHHHHHHHHhCCCCcc
Confidence 33445567777789999998876 578899999999999999999999999999999999999998877666
No 14
>PLN02987 Cytochrome P450, family 90, subfamily A
Probab=99.46 E-value=3e-13 Score=92.34 Aligned_cols=76 Identities=22% Similarity=0.367 Sum_probs=64.7
Q ss_pred hccCCCCCCCCCCCCceeeeccccC-----CChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCC
Q 043968 27 QFSRKLNLPPGPTPWPFIGNLNLIG-----PLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASR 101 (107)
Q Consensus 27 ~~~~~~~~~p~~~~~p~~g~~~~~~-----~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r 101 (107)
.+....+.+|||.++|++||++++. .++..++.++.++||+++++++++++.++++||+.+++++.++...|+++
T Consensus 24 ~~~~~~~lppgp~~~P~iG~~~~~~~~~~~~~~~~~~~~~~~~yG~v~~~~l~~~~~vvv~~pe~~~~il~~~~~~f~~~ 103 (472)
T PLN02987 24 TRYRRMRLPPGSLGLPLVGETLQLISAYKTENPEPFIDERVARYGSLFMTHLFGEPTVFSADPETNRFILQNEGKLFECS 103 (472)
T ss_pred hccCCCCCcCCCcCCCchhhHHHHHhhcccCChHHHHHHHHHHhchhhhhhhcCCCeEEEeCHHHHHHHHhCCCceEEec
Confidence 3344455688999999999998762 45888889999999999999999999999999999999999988888665
Q ss_pred C
Q 043968 102 P 102 (107)
Q Consensus 102 ~ 102 (107)
+
T Consensus 104 ~ 104 (472)
T PLN02987 104 Y 104 (472)
T ss_pred C
Confidence 4
No 15
>PLN02655 ent-kaurene oxidase
Probab=99.46 E-value=2e-13 Score=92.96 Aligned_cols=70 Identities=34% Similarity=0.449 Sum_probs=64.1
Q ss_pred CCCCCCCceeeeccccC-CChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCCCCc
Q 043968 35 PPGPTPWPFIGNLNLIG-PLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASRPAL 104 (107)
Q Consensus 35 ~p~~~~~p~~g~~~~~~-~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r~~~ 104 (107)
||||+++|++||++++. ++++..+.+++++||+++++++|+.+.++++||+.++++|.++...|++|+..
T Consensus 1 ppgp~~lP~iG~l~~~~~~~~~~~~~~~~~~yG~i~~~~~g~~~~vvv~~pe~~k~il~~~~~~f~~r~~~ 71 (466)
T PLN02655 1 VPAVPGLPVIGNLLQLKEKKPHRTFTKWSEIYGPIYTIRTGASSVVVLNSTEVAKEAMVTKFSSISTRKLS 71 (466)
T ss_pred CcCCCCCCccccHHHcCCCchhHHHHHHHHHhCCeEEEEECCEeEEEeCCHHHHHHHHHhcCchhcCCChh
Confidence 57999999999999884 55889999999999999999999999999999999999999999999998743
No 16
>KOG0158 consensus Cytochrome P450 CYP3/CYP5/CYP6/CYP9 subfamilies [Secondary metabolites biosynthesis, transport and catabolism]
Probab=99.45 E-value=9.1e-13 Score=89.99 Aligned_cols=84 Identities=26% Similarity=0.375 Sum_probs=66.4
Q ss_pred HHHHHHHhhccCCCCCCCCCCCCceeeecccc--CCChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccc
Q 043968 19 IVLFLFRRQFSRKLNLPPGPTPWPFIGNLNLI--GPLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDI 96 (107)
Q Consensus 19 ~~~~~~~~~~~~~~~~~p~~~~~p~~g~~~~~--~~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~ 96 (107)
+++++.+...++..+.+|+++++|++||+..+ .+.......+...++|++++++.+.+|.++++|||++++|+.+++.
T Consensus 17 ~y~~~~~~~~yw~rrGi~~~~p~p~~Gn~~~~~~~~~~~~~~~~~~~~~~~~~G~y~~~~p~l~v~D~elik~I~ik~F~ 96 (499)
T KOG0158|consen 17 LYLWLRWTYSYWRRRGIPGPKPLPFLGNLPGMLKRERPGDLLLDIYTKYRPVVGIYEGRQPALLVSDPELIKEILIKDFD 96 (499)
T ss_pred HHHHHHhhhhhhccCCCCCCCCCCcEecHHHHHhccCcHHHHHHHHhcCCCEEEEEecCCcceEecCHHHHHHHHHHhCc
Confidence 34444445456666799999999999999988 2333555554444449999999999999999999999999999999
Q ss_pred cccCCC
Q 043968 97 SFASRP 102 (107)
Q Consensus 97 ~~~~r~ 102 (107)
+|.+|.
T Consensus 97 ~F~~r~ 102 (499)
T KOG0158|consen 97 NFYNRK 102 (499)
T ss_pred cCcCCC
Confidence 999953
No 17
>PLN02774 brassinosteroid-6-oxidase
Probab=99.44 E-value=4.2e-13 Score=91.34 Aligned_cols=69 Identities=20% Similarity=0.384 Sum_probs=60.4
Q ss_pred CCCCCCCCCCCceeeeccccCCChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhcccccc
Q 043968 31 KLNLPPGPTPWPFIGNLNLIGPLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFA 99 (107)
Q Consensus 31 ~~~~~p~~~~~p~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~ 99 (107)
+.+.+|||+++|++||+..+..+...+++++.++||+++++++|+.+.++++||+.+++++.++...|.
T Consensus 29 r~~~ppgp~~~P~~G~~~~~~~~~~~~~~~~~~~yG~i~~~~~g~~~~v~i~~p~~~~~il~~~~~~~~ 97 (463)
T PLN02774 29 KKGLPPGTMGWPLFGETTEFLKQGPDFMKNQRLRYGSFFKSHILGCPTIVSMDPELNRYILMNEGKGLV 97 (463)
T ss_pred CCCCCCCCCCCCchhhHHHHHHhhHHHHHHHHHHhccCccceecCCCeEEEeCHHHHHHHHcCCCCeEE
Confidence 345578888999999998876667788999999999999999999999999999999999988777764
No 18
>PLN02290 cytokinin trans-hydroxylase
Probab=99.39 E-value=2.1e-12 Score=88.87 Aligned_cols=74 Identities=20% Similarity=0.228 Sum_probs=60.6
Q ss_pred CCCCCCCCCCCCceeeeccccC-------------------CChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHH
Q 043968 30 RKLNLPPGPTPWPFIGNLNLIG-------------------PLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELL 90 (107)
Q Consensus 30 ~~~~~~p~~~~~p~~g~~~~~~-------------------~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~v 90 (107)
...+.+|||+++|++||++++. .+....+.++.++||+++++|+|+.+.++++||+.++++
T Consensus 39 ~~~~~~PGP~~~P~iGnl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~yG~i~~~~~g~~~~vvv~dp~~v~~i 118 (516)
T PLN02290 39 MERQGVRGPKPRPLTGNILDVSALVSQSTSKDMDSIHHDIVGRLLPHYVAWSKQYGKRFIYWNGTEPRLCLTETELIKEL 118 (516)
T ss_pred HHHcCCCCCCCCcCCCCHHHHHHHHHHhhcCCCCCCCcccccccchHHHHHHHHhCCeEEEccCCccEEEECCHHHHHHH
Confidence 3456799999999999998762 123345688999999999999999999999999999999
Q ss_pred HhhccccccCCCCc
Q 043968 91 LKTHDISFASRPAL 104 (107)
Q Consensus 91 l~~~~~~~~~r~~~ 104 (107)
+.++ ..+.+|++.
T Consensus 119 l~~~-~~~~~r~~~ 131 (516)
T PLN02290 119 LTKY-NTVTGKSWL 131 (516)
T ss_pred HhcC-CCCCCCcch
Confidence 9876 457777753
No 19
>PLN03141 3-epi-6-deoxocathasterone 23-monooxygenase; Provisional
Probab=99.36 E-value=1.7e-12 Score=88.19 Aligned_cols=73 Identities=25% Similarity=0.439 Sum_probs=64.3
Q ss_pred CCCCCCCCCCCCceeeecccc-----CCChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCCC
Q 043968 30 RKLNLPPGPTPWPFIGNLNLI-----GPLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASRP 102 (107)
Q Consensus 30 ~~~~~~p~~~~~p~~g~~~~~-----~~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r~ 102 (107)
++.+.||||.+.|++|+++++ ..+++.++.++.++||+++++++|+.+.++++||++++++|.++...|++|.
T Consensus 4 ~~~~~Ppg~~~~P~iG~~~~l~~~~~~~~~~~~~~~~~~~yG~i~~~~lg~~~~vvv~~p~~~~~vl~~~~~~~~~~~ 81 (452)
T PLN03141 4 KKSRLPKGSLGWPVIGETLDFISCAYSSRPESFMDKRRSLYGKVFKSHIFGTPTIVSTDAEVNKVVLQSDGNAFVPAY 81 (452)
T ss_pred CCCCCCCCCCCCCchhhHHHHHhhcccCChHHHHHHHHHHhhheeeeccCCCCEEEEeCHHHhhHHHhCCCCeeeccC
Confidence 445568899999999999887 2468889999999999999999999999999999999999998888888763
No 20
>PLN03018 homomethionine N-hydroxylase
Probab=99.34 E-value=2e-11 Score=84.61 Aligned_cols=72 Identities=29% Similarity=0.541 Sum_probs=59.8
Q ss_pred CCCCCCCCCceeeeccccC-CCh-HHHHHHHHHHc-CCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCCCCc
Q 043968 33 NLPPGPTPWPFIGNLNLIG-PLP-HVSIHSLSQKY-GPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASRPAL 104 (107)
Q Consensus 33 ~~~p~~~~~p~~g~~~~~~-~~~-~~~~~~~~~~~-g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r~~~ 104 (107)
+.||||+++|++||++++. .++ ..++++..++| |+++++++|+.+.++++|||.++++|.++...|++||..
T Consensus 40 ~~PPgp~~~P~iGnl~~l~~~~~~~~~~~~~~~~~~g~i~~~~lg~~~~vvvsdpe~ikevl~~~~~~f~~rp~~ 114 (534)
T PLN03018 40 QLPPGPPGWPILGNLPELIMTRPRSKYFHLAMKELKTDIACFNFAGTHTITINSDEIAREAFRERDADLADRPQL 114 (534)
T ss_pred CCCcCCCCCCeeccHHHhccCCCcchhHHHHHHHhCCCeEEEEeCCccEEEECCHHHHHHHHHhCcHhhcCCCCc
Confidence 4688999999999998873 222 23456666666 799999999999999999999999999988889999854
No 21
>PLN02302 ent-kaurenoic acid oxidase
Probab=99.31 E-value=4e-11 Score=82.01 Aligned_cols=72 Identities=26% Similarity=0.421 Sum_probs=59.8
Q ss_pred ccCCCCCCCCCCCCceeeecccc-----CCChHHHHHHHHHHcCC--eeEEEcCCcCEEEecCHHHHHHHHhhccccccC
Q 043968 28 FSRKLNLPPGPTPWPFIGNLNLI-----GPLPHVSIHSLSQKYGP--LMHLKFGLSPVVVGSSAEVAELLLKTHDISFAS 100 (107)
Q Consensus 28 ~~~~~~~~p~~~~~p~~g~~~~~-----~~~~~~~~~~~~~~~g~--~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~ 100 (107)
.....+.+|||.++|++|++.++ ..+++.++.+++++||+ ++++++++.+.++++|||.+++++.++ ..|.+
T Consensus 37 ~~~~~~lpPgp~~~PilG~l~~~~~~~~~~~~~~~~~~~~~kyG~~~i~~~~~~~~~~vvv~~pe~~~~vl~~~-~~f~~ 115 (490)
T PLN02302 37 GEGQPPLPPGDLGWPVIGNMWSFLRAFKSSNPDSFIASFISRYGRTGIYKAFMFGQPTVLVTTPEACKRVLTDD-DAFEP 115 (490)
T ss_pred ccCCCCCcCCCCCCCccccHHHHHHhcccCCcHHHHHHHHHHhCCCcceeeecCCCCeEEEcCHHHHHHHHcCC-Ccccc
Confidence 33444678999999999999876 24678889999999996 799999999999999999999999866 45544
No 22
>PF00067 p450: Cytochrome P450 p450 superfamily signature b-class p450 signature mitochondrial p450 signature E-class p450 group I signature E-class p450 group II signature E-class p450 group IV signature; InterPro: IPR001128 Cytochrome P450 enzymes are a superfamily of haem-containing mono-oxygenases that are found in all kingdoms of life, and which show extraordinary diversity in their reaction chemistry. In mammals, these proteins are found primarily in microsomes of hepatocytes and other cell types, where they oxidise steroids, fatty acids and xenobiotics, and are important for the detoxification and clearance of various compounds, as well as for hormone synthesis and breakdown, cholesterol synthesis and vitamin D metabolism. In plants, these proteins are important for the biosynthesis of several compounds such as hormones, defensive compounds and fatty acids. In bacteria, they are important for several metabolic processes, such as the biosynthesis of antibiotic erythromycin in Saccharopolyspora erythraea (Streptomyces erythraeus). Cytochrome P450 enzymes use haem to oxidise their substrates, using protons derived from NADH or NADPH to split the oxygen so a single atom can be added to a substrate. They also require electrons, which they receive from a variety of redox partners. In certain cases, cytochrome P450 can be fused to its redox partner to produce a bi-functional protein, such as with P450BM-3 from Bacillus megaterium [], which has haem and flavin domains. Organisms produce many different cytochrome P450 enzymes (at least 58 in humans), which together with alternative splicing can provide a wide array of enzymes with different substrate and tissue specificities. Individual cytochrome P450 proteins follow the nomenclature: CYP, followed by a number (family), then a letter (subfamily), and another number (protein); e.g. CYP3A4 is the fourth protein in family 3, subfamily A. In general, family members should share >40% identity, while subfamily members should share >55% identity. Cytochrome P450 proteins can also be grouped by two different schemes. One scheme was based on a taxonomic split: class I (prokaryotic/mitochondrial) and class II (eukaryotic microsomes). The other scheme was based on the number of components in the system: class B (3-components) and class E (2-components). These classes merge to a certain degree. Most prokaryotes and mitochondria (and fungal CYP55) have 3-component systems (class I/class B) - a FAD-containing flavoprotein (NAD(P)H-dependent reductase), an iron-sulphur protein and P450. Most eukaryotic microsomes have 2-component systems (class II/class E) - NADPH:P450 reductase (FAD and FMN-containing flavoprotein) and P450. There are exceptions to this scheme, such as 1-component systems that resemble class E enzymes [, , ]. The class E enzymes can be further subdivided into five sequence clusters, groups I-V, each of which may contain more than one cytochrome P450 family (eg, CYP1 and CYP2 are both found in group I). The divergence of the cytochrome P450 superfamily into B- and E-classes, and further divergence into stable clusters within the E-class, appears to be very ancient, occurring before the appearance of eukaryotes. More information about these proteins can be found at Protein of the Month: Cytochrome P450 [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0016705 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 0020037 heme binding, 0055114 oxidation-reduction process; PDB: 2RFC_B 2RFB_A 3EJB_H 3EJE_H 3EJD_H 1N6B_A 1NR6_A 1DT6_A 3EL3_A 3DBG_B ....
Probab=99.28 E-value=1.8e-12 Score=86.58 Aligned_cols=67 Identities=37% Similarity=0.674 Sum_probs=61.6
Q ss_pred CCCCCCCceeeeccccC--CChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCC
Q 043968 35 PPGPTPWPFIGNLNLIG--PLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASR 101 (107)
Q Consensus 35 ~p~~~~~p~~g~~~~~~--~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r 101 (107)
||||+++|++|+..++. .+++..+.+++++||+++++++++.+.++++||+.+++++.++...++.+
T Consensus 1 Ppgp~~~p~~G~~~~~~~~~~~~~~~~~~~~kyG~i~~~~~~~~~~vvv~~pe~~~~il~~~~~~~~~~ 69 (463)
T PF00067_consen 1 PPGPPPLPILGNLLQFRRKGNPHEFFRELHKKYGPIFRIWPGGQPIVVVSDPELIKEILRSRSKYFSFR 69 (463)
T ss_dssp SSCSSSBTTTBTHHHHHTTHHHHHHHHHHHHHHTSEEEEEETTEEEEEEESHHHHHHHHTTTTTTEEEE
T ss_pred CcCCCCcCceeEHHHhcCCCcHHHHHHHHHHHhCCEEEEeEecccccccccchhhcccccccccccccc
Confidence 68899999999999994 67888899999999999999999999999999999999999998777765
No 23
>KOG0157 consensus Cytochrome P450 CYP4/CYP19/CYP26 subfamilies [Secondary metabolites biosynthesis, transport and catabolism; Lipid transport and metabolism]
Probab=99.17 E-value=1.2e-10 Score=80.21 Aligned_cols=69 Identities=35% Similarity=0.608 Sum_probs=59.8
Q ss_pred CCCCCCCCCCCceeeeccccC---CChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhcccccc
Q 043968 31 KLNLPPGPTPWPFIGNLNLIG---PLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFA 99 (107)
Q Consensus 31 ~~~~~p~~~~~p~~g~~~~~~---~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~ 99 (107)
....+|||+++|++|++.++. .+..+++.++..+||++++.|+|+.+.++++|||.+++||.++...+.
T Consensus 33 ~~~~~~gp~~~P~iG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~dp~~~~~Il~~~~~~~~ 104 (497)
T KOG0157|consen 33 KKKLPPGPPGWPLIGNLLEFLKPLEEILDFVTELLSRYGPIFKTWLGGKPTVVTTDPELIEEILKSSNENYP 104 (497)
T ss_pred HhccCCCCCCCCcccchHHhhcchhHHHHHHHHHHHHcCchhhhhhcCeeEEEEcCHHHHHHHHhcCcccCC
Confidence 456789999999999999883 357788899999999999999999999999999999999976555443
No 24
>PLN03195 fatty acid omega-hydroxylase; Provisional
Probab=99.09 E-value=6.6e-10 Score=76.70 Aligned_cols=67 Identities=19% Similarity=0.234 Sum_probs=53.0
Q ss_pred CCCCCCCCceeeeccccCCChHHHHHHHHHHc---CCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCC
Q 043968 34 LPPGPTPWPFIGNLNLIGPLPHVSIHSLSQKY---GPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASR 101 (107)
Q Consensus 34 ~~p~~~~~p~~g~~~~~~~~~~~~~~~~~~~~---g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r 101 (107)
.+|||+++|++|++.++..+ +..+.++.++| |+++++++|+.+.++++||+.+++|+.++...|..+
T Consensus 31 ~~pgp~~~p~~G~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~g~~~~v~i~~p~~~~~il~~~~~~~~~~ 100 (516)
T PLN03195 31 NRKGPKSWPIIGAALEQLKN-YDRMHDWLVEYLSKDRTVVVKMPFTTYTYIADPVNVEHVLKTNFANYPKG 100 (516)
T ss_pred ccCCCCCCCeecchHHHHhc-cchHHHHHHHHhccCCcEEEeeCCCCceEecCHHHHHHHHhhCccccCCc
Confidence 47899999999998765322 23455666666 799999999999999999999999998765566554
No 25
>PLN02169 fatty acid (omega-1)-hydroxylase/midchain alkane hydroxylase
Probab=99.06 E-value=2.3e-09 Score=73.89 Aligned_cols=73 Identities=14% Similarity=0.129 Sum_probs=57.1
Q ss_pred CCCCCCCCCCCCceeeeccccC---CChHHHHHHHHHHcCCeeE---EEcCCcCEEEecCHHHHHHHHhhccccccCCC
Q 043968 30 RKLNLPPGPTPWPFIGNLNLIG---PLPHVSIHSLSQKYGPLMH---LKFGLSPVVVGSSAEVAELLLKTHDISFASRP 102 (107)
Q Consensus 30 ~~~~~~p~~~~~p~~g~~~~~~---~~~~~~~~~~~~~~g~~~~---~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r~ 102 (107)
++.+.+|+|+++|++||+.++. ....+++.+...++|..++ .|+|+.+.++++|||.+++||.++...|+.++
T Consensus 28 ~~~~~~p~p~~~pl~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~g~~~~vvv~dpe~i~~il~~~~~~~~k~~ 106 (500)
T PLN02169 28 KKPHGQPILKNWPFLGMLPGMLHQIPRIYDWTVEVLEASNLTFYFKGPWLSGTDMLFTADPKNIHHILSSNFGNYPKGP 106 (500)
T ss_pred hccCCCCCCCCCCcccchHHHHHccCcHHHHHHHHHHhCCCcEEEEeeccCCCCeEEEcCHHHHHHHHhhCcccCCCcH
Confidence 3445789999999999997772 3345556666666886554 68899999999999999999999888887764
No 26
>KOG0684 consensus Cytochrome P450 [Secondary metabolites biosynthesis, transport and catabolism]
Probab=99.02 E-value=3.1e-09 Score=71.51 Aligned_cols=65 Identities=17% Similarity=0.206 Sum_probs=58.4
Q ss_pred CCCCCCCC-CceeeeccccCCChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhcccc
Q 043968 33 NLPPGPTP-WPFIGNLNLIGPLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDIS 97 (107)
Q Consensus 33 ~~~p~~~~-~p~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~ 97 (107)
+.||.-.+ .|++|+...++.++..++++..++||++|.+.++|+.+-++.+|+....++.++...
T Consensus 31 ~~PPli~gwiP~lG~a~~fgk~P~eFl~~~~~K~GdVFTv~l~Gk~~Tfll~p~~~~~v~~~~~~~ 96 (486)
T KOG0684|consen 31 KEPPLIKGWIPWLGSALAFGKDPLEFLRECRKKYGDVFTVLLMGKYMTFLLGPEGYDFVFKAKLAD 96 (486)
T ss_pred CCCcccccCcchhhHHHHhccCHHHHHHHHHHhcCCeEEEEEcCcEEEEEeCchhhHHHHcCcccc
Confidence 46676655 799999999999999999999999999999999999999999999999999877433
No 27
>PLN02936 epsilon-ring hydroxylase
Probab=98.79 E-value=1.4e-08 Score=69.90 Aligned_cols=68 Identities=19% Similarity=0.231 Sum_probs=59.4
Q ss_pred CCCCCCceeeecccc-----CCChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCCCC
Q 043968 36 PGPTPWPFIGNLNLI-----GPLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASRPA 103 (107)
Q Consensus 36 p~~~~~p~~g~~~~~-----~~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r~~ 103 (107)
.|-.++|.+|..++. ....+..+.+++++||+++++++|+.+.++++|||++++|++++...|..++.
T Consensus 15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~yG~i~~~~~g~~~~vvv~~pe~~~~il~~~~~~f~~~~~ 87 (489)
T PLN02936 15 GDDSGIPVADAKLEDVTDLLGGALFLPLFKWMNEYGPVYRLAAGPRNFVVVSDPAIAKHVLRNYGSKYAKGLV 87 (489)
T ss_pred CCCCCCccHHhHHhhHHHHhccHHHHHHHHHHHHcCCEEEEccCCccEEEEcCHHHHHHHHHhccccccCcch
Confidence 456789999988877 36678889999999999999999999999999999999999887778877653
No 28
>PLN02648 allene oxide synthase
Probab=98.73 E-value=9.3e-09 Score=70.73 Aligned_cols=63 Identities=17% Similarity=0.228 Sum_probs=54.2
Q ss_pred CCCCCCCCCCCceeeecccc-----CCChHHHHHHHHHHcCC-eeEEEcCCcCE-------EEecCHHHHHHHHhh
Q 043968 31 KLNLPPGPTPWPFIGNLNLI-----GPLPHVSIHSLSQKYGP-LMHLKFGLSPV-------VVGSSAEVAELLLKT 93 (107)
Q Consensus 31 ~~~~~p~~~~~p~~g~~~~~-----~~~~~~~~~~~~~~~g~-~~~~~~~~~~~-------v~~~~p~~~~~vl~~ 93 (107)
+.+.|||..++|++|+..++ ..++..++.+..++||+ +|+.++++.|. ++++|||.++.+|++
T Consensus 15 ~~~~PPg~~g~P~iG~~~~~~~~~~~~~~~~F~~~~~~kyG~~vfk~~l~g~p~~~~~~~~v~~~~~e~~~~v~~~ 90 (480)
T PLN02648 15 PLREIPGSYGLPFLGAIKDRLDYFYFQGEDEFFRSRVEKYKSTVFRVNMPPGPFIAPDPRVIALLDQKSFPVLFDV 90 (480)
T ss_pred CCCCCCCCCCCcCcchhhhhhhHHHhcChHHHHHHHHHHhCCceEEecCCCCCCCCCCCCEEEEEcCCceeeeecc
Confidence 34568899999999999865 35568999999999998 99999988666 999999999999975
No 29
>KOG0159 consensus Cytochrome P450 CYP11/CYP12/CYP24/CYP27 subfamilies [Secondary metabolites biosynthesis, transport and catabolism]
Probab=98.58 E-value=9.4e-08 Score=65.53 Aligned_cols=70 Identities=29% Similarity=0.490 Sum_probs=60.9
Q ss_pred CCCCCCCCCCceeeecccc----CCChHHHHHHHHHHcCCeeEEE-cCCcCEEEecCHHHHHHHHhhccccccCCC
Q 043968 32 LNLPPGPTPWPFIGNLNLI----GPLPHVSIHSLSQKYGPLMHLK-FGLSPVVVGSSAEVAELLLKTHDISFASRP 102 (107)
Q Consensus 32 ~~~~p~~~~~p~~g~~~~~----~~~~~~~~~~~~~~~g~~~~~~-~~~~~~v~~~~p~~~~~vl~~~~~~~~~r~ 102 (107)
...+|+|++.+++|.+..+ ..+.++.....+++||++++.. +|+...|.+.||++++.++.++. .++.||
T Consensus 49 ~~~IP~p~~~~~l~~l~~~~~~~~~~lh~~~~~~~~~YG~I~~~~~~G~~~~V~v~~p~d~E~v~r~EG-~~P~Rp 123 (519)
T KOG0159|consen 49 FEEIPGPKGLPFLGLLWIWRAGGATKLHQHIVQLHQKYGPIFREGMLGRVDLVHVYNPDDVEKVFRNEG-KYPFRP 123 (519)
T ss_pred hhhcCCCCCccHHHHHHHHHhhhhhHHHHHHHHHHHHcCceeeeccCCCCCeEEeeCHHHHHHHHhcCC-CCCCcc
Confidence 3468999999999999854 4778889999999999999999 88899999999999999997765 568886
No 30
>PLN02738 carotene beta-ring hydroxylase
Probab=98.52 E-value=2.7e-07 Score=65.50 Aligned_cols=60 Identities=18% Similarity=0.396 Sum_probs=49.4
Q ss_pred eeecccc-CCChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhccccccCCCC
Q 043968 44 IGNLNLI-GPLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASRPA 103 (107)
Q Consensus 44 ~g~~~~~-~~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r~~ 103 (107)
.|++..+ ....+..+++++++||+++++++|+.+.++++||+.+++++.++...|+.++.
T Consensus 142 ~G~l~~i~~g~~~~~l~~lh~kYGpI~ri~lGp~~~vvIsDpe~i~eIl~~~~~~f~k~~~ 202 (633)
T PLN02738 142 KGSISAVRGEAFFIPLYELFLTYGGIFRLTFGPKSFLIVSDPSIAKHILRDNSKAYSKGIL 202 (633)
T ss_pred cCcHHHhcCchHHHHHHHHHHHhCCEEEEEeCCCCEEEECCHHHHHHHHhhCcccCCCcch
Confidence 3444444 34567888999999999999999999999999999999999887777877643
No 31
>PLN02426 cytochrome P450, family 94, subfamily C protein
Probab=97.36 E-value=0.0015 Score=45.63 Aligned_cols=59 Identities=12% Similarity=-0.047 Sum_probs=43.3
Q ss_pred CceeeeccccCCChHHHHHHHHHHcC-CeeEEEcCCcCEEEecCHHHHHHHHhhccccccCC
Q 043968 41 WPFIGNLNLIGPLPHVSIHSLSQKYG-PLMHLKFGLSPVVVGSSAEVAELLLKTHDISFASR 101 (107)
Q Consensus 41 ~p~~g~~~~~~~~~~~~~~~~~~~~g-~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~~r 101 (107)
.++.|+......+..+++.++.++++ .+++++..+. ++++|||.+++|+.++..+|+..
T Consensus 49 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--iv~~dpe~i~~vl~~~~~~~~k~ 108 (502)
T PLN02426 49 AYLTASWAKDFDNLCDWYAHLLRRSPTGTIHVHVLGN--TITANPENVEYMLKTRFDNYPKG 108 (502)
T ss_pred CCccHHHHHhcccHHHHHHHHHHhCCCcEEEEecCCc--EEecCHHHHHHHHhhChhcCCCc
Confidence 45677765544556777767777776 5777776553 88999999999999887777644
No 32
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=78.25 E-value=3.7 Score=23.61 Aligned_cols=12 Identities=8% Similarity=0.287 Sum_probs=5.5
Q ss_pred HHHHhhccCCCC
Q 043968 22 FLFRRQFSRKLN 33 (107)
Q Consensus 22 ~~~~~~~~~~~~ 33 (107)
.++++.++++.+
T Consensus 18 ~~~~~~rRR~r~ 29 (130)
T PF12273_consen 18 LFYCHNRRRRRR 29 (130)
T ss_pred HHHHHHHHHhhc
Confidence 333445555444
No 33
>PF13625 Helicase_C_3: Helicase conserved C-terminal domain
Probab=75.36 E-value=9.2 Score=21.85 Aligned_cols=41 Identities=20% Similarity=0.211 Sum_probs=30.9
Q ss_pred CChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhc
Q 043968 52 PLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTH 94 (107)
Q Consensus 52 ~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~ 94 (107)
.+....+++|.++||.+.-.. +...+...|++.+++++.+.
T Consensus 74 ~~v~~~i~~w~~~~g~v~l~~--~~~~l~~~d~~~l~~l~~~~ 114 (129)
T PF13625_consen 74 QNVEQSIEDWARRYGRVRLYK--GAYLLECDDPELLDELLADP 114 (129)
T ss_pred HHHHHHHHHHHHhcCCEEEec--CeEEEEECCHHHHHHHHhCh
Confidence 455677889999999865522 44567788999999998653
No 34
>KOG3653 consensus Transforming growth factor beta/activin receptor subfamily of serine/threonine kinases [Signal transduction mechanisms]
Probab=74.50 E-value=21 Score=25.66 Aligned_cols=48 Identities=8% Similarity=0.063 Sum_probs=28.1
Q ss_pred CChHHHHHHHH-HHcCCeeEEEcCCcCEEE-ecCHHHHHHHHhhccccccC
Q 043968 52 PLPHVSIHSLS-QKYGPLMHLKFGLSPVVV-GSSAEVAELLLKTHDISFAS 100 (107)
Q Consensus 52 ~~~~~~~~~~~-~~~g~~~~~~~~~~~~v~-~~~p~~~~~vl~~~~~~~~~ 100 (107)
.++...++-.. .+||.|++..+-++...+ +...+.. +-+.++..+|+.
T Consensus 209 l~pl~l~eli~~Grfg~V~KaqL~~~~VAVKifp~~~k-qs~~~Ek~Iy~l 258 (534)
T KOG3653|consen 209 LDPLQLLELIGRGRFGCVWKAQLDNRLVAVKIFPEQEK-QSFQNEKNIYSL 258 (534)
T ss_pred CCchhhHHHhhcCccceeehhhccCceeEEEecCHHHH-HHHHhHHHHHhc
Confidence 34444554443 468899998887776655 4444444 444455556653
No 35
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=73.57 E-value=8.6 Score=20.75 Aligned_cols=14 Identities=21% Similarity=0.555 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHHHH
Q 043968 11 YSILFFLPIVLFLF 24 (107)
Q Consensus 11 ~~~~~~~~~~~~~~ 24 (107)
++++++++++.|+.
T Consensus 40 I~~iFil~Vilwfv 53 (94)
T PF05393_consen 40 ICGIFILLVILWFV 53 (94)
T ss_pred HHHHHHHHHHHHHH
Confidence 33443444444443
No 36
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=66.86 E-value=12 Score=17.55 Aligned_cols=44 Identities=25% Similarity=0.272 Sum_probs=29.2
Q ss_pred HHHHHHcCCeeEEEcCC----cCEEEecCHHHHHHHHhh-ccccccCCC
Q 043968 59 HSLSQKYGPLMHLKFGL----SPVVVGSSAEVAELLLKT-HDISFASRP 102 (107)
Q Consensus 59 ~~~~~~~g~~~~~~~~~----~~~v~~~~p~~~~~vl~~-~~~~~~~r~ 102 (107)
.+.+.+||++-.+.+.. .-.+.-.+++.++..... +...+.+|+
T Consensus 2 ~~~f~~fG~V~~i~~~~~~~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~ 50 (56)
T PF13893_consen 2 YKLFSKFGEVKKIKIFKKKRGFAFVEFASVEDAQKAIEQLNGRQFNGRP 50 (56)
T ss_dssp HHHHTTTS-EEEEEEETTSTTEEEEEESSHHHHHHHHHHHTTSEETTEE
T ss_pred hHHhCCcccEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence 46778899988877633 345556799998888853 444566553
No 37
>PLN03120 nucleic acid binding protein; Provisional
Probab=61.80 E-value=43 Score=22.01 Aligned_cols=57 Identities=14% Similarity=0.126 Sum_probs=40.2
Q ss_pred eeeccccCCChHHHHHHHHHHcCCeeEEEc------CCcCEEEecCHHHHHHHHhhccccccCCC
Q 043968 44 IGNLNLIGPLPHVSIHSLSQKYGPLMHLKF------GLSPVVVGSSAEVAELLLKTHDISFASRP 102 (107)
Q Consensus 44 ~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~------~~~~~v~~~~p~~~~~vl~~~~~~~~~r~ 102 (107)
+||+.. .--.+.+++++..||++-.+.+ .+.-.+...+++.++..+.-+...+.+|+
T Consensus 9 VgNLs~--~tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~AllLnG~~l~gr~ 71 (260)
T PLN03120 9 VSNVSL--KATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETALLLSGATIVDQS 71 (260)
T ss_pred EeCCCC--CCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHHHhcCCeeCCce
Confidence 455432 2334557788888999888776 23466777899999999977777777665
No 38
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=59.19 E-value=31 Score=19.52 Aligned_cols=55 Identities=24% Similarity=0.324 Sum_probs=33.6
Q ss_pred CCCCCCCceeeeccccCCChHHHHHHHHHHcCCeeEEEcCCc------CEEEecCHHHHHHHH
Q 043968 35 PPGPTPWPFIGNLNLIGPLPHVSIHSLSQKYGPLMHLKFGLS------PVVVGSSAEVAELLL 91 (107)
Q Consensus 35 ~p~~~~~p~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~------~~v~~~~p~~~~~vl 91 (107)
+|....+-.+-|++. +-..+-+-+++.+||.+.++.+|.. ..++-.|-.+++...
T Consensus 14 ppevnriLyirNLp~--~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~ 74 (124)
T KOG0114|consen 14 PPEVNRILYIRNLPF--KITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKAC 74 (124)
T ss_pred ChhhheeEEEecCCc--cccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHH
Confidence 333333444545432 2334556678889999999998764 456655666666655
No 39
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=58.13 E-value=36 Score=19.95 Aligned_cols=57 Identities=18% Similarity=0.178 Sum_probs=37.6
Q ss_pred eeeeccccCCChHHHHHHHHHHcCCeeEEEcC---------CcCEEEecCHHHHHHHHhh-ccccccCC
Q 043968 43 FIGNLNLIGPLPHVSIHSLSQKYGPLMHLKFG---------LSPVVVGSSAEVAELLLKT-HDISFASR 101 (107)
Q Consensus 43 ~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~~---------~~~~v~~~~p~~~~~vl~~-~~~~~~~r 101 (107)
+++++.. .--.+.+++++++||++..+.+. +.-.|...+++.++..+.. +...+.+|
T Consensus 38 fVgnL~~--~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr 104 (144)
T PLN03134 38 FIGGLSW--GTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGR 104 (144)
T ss_pred EEeCCCC--CCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCE
Confidence 4555542 23466778888999988766652 2356678899999999964 34444444
No 40
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=57.11 E-value=55 Score=21.78 Aligned_cols=58 Identities=16% Similarity=0.219 Sum_probs=39.8
Q ss_pred eeeeccccCCChHHHHHHHHHHcCCeeEEEcCCc---------CEEEecCHHHHHHHHhh-ccccccCCC
Q 043968 43 FIGNLNLIGPLPHVSIHSLSQKYGPLMHLKFGLS---------PVVVGSSAEVAELLLKT-HDISFASRP 102 (107)
Q Consensus 43 ~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---------~~v~~~~p~~~~~vl~~-~~~~~~~r~ 102 (107)
++||+.. .--.+.+.+++.+||++..+.+... -.|.-.+++.+...+.+ +...+.+|+
T Consensus 273 fV~NL~~--~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~ 340 (352)
T TIGR01661 273 FVYNLSP--DTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRV 340 (352)
T ss_pred EEeCCCC--CCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeE
Confidence 4666543 3345667888999999887776432 26667789988888754 666677764
No 41
>PF07912 ERp29_N: ERp29, N-terminal domain; InterPro: IPR012883 ERp29 (P52555 from SWISSPROT) is a ubiquitously expressed endoplasmic reticulum protein, and is involved in the processes of protein maturation and protein secretion in this organelle [, ]. The protein exists as a homodimer, with each monomer being composed of two domains. The N-terminal domain featured in this family is organised into a thioredoxin-like fold that resembles the a domain of human protein disulphide isomerase (PDI) []. However, this domain lacks the C-X-X-C motif required for the redox function of PDI; it is therefore thought that the function of ERp29 is similar to the chaperone function of PDI []. The N-terminal domain is exclusively responsible for the homodimerisation of the protein, without covalent linkages or additional contacts with other domains []. ; GO: 0009306 protein secretion, 0005788 endoplasmic reticulum lumen; PDB: 2QC7_B 1G7E_A 2C0G_B 1OVN_A 2C0F_A 2C0E_A 2C1Y_B.
Probab=56.80 E-value=37 Score=19.68 Aligned_cols=44 Identities=20% Similarity=0.292 Sum_probs=29.4
Q ss_pred HHHHHHcC------CeeEEEcCC-cCEEEe-----cCHHHHHHHHhhccccccCCC
Q 043968 59 HSLSQKYG------PLMHLKFGL-SPVVVG-----SSAEVAELLLKTHDISFASRP 102 (107)
Q Consensus 59 ~~~~~~~g------~~~~~~~~~-~~~v~~-----~~p~~~~~vl~~~~~~~~~r~ 102 (107)
.++.++|| |++.+..++ .+.+.. ...+.++..++++...|-++|
T Consensus 71 ~~Laery~i~ke~fPv~~LF~~~~~~pv~~p~~~~~t~~~l~~fvk~~t~~yiglp 126 (126)
T PF07912_consen 71 MELAERYKIDKEDFPVIYLFVGDKEEPVRYPFDGDVTADNLQRFVKSNTGLYIGLP 126 (126)
T ss_dssp HHHHHHTT-SCCC-SEEEEEESSTTSEEEE-TCS-S-HHHHHHHHHHTSS--TTST
T ss_pred HHHHHHhCCCcccCCEEEEecCCCCCCccCCccCCccHHHHHHHHHhCCCeeecCC
Confidence 56777775 577766644 355544 356889999999988998886
No 42
>PF14307 Glyco_tran_WbsX: Glycosyltransferase WbsX
Probab=53.21 E-value=24 Score=23.89 Aligned_cols=55 Identities=22% Similarity=0.330 Sum_probs=32.2
Q ss_pred CCCce-eeeccccCCChHHHHHHHHHHcC-C---eeEEEcCCcCEEEecCHHHHHHHHhhcccc
Q 043968 39 TPWPF-IGNLNLIGPLPHVSIHSLSQKYG-P---LMHLKFGLSPVVVGSSAEVAELLLKTHDIS 97 (107)
Q Consensus 39 ~~~p~-~g~~~~~~~~~~~~~~~~~~~~g-~---~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~ 97 (107)
|..|. +|-.-....+....-.+++++|| + .+..|+.+.+.+- +-++.+|.++..+
T Consensus 43 P~~P~~lGyYdl~~p~v~~~Q~~lA~~~GI~gF~~~~Ywf~gk~lLe----~p~~~~l~~~~~d 102 (345)
T PF14307_consen 43 PRVPLDLGYYDLRDPEVMEKQAELAKEYGIDGFCFYHYWFNGKRLLE----KPLENLLASKEPD 102 (345)
T ss_pred CCCCCcCCcccCCCHHHHHHHHHHHHHhCCCEEEEEeeecCCchHHH----HHHHHHHhcCCCC
Confidence 34565 55443224556777789999998 2 4466776654431 3346677554443
No 43
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=50.08 E-value=45 Score=18.69 Aligned_cols=11 Identities=45% Similarity=0.534 Sum_probs=8.2
Q ss_pred CCceeeecccc
Q 043968 40 PWPFIGNLNLI 50 (107)
Q Consensus 40 ~~p~~g~~~~~ 50 (107)
.-|++||+...
T Consensus 45 ~~p~YgNL~~~ 55 (107)
T PF15330_consen 45 DDPCYGNLELQ 55 (107)
T ss_pred CCccccccccc
Confidence 46889998765
No 44
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=48.77 E-value=73 Score=20.71 Aligned_cols=51 Identities=14% Similarity=0.083 Sum_probs=38.0
Q ss_pred CChHHHHHHHHHHcCCeeEEEc---------CCcCEEEecCHHHHHHHHhhccccccCCC
Q 043968 52 PLPHVSIHSLSQKYGPLMHLKF---------GLSPVVVGSSAEVAELLLKTHDISFASRP 102 (107)
Q Consensus 52 ~~~~~~~~~~~~~~g~~~~~~~---------~~~~~v~~~~p~~~~~vl~~~~~~~~~r~ 102 (107)
+..-+-+++.+++||+|....+ -+.-.|...|+|.++...++...+-.+|-
T Consensus 23 ~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~ 82 (247)
T KOG0149|consen 23 ETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRK 82 (247)
T ss_pred ccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCCcccccc
Confidence 4556778899999998876553 12246778899999999988777777764
No 45
>smart00362 RRM_2 RNA recognition motif.
Probab=48.70 E-value=30 Score=16.20 Aligned_cols=47 Identities=23% Similarity=0.277 Sum_probs=30.3
Q ss_pred HHHHHHHHHHcCCeeEEEcC-------CcCEEEecCHHHHHHHHhhcc-ccccCC
Q 043968 55 HVSIHSLSQKYGPLMHLKFG-------LSPVVVGSSAEVAELLLKTHD-ISFASR 101 (107)
Q Consensus 55 ~~~~~~~~~~~g~~~~~~~~-------~~~~v~~~~p~~~~~vl~~~~-~~~~~r 101 (107)
.+.+.++.++||++..+.+. +...+...+++.++..+.... ..+.++
T Consensus 13 ~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~ 67 (72)
T smart00362 13 EEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGR 67 (72)
T ss_pred HHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCE
Confidence 45567778889987655542 234556789999998886533 344443
No 46
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=46.19 E-value=38 Score=18.28 Aligned_cols=39 Identities=15% Similarity=0.186 Sum_probs=29.3
Q ss_pred HHHHHHHHHHcCCeeEEEcCCc-CEEEecCHHHHHHHHhh
Q 043968 55 HVSIHSLSQKYGPLMHLKFGLS-PVVVGSSAEVAELLLKT 93 (107)
Q Consensus 55 ~~~~~~~~~~~g~~~~~~~~~~-~~v~~~~p~~~~~vl~~ 93 (107)
...+.+++..||.+.-.|+... ..|.+.+.+.++.+...
T Consensus 22 ~~DI~qlFspfG~I~VsWi~dTSAfV~l~~r~~~~~v~~~ 61 (87)
T PF08675_consen 22 TSDIYQLFSPFGQIYVSWINDTSAFVALHNRDQAKVVMNT 61 (87)
T ss_dssp HHHHHHHCCCCCCEEEEEECTTEEEEEECCCHHHHHHHHH
T ss_pred hhhHHHHhccCCcEEEEEEcCCcEEEEeecHHHHHHHHHH
Confidence 3344566777899999999765 66668899998887744
No 47
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=45.78 E-value=34 Score=16.61 Aligned_cols=46 Identities=20% Similarity=0.252 Sum_probs=31.0
Q ss_pred HHHHHHHHHcCCeeEEEc--C------CcCEEEecCHHHHHHHHhhcc-ccccCC
Q 043968 56 VSIHSLSQKYGPLMHLKF--G------LSPVVVGSSAEVAELLLKTHD-ISFASR 101 (107)
Q Consensus 56 ~~~~~~~~~~g~~~~~~~--~------~~~~v~~~~p~~~~~vl~~~~-~~~~~r 101 (107)
+.+.+...++|++-.+.+ . +.-.+-..+++.++.++.... ..+.+|
T Consensus 13 ~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~ 67 (70)
T PF14259_consen 13 EDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGR 67 (70)
T ss_dssp HHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred HHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCE
Confidence 456677777887655554 2 224566889999999997765 455544
No 48
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=45.10 E-value=54 Score=18.12 Aligned_cols=50 Identities=12% Similarity=0.101 Sum_probs=35.9
Q ss_pred CCChHHHHHHHHHHcCCeeEEE---------------c-CCcCEEEecCHHHHHHHHhhccccccC
Q 043968 51 GPLPHVSIHSLSQKYGPLMHLK---------------F-GLSPVVVGSSAEVAELLLKTHDISFAS 100 (107)
Q Consensus 51 ~~~~~~~~~~~~~~~g~~~~~~---------------~-~~~~~v~~~~p~~~~~vl~~~~~~~~~ 100 (107)
.....+...+.+.++|.+..-. - ++.-.+.-.++..++..|..|...+.+
T Consensus 15 p~~~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~g 80 (100)
T PF05172_consen 15 PPSASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFSG 80 (100)
T ss_dssp -GGGHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEETT
T ss_pred CHHHHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEcC
Confidence 3556778888999999877553 2 233445567999999999999888875
No 49
>COG2124 CypX Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=44.54 E-value=32 Score=23.77 Aligned_cols=41 Identities=15% Similarity=0.152 Sum_probs=30.8
Q ss_pred HHHHHHHHHHcCCeeEEEcCCcC--EEEecCHHHHHHHHhhcc
Q 043968 55 HVSIHSLSQKYGPLMHLKFGLSP--VVVGSSAEVAELLLKTHD 95 (107)
Q Consensus 55 ~~~~~~~~~~~g~~~~~~~~~~~--~v~~~~p~~~~~vl~~~~ 95 (107)
........+.||.+..++..+.. .+++++++++++++.++.
T Consensus 25 ~~~~~~~~~p~~~~~~~~~~~~~~~~~~~s~~~~v~~v~~~~~ 67 (411)
T COG2124 25 RFFLERAEDPYGDYFTLRLPGPGDGFWVVSRPADVREVLRDPR 67 (411)
T ss_pred hhhHHHHhCCCchhhhhhccCccceEEEEcCHHHHHHHHcCcc
Confidence 34445666777777777765543 799999999999998874
No 50
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=42.28 E-value=41 Score=16.00 Aligned_cols=39 Identities=13% Similarity=0.048 Sum_probs=26.2
Q ss_pred CChHHHHHHHHHHcCCeeEEEcC-CcCEEEec--CHHHHHHH
Q 043968 52 PLPHVSIHSLSQKYGPLMHLKFG-LSPVVVGS--SAEVAELL 90 (107)
Q Consensus 52 ~~~~~~~~~~~~~~g~~~~~~~~-~~~~v~~~--~p~~~~~v 90 (107)
.+..+...+.++.+|++....+. ..+.+.+. +...++..
T Consensus 11 ~~~~~~vl~~F~~fGeI~~~~~~~~~~~~~l~y~~~~~ae~A 52 (53)
T PF14605_consen 11 PDLAEEVLEHFASFGEIVDIYVPESTNWMYLKYKSRKDAEKA 52 (53)
T ss_pred chHHHHHHHHHHhcCCEEEEEcCCCCcEEEEEECCHHHHHhh
Confidence 44455566677789999999997 34555554 66666543
No 51
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=41.90 E-value=74 Score=22.51 Aligned_cols=48 Identities=19% Similarity=0.247 Sum_probs=34.5
Q ss_pred HHHHHHHHHHcCCeeEEEcC------------CcCEEEecCHHHHHHHHhh-ccccccCCC
Q 043968 55 HVSIHSLSQKYGPLMHLKFG------------LSPVVVGSSAEVAELLLKT-HDISFASRP 102 (107)
Q Consensus 55 ~~~~~~~~~~~g~~~~~~~~------------~~~~v~~~~p~~~~~vl~~-~~~~~~~r~ 102 (107)
.+.+++.+.+||.+..+.+. |.-.|...+++.++..+.. +...|.+|.
T Consensus 433 ~edl~~~f~~~G~v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~~~gr~ 493 (509)
T TIGR01642 433 YEDVKTEFSKYGPLINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMNGRKFNDRV 493 (509)
T ss_pred HHHHHHHHHhcCCeeEEEeeccCcCCCcCCCcceEEEEECCHHHHHHHHHHcCCCEECCeE
Confidence 34567888999998887763 2236677899999998854 556677764
No 52
>PRK05591 rplQ 50S ribosomal protein L17; Validated
Probab=41.40 E-value=17 Score=20.62 Aligned_cols=27 Identities=15% Similarity=0.067 Sum_probs=22.2
Q ss_pred EecCHHHHHHHHhhccccccCCCCccc
Q 043968 80 VGSSAEVAELLLKTHDISFASRPALLA 106 (107)
Q Consensus 80 ~~~~p~~~~~vl~~~~~~~~~r~~~~~ 106 (107)
.+.|++.++++|..=..-|.+|++-++
T Consensus 66 ~L~~~~~v~KLf~~lapry~~R~GGYT 92 (113)
T PRK05591 66 RLRDKEAVHKLFDEIAPRYADRNGGYT 92 (113)
T ss_pred HhCCHHHHHHHHHHHHHHhCcCCCCeE
Confidence 357899999999888888999988653
No 53
>TIGR00059 L17 ribosomal protein L17. Eubacterial and mitochondrial. The mitochondrial form, from yeast, contains an additional 110 amino acids C-terminal to the region found by this model.
Probab=40.66 E-value=19 Score=20.43 Aligned_cols=27 Identities=19% Similarity=0.214 Sum_probs=22.1
Q ss_pred EecCHHHHHHHHhhccccccCCCCccc
Q 043968 80 VGSSAEVAELLLKTHDISFASRPALLA 106 (107)
Q Consensus 80 ~~~~p~~~~~vl~~~~~~~~~r~~~~~ 106 (107)
.+.|++.++++|..=..-|.+|++-++
T Consensus 64 ~l~~~~~v~KLf~~lapry~~R~GGYT 90 (112)
T TIGR00059 64 YIRNKEIVHKLFSEIAPRYAQRPGGYT 90 (112)
T ss_pred HhCCHHHHHHHHHHHHHHhCCCCCCeE
Confidence 367899999999888888999987653
No 54
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=39.96 E-value=95 Score=21.65 Aligned_cols=48 Identities=17% Similarity=0.169 Sum_probs=32.5
Q ss_pred HHHHHHHHHHcCCeeEEEcC-----CcCEEEecCHHHHHHHHhh-ccccccCCC
Q 043968 55 HVSIHSLSQKYGPLMHLKFG-----LSPVVVGSSAEVAELLLKT-HDISFASRP 102 (107)
Q Consensus 55 ~~~~~~~~~~~g~~~~~~~~-----~~~~v~~~~p~~~~~vl~~-~~~~~~~r~ 102 (107)
.+-+.+.+.+||++..+.+. +.-.|-..+++.++..+.. +...|.+|.
T Consensus 386 ~~dv~~e~~k~G~v~~v~v~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~f~gr~ 439 (457)
T TIGR01622 386 LDDVKEECSKYGGVVHIYVDTKNSAGKIYLKFSSVDAALAAFQALNGRYFGGKM 439 (457)
T ss_pred HHHHHHHHHhcCCeeEEEEeCCCCceeEEEEECCHHHHHHHHHHhcCcccCCeE
Confidence 34456778889998877653 3345557788888888755 555677764
No 55
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=38.45 E-value=49 Score=15.74 Aligned_cols=47 Identities=19% Similarity=0.181 Sum_probs=31.8
Q ss_pred HHHHHHHHHHcCCeeEEEcCC--------cCEEEecCHHHHHHHHh-hccccccCC
Q 043968 55 HVSIHSLSQKYGPLMHLKFGL--------SPVVVGSSAEVAELLLK-THDISFASR 101 (107)
Q Consensus 55 ~~~~~~~~~~~g~~~~~~~~~--------~~~v~~~~p~~~~~vl~-~~~~~~~~r 101 (107)
...+.++.++||++..+.+.. ...+.-.+.+.++.++. -+...+.++
T Consensus 12 ~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~ 67 (70)
T PF00076_consen 12 EEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGR 67 (70)
T ss_dssp HHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred HHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECcc
Confidence 456778888899875555422 14555779999999997 455555554
No 56
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=35.00 E-value=70 Score=19.91 Aligned_cols=46 Identities=24% Similarity=0.207 Sum_probs=28.0
Q ss_pred eeeeccccCCChHHHHHHHHHHcCCeeEEEc----CCcCEEEecCHHHHHHH
Q 043968 43 FIGNLNLIGPLPHVSIHSLSQKYGPLMHLKF----GLSPVVVGSSAEVAELL 90 (107)
Q Consensus 43 ~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~----~~~~~v~~~~p~~~~~v 90 (107)
.+||+..- ---.-++..+.+||++..+|+ .+...|..-||.+++..
T Consensus 14 YVGnL~~~--a~k~eLE~~F~~yG~lrsvWvArnPPGfAFVEFed~RDA~DA 63 (195)
T KOG0107|consen 14 YVGNLGSR--ATKRELERAFSKYGPLRSVWVARNPPGFAFVEFEDPRDAEDA 63 (195)
T ss_pred EeccCCCC--cchHHHHHHHHhcCcceeEEEeecCCCceEEeccCcccHHHH
Confidence 45665422 223345888899999999996 33455555555544443
No 57
>PF03625 DUF302: Domain of unknown function DUF302 ; InterPro: IPR005180 This domain is found in an undescribed set of proteins. It normally occurs uniquely within a sequence, but is found as a tandem repeat (Q9X8B8 from SWISSPROT). It has an interesting phylogenetic distribution with the majority of examples in bacteria and archaea, but it is also found in Drosophila melanogaster (e.g. Q9VA18 from SWISSPROT). The hypothetical protein TT1751 from Thermus thermophilus has a beta-alpha-beta(4)-alpha structural fold [].; PDB: 1Q9U_A 1J3M_B.
Probab=34.65 E-value=48 Score=16.23 Aligned_cols=23 Identities=17% Similarity=0.054 Sum_probs=16.0
Q ss_pred CCcCEEEecCHHHHHHHHhhccc
Q 043968 74 GLSPVVVGSSAEVAELLLKTHDI 96 (107)
Q Consensus 74 ~~~~~v~~~~p~~~~~vl~~~~~ 96 (107)
....++.+++|+...++++.+..
T Consensus 17 ~~~~i~~~cnp~~a~~ll~~~p~ 39 (65)
T PF03625_consen 17 PPYRILEFCNPKIAYQLLKADPE 39 (65)
T ss_dssp S-EEEEEEE-HHHHHHHHCC-GG
T ss_pred CCeEEEEECChHHHHHHHHhhHH
Confidence 34457778999999999987754
No 58
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=33.66 E-value=1.2e+02 Score=23.27 Aligned_cols=43 Identities=23% Similarity=0.077 Sum_probs=32.9
Q ss_pred CChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhc
Q 043968 52 PLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTH 94 (107)
Q Consensus 52 ~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~ 94 (107)
.....++++...+||.+--+.-.+.-.+...|++.+++++.++
T Consensus 91 ~~i~~~i~~~~~~ygk~klv~~~~~~~~es~~~~~l~~l~~~~ 133 (732)
T TIGR00603 91 KGIIEFIRLCTQSYGKVKLVLKHNRYFVESPHPEVLQRLLKDP 133 (732)
T ss_pred HHHHHHHHHHHHhcCcEEEEEcCCceEEecCCHHHHHHHHhch
Confidence 4567777888999998776655554477789999999999664
No 59
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=31.91 E-value=83 Score=16.46 Aligned_cols=13 Identities=23% Similarity=0.279 Sum_probs=5.9
Q ss_pred HHHHHHHhhcccc
Q 043968 85 EVAELLLKTHDIS 97 (107)
Q Consensus 85 ~~~~~vl~~~~~~ 97 (107)
+.++.+|.++..+
T Consensus 59 ~tLE~ILdae~P~ 71 (75)
T PF06667_consen 59 ETLERILDAEHPN 71 (75)
T ss_pred HHHHHHHcCCCCC
Confidence 3445555444433
No 60
>PF12427 DUF3665: Branched-chain amino acid aminotransferase ; InterPro: IPR024614 This uncharacterised domain is found in the N-terminal region of branched-chain amino acid aminotransferase II proteins in Corynebacterium. It is typically between 23 and 35 amino acids in length and contains a conserved TRT sequence motif.
Probab=31.56 E-value=43 Score=13.05 Aligned_cols=10 Identities=30% Similarity=0.321 Sum_probs=7.5
Q ss_pred cCHHHHHHHH
Q 043968 82 SSAEVAELLL 91 (107)
Q Consensus 82 ~~p~~~~~vl 91 (107)
++|+.+++||
T Consensus 13 Ts~~~L~eIL 22 (23)
T PF12427_consen 13 TSPERLKEIL 22 (23)
T ss_pred CCHHHHHHHh
Confidence 5778888776
No 61
>PF01196 Ribosomal_L17: Ribosomal protein L17; InterPro: IPR000456 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L17 is one of the proteins from the large ribosomal subunit. Bacterial L17 is a protein of 120 to 130 amino-acid residues while yeast YmL8 is twice as large (238 residues). The N-terminal half of YmL8 is colinear with the sequence of L17 from Escherichia coli.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3F1F_R 1VSP_L 3PYV_N 3PYR_N 3PYO_N 1VSA_L 3MS1_N 3F1H_R 3D5B_R 3MRZ_N ....
Probab=28.72 E-value=36 Score=18.72 Aligned_cols=25 Identities=20% Similarity=0.230 Sum_probs=19.8
Q ss_pred cCHHHHHHHHhhccccccCCCCccc
Q 043968 82 SSAEVAELLLKTHDISFASRPALLA 106 (107)
Q Consensus 82 ~~p~~~~~vl~~~~~~~~~r~~~~~ 106 (107)
.|++.++++++.=..-|.+|++-++
T Consensus 52 ~~~~~v~KLf~~l~pRy~~r~GgYT 76 (97)
T PF01196_consen 52 RDKELVKKLFKELAPRYADRNGGYT 76 (97)
T ss_dssp SSHHHHHHHHTTHHHHTTTSSS-SE
T ss_pred cchHHHHHHHHHHHHHHccCCCCeE
Confidence 6999999999877778888887653
No 62
>PF06953 ArsD: Arsenical resistance operon trans-acting repressor ArsD; InterPro: IPR010712 This family consists of several bacterial arsenical resistance operon trans-acting repressor ArsD proteins. ArsD is a trans-acting repressor of the arsRDABC operon that confers resistance to arsenicals and antimonials in Escherichia coli. It possesses two-pairs of vicinal cysteine residues, Cys(12)-Cys(13) and Cys(112)-Cys(113), that potentially form separate binding sites for the metalloids that trigger dissociation of ArsD from the operon. However, as a homodimer it has four vicinal cysteine pairs [].; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent, 0046685 response to arsenic-containing substance; PDB: 3MWH_A 3KGK_A 3KTB_B.
Probab=28.25 E-value=68 Score=18.49 Aligned_cols=37 Identities=16% Similarity=0.213 Sum_probs=26.0
Q ss_pred HHHHHHcC-CeeEEEcCCcCEEEecCHHHHHHHHhhcc
Q 043968 59 HSLSQKYG-PLMHLKFGLSPVVVGSSAEVAELLLKTHD 95 (107)
Q Consensus 59 ~~~~~~~g-~~~~~~~~~~~~v~~~~p~~~~~vl~~~~ 95 (107)
.++.++-| .+-|+++...|..++.++...+.+-++..
T Consensus 33 ~~~Lk~~gv~v~RyNL~~~P~aF~~n~~V~~~L~~~G~ 70 (123)
T PF06953_consen 33 LDWLKEQGVEVERYNLAQNPQAFVENPEVNQLLQTEGA 70 (123)
T ss_dssp HHHHHHTT-EEEEEETTT-TTHHHHSHHHHHHHHHH-G
T ss_pred HHHHHhCCceEEEEccccCHHHHHhCHHHHHHHHHcCc
Confidence 34445556 68899999999999999988886665443
No 63
>smart00360 RRM RNA recognition motif.
Probab=26.97 E-value=78 Score=14.52 Aligned_cols=47 Identities=21% Similarity=0.217 Sum_probs=29.6
Q ss_pred HHHHHHHHHHcCCeeEEEcCC---------cCEEEecCHHHHHHHHhhcc-ccccCC
Q 043968 55 HVSIHSLSQKYGPLMHLKFGL---------SPVVVGSSAEVAELLLKTHD-ISFASR 101 (107)
Q Consensus 55 ~~~~~~~~~~~g~~~~~~~~~---------~~~v~~~~p~~~~~vl~~~~-~~~~~r 101 (107)
.+.+.++.+++|++..+.+.. ...+...+++.++.++..-. ..+.++
T Consensus 10 ~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~ 66 (71)
T smart00360 10 EEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGR 66 (71)
T ss_pred HHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCc
Confidence 345667778899876666422 23455789999888875433 334443
No 64
>PRK02797 4-alpha-L-fucosyltransferase; Provisional
Probab=25.55 E-value=2.1e+02 Score=19.57 Aligned_cols=55 Identities=13% Similarity=0.152 Sum_probs=38.8
Q ss_pred eeeeccccCCChHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHhhcccccc
Q 043968 43 FIGNLNLIGPLPHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLKTHDISFA 99 (107)
Q Consensus 43 ~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~~~~~~~~ 99 (107)
++||+-+-.++....+..+.+..|+-+++.+.-. +-..|.+.+++|-......|.
T Consensus 150 lvGNSgd~SN~Hie~L~~l~~~~~~~v~ii~Pls--Yp~gn~~Yi~~V~~~~~~lF~ 204 (322)
T PRK02797 150 LVGNSGDRSNRHIEALRALHQQFGDNVKIIVPMG--YPANNQAYIEEVRQAGLALFG 204 (322)
T ss_pred EEeCCCCCcccHHHHHHHHHHHhCCCeEEEEECC--cCCCCHHHHHHHHHHHHHhcC
Confidence 5788777667778888888888887555554221 223678899999887777776
No 65
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=25.50 E-value=86 Score=14.56 Aligned_cols=47 Identities=19% Similarity=0.181 Sum_probs=30.6
Q ss_pred HHHHHHHHHHcCCeeEEEcCC--------cCEEEecCHHHHHHHHhhcccc-ccCC
Q 043968 55 HVSIHSLSQKYGPLMHLKFGL--------SPVVVGSSAEVAELLLKTHDIS-FASR 101 (107)
Q Consensus 55 ~~~~~~~~~~~g~~~~~~~~~--------~~~v~~~~p~~~~~vl~~~~~~-~~~r 101 (107)
.+.+.++.+++|++....+.. ...+...+++.++..+...... +.++
T Consensus 13 ~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~ 68 (74)
T cd00590 13 EEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGR 68 (74)
T ss_pred HHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCe
Confidence 456677778889876666533 2355568999998888654433 4444
No 66
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=25.40 E-value=2.7e+02 Score=20.22 Aligned_cols=59 Identities=19% Similarity=0.205 Sum_probs=38.7
Q ss_pred eeeeccccCCChHHHHHHHHHHcCCeeEEEcC--------CcCEEEecCHHHHHHHHhh-ccccccCCCC
Q 043968 43 FIGNLNLIGPLPHVSIHSLSQKYGPLMHLKFG--------LSPVVVGSSAEVAELLLKT-HDISFASRPA 103 (107)
Q Consensus 43 ~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~~--------~~~~v~~~~p~~~~~vl~~-~~~~~~~r~~ 103 (107)
.++|+..- -..+.+++++.+||.+..+.+. +.-.|...+++.++..+.. +...+.+|+-
T Consensus 289 ~V~nl~~~--~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l 356 (562)
T TIGR01628 289 YVKNLDDT--VTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPL 356 (562)
T ss_pred EEeCCCCc--cCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCcee
Confidence 35554322 2345678888999988766541 3356778899999999864 4456666653
No 67
>PF03460 NIR_SIR_ferr: Nitrite/Sulfite reductase ferredoxin-like half domain; InterPro: IPR005117 Sulphite reductases (SiRs) and related nitrite reductases (NiRs) catalyse the six-electron reduction reactions of sulphite to sulphide, and nitrite to ammonia, respectively. The Escherichia coli SiR enzyme is a complex composed of two proteins, a flavoprotein alpha-component (SiR-FP) and a hemoprotein beta-component (SiR-HP), and has an alpha(8)beta(4) quaternary structure []. SiR-FP contains both FAD and FMN, while SiR-HP contains a Fe(4)S(4) cluster coupled to a sirohaem through a cysteine bridge. Electrons are transferred from NADPH to FAD, and on to FMN in SiR-FP, from which they are transferred to the metal centre of SiR-HP, where they reduce the siroheme-bound sulphite. SiR-HP has a two-fold symmetry, which generates a distinctive three-domain alpha/beta fold that controls assembly and reactivity []. This entry describes the ferrodoxin-like (alpha/beta sandwich) domain, which consists of a duplication containing two subdomains of this fold.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3B0H_A 4GEP_A 2GEP_A 2AOP_A 5AOP_A 6GEP_A 4AOP_A 1AOP_A 3AOP_A 8GEP_A ....
Probab=24.59 E-value=1e+02 Score=15.12 Aligned_cols=40 Identities=15% Similarity=0.203 Sum_probs=26.2
Q ss_pred CChHHHHHHHHHHcC-CeeEEEcCCcCEEEecCHHHHHHHH
Q 043968 52 PLPHVSIHSLSQKYG-PLMHLKFGLSPVVVGSSAEVAELLL 91 (107)
Q Consensus 52 ~~~~~~~~~~~~~~g-~~~~~~~~~~~~v~~~~p~~~~~vl 91 (107)
.+....+.++.++|| +..++.-...-.+.-.+++.+..+.
T Consensus 23 ~~~l~~la~ia~~yg~~~irlT~~Q~l~l~~v~~~~~~~i~ 63 (69)
T PF03460_consen 23 AEQLRALAEIAEKYGDGEIRLTTRQNLQLRGVPEENLPAIF 63 (69)
T ss_dssp HHHHHHHHHHHHHHSTSEEEEETTSCEEEEEEEGGGHHHHH
T ss_pred HHHHHHHHHHHHHhCCCeEEECCCCeEEEeCCCHHHHHHHH
Confidence 457778889999998 5666665444333335666666655
No 68
>PF09722 DUF2384: Protein of unknown function (DUF2384); InterPro: IPR024467 This domain is found predominantly in proteobacterial proteins. Its function in unknown.
Probab=22.54 E-value=36 Score=16.09 Aligned_cols=23 Identities=22% Similarity=0.329 Sum_probs=16.5
Q ss_pred cCHHHHHHHHhhccccccCCCCc
Q 043968 82 SSAEVAELLLKTHDISFASRPAL 104 (107)
Q Consensus 82 ~~p~~~~~vl~~~~~~~~~r~~~ 104 (107)
.|++.++.-|++....|.++.+.
T Consensus 9 gd~~~a~~Wl~~p~~~l~g~~Pl 31 (54)
T PF09722_consen 9 GDEDKARRWLRTPNPALGGRTPL 31 (54)
T ss_pred CCHHHHHHHHHChHHHhCCCCHH
Confidence 57788888887777777775543
No 69
>PF06884 DUF1264: Protein of unknown function (DUF1264); InterPro: IPR010686 This family contains a number of bacterial and eukaryotic proteins of unknown function that are approximately 200 residues long. Some family members are annotated as putative lipoproteins.
Probab=21.63 E-value=1.1e+02 Score=18.84 Aligned_cols=19 Identities=21% Similarity=0.328 Sum_probs=15.5
Q ss_pred HHHHHHHHHHcCCeeEEEc
Q 043968 55 HVSIHSLSQKYGPLMHLKF 73 (107)
Q Consensus 55 ~~~~~~~~~~~g~~~~~~~ 73 (107)
...++++.+.||+++..|=
T Consensus 100 ~~~m~~l~~tYGKt~HtWq 118 (171)
T PF06884_consen 100 KAEMEKLVKTYGKTWHTWQ 118 (171)
T ss_pred HHHHHHHHhhhCCeEEecc
Confidence 4456788899999999993
No 70
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=20.89 E-value=3.2e+02 Score=19.52 Aligned_cols=48 Identities=17% Similarity=0.224 Sum_probs=33.9
Q ss_pred hHHHHHHHHHHcCCeeEEEcC----CcCEEEecCHHHHHHHHhh-ccccccCC
Q 043968 54 PHVSIHSLSQKYGPLMHLKFG----LSPVVVGSSAEVAELLLKT-HDISFASR 101 (107)
Q Consensus 54 ~~~~~~~~~~~~g~~~~~~~~----~~~~v~~~~p~~~~~vl~~-~~~~~~~r 101 (107)
-.+.+.+++..||++.++.+. +.-.|--.+++.++..+.. +...+.++
T Consensus 289 t~~~L~~lF~~yG~V~~vki~~~~~g~afV~f~~~~~A~~Ai~~lng~~l~g~ 341 (481)
T TIGR01649 289 NCDRLFNLFCVYGNVERVKFMKNKKETALIEMADPYQAQLALTHLNGVKLFGK 341 (481)
T ss_pred CHHHHHHHHHhcCCeEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCc
Confidence 356788899999999888763 3456667899999988853 33344443
No 71
>COG5329 Phosphoinositide polyphosphatase (Sac family) [Signal transduction mechanisms]
Probab=20.66 E-value=2.2e+02 Score=21.17 Aligned_cols=39 Identities=18% Similarity=0.137 Sum_probs=25.6
Q ss_pred hHHHHHHHHHHcCCeeEEEcCCcCEEEecCHHHHHHHHh
Q 043968 54 PHVSIHSLSQKYGPLMHLKFGLSPVVVGSSAEVAELLLK 92 (107)
Q Consensus 54 ~~~~~~~~~~~~g~~~~~~~~~~~~v~~~~p~~~~~vl~ 92 (107)
...+|.++.++||+++-+++....-.-.-=-+.-++.+.
T Consensus 295 f~kHF~~L~~~YG~v~vvNLl~tK~~E~~L~~~ye~~l~ 333 (570)
T COG5329 295 FDKHFDKLREKYGDVYVVNLLKTKGYEAPLLELYEKHLD 333 (570)
T ss_pred HHHHHHHHHHHcCCEEEEEcccCCcchhHHHHHHHHHHh
Confidence 345667888999999999986665544333344455543
No 72
>COG0203 RplQ Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]
Probab=20.35 E-value=1.1e+02 Score=17.52 Aligned_cols=24 Identities=13% Similarity=0.149 Sum_probs=20.7
Q ss_pred cCHHHHHHHHhhccccccCCCCcc
Q 043968 82 SSAEVAELLLKTHDISFASRPALL 105 (107)
Q Consensus 82 ~~p~~~~~vl~~~~~~~~~r~~~~ 105 (107)
.|.+.++++|..=..-|.+|++=+
T Consensus 71 ~d~~~v~kLF~~iapry~~R~GGY 94 (116)
T COG0203 71 RDKDAVKKLFDEIAPRYAERNGGY 94 (116)
T ss_pred ccHHHHHHHHHHhChhhcCCCCCe
Confidence 399999999988888999998754
Done!