Query 032770
Match_columns 134
No_of_seqs 103 out of 322
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 05:44:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032770.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032770hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00071 40S ribosomal protein 100.0 1.4E-55 3E-60 331.1 14.1 128 5-132 5-132 (132)
2 KOG3424 40S ribosomal protein 100.0 3.3E-56 7.2E-61 330.0 9.5 131 1-133 1-131 (132)
3 PRK01178 rps24e 30S ribosomal 100.0 2.8E-42 6.1E-47 248.3 11.1 95 7-102 2-96 (99)
4 COG2004 RPS24A Ribosomal prote 100.0 2.4E-41 5.2E-46 246.2 10.3 104 6-115 2-105 (107)
5 PF01282 Ribosomal_S24e: Ribos 100.0 3.4E-35 7.4E-40 205.5 9.8 83 24-107 1-84 (84)
6 PF00076 RRM_1: RNA recognitio 69.9 17 0.00038 21.9 5.0 47 34-87 8-55 (70)
7 smart00360 RRM RNA recognition 64.3 26 0.00056 20.3 5.3 48 34-87 6-54 (71)
8 COG2003 RadC DNA repair protei 56.1 16 0.00036 30.0 3.7 36 27-64 172-210 (224)
9 PF08496 Peptidase_S49_N: Pept 54.2 27 0.00059 26.9 4.5 54 21-76 96-150 (155)
10 PF12327 FtsZ_C: FtsZ family, 53.8 14 0.00031 25.8 2.7 52 12-64 22-77 (95)
11 TIGR03636 L23_arch archaeal ri 52.6 73 0.0016 21.8 6.4 57 17-82 9-66 (77)
12 PF00276 Ribosomal_L23: Riboso 49.3 37 0.00079 23.6 4.2 57 15-78 13-77 (91)
13 PRK14548 50S ribosomal protein 48.6 66 0.0014 22.4 5.3 63 12-83 11-74 (84)
14 PTZ00191 60S ribosomal protein 48.4 1.2E+02 0.0026 23.4 7.2 56 22-86 83-141 (145)
15 PF04432 FrhB_FdhB_C: Coenzyme 47.0 35 0.00076 25.5 4.1 43 21-64 30-72 (161)
16 CHL00030 rpl23 ribosomal prote 46.9 50 0.0011 23.4 4.6 45 13-64 11-55 (93)
17 PLN03134 glycine-rich RNA-bind 40.9 54 0.0012 24.4 4.2 47 34-86 44-91 (144)
18 COG0245 IspF 2C-methyl-D-eryth 40.6 59 0.0013 25.5 4.5 40 24-65 96-135 (159)
19 PRK10513 sugar phosphate phosp 39.7 42 0.0009 26.3 3.6 33 25-61 187-219 (270)
20 PRK15126 thiamin pyrimidine py 39.1 37 0.00081 26.8 3.3 33 25-61 179-211 (272)
21 KOG3439 Protein conjugation fa 39.1 1.6E+02 0.0034 22.1 6.3 34 33-67 83-116 (116)
22 PF12436 USP7_ICP0_bdg: ICP0-b 38.8 33 0.00071 27.9 3.0 54 16-70 171-233 (249)
23 PRK10976 putative hydrolase; P 38.0 42 0.00092 26.3 3.4 33 25-61 181-213 (266)
24 TIGR01482 SPP-subfamily Sucros 37.3 56 0.0012 24.7 3.9 33 25-61 140-172 (225)
25 TIGR01485 SPP_plant-cyano sucr 36.5 73 0.0016 25.0 4.6 32 26-61 159-190 (249)
26 PRK05738 rplW 50S ribosomal pr 36.4 75 0.0016 22.2 4.1 34 14-51 12-46 (92)
27 TIGR00608 radc DNA repair prot 35.8 39 0.00084 27.3 2.9 28 24-51 163-196 (218)
28 PTZ00397 macrophage migration 35.2 80 0.0017 22.2 4.2 36 24-60 59-99 (116)
29 PRK06425 histidinol-phosphate 34.6 50 0.0011 27.0 3.4 26 34-60 38-63 (332)
30 KOG3969 Uncharacterized conser 34.6 44 0.00096 28.8 3.1 58 38-96 218-290 (310)
31 PRK00084 ispF 2-C-methyl-D-ery 34.3 69 0.0015 25.0 4.0 38 24-63 98-135 (159)
32 KOG2116 Protein involved in pl 32.5 73 0.0016 30.5 4.4 34 43-78 491-524 (738)
33 COG0710 AroD 3-dehydroquinate 32.3 73 0.0016 26.2 4.0 34 25-59 119-152 (231)
34 TIGR01661 ELAV_HUD_SF ELAV/HuD 31.2 1.5E+02 0.0033 24.1 5.7 53 26-85 272-325 (352)
35 PRK12280 rplW 50S ribosomal pr 30.8 83 0.0018 24.6 3.9 36 12-51 13-48 (158)
36 PRK01158 phosphoglycolate phos 30.5 67 0.0015 24.4 3.4 33 25-61 148-180 (230)
37 cd00590 RRM RRM (RNA recogniti 30.4 1.1E+02 0.0025 17.6 5.3 47 34-87 9-56 (74)
38 PF10503 Esterase_phd: Esteras 30.2 6 0.00013 31.9 -2.6 34 37-73 80-113 (220)
39 PRK14864 putative biofilm stre 29.7 2.2E+02 0.0048 20.6 6.2 53 23-79 50-103 (104)
40 PRK01688 histidinol-phosphate 29.3 48 0.001 27.4 2.5 27 34-61 55-81 (351)
41 PF14560 Ubiquitin_2: Ubiquiti 29.2 1.6E+02 0.0035 19.6 4.8 27 34-61 22-48 (87)
42 smart00362 RRM_2 RNA recogniti 29.2 1.2E+02 0.0026 17.4 5.0 45 35-87 10-55 (72)
43 cd00554 MECDP_synthase MECDP_s 29.2 1E+02 0.0023 23.8 4.2 36 24-61 95-130 (153)
44 TIGR00151 ispF 2C-methyl-D-ery 28.9 1E+02 0.0022 24.0 4.1 36 24-61 95-130 (155)
45 TIGR01484 HAD-SF-IIB HAD-super 28.5 93 0.002 23.2 3.8 33 25-61 154-186 (204)
46 cd02777 MopB_CT_DMSOR-like The 28.2 1.5E+02 0.0033 20.8 4.7 38 39-81 36-73 (127)
47 PF01996 F420_ligase: F420-0:G 27.8 42 0.00092 27.1 1.9 52 27-80 125-176 (228)
48 PF04110 APG12: Ubiquitin-like 27.8 20 0.00044 25.3 0.0 33 34-67 55-87 (87)
49 COG0561 Cof Predicted hydrolas 27.8 74 0.0016 24.9 3.3 31 26-60 181-211 (264)
50 PRK06959 putative threonine-ph 27.7 67 0.0014 26.5 3.1 25 36-61 54-78 (339)
51 PHA01976 helix-turn-helix prot 27.5 28 0.00062 21.7 0.7 24 32-57 38-61 (67)
52 TIGR03576 pyridox_MJ0158 pyrid 27.3 57 0.0012 27.4 2.7 29 32-61 50-78 (346)
53 PF02594 DUF167: Uncharacteris 27.3 92 0.002 21.2 3.2 43 22-64 26-68 (77)
54 PF02542 YgbB: YgbB family; I 26.8 62 0.0014 25.2 2.6 31 28-60 100-130 (157)
55 COG2006 Uncharacterized conser 26.2 72 0.0016 27.4 3.0 43 29-73 171-213 (293)
56 PRK00024 hypothetical protein; 26.2 64 0.0014 26.0 2.7 28 24-51 169-202 (224)
57 PF08766 DEK_C: DEK C terminal 25.9 58 0.0013 20.3 1.9 21 32-53 17-37 (54)
58 PRK13815 ribosome-binding fact 25.7 2.7E+02 0.0059 20.4 6.0 44 39-82 10-57 (122)
59 PF09581 Spore_III_AF: Stage I 25.6 43 0.00093 25.4 1.5 23 37-60 165-187 (188)
60 TIGR00099 Cof-subfamily Cof su 25.3 90 0.002 24.3 3.3 33 25-61 179-211 (256)
61 cd06397 PB1_UP1 Uncharacterize 25.0 1.3E+02 0.0029 21.2 3.7 30 34-64 18-47 (82)
62 PF07338 DUF1471: Protein of u 24.7 1.9E+02 0.0042 18.3 4.9 49 25-78 7-55 (56)
63 PF03090 Replicase: Replicase 24.3 1.4E+02 0.003 22.5 4.0 39 14-59 18-56 (137)
64 cd01804 midnolin_N Ubiquitin-l 24.1 2.2E+02 0.0047 18.7 4.9 23 34-57 20-42 (78)
65 PRK04781 histidinol-phosphate 24.1 70 0.0015 26.6 2.6 26 35-61 58-83 (364)
66 PLN03026 histidinol-phosphate 24.0 84 0.0018 26.3 3.1 25 35-60 85-109 (380)
67 COG0299 PurN Folate-dependent 24.0 1.2E+02 0.0026 24.6 3.8 31 33-63 59-89 (200)
68 PRK05387 histidinol-phosphate 23.8 68 0.0015 26.0 2.4 25 36-61 60-84 (353)
69 TIGR01642 U2AF_lg U2 snRNP aux 23.7 1.5E+02 0.0032 25.6 4.6 46 34-85 305-351 (509)
70 COG1888 Uncharacterized protei 23.7 1.8E+02 0.0039 21.1 4.3 48 22-71 6-53 (97)
71 cd00508 MopB_CT_Fdh-Nap-like T 23.7 1.7E+02 0.0037 19.8 4.2 36 41-81 39-74 (120)
72 PRK02220 4-oxalocrotonate taut 23.5 90 0.0019 19.1 2.5 19 40-59 23-41 (61)
73 TIGR00013 taut 4-oxalocrotonat 23.3 1.1E+02 0.0024 18.8 2.9 19 40-59 23-41 (63)
74 PRK01964 4-oxalocrotonate taut 23.3 91 0.002 19.5 2.5 20 40-60 23-42 (64)
75 PF07904 Eaf7: Chromatin modif 23.0 82 0.0018 22.0 2.4 19 33-51 41-59 (91)
76 PRK07392 threonine-phosphate d 22.8 86 0.0019 25.8 2.9 25 36-61 57-81 (360)
77 cd08059 MPN_prok_mb Mpr1p, Pad 22.8 94 0.002 21.1 2.7 31 24-59 59-90 (101)
78 PF14330 DUF4387: Domain of un 22.8 54 0.0012 23.8 1.5 34 23-57 17-55 (99)
79 TIGR02189 GlrX-like_plant Glut 22.6 1.2E+02 0.0026 20.9 3.2 48 18-68 27-74 (99)
80 TIGR02471 sucr_syn_bact_C sucr 22.5 1.2E+02 0.0026 23.4 3.5 32 26-61 151-182 (236)
81 PRK10530 pyridoxal phosphate ( 22.4 1.1E+02 0.0024 23.7 3.4 32 26-61 191-222 (272)
82 cd02794 MopB_CT_DmsA-EC The Mo 22.1 2.4E+02 0.0053 19.6 4.8 39 39-82 32-70 (121)
83 PRK14807 histidinol-phosphate 22.0 1.1E+02 0.0024 25.1 3.4 26 35-61 58-83 (351)
84 COG4099 Predicted peptidase [G 21.6 73 0.0016 28.1 2.3 25 39-64 254-278 (387)
85 cd01812 BAG1_N Ubiquitin-like 21.4 1.1E+02 0.0024 19.1 2.6 25 34-59 18-42 (71)
86 KOG0113 U1 small nuclear ribon 21.2 2.2E+02 0.0048 24.9 5.1 52 24-85 105-157 (335)
87 PRK14809 histidinol-phosphate 21.1 1.2E+02 0.0025 24.9 3.3 25 36-61 65-89 (357)
88 PLN02862 2-C-methyl-D-erythrit 20.9 1.5E+02 0.0034 24.3 3.9 36 24-61 155-190 (216)
89 PF01394 Clathrin_propel: Clat 20.8 1E+02 0.0023 17.9 2.2 22 53-79 14-35 (37)
90 PHA01632 hypothetical protein 20.8 44 0.00096 22.3 0.6 36 14-51 8-43 (64)
91 cd00491 4Oxalocrotonate_Tautom 20.7 1.3E+02 0.0028 18.0 2.7 19 40-59 22-40 (58)
92 PF08282 Hydrolase_3: haloacid 20.4 1.8E+02 0.0039 21.4 4.0 32 25-60 177-208 (254)
93 PRK04635 histidinol-phosphate 20.1 93 0.002 25.6 2.5 25 36-61 60-84 (354)
No 1
>PTZ00071 40S ribosomal protein S24; Provisional
Probab=100.00 E-value=1.4e-55 Score=331.07 Aligned_cols=128 Identities=60% Similarity=0.974 Sum_probs=122.9
Q ss_pred cEEEEeeeeeeccCccceEEEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEEeCCHHHH
Q 032770 5 AITIRTRKFMTNRLLSRKQFVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLIYDSVESA 84 (134)
Q Consensus 5 ~v~i~~~k~~~N~LL~RrEi~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~IYds~e~~ 84 (134)
+|||+|++|++||||+|+||+|+|+|||.+|||++||+++||+||+++|+|+||||+|+|+||+|.|+|||+||||+|+|
T Consensus 5 ~~~ir~rk~~~NpLL~RkE~~~~v~Hpg~~TpSr~eirekLA~~~~v~d~~~Vvv~~~~T~fG~g~StG~a~IYds~e~~ 84 (132)
T PTZ00071 5 EFTVRTRKFLVNPLLNRKQFVVEVLHPGKGTVSKKDIKEKLAKQYKVADARTIVLFGFKTKFGGGKTTGFGLIYDNLAAL 84 (132)
T ss_pred cEEEEEeeeeeccCcCcEEEEEEEEeCCCCCCCHHHHHHHHHHHhCCCCCCEEEEEccEecCCCceEEEEEEEECCHHHH
Confidence 69999999999999999999999999999999999999999999994499999999999999999999999999999999
Q ss_pred HhcCCchhhhhcCcccccccchHhHHHHhhhhhhccchhhhhhhhccc
Q 032770 85 KKFEPKYRLIRNGLATKVEKSRKQMKERKNRQKKIRGVKKAKAEAGKK 132 (134)
Q Consensus 85 kk~Epk~~l~R~~~~e~~k~~rk~~ke~kn~~kk~rG~~k~~~~~~~k 132 (134)
++|||+|+|.||++.+..+.+|+|+||+||++||+|||+++++..++|
T Consensus 85 kk~Epk~~l~Rngl~~~~~~~rk~rke~knr~kk~rg~~k~k~~~~~k 132 (132)
T PTZ00071 85 KKFEPKYRLIRLGLIKKKKAGRKARKELKNRRKKVRGKEKTKVSGKKK 132 (132)
T ss_pred HhhCchheeeecCccccCccchHHHHHHHhhhhhhccchhhhhhhccC
Confidence 999999999999999988889999999999999999999999865543
No 2
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.3e-56 Score=329.95 Aligned_cols=131 Identities=75% Similarity=1.105 Sum_probs=128.0
Q ss_pred CCCccEEEEeeeeeeccCccceEEEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEEeCC
Q 032770 1 MADKAITIRTRKFMTNRLLSRKQFVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLIYDS 80 (134)
Q Consensus 1 m~~~~v~i~~~k~~~N~LL~RrEi~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~IYds 80 (134)
|+| +|||+|++||+|+||+|+||++||+|||.|+||++||+|+||+||.+ ++|.||||+|+|+||+|+|+|||+||||
T Consensus 1 ~~~-~vtirtrk~~tNrLL~RKqmvvdvlHPG~a~vsK~EirEKla~mYkt-~~d~V~vfgfrt~~GggkstgfalIYds 78 (132)
T KOG3424|consen 1 MSD-AVTIRTRKFMTNRLLSRKQMVVDVLHPGKANVSKTEIREKLAKMYKT-TPDAVFVFGFRTHFGGGKSTGFALIYDS 78 (132)
T ss_pred CCc-cEEEehhhhhhhhhhhhhheeEEEecCCCCCCCHHHHHHHHHHHhcC-CcceEEEEEeeeccCCcccceeeeeeeh
Confidence 666 89999999999999999999999999999999999999999999999 9999999999999999999999999999
Q ss_pred HHHHHhcCCchhhhhcCcccccccchHhHHHHhhhhhhccchhhhhhhhcccC
Q 032770 81 VESAKKFEPKYRLIRNGLATKVEKSRKQMKERKNRQKKIRGVKKAKAEAGKKK 133 (134)
Q Consensus 81 ~e~~kk~Epk~~l~R~~~~e~~k~~rk~~ke~kn~~kk~rG~~k~~~~~~~k~ 133 (134)
+|+|++|||+|||+|+|+.|+.+.+|+||||++|+++|+|||.|++++.++++
T Consensus 79 ve~akkfEpkyrl~r~gl~e~~kt~RkqrKerknr~kKi~Gt~K~~~~~~~k~ 131 (132)
T KOG3424|consen 79 VEYAKKFEPKYRLVRLGLAEKIKTSRKQRKERKNRMKKIFGTGKRKAKKAKKK 131 (132)
T ss_pred HHHHHhcCcceeeeecccccccccHHHHHHHHhhccchheeHHHHHhhhhhcc
Confidence 99999999999999999999998899999999999999999999999988875
No 3
>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed
Probab=100.00 E-value=2.8e-42 Score=248.31 Aligned_cols=95 Identities=37% Similarity=0.601 Sum_probs=91.8
Q ss_pred EEEeeeeeeccCccceEEEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEEeCCHHHHHh
Q 032770 7 TIRTRKFMTNRLLSRKQFVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLIYDSVESAKK 86 (134)
Q Consensus 7 ~i~~~k~~~N~LL~RrEi~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~IYds~e~~kk 86 (134)
.|.+.++.+||||+|+||+|+|+|||.|||||.||+++||+||++ |+++|||++|+|+||+|+|+|||+||||.|+|++
T Consensus 2 ei~I~~~~~N~LL~Rke~~~~v~h~g~~tpsr~eirekLa~~~~~-~~~~vvv~~~~t~fG~g~s~G~a~IYds~e~~kk 80 (99)
T PRK01178 2 EIKIISDKENPLLGRREIKFEVYHEGSATPSRKDVRKKLAAMLNA-DKELVVVRKIKTEYGMGKSKGYAKVYDDKERARK 80 (99)
T ss_pred cEEEEEeeecCCcCcEEEEEEEEeCCCCCCCHHHHHHHHHHHHCc-CCCEEEEEccCccCCCceEEEEEEEECCHHHHHh
Confidence 367889999999999999999999999999999999999999998 9999999999999999999999999999999999
Q ss_pred cCCchhhhhcCccccc
Q 032770 87 FEPKYRLIRNGLATKV 102 (134)
Q Consensus 87 ~Epk~~l~R~~~~e~~ 102 (134)
|||+|+|.||++.+++
T Consensus 81 ~Epk~~l~Rn~~~~~~ 96 (99)
T PRK01178 81 IEPKYILERNKIEEEE 96 (99)
T ss_pred hCchheeeecCccccc
Confidence 9999999999998764
No 4
>COG2004 RPS24A Ribosomal protein S24E [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.4e-41 Score=246.20 Aligned_cols=104 Identities=43% Similarity=0.643 Sum_probs=99.6
Q ss_pred EEEEeeeeeeccCccceEEEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEEeCCHHHHH
Q 032770 6 ITIRTRKFMTNRLLSRKQFVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLIYDSVESAK 85 (134)
Q Consensus 6 v~i~~~k~~~N~LL~RrEi~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~IYds~e~~k 85 (134)
++|.|.++++||||+|+||+|+|+|||++||||.||+++||++|++ |+++|||++|+|+||+|.|+|||+||||.+.|+
T Consensus 2 ~ei~I~~~r~NpLL~RkEi~~~v~h~g~~TPSr~evrekla~~l~~-d~e~VvV~~ikt~fG~~~s~g~akIY~s~e~~~ 80 (107)
T COG2004 2 MEIKILEKRDNPLLKRKEIVFVVYHEGSPTPSRKEVREKLAAMLGA-DKELVVVDYIKTEFGKGRSKGYAKIYDSVERAK 80 (107)
T ss_pred ceEEeehcccCccccceEEEEEEEeCCCCCCCHHHHHHHHHHHHCC-CcceEEEEehhhhcCCcceeEEEEEECCHHHHH
Confidence 6899999999999999999999999999999999999999999999 999999999999999999999999999999999
Q ss_pred hcCCchhhhhcCcccccccchHhHHHHhhh
Q 032770 86 KFEPKYRLIRNGLATKVEKSRKQMKERKNR 115 (134)
Q Consensus 86 k~Epk~~l~R~~~~e~~k~~rk~~ke~kn~ 115 (134)
+|||+|+|.||+. ..+.+++|.+|+
T Consensus 81 ~iEp~yiL~Rn~~-----~~~~~~eE~e~r 105 (107)
T COG2004 81 KIEPEYILERNGG-----AERQEAEEAENR 105 (107)
T ss_pred hcCcceEEEeccc-----hhhhhhHhhhcc
Confidence 9999999999998 456777888777
No 5
>PF01282 Ribosomal_S24e: Ribosomal protein S24e; InterPro: IPR001976 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the S24e ribosomal proteins from eukaryotes and archaebacteria. These proteins have 101 to 148 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V94_B 1YWX_A 2G1D_A 3IZ6_U 1XN9_A 2XZM_P 2XZN_P 3U5G_Y 3J16_D 3IZB_U ....
Probab=100.00 E-value=3.4e-35 Score=205.48 Aligned_cols=83 Identities=60% Similarity=0.983 Sum_probs=74.6
Q ss_pred EEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEEeCCHHHHHhcCCchhhhhcCcccccc
Q 032770 24 FVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLIYDSVESAKKFEPKYRLIRNGLATKVE 103 (134)
Q Consensus 24 i~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~IYds~e~~kk~Epk~~l~R~~~~e~~k 103 (134)
|+|+|+|||.|||||+||+++||+|||+ |+++|||++|+|+||++.|+|||+||||+|+|+++||+|+|.||++.++..
T Consensus 1 ~~~~v~h~g~~Tpsr~ei~~klA~~~~~-~~~~ivv~~~~t~fG~~~s~g~a~IYd~~e~~kk~Ep~~~l~R~~~~e~~~ 79 (84)
T PF01282_consen 1 MVFEVLHPGKPTPSRKEIREKLAAMLNV-DPDLIVVFGIKTEFGGGKSTGFAKIYDSAEALKKFEPKYRLKRNGLEEKKE 79 (84)
T ss_dssp EEEEEE-SSSSS--HHHHHHHHHHHHTS-TGCCEEEEEEEESSSSSEEEEEEEEESSHHHHHHHSTHHHHHHTTSSSS-S
T ss_pred CEEEEECCCCCCCCHHHHHHHHHHHhCC-CCCeEEEeccEecCCCceEEEEEEEeCCHHHHHHhCcHHHhHhcCcccccc
Confidence 6899999999999999999999999999 999999999999999999999999999999999999999999999998764
Q ss_pred -cchH
Q 032770 104 -KSRK 107 (134)
Q Consensus 104 -~~rk 107 (134)
.+|+
T Consensus 80 ~~~r~ 84 (84)
T PF01282_consen 80 KEGRK 84 (84)
T ss_dssp -S-HH
T ss_pred ccccC
Confidence 4553
No 6
>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=69.91 E-value=17 Score=21.91 Aligned_cols=47 Identities=26% Similarity=0.513 Sum_probs=30.8
Q ss_pred CCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEE-eCCHHHHHhc
Q 032770 34 ANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLI-YDSVESAKKF 87 (134)
Q Consensus 34 ~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~I-Yds~e~~kk~ 87 (134)
+..+..||++.+.. ||. -... .+.+. +.+...|+|.| |+|.+.+++.
T Consensus 8 ~~~t~~~l~~~f~~-~g~-i~~~----~~~~~-~~~~~~~~a~V~F~~~~~a~~a 55 (70)
T PF00076_consen 8 PDVTEEELRDFFSQ-FGK-IESI----KVMRN-SSGKSKGYAFVEFESEEDAEKA 55 (70)
T ss_dssp TTSSHHHHHHHHHT-TST-EEEE----EEEEE-TTSSEEEEEEEEESSHHHHHHH
T ss_pred CcCCHHHHHHHHHH-hhh-cccc----ccccc-ccccccceEEEEEcCHHHHHHH
Confidence 45678899998866 666 2122 22232 77778888876 7788777653
No 7
>smart00360 RRM RNA recognition motif.
Probab=64.32 E-value=26 Score=20.27 Aligned_cols=48 Identities=27% Similarity=0.483 Sum_probs=30.6
Q ss_pred CCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEE-eCCHHHHHhc
Q 032770 34 ANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLI-YDSVESAKKF 87 (134)
Q Consensus 34 ~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~I-Yds~e~~kk~ 87 (134)
...+..+|++.+. .+|. -.++ .+......+.+.|+|.| |++.+.+...
T Consensus 6 ~~~~~~~l~~~f~-~~g~-v~~~----~i~~~~~~~~~~~~a~v~f~~~~~a~~a 54 (71)
T smart00360 6 PDVTEEELRELFS-KFGK-IESV----RLVRDKDTGKSKGFAFVEFESEEDAEKA 54 (71)
T ss_pred cccCHHHHHHHHH-hhCC-EeEE----EEEeCCCCCCCCceEEEEeCCHHHHHHH
Confidence 3467789998885 5564 1222 22234446778888888 7888877654
No 8
>COG2003 RadC DNA repair proteins [DNA replication, recombination, and repair]
Probab=56.07 E-value=16 Score=30.02 Aligned_cols=36 Identities=19% Similarity=0.264 Sum_probs=27.4
Q ss_pred EEEcC-CCCCCCHHHH--HHHHHhHcCCCCCCeEEEeceee
Q 032770 27 DVLHP-GRANVSKAEL--KEKLARMYDVRDANAIFVFKFRT 64 (134)
Q Consensus 27 ~v~H~-g~~Tpsr~eI--~~kLA~~~~~~~~~~IvV~~~~T 64 (134)
-=.|| |.+|||++|+ -+.|++..+. -+..+++.+-.
T Consensus 172 aHNHPSGd~~PS~aD~~iT~rl~~a~~l--l~I~vLDHiIi 210 (224)
T COG2003 172 AHNHPSGDPTPSRADILITERLKEAGKL--LGIRLLDHIII 210 (224)
T ss_pred eccCCCCCCCcCHHHHHHHHHHHHHHHh--cCceeeeeEEe
Confidence 34688 6899999976 5778887776 57778887777
No 9
>PF08496 Peptidase_S49_N: Peptidase family S49 N-terminal; InterPro: IPR013703 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain is found to the N terminus of bacterial signal peptidases that belong to the MEROPS peptidase family S49 (protease IV family, clan SK) (see also IPR002142 from INTERPRO) [, ]. ; GO: 0004252 serine-type endopeptidase activity, 0005886 plasma membrane
Probab=54.20 E-value=27 Score=26.93 Aligned_cols=54 Identities=20% Similarity=0.399 Sum_probs=40.1
Q ss_pred ceEEEEEEEcCCCCCCCH-HHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEE
Q 032770 21 RKQFVIDVLHPGRANVSK-AELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGL 76 (134)
Q Consensus 21 RrEi~~~v~H~g~~Tpsr-~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~ 76 (134)
.+.-.|.+.|.|.---|. +.+++++.+.+.++.|+==||-.+.+ |||..+||+.
T Consensus 96 ~~~r~~VldF~Gdi~A~~v~~LReeisail~~a~~~DeV~~rLES--~GG~Vh~YGL 150 (155)
T PF08496_consen 96 PKPRLFVLDFKGDIKASEVESLREEISAILSVATPEDEVLVRLES--PGGMVHGYGL 150 (155)
T ss_pred CCCeEEEEecCCCccHHHHHHHHHHHHHHHHhCCCCCeEEEEEec--CCceeeccch
Confidence 455677888887644443 37899999999987776666666666 9999999985
No 10
>PF12327 FtsZ_C: FtsZ family, C-terminal domain; InterPro: IPR024757 The FtsZ family of proteins are involved in polymer formation. FtsZ is the polymer-forming protein of bacterial cell division. It is part of a ring in the middle of the dividing cell that is required for constriction of cell membrane and cell envelope to yield two daughter cells. FtsZ is a GTPase, like tubulin []. FtsZ can polymerise into tubes, sheets, and rings in vitro and is ubiquitous in eubacteria and archaea []. This entry represents a domain of FtsZ. In most FtsZ proteins is found in the C terminus, except in some alphaproteobacteria proteins where there is an extension C-terminal domain TIGR03483 from TIGRFAMs.; PDB: 2RHO_B 2RHJ_A 2VXY_A 2RHL_B 2RHH_A 2VAM_A 1W5F_B 2R75_1 2R6R_1 1RQ7_A ....
Probab=53.78 E-value=14 Score=25.79 Aligned_cols=52 Identities=17% Similarity=0.243 Sum_probs=30.2
Q ss_pred eeeeccCccceEE----EEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceee
Q 032770 12 KFMTNRLLSRKQF----VIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRT 64 (134)
Q Consensus 12 k~~~N~LL~RrEi----~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T 64 (134)
+-+.||||+ ..+ .+-|...|++.++-.|+.+.+-......+++.-+++|...
T Consensus 22 ~Al~spLl~-~~i~~A~~vLvni~~~~d~~l~ev~~~~~~i~~~~~~~a~ii~G~~i 77 (95)
T PF12327_consen 22 QALNSPLLD-VDIKGAKGVLVNITGGPDLSLSEVNEAMEIIREKADPDANIIWGASI 77 (95)
T ss_dssp HHHTSTTST-S-GGG-SEEEEEEEE-TTS-HHHHHHHHHHHHHHSSTTSEEEEEEEE
T ss_pred HHHhCcccc-CChHHhceEEEEEEcCCCCCHHHHHHHHHHHHHHhhcCceEEEEEEE
Confidence 346789998 444 2334444568899998887765554433566666666543
No 11
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=52.60 E-value=73 Score=21.82 Aligned_cols=57 Identities=16% Similarity=0.302 Sum_probs=38.4
Q ss_pred cCccc-eEEEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEEeCCHH
Q 032770 17 RLLSR-KQFVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLIYDSVE 82 (134)
Q Consensus 17 ~LL~R-rEi~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~IYds~e 82 (134)
.|+.. .++.|.|.-. .++.||++.+-.+|++ .+.=|..+... ++.=.+|....+..+
T Consensus 9 ~~~e~~n~y~F~V~~~----anK~eIK~avE~lf~V---kV~~Vnt~~~~--~~~KKA~VtL~~g~~ 66 (77)
T TIGR03636 9 NLIEKENKLTFIVDRK----ATKGDIKRAVEKLFDV---KVEKVNTLITP--RGEKKAYVKLAEEYA 66 (77)
T ss_pred HHHHhCCEEEEEECCC----CCHHHHHHHHHHHhCC---ceEEEEeEEcC--CCceEEEEEECCCCc
Confidence 35554 6888888654 7799999999999999 45555555554 344455555554433
No 12
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=49.34 E-value=37 Score=23.63 Aligned_cols=57 Identities=25% Similarity=0.406 Sum_probs=36.4
Q ss_pred eccCccc-eEEEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceeec-----CCC--CEEEEEEEEe
Q 032770 15 TNRLLSR-KQFVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRTH-----FGG--GKSTGFGLIY 78 (134)
Q Consensus 15 ~N~LL~R-rEi~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~-----fG~--~~s~g~a~IY 78 (134)
...|+.. .++.|.|. ...++.||++.|-+.||+ .++-|..+... +|. |...+|=..|
T Consensus 13 s~~~~~~~n~~tF~V~----~~atK~~Ik~aie~iy~V---~V~~Vnt~~~~gk~kR~g~~~g~~~~~KKai 77 (91)
T PF00276_consen 13 SMKLLENPNQYTFEVD----PRATKTEIKEAIEKIYGV---KVKKVNTMNYPGKKKRKGKFVGKTKDYKKAI 77 (91)
T ss_dssp HHHHHHHSSEEEEEET----TTSTHHHHHHHHHHHHTS---EEEEEEEEEETSEEEESSSCEEEE-EEEEEE
T ss_pred HHHhhhcCCEEEEEEe----CCCCHHHHHHHHHhhcCC---CeeEEEEeEeCCCceEeCCccccCCCcEEEE
Confidence 3445555 77888763 347899999999999999 35555555444 665 3444443333
No 13
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=48.64 E-value=66 Score=22.44 Aligned_cols=63 Identities=14% Similarity=0.242 Sum_probs=43.4
Q ss_pred eeeeccCccc-eEEEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEEeCCHHH
Q 032770 12 KFMTNRLLSR-KQFVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLIYDSVES 83 (134)
Q Consensus 12 k~~~N~LL~R-rEi~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~IYds~e~ 83 (134)
.++.+.|+.. .++.|.|. +..++.||++.+-.+|++ .+.-|..+.+. .+.-.+|....+..++
T Consensus 11 TEK~~~~~e~~n~y~F~V~----~~anK~eIK~AvE~lf~V---kV~~VnT~~~~--~~~KKA~V~L~~g~~A 74 (84)
T PRK14548 11 TEKAMNLIEKENKLTFIVD----RRATKPDIKRAVEELFDV---KVEKVNTLITP--KGEKKAYVKLAEEYDA 74 (84)
T ss_pred CHHHHHHHHhCCEEEEEEC----CCCCHHHHHHHHHHHhCC---ceEEEEeEEcC--CCcEEEEEEeCCCCcH
Confidence 3444556664 68888874 448899999999999999 56666666664 4455566666555443
No 14
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=48.36 E-value=1.2e+02 Score=23.38 Aligned_cols=56 Identities=23% Similarity=0.348 Sum_probs=40.5
Q ss_pred eEEEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEE---eCCHHHHHh
Q 032770 22 KQFVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLI---YDSVESAKK 86 (134)
Q Consensus 22 rEi~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~I---Yds~e~~kk 86 (134)
.+++|.|.-. .++.||++.+-.+|++ +++=|..+.+.- |.=.+|+.. ||.+|.+-+
T Consensus 83 N~yvF~Vd~k----AnK~qIK~AVEklf~V---kV~kVNTli~p~--g~KKA~V~L~~~~~aidva~k 141 (145)
T PTZ00191 83 NTLVFIVDQR----ANKTQIKKAVEKLYDV---KVVKVNTLITPD--GLKKAYIRLSPDVDALDVANK 141 (145)
T ss_pred CEEEEEEcCC----CCHHHHHHHHHHHhCC---eeEEEEeEEcCC--CceEEEEEECCCCcHHHHHHh
Confidence 6788887654 7799999999999999 667777776644 445567777 444555544
No 15
>PF04432 FrhB_FdhB_C: Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; InterPro: IPR007525 Coenzyme F420 hydrogenase (1.12.99.1 from EC) reduces the low-potential two-electron acceptor coenzyme F420. This family contains the C-termini of F420 hydrogenase and dehydrogenase beta subunits [, ]. The C terminus of Methanobacterium formicicum formate dehydrogenase beta chain (1.2.1.2 from EC, P06130 from SWISSPROT) is also represented in this entry []. This region is often found in association with the 4Fe-4S binding domain, fer4 (IPR001450 from INTERPRO), and the N terminus IPR007516 from INTERPRO.
Probab=47.01 E-value=35 Score=25.51 Aligned_cols=43 Identities=19% Similarity=0.261 Sum_probs=32.9
Q ss_pred ceEEEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceee
Q 032770 21 RKQFVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRT 64 (134)
Q Consensus 21 RrEi~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T 64 (134)
+.++.+.|--.-.++||..-+++-|+.+++. +++.|.=+.|+.
T Consensus 30 ~~~~~~~igl~C~g~~s~~~~~~~l~~~~~~-~~~~v~~~~~r~ 72 (161)
T PF04432_consen 30 RDEIVYTIGLFCHGVPSPKKLRKYLEEQLGI-KPDDVKKFDFRD 72 (161)
T ss_pred CcceEEEEeEECCCCCCHHHHHHHHHHHhCC-ChhheeEEEEeC
Confidence 3335555555567899999999999999999 877777777776
No 16
>CHL00030 rpl23 ribosomal protein L23
Probab=46.89 E-value=50 Score=23.42 Aligned_cols=45 Identities=29% Similarity=0.373 Sum_probs=32.9
Q ss_pred eeeccCccceEEEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceee
Q 032770 13 FMTNRLLSRKQFVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRT 64 (134)
Q Consensus 13 ~~~N~LL~RrEi~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T 64 (134)
++..-|+...+++|.|.- ..++.||++.+-.+|++ .++-|..+.+
T Consensus 11 EKs~~l~e~n~y~F~V~~----~anK~eIK~avE~lf~V---kV~~VNt~~~ 55 (93)
T CHL00030 11 DKSIRLLEKNQYTFDVDS----GSTKTEIKHWIELFFGV---KVIAVNSHRL 55 (93)
T ss_pred HHHHHhhHCCEEEEEECC----CCCHHHHHHHHHHHhCC---eEEEEEEEEc
Confidence 444556667788988754 47899999999999999 4555555544
No 17
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=40.89 E-value=54 Score=24.36 Aligned_cols=47 Identities=23% Similarity=0.461 Sum_probs=28.7
Q ss_pred CCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEE-eCCHHHHHh
Q 032770 34 ANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLI-YDSVESAKK 86 (134)
Q Consensus 34 ~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~I-Yds~e~~kk 86 (134)
.+.+-++|++.+.. |+. =.++.++.+-.| +.+.|||.| |.|.+.|..
T Consensus 44 ~~~te~~L~~~F~~-~G~-I~~v~i~~d~~t----g~~kGfaFV~F~~~e~A~~ 91 (144)
T PLN03134 44 WGTDDASLRDAFAH-FGD-VVDAKVIVDRET----GRSRGFGFVNFNDEGAATA 91 (144)
T ss_pred CCCCHHHHHHHHhc-CCC-eEEEEEEecCCC----CCcceEEEEEECCHHHHHH
Confidence 44678889888854 665 345555555544 556666664 555555544
No 18
>COG0245 IspF 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Lipid metabolism]
Probab=40.58 E-value=59 Score=25.53 Aligned_cols=40 Identities=15% Similarity=0.242 Sum_probs=31.5
Q ss_pred EEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceeec
Q 032770 24 FVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRTH 65 (134)
Q Consensus 24 i~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~ 65 (134)
+.+...-| +-.|-+.++++.||+.|++ +++.|-|.-=.|+
T Consensus 96 ~tii~~~P-K~~P~~~amr~~ia~~L~i-~~~~invKatT~E 135 (159)
T COG0245 96 ITIIAQRP-KLGPYREAMRANIAELLGI-PVDRINVKATTTE 135 (159)
T ss_pred EEEEEecC-cccchHHHHHHHHHHHhCC-CchheEEEEeccC
Confidence 44455556 6789999999999999999 9999988654443
No 19
>PRK10513 sugar phosphate phosphatase; Provisional
Probab=39.75 E-value=42 Score=26.34 Aligned_cols=33 Identities=15% Similarity=0.302 Sum_probs=27.0
Q ss_pred EEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 25 VIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 25 ~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
.++|.++| .|+..-.+.|++.||. +++.++++|
T Consensus 187 ~~eI~~~g---vsKg~al~~l~~~~gi-~~~~v~afG 219 (270)
T PRK10513 187 FLEILDKR---VNKGTGVKSLAEHLGI-KPEEVMAIG 219 (270)
T ss_pred eEEEeCCC---CChHHHHHHHHHHhCC-CHHHEEEEC
Confidence 46777776 8999999999999999 777777664
No 20
>PRK15126 thiamin pyrimidine pyrophosphate hydrolase; Provisional
Probab=39.10 E-value=37 Score=26.84 Aligned_cols=33 Identities=18% Similarity=0.290 Sum_probs=26.6
Q ss_pred EEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 25 VIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 25 ~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
.++|.++| .|+..-.+.|++.||+ +++-++++|
T Consensus 179 ~~eI~~~g---~sKg~al~~l~~~~gi-~~~~v~afG 211 (272)
T PRK15126 179 CLEVLPVG---CNKGAALAVLSQHLGL-SLADCMAFG 211 (272)
T ss_pred EEEeecCC---CChHHHHHHHHHHhCC-CHHHeEEec
Confidence 45777765 7899999999999999 777777654
No 21
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=39.09 E-value=1.6e+02 Score=22.06 Aligned_cols=34 Identities=12% Similarity=0.258 Sum_probs=28.5
Q ss_pred CCCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCC
Q 032770 33 RANVSKAELKEKLARMYDVRDANAIFVFKFRTHFG 67 (134)
Q Consensus 33 ~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG 67 (134)
.-.||-.++-+.|-..|++ |..+|+=+.+...||
T Consensus 83 sFAPsPDq~v~~Ly~cf~~-d~~Lvl~Yc~s~A~G 116 (116)
T KOG3439|consen 83 SFAPSPDQIVGNLYECFGT-DGKLVLNYCISVAWG 116 (116)
T ss_pred ccCCCchhHHHHHHHhcCC-CCEEEEEEeeecccC
Confidence 5679999999999999999 888888777776666
No 22
>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.
Probab=38.76 E-value=33 Score=27.87 Aligned_cols=54 Identities=20% Similarity=0.244 Sum_probs=32.1
Q ss_pred ccCccceEEEEEEEcCCC---------CCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCE
Q 032770 16 NRLLSRKQFVIDVLHPGR---------ANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGK 70 (134)
Q Consensus 16 N~LL~RrEi~~~v~H~g~---------~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~ 70 (134)
+-|++|.+|.|.-.+... ..-+=.||.+++|+.+++ ||+.|=++......|...
T Consensus 171 ~~l~nrv~V~f~~~~~~~~~~F~l~ls~~~tY~~la~~Va~~l~~-dP~~lr~~~~~~~~~~P~ 233 (249)
T PF12436_consen 171 DFLYNRVEVEFKPKDNPNDPEFTLWLSKKMTYDQLAEKVAEHLNV-DPEHLRFFTVNPYSGKPK 233 (249)
T ss_dssp HHHHHEEEEEEEETTSTT---EEEEEETT--HHHHHHHHHHHHTS--GGGEEEE---TTS-S--
T ss_pred HHHhCeEEEEEEECCCCCCCCEEEEECCCCCHHHHHHHHHHHHCC-ChHHEEEEEeccCCCCCC
Confidence 445666666655433211 234568999999999999 999999998887666654
No 23
>PRK10976 putative hydrolase; Provisional
Probab=38.01 E-value=42 Score=26.29 Aligned_cols=33 Identities=24% Similarity=0.362 Sum_probs=25.6
Q ss_pred EEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 25 VIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 25 ~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
.++|.++| .|+..-.+.||+.||. +++.++++|
T Consensus 181 ~~eI~~~g---vsKg~al~~l~~~lgi-~~~~viafG 213 (266)
T PRK10976 181 CLEVMAGG---VSKGHALEAVAKKLGY-SLKDCIAFG 213 (266)
T ss_pred eEEEEcCC---CChHHHHHHHHHHcCC-CHHHeEEEc
Confidence 35666655 7899999999999999 777776654
No 24
>TIGR01482 SPP-subfamily Sucrose-phosphate phosphatase subfamily. catalyze the same reaction as SPP.
Probab=37.27 E-value=56 Score=24.68 Aligned_cols=33 Identities=24% Similarity=0.319 Sum_probs=24.1
Q ss_pred EEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 25 VIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 25 ~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
.++|.++| .++..-...|++.|+. +++.++.+|
T Consensus 140 ~~ei~~~~---~~K~~~i~~l~~~~~i-~~~~~i~~G 172 (225)
T TIGR01482 140 DIHILPQG---VNKGVAVKKLKEKLGI-KPGETLVCG 172 (225)
T ss_pred EEEEeeCC---CCHHHHHHHHHHHhCC-CHHHEEEEC
Confidence 45666654 7888889999999999 665555443
No 25
>TIGR01485 SPP_plant-cyano sucrose-6F-phosphate phosphohydrolase. Sucrose phosphate synthase (SPS), the prior step in the biosynthesis of sucrose contains a domain which exhibits considerable similarity to SPP albeit without conservation of the catalytic residues. The catalytic machinery of the synthase resides in another domain. It seems likely that the phosphatase-like domain is involved in substrate binding, possibly binding both substrates in a "product-like" orientation prior to ligation by the synthase catalytic domain.
Probab=36.49 E-value=73 Score=24.97 Aligned_cols=32 Identities=19% Similarity=0.333 Sum_probs=23.2
Q ss_pred EEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 26 IDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 26 ~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
++|.++| .++.+..+.|+++|+. +++.++++|
T Consensus 159 ldi~~~~---~~K~~al~~l~~~~~i-~~~~~i~~G 190 (249)
T TIGR01485 159 LDILPQG---SGKGQALQYLLQKLAM-EPSQTLVCG 190 (249)
T ss_pred EEEEeCC---CChHHHHHHHHHHcCC-CccCEEEEE
Confidence 4666654 6788888999999999 666665554
No 26
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=36.38 E-value=75 Score=22.23 Aligned_cols=34 Identities=21% Similarity=0.553 Sum_probs=25.9
Q ss_pred eeccCcc-ceEEEEEEEcCCCCCCCHHHHHHHHHhHcCC
Q 032770 14 MTNRLLS-RKQFVIDVLHPGRANVSKAELKEKLARMYDV 51 (134)
Q Consensus 14 ~~N~LL~-RrEi~~~v~H~g~~Tpsr~eI~~kLA~~~~~ 51 (134)
+.+.|+. -.++.|.|. +..++.||++.|-.+|++
T Consensus 12 Ks~~~~e~~n~~~F~V~----~~a~K~eIK~aie~lf~V 46 (92)
T PRK05738 12 KSTLLMEKQNKYVFEVA----PDATKPEIKAAVEKLFGV 46 (92)
T ss_pred HHHHhHHhCCEEEEEEC----CCCCHHHHHHHHHHHcCC
Confidence 3444555 567787764 457899999999999999
No 27
>TIGR00608 radc DNA repair protein radc. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=35.78 E-value=39 Score=27.27 Aligned_cols=28 Identities=21% Similarity=0.546 Sum_probs=18.2
Q ss_pred EEEEEEcC-CCCCCCHHHHH--HHHH---hHcCC
Q 032770 24 FVIDVLHP-GRANVSKAELK--EKLA---RMYDV 51 (134)
Q Consensus 24 i~~~v~H~-g~~Tpsr~eI~--~kLA---~~~~~ 51 (134)
|.+.=.|| |.++||.+|+. ..|. +.+++
T Consensus 163 vIlaHNHPSG~~~PS~~Di~~T~~l~~a~~~lgI 196 (218)
T TIGR00608 163 LILAHNHPSGEPSPSQEDILITERLRKAAELLGI 196 (218)
T ss_pred EEEEeecCCCCCCCCHHHHHHHHHHHHHHHhCCC
Confidence 44455688 67999999875 3444 45554
No 28
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=35.21 E-value=80 Score=22.23 Aligned_cols=36 Identities=19% Similarity=0.285 Sum_probs=24.0
Q ss_pred EEEEEEcCCCCCCCH-----HHHHHHHHhHcCCCCCCeEEEe
Q 032770 24 FVIDVLHPGRANVSK-----AELKEKLARMYDVRDANAIFVF 60 (134)
Q Consensus 24 i~~~v~H~g~~Tpsr-----~eI~~kLA~~~~~~~~~~IvV~ 60 (134)
+.+.|.-.|+.++.. .+|-+.|++.+|+ +++.|+|.
T Consensus 59 a~v~i~~~g~~~~e~k~~l~~~i~~~l~~~lgi-~~~rv~I~ 99 (116)
T PTZ00397 59 CFVRVTSIGGISRSNNSSIAAAITKILASHLKV-KSERVYIE 99 (116)
T ss_pred EEEEEEEecCCCHHHHHHHHHHHHHHHHHHhCc-CcccEEEE
Confidence 345555555555552 2677888899999 77777663
No 29
>PRK06425 histidinol-phosphate aminotransferase; Validated
Probab=34.59 E-value=50 Score=26.97 Aligned_cols=26 Identities=4% Similarity=0.089 Sum_probs=22.4
Q ss_pred CCCCHHHHHHHHHhHcCCCCCCeEEEe
Q 032770 34 ANVSKAELKEKLARMYDVRDANAIFVF 60 (134)
Q Consensus 34 ~Tpsr~eI~~kLA~~~~~~~~~~IvV~ 60 (134)
|.|.-.++++.||+.+++ +++.|+|.
T Consensus 38 p~~~~~~lr~~ia~~~~~-~~~~I~it 63 (332)
T PRK06425 38 PEISYTDIEDQIKIYTQG-LKIKVLIG 63 (332)
T ss_pred cCcCHHHHHHHHHHHhCC-CcceEEEC
Confidence 457789999999999999 88888764
No 30
>KOG3969 consensus Uncharacterized conserved protein [Function unknown]
Probab=34.58 E-value=44 Score=28.75 Aligned_cols=58 Identities=17% Similarity=0.375 Sum_probs=46.0
Q ss_pred HHHHHHHHHhHcCCCCCCeEEEe---------------ceeecCCCCEEEEEEEEeCCHHHHHhcCCchhhhhc
Q 032770 38 KAELKEKLARMYDVRDANAIFVF---------------KFRTHFGGGKSTGFGLIYDSVESAKKFEPKYRLIRN 96 (134)
Q Consensus 38 r~eI~~kLA~~~~~~~~~~IvV~---------------~~~T~fG~~~s~g~a~IYds~e~~kk~Epk~~l~R~ 96 (134)
|..+++.+...|++ ++|.+.+| +++-.-|.|.+.|.|+.-|++=..-.+-|+|--.+.
T Consensus 218 r~k~~~~i~~~y~v-~~dqlrmf~HYqPSyYHlHVHi~nik~~~~~~~~~~rAilLddVI~nL~~~P~~Y~k~t 290 (310)
T KOG3969|consen 218 RNKSREAIPQRYGV-DPDQLRMFFHYQPSYYHLHVHIVNIKHDHAPGSGCGRAILLDDVIENLELDPEGYKKST 290 (310)
T ss_pred HHHHHHHHHHHhCC-CchhEEEEEEecCceEEEEEEEEeccCCCCCCccccceeeHHHHHHHhccChHhhhhee
Confidence 56678899999999 99988765 344445999999999999998777788888755443
No 31
>PRK00084 ispF 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed
Probab=34.29 E-value=69 Score=25.00 Aligned_cols=38 Identities=13% Similarity=0.164 Sum_probs=29.5
Q ss_pred EEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEecee
Q 032770 24 FVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFR 63 (134)
Q Consensus 24 i~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~ 63 (134)
+++....| +-.|-+.++++.||+.+++ +++.|-|.-=.
T Consensus 98 ~tii~e~P-Ki~p~~~~m~~~la~~L~i-~~~~V~iKatT 135 (159)
T PRK00084 98 ITIIAQRP-KMAPHIEEMRANIAEDLGI-PLDDVNVKATT 135 (159)
T ss_pred EEEEcCCC-cchHHHHHHHHHHHHHhCC-CcceEEEEEec
Confidence 34445555 6789999999999999999 88888876433
No 32
>KOG2116 consensus Protein involved in plasmid maintenance/nuclear protein involved in lipid metabolism [Cell motility; Lipid transport and metabolism]
Probab=32.46 E-value=73 Score=30.50 Aligned_cols=34 Identities=29% Similarity=0.533 Sum_probs=26.9
Q ss_pred HHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEEe
Q 032770 43 EKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLIY 78 (134)
Q Consensus 43 ~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~IY 78 (134)
+.| ++||..+..+-|+|+|.|.|+|. +.+-|+||
T Consensus 491 EQL-~sLnLk~G~N~v~FsisT~~~Gt-~~c~~~IY 524 (738)
T KOG2116|consen 491 EQL-KSLNLKDGKNDVVFSISTQYQGT-AQCEGNIY 524 (738)
T ss_pred HHH-hhcCCccCCceeEEEEEecccce-EEEeeEEE
Confidence 445 67888899999999999999864 55667776
No 33
>COG0710 AroD 3-dehydroquinate dehydratase [Amino acid transport and metabolism]
Probab=32.33 E-value=73 Score=26.17 Aligned_cols=34 Identities=24% Similarity=0.279 Sum_probs=28.4
Q ss_pred EEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEE
Q 032770 25 VIDVLHPGRANVSKAELKEKLARMYDVRDANAIFV 59 (134)
Q Consensus 25 ~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV 59 (134)
++.=+|.=..|||.+++.+.|.+|... ++|.+=|
T Consensus 119 vI~SyH~F~~TP~~~~i~~~l~km~~~-~aDivKi 152 (231)
T COG0710 119 VIVSYHDFEKTPPLEEIIERLDKMESL-GADIVKI 152 (231)
T ss_pred EEEEeccCCCCCcHHHHHHHHHHHHhh-CCCeEEE
Confidence 555678878999999999999999999 7776543
No 34
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=31.16 E-value=1.5e+02 Score=24.09 Aligned_cols=53 Identities=13% Similarity=0.258 Sum_probs=33.4
Q ss_pred EEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEE-eCCHHHHH
Q 032770 26 IDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLI-YDSVESAK 85 (134)
Q Consensus 26 ~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~I-Yds~e~~k 85 (134)
+-|.+- ...-+-++|++.++ .||. =.++-++.+-. .+.+.|||.| |+|.+.|.
T Consensus 272 lfV~NL-~~~~~e~~L~~~F~-~fG~-v~~v~i~~d~~----t~~skG~aFV~F~~~~~A~ 325 (352)
T TIGR01661 272 IFVYNL-SPDTDETVLWQLFG-PFGA-VQNVKIIRDLT----TNQCKGYGFVSMTNYDEAA 325 (352)
T ss_pred EEEeCC-CCCCCHHHHHHHHH-hCCC-eEEEEEeEcCC----CCCccceEEEEECCHHHHH
Confidence 345554 34457788888885 4564 34555554433 4678899987 77777654
No 35
>PRK12280 rplW 50S ribosomal protein L23; Reviewed
Probab=30.84 E-value=83 Score=24.57 Aligned_cols=36 Identities=19% Similarity=0.328 Sum_probs=28.8
Q ss_pred eeeeccCccceEEEEEEEcCCCCCCCHHHHHHHHHhHcCC
Q 032770 12 KFMTNRLLSRKQFVIDVLHPGRANVSKAELKEKLARMYDV 51 (134)
Q Consensus 12 k~~~N~LL~RrEi~~~v~H~g~~Tpsr~eI~~kLA~~~~~ 51 (134)
.+..+-|+...+++|.|.-. .++.||+..+-.+|++
T Consensus 13 TEKs~~l~e~N~ytF~V~~~----anK~eIK~AVE~iF~V 48 (158)
T PRK12280 13 TEKSYSLMSKNVYTFKVDRR----ANKIEIKKAVEFIFKV 48 (158)
T ss_pred CHHHHhhhhCCEEEEEECCC----CCHHHHHHHHHHHhCC
Confidence 34456667777888888653 7899999999999999
No 36
>PRK01158 phosphoglycolate phosphatase; Provisional
Probab=30.54 E-value=67 Score=24.36 Aligned_cols=33 Identities=27% Similarity=0.452 Sum_probs=24.9
Q ss_pred EEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 25 VIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 25 ~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
.+++.++| .|+..-.+.|++.|+. +++.++++|
T Consensus 148 ~~ei~~~~---~~Kg~al~~l~~~~~i-~~~~~i~~G 180 (230)
T PRK01158 148 AIHIKSPG---VNKGTGLKKLAELMGI-DPEEVAAIG 180 (230)
T ss_pred EEEEeeCC---CChHHHHHHHHHHhCC-CHHHEEEEC
Confidence 35666664 7888899999999999 766666554
No 37
>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=30.45 E-value=1.1e+02 Score=17.57 Aligned_cols=47 Identities=26% Similarity=0.436 Sum_probs=28.0
Q ss_pred CCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEE-eCCHHHHHhc
Q 032770 34 ANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLI-YDSVESAKKF 87 (134)
Q Consensus 34 ~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~I-Yds~e~~kk~ 87 (134)
+..+..+|++.++...++ .+..+.. ...+ ...|+|.| |.|.+.+...
T Consensus 9 ~~~~~~~i~~~~~~~g~i--~~~~~~~---~~~~--~~~~~~~v~f~s~~~a~~a 56 (74)
T cd00590 9 PDVTEEDLRELFSKFGKV--ESVRIVR---DKDT--KSKGFAFVEFEDEEDAEKA 56 (74)
T ss_pred CccCHHHHHHHHHhcCCE--EEEEEee---CCCC--CcceEEEEEECCHHHHHHH
Confidence 346788999999775323 2222222 2222 55777777 6888877554
No 38
>PF10503 Esterase_phd: Esterase PHB depolymerase
Probab=30.16 E-value=6 Score=31.86 Aligned_cols=34 Identities=24% Similarity=0.373 Sum_probs=27.0
Q ss_pred CHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEE
Q 032770 37 SKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTG 73 (134)
Q Consensus 37 sr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g 73 (134)
.-.+|.+.|+..|++ |++.|+|-||.. |+..+..
T Consensus 80 ~i~~lv~~v~~~~~i-D~~RVyv~G~S~--Gg~ma~~ 113 (220)
T PF10503_consen 80 FIAALVDYVAARYNI-DPSRVYVTGLSN--GGMMANV 113 (220)
T ss_pred hHHHHHHhHhhhccc-CCCceeeEEECH--HHHHHHH
Confidence 455778889999999 999999999987 5554433
No 39
>PRK14864 putative biofilm stress and motility protein A; Provisional
Probab=29.72 E-value=2.2e+02 Score=20.65 Aligned_cols=53 Identities=9% Similarity=0.170 Sum_probs=39.7
Q ss_pred EE-EEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEEeC
Q 032770 23 QF-VIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLIYD 79 (134)
Q Consensus 23 Ei-~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~IYd 79 (134)
.+ +|.|.|. + |-.|+.+.||++=+........|-.....-|.+.-.|.|-||.
T Consensus 50 ~iGtVSvs~~--g--sp~d~~~~La~KAda~GA~yYrIi~~~e~~~~~~~~atA~iYk 103 (104)
T PRK14864 50 KMGTVSALVR--G--SPDDAEREIQAKANAAGADYYVIVMVDETVVPGQWYSQAILYR 103 (104)
T ss_pred eeeEEEEecC--C--CHHHHHHHHHHHHHHcCCCEEEEEEccccCCCCeEEEEEEEec
Confidence 44 6677764 3 3568888888776665667788888877678899999999995
No 40
>PRK01688 histidinol-phosphate aminotransferase; Provisional
Probab=29.33 E-value=48 Score=27.38 Aligned_cols=27 Identities=15% Similarity=0.215 Sum_probs=22.6
Q ss_pred CCCCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 34 ANVSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 34 ~Tpsr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
|-|.-.++++.+|+.+|+ +++.|+|.+
T Consensus 55 p~~~~~~l~~~~a~~~g~-~~~~I~~~~ 81 (351)
T PRK01688 55 PECQPKAVIENYAAYAGV-KPEQVLVSR 81 (351)
T ss_pred CCCChHHHHHHHHHHhCC-CHHHEEEcC
Confidence 445668999999999999 999988755
No 41
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=29.24 E-value=1.6e+02 Score=19.55 Aligned_cols=27 Identities=19% Similarity=0.342 Sum_probs=20.7
Q ss_pred CCCCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 34 ANVSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 34 ~Tpsr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
.+-+-.|++.+|...+|+ +++..-+.-
T Consensus 22 ~~~Tv~eLK~kl~~~~Gi-~~~~m~L~l 48 (87)
T PF14560_consen 22 KSITVSELKQKLEKLTGI-PPSDMRLQL 48 (87)
T ss_dssp TTSBHHHHHHHHHHHHTS--TTTEEEEE
T ss_pred CCCCHHHHHHHHHHHhCC-CcccEEEEE
Confidence 446788999999999999 776666644
No 42
>smart00362 RRM_2 RNA recognition motif.
Probab=29.21 E-value=1.2e+02 Score=17.38 Aligned_cols=45 Identities=29% Similarity=0.516 Sum_probs=24.5
Q ss_pred CCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEE-eCCHHHHHhc
Q 032770 35 NVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLI-YDSVESAKKF 87 (134)
Q Consensus 35 Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~I-Yds~e~~kk~ 87 (134)
..+..||++.+. .||. -.+..+. ... | .+.|+|.| |++.+.+...
T Consensus 10 ~~~~~~l~~~~~-~~g~-v~~~~~~---~~~-~--~~~~~~~v~f~~~~~a~~a 55 (72)
T smart00362 10 DVTEEDLKELFS-KFGP-IESVKIP---KDT-G--KSKGFAFVEFESEEDAEKA 55 (72)
T ss_pred cCCHHHHHHHHH-hcCC-EEEEEEe---cCC-C--CCCceEEEEeCCHHHHHHH
Confidence 456789998885 5564 2232222 222 3 45555555 5666666543
No 43
>cd00554 MECDP_synthase MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis. This pathway is present in bacteria, plants and some protozoa but is distinct from that used by mammals and Archaea. MECDP_synthase forms a homotrimer, carrying three active sites, each of which is formed in a cleft between pairs of subunits.
Probab=29.16 E-value=1e+02 Score=23.83 Aligned_cols=36 Identities=11% Similarity=0.251 Sum_probs=28.5
Q ss_pred EEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 24 FVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 24 i~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
+.+....| +-.|=+.++++.||+.++. +.+.|-|.-
T Consensus 95 ~tii~e~P-Ki~p~~~~m~~~ls~~L~~-~~~~V~iKa 130 (153)
T cd00554 95 ITIIAERP-KISPYREAMRANLAELLGI-PPSRVNIKA 130 (153)
T ss_pred EEEEecCC-cchHHHHHHHHHHHHHhCC-CCceEEEEE
Confidence 44445556 6788999999999999999 888887753
No 44
>TIGR00151 ispF 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase. Members of this protein family are 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase, the IspF protein of the deoxyxylulose (non-mevalonate) pathway of IPP biosynthesis. This protein occurs as an IspDF bifunctional fusion protein in about 20 percent of bacterial genomes.
Probab=28.87 E-value=1e+02 Score=24.01 Aligned_cols=36 Identities=14% Similarity=0.235 Sum_probs=28.3
Q ss_pred EEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 24 FVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 24 i~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
+.+....| +-.|=+.++++.||+.++. +++.|-|.-
T Consensus 95 ~tii~e~P-Ki~p~~~~m~~~la~~L~~-~~~~V~iKa 130 (155)
T TIGR00151 95 ITIIAQRP-KLLPHIPAMRENIAELLGI-PLDSVNVKA 130 (155)
T ss_pred EEEEcCCC-cchHHHHHHHHHHHHHhCC-CcceEEEEE
Confidence 34444555 5688999999999999999 888887754
No 45
>TIGR01484 HAD-SF-IIB HAD-superfamily hydrolase, subfamily IIB. The IIB subfamily consists of Trehalose-6-phosphatase (TIGR00685), plant and cyanobacterial Sucrose-phosphatase and a closely related group of bacterial and archaeal sequences, eukaryotic phosphomannomutase (pfam03332), a large subfamily ("Cof-like hydrolases", TIGR00099) containing many closely related bacterial sequences, a hypothetical equivalog containing the E. coli YedP protein, as well as two small clusters containing sequences whose relationship to the other groups is unclear.
Probab=28.48 E-value=93 Score=23.24 Aligned_cols=33 Identities=24% Similarity=0.386 Sum_probs=24.3
Q ss_pred EEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 25 VIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 25 ~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
.++|.++| .++.+..+.|++.++. +++.++++|
T Consensus 154 ~~ev~p~~---~~K~~~~~~~~~~~~~-~~~~~~~~G 186 (204)
T TIGR01484 154 DLEVLPAG---VDKGSALQALLKELNG-KRDEILAFG 186 (204)
T ss_pred EEEEecCC---CChHHHHHHHHHHhCC-CHHHEEEEc
Confidence 44566543 7899999999999998 777666553
No 46
>cd02777 MopB_CT_DMSOR-like The MopB_CT_DMSOR-like CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO. Also included in this group is the pyrogallol-phloroglucinol transhydroxylase from Pelobacter acidigallici. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB hom
Probab=28.21 E-value=1.5e+02 Score=20.77 Aligned_cols=38 Identities=16% Similarity=0.187 Sum_probs=30.0
Q ss_pred HHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEEeCCH
Q 032770 39 AELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLIYDSV 81 (134)
Q Consensus 39 ~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~IYds~ 81 (134)
-+|-...|+.+|+.+.|.|.|.+ +.|...+.|.|-+++
T Consensus 36 v~i~p~dA~~lgi~~Gd~V~v~s-----~~g~i~~~v~i~~~v 73 (127)
T cd02777 36 VWINPLDAAARGIKDGDIVRVFN-----DRGAVLAGARVTDRI 73 (127)
T ss_pred EEECHHHHHHcCCCCCCEEEEEc-----CCeEEEEEEEECCCc
Confidence 56666889999998899998874 456788888887764
No 47
>PF01996 F420_ligase: F420-0:Gamma-glutamyl ligase; InterPro: IPR002847 This entry contains F420-0:gamma-glutamyl ligase and related proteins. F420-0:gamma-glutamyl ligase catalyzes the GTP-dependent successive addition of multiple gamma-linked L-glutamates to the L-lactyl phosphodiester of 7,8-didemethyl-8-hydroxy-5-deazariboflavin (F420-0) to form polyglutamated F420 derivatives [, , , ].; PDB: 2G9I_A 2PHN_A.
Probab=27.80 E-value=42 Score=27.11 Aligned_cols=52 Identities=21% Similarity=0.226 Sum_probs=36.9
Q ss_pred EEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEEeCC
Q 032770 27 DVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLIYDS 80 (134)
Q Consensus 27 ~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~IYds 80 (134)
.++.|..|.-|-.+|+++|.+.+|. +..+|+++..-+-|-.| ++|+|.=+.-
T Consensus 125 v~LlP~dPd~sA~~i~~~l~~~~g~-~v~ViI~Dt~gr~~r~G-~~~vaig~~G 176 (228)
T PF01996_consen 125 VVLLPEDPDASARRIREELKERTGK-DVGVIITDTNGRPWRLG-QTGVAIGVAG 176 (228)
T ss_dssp EE---S-HHHHHHHHHHHHHHHHS----EEEEEEEEEETTEEC-EEEEEEEEES
T ss_pred EEECCCCHHHHHHHHHHHHHHHHCC-ceEEEEECCCCcEEecC-CccchhhccC
Confidence 4667777777788999999999999 99999999988777677 7777765555
No 48
>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents Apg12, which is covalently bound to Apg5 [].; GO: 0000045 autophagic vacuole assembly, 0005737 cytoplasm; PDB: 1WZ3_B.
Probab=27.78 E-value=20 Score=25.26 Aligned_cols=33 Identities=18% Similarity=0.251 Sum_probs=18.1
Q ss_pred CCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCC
Q 032770 34 ANVSKAELKEKLARMYDVRDANAIFVFKFRTHFG 67 (134)
Q Consensus 34 ~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG 67 (134)
-.||-.|.-+-|...|++ +.++|+=+..-.-||
T Consensus 55 FaPspDe~vg~L~~~f~~-~~~Liv~Ys~t~A~G 87 (87)
T PF04110_consen 55 FAPSPDETVGDLYRCFGT-NGELIVSYSKTPAWG 87 (87)
T ss_dssp E---TTSBHHHHHHHH-B-TTBEEEEEESSS---
T ss_pred cCCCchhHHHHHHHHhCC-CCEEEEEEecccccC
Confidence 467777778888888887 777775555444444
No 49
>COG0561 Cof Predicted hydrolases of the HAD superfamily [General function prediction only]
Probab=27.77 E-value=74 Score=24.93 Aligned_cols=31 Identities=26% Similarity=0.521 Sum_probs=24.6
Q ss_pred EEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEe
Q 032770 26 IDVLHPGRANVSKAELKEKLARMYDVRDANAIFVF 60 (134)
Q Consensus 26 ~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~ 60 (134)
++|.++| .|+......|++.|+. +++.|+.|
T Consensus 181 lei~~~g---~~K~~al~~l~~~lgi-~~~~v~af 211 (264)
T COG0561 181 LDITPKG---VSKGYALQRLAKLLGI-KLEEVIAF 211 (264)
T ss_pred EEEecCC---CchHHHHHHHHHHhCC-CHHHeEEe
Confidence 6677665 7899999999999999 66655554
No 50
>PRK06959 putative threonine-phosphate decarboxylase; Provisional
Probab=27.67 E-value=67 Score=26.54 Aligned_cols=25 Identities=24% Similarity=0.256 Sum_probs=19.7
Q ss_pred CCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 36 VSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 36 psr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
|. .++++.||+.+++.+++.|+|.+
T Consensus 54 ~~-~~L~~~ia~~~~~~~~~~I~i~~ 78 (339)
T PRK06959 54 DD-DGLAACAARYYGAPDAAHVLPVA 78 (339)
T ss_pred ch-HHHHHHHHHHhCCCCcccEEECc
Confidence 55 89999999999994457777643
No 51
>PHA01976 helix-turn-helix protein
Probab=27.46 E-value=28 Score=21.72 Aligned_cols=24 Identities=13% Similarity=0.039 Sum_probs=17.1
Q ss_pred CCCCCCHHHHHHHHHhHcCCCCCCeE
Q 032770 32 GRANVSKAELKEKLARMYDVRDANAI 57 (134)
Q Consensus 32 g~~Tpsr~eI~~kLA~~~~~~~~~~I 57 (134)
|...|+... ..+||..|++ +++.+
T Consensus 38 g~~~p~~~~-l~~ia~~l~v-~~~~l 61 (67)
T PHA01976 38 DKRLPNLKT-LLRLADALGV-TLDWL 61 (67)
T ss_pred CCCCCCHHH-HHHHHHHHCc-CHHHH
Confidence 445676544 5799999999 77654
No 52
>TIGR03576 pyridox_MJ0158 pyridoxal phosphate enzyme, MJ0158 family. Members of this archaeal protein family are pyridoxal phosphate enzymes of unknown function. Sequence similarity to SelA, a bacterial enzyme of selenocysteine biosynthesis, has led to some members being misannotated as functionally equivalent, but selenocysteine is made on tRNA in Archaea by a two-step process that does not involve a SelA homolog.
Probab=27.32 E-value=57 Score=27.42 Aligned_cols=29 Identities=14% Similarity=0.130 Sum_probs=23.9
Q ss_pred CCCCCCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 32 GRANVSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 32 g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
|+.++--.++.+.||+.+|+ +++.++|+.
T Consensus 50 ~g~~~~~~~Le~~lA~~~g~-~~e~ilv~~ 78 (346)
T TIGR03576 50 VGPAIFEEKVQELGREHLGG-PEEKILVFN 78 (346)
T ss_pred cCCHHHHHHHHHHHHHHcCC-CcceEEEEC
Confidence 35667788999999999999 777787765
No 53
>PF02594 DUF167: Uncharacterised ACR, YggU family COG1872; InterPro: IPR003746 This entry describes proteins of unknown function. Structures for two of these proteins, YggU from Escherichia coli and MTH637 from the archaea Methanobacterium thermoautotrophicum, have been determined; they have a core 2-layer alpha/beta structure consisting of beta(2)-loop-alpha-beta(2)-alpha [, ].; PDB: 1YH5_A 1N91_A 1JRM_A.
Probab=27.28 E-value=92 Score=21.16 Aligned_cols=43 Identities=19% Similarity=0.156 Sum_probs=26.3
Q ss_pred eEEEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceee
Q 032770 22 KQFVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRT 64 (134)
Q Consensus 22 rEi~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T 64 (134)
.++.+.|..|-.--=.-+++.+-||+.|+++..++-++.|-.+
T Consensus 26 ~~l~i~v~app~~GkAN~ali~~La~~l~v~ks~i~i~~G~~S 68 (77)
T PF02594_consen 26 GALKIRVTAPPVDGKANKALIRFLAKALGVPKSDIEIVSGHTS 68 (77)
T ss_dssp T-EEEEBSTTCCCCCHHHHHHHHHHHHCT--TTCEEECC-CCC
T ss_pred eEEEEEEecCCCcChhHHHHHHHHHHHhCCCcccEEEEecCCC
Confidence 3566666665322334579999999999996666666666543
No 54
>PF02542 YgbB: YgbB family; InterPro: IPR003526 MECDP (2-C-methyl-D-erythritol 2,4-cyclodiphosphate) synthetase, an enzyme in the non-mevalonate pathway of isoprenoid synthesis, isoprenoids being essential in all organisms. Isoprenoids can also be synthesized through the mevalonate pathway. The non-mevolante route is used by many bacteria and human pathogens, including Mycobacterium tuberculosis and Plasmodium falciparum. This route appears to involve seven enzymes. MECDP synthetase catalyses the intramolecular attack by a phosphate group on a diphosphate, with cytidine monophosphate (CMP) acting as the leaving group to give the cyclic diphosphate product MEDCP. The enzyme is a trimer with three active sites shared between adjacent copies of the protein. The enzyme also has two metal binding sites, the metals playing key roles in catalysis[]. A number of proteins from eukaryotes and prokaryotes share this common N-terminal signature and appear to be involved in terpenoid biosynthesis. The YgbB protein is a putative enzyme of this type [].; GO: 0008685 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity, 0016114 terpenoid biosynthetic process; PDB: 3T80_B 3GHZ_A 2PMP_A 3F6M_A 3FPI_A 3RE3_A 1T0A_C 1W57_A 1W55_A 3B6N_A ....
Probab=26.80 E-value=62 Score=25.20 Aligned_cols=31 Identities=13% Similarity=0.363 Sum_probs=25.0
Q ss_pred EEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEe
Q 032770 28 VLHPGRANVSKAELKEKLARMYDVRDANAIFVF 60 (134)
Q Consensus 28 v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~ 60 (134)
...| +=.|=+.++++.||+.++. +++.|-|.
T Consensus 100 ~e~P-Ki~p~~~~m~~~la~~L~~-~~~~V~iK 130 (157)
T PF02542_consen 100 AERP-KISPYRPAMRENLAKLLGI-PPDRVNIK 130 (157)
T ss_dssp SSSS-TTGGGHHHHHHHHHHHHTS--GGGEEEE
T ss_pred cCCC-ccHHHHHHHHHHHHHHhCC-CcceEEEE
Confidence 3344 5689999999999999999 88888775
No 55
>COG2006 Uncharacterized conserved protein [Function unknown]
Probab=26.20 E-value=72 Score=27.39 Aligned_cols=43 Identities=21% Similarity=0.256 Sum_probs=35.7
Q ss_pred EcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEE
Q 032770 29 LHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTG 73 (134)
Q Consensus 29 ~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g 73 (134)
+|.+.+ .+....+.||..|.+=.|++.+++++.-.=|.|-+.|
T Consensus 171 ~h~~~~--~~~~Fg~mlvei~~~~~P~ltI~Dgi~G~egNGP~~G 213 (293)
T COG2006 171 WHMEEG--DRDRFGEMLVEIYLVVKPDLTIMDGIIGMEGNGPSGG 213 (293)
T ss_pred cchhcC--chHHHHHHHHHHHhhcCCcEEEEeeeEecccCCCCCC
Confidence 455443 6778899999999987999999999999888887766
No 56
>PRK00024 hypothetical protein; Reviewed
Probab=26.15 E-value=64 Score=25.97 Aligned_cols=28 Identities=18% Similarity=0.489 Sum_probs=18.2
Q ss_pred EEEEEEcC-CCCCCCHHHHH--HH---HHhHcCC
Q 032770 24 FVIDVLHP-GRANVSKAELK--EK---LARMYDV 51 (134)
Q Consensus 24 i~~~v~H~-g~~Tpsr~eI~--~k---LA~~~~~ 51 (134)
|.+.=.|| |.++||.+|+. .. .++++++
T Consensus 169 iIl~HNHPSG~~~PS~~D~~~T~~l~~a~~~l~I 202 (224)
T PRK00024 169 LILAHNHPSGDPEPSQADILITKRLKEAGELLGI 202 (224)
T ss_pred eEEEecCCCCCCCCCHHHHHHHHHHHHHHHhCCC
Confidence 44445688 57999999875 33 4455555
No 57
>PF08766 DEK_C: DEK C terminal domain; InterPro: IPR014876 DEK is a chromatin associated protein that is linked with cancers and autoimmune disease. This domain is found at the C-terminal of DEK and is of clinical importance since it can reverse the characteristic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients []. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family []. This domain is also found in chitin synthase proteins like Q8TF96 from SWISSPROT, and in protein phosphatases such as Q6NN85 from SWISSPROT. ; PDB: 1Q1V_A.
Probab=25.92 E-value=58 Score=20.27 Aligned_cols=21 Identities=29% Similarity=0.526 Sum_probs=14.5
Q ss_pred CCCCCCHHHHHHHHHhHcCCCC
Q 032770 32 GRANVSKAELKEKLARMYDVRD 53 (134)
Q Consensus 32 g~~Tpsr~eI~~kLA~~~~~~~ 53 (134)
+-.|.|..+|++.|.+.||+ |
T Consensus 17 dl~~vT~k~vr~~Le~~~~~-d 37 (54)
T PF08766_consen 17 DLDTVTKKQVREQLEERFGV-D 37 (54)
T ss_dssp -GGG--HHHHHHHHHHH-SS--
T ss_pred CHhHhhHHHHHHHHHHHHCC-C
Confidence 44688999999999999998 5
No 58
>PRK13815 ribosome-binding factor A; Provisional
Probab=25.67 E-value=2.7e+02 Score=20.36 Aligned_cols=44 Identities=9% Similarity=0.082 Sum_probs=33.8
Q ss_pred HHHHHHHHhHc--CCCCCC--eEEEeceeecCCCCEEEEEEEEeCCHH
Q 032770 39 AELKEKLARMY--DVRDAN--AIFVFKFRTHFGGGKSTGFGLIYDSVE 82 (134)
Q Consensus 39 ~eI~~kLA~~~--~~~~~~--~IvV~~~~T~fG~~~s~g~a~IYds~e 82 (134)
++|++.||..+ ++.||. .|-|.++...=....++.|.-++.+.+
T Consensus 10 ~~Ir~eis~il~~~i~dprl~~vtVt~V~vS~Dl~~AkVyvs~~~~~~ 57 (122)
T PRK13815 10 EAIHELISGLLVKGLKDPRIGFVTITGVKVTDDLHLATIYFTVIGDDE 57 (122)
T ss_pred HHHHHHHHHHHHHhCcCCCCCceEEeEEEECCCCCEEEEEEEECCCch
Confidence 46777777765 454665 588999999999999999999987654
No 59
>PF09581 Spore_III_AF: Stage III sporulation protein AF (Spore_III_AF); InterPro: IPR014245 This family represents the stage III sporulation protein AF (SpoIIIAF) of the bacterial endospore formation program, which exists in some but not all members of the Firmicutes (formerly called low-GC Gram-positives). The C-terminal region of these proteins is poorly conserved.
Probab=25.57 E-value=43 Score=25.40 Aligned_cols=23 Identities=30% Similarity=0.580 Sum_probs=19.7
Q ss_pred CHHHHHHHHHhHcCCCCCCeEEEe
Q 032770 37 SKAELKEKLARMYDVRDANAIFVF 60 (134)
Q Consensus 37 sr~eI~~kLA~~~~~~~~~~IvV~ 60 (134)
...+|+..||..||+ +++.|-|.
T Consensus 165 ~~~~i~~~la~~~~i-~~~~I~V~ 187 (188)
T PF09581_consen 165 EEEEIKQYLADFYGI-SPEQIKVY 187 (188)
T ss_pred HHHHHHHHHHHHhCC-CHHHeEEe
Confidence 346899999999999 99998774
No 60
>TIGR00099 Cof-subfamily Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily. The members of this subfamily are restricted almost exclusively to bacteria (one sequences from S. pombe scores above trusted, while another is between trusted and noise). It is notable that no archaea are found in this group, the closest relations to the archaea found here being two Deinococcus sequences.
Probab=25.30 E-value=90 Score=24.32 Aligned_cols=33 Identities=24% Similarity=0.405 Sum_probs=24.9
Q ss_pred EEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 25 VIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 25 ~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
.++|.++| .|+..-.+.|++.++. +++.++++|
T Consensus 179 ~leI~~~~---~~K~~~i~~~~~~~~~-~~~~~~~~G 211 (256)
T TIGR00099 179 SIEITAKG---VSKGSALQSLAEALGI-SLEDVIAFG 211 (256)
T ss_pred eEEecCCC---CChHHHHHHHHHHcCC-CHHHEEEeC
Confidence 34566654 7899999999999999 776666654
No 61
>cd06397 PB1_UP1 Uncharacterized protein 1. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=25.03 E-value=1.3e+02 Score=21.17 Aligned_cols=30 Identities=17% Similarity=0.150 Sum_probs=24.8
Q ss_pred CCCCHHHHHHHHHhHcCCCCCCeEEEeceee
Q 032770 34 ANVSKAELKEKLARMYDVRDANAIFVFKFRT 64 (134)
Q Consensus 34 ~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T 64 (134)
..|+-+.++++|...|+. +++-+.|.-+..
T Consensus 18 ~~pt~~~L~~kl~~Lf~l-p~~~~~vtYiDe 47 (82)
T cd06397 18 DIPTWEALASKLENLYNL-PEIKVGVTYIDN 47 (82)
T ss_pred CCccHHHHHHHHHHHhCC-ChhHeEEEEEcC
Confidence 379999999999999999 776677766554
No 62
>PF07338 DUF1471: Protein of unknown function (DUF1471); InterPro: IPR010854 This entry consists of several hypothetical Enterobacterial proteins of around 90 residues in length. Some of the proteins are annotated as ydgH precursors and contain two copies of this region, one at the N terminus and the other at the C terminus. The function of this family is unknown.; PDB: 2NOC_A 2JNA_B 4EVU_B.
Probab=24.69 E-value=1.9e+02 Score=18.30 Aligned_cols=49 Identities=18% Similarity=0.153 Sum_probs=32.3
Q ss_pred EEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEEe
Q 032770 25 VIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLIY 78 (134)
Q Consensus 25 ~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~IY 78 (134)
.|.|.+.. +| -.|+.++||++=.....+...|-.+.+ .++.-.+-|-||
T Consensus 7 ~Isvs~~~-~s--~~d~~~~la~kAd~~GA~~y~I~~~~~--~~~~~~~tA~lY 55 (56)
T PF07338_consen 7 TISVSGNF-GS--PDDAEEALAKKADEKGAKYYRITSASE--DGNNWHATAELY 55 (56)
T ss_dssp EEEEEEEC-SS--HHHHHHHHHHHHHHTT-SEEEEEEEEE--CSSEEEEEEEEE
T ss_pred EEEEcccc-CC--HHHHHHHHHHHHHHcCCCEEEEEEEEc--CCCeEEEEEEEE
Confidence 34555542 34 456666665554433447788888887 899999999999
No 63
>PF03090 Replicase: Replicase family; InterPro: IPR004322 This is a family of bacterial plasmid DNA replication initiator proteins. These RepA proteins exist as monomers and dimers in equilibrium: monomers bind directly to repeated DNA sequences and thus activate replication; dimers repress repA transcription by binding an inversely repeated DNA operator. Dimer dissociation can occur spontaneously or may be mediated by Hsp70 chaperones. A similar RepA family of proteins found mainly in Escherichia coli is involved in plasmid replication (see IPR000525 from INTERPRO).
Probab=24.32 E-value=1.4e+02 Score=22.47 Aligned_cols=39 Identities=23% Similarity=0.140 Sum_probs=25.0
Q ss_pred eeccCccceEEEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEE
Q 032770 14 MTNRLLSRKQFVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFV 59 (134)
Q Consensus 14 ~~N~LL~RrEi~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV 59 (134)
.-||..-+.-|+|||.|++. .. ...-...+.+.|..|++
T Consensus 18 q~N~~~~~~~lV~DiD~~~~-----~~--~~~w~~~~lp~Pn~i~~ 56 (137)
T PF03090_consen 18 QLNPPQYVNWLVFDIDHPGA-----AL--ALAWEDEGLPPPNWIVI 56 (137)
T ss_pred eeCChhhEEEEEEECCCCCc-----hh--hHHHHhcCCCCCeEEEE
Confidence 45887778889999999975 11 11223345645666665
No 64
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=24.14 E-value=2.2e+02 Score=18.71 Aligned_cols=23 Identities=13% Similarity=0.296 Sum_probs=18.0
Q ss_pred CCCCHHHHHHHHHhHcCCCCCCeE
Q 032770 34 ANVSKAELKEKLARMYDVRDANAI 57 (134)
Q Consensus 34 ~Tpsr~eI~~kLA~~~~~~~~~~I 57 (134)
++-+-.|+++.+|+..+. +++..
T Consensus 20 ~~~TV~~LK~~I~~~~~~-~~~~q 42 (78)
T cd01804 20 PDETVEGLKKRISQRLKV-PKERL 42 (78)
T ss_pred CcCHHHHHHHHHHHHhCC-ChHHE
Confidence 456688999999999998 55543
No 65
>PRK04781 histidinol-phosphate aminotransferase; Provisional
Probab=24.08 E-value=70 Score=26.59 Aligned_cols=26 Identities=15% Similarity=0.368 Sum_probs=21.2
Q ss_pred CCCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 35 NVSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 35 Tpsr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
.|.-.++++.||+.+++ +++.|++..
T Consensus 58 ~~~~~~lr~~ia~~~~~-~~~~I~~t~ 83 (364)
T PRK04781 58 DPQPPGLRSALAALYGC-APEQLLIGR 83 (364)
T ss_pred CCCHHHHHHHHHHHhCc-ChHHEEEeC
Confidence 45568999999999999 888877643
No 66
>PLN03026 histidinol-phosphate aminotransferase; Provisional
Probab=23.98 E-value=84 Score=26.33 Aligned_cols=25 Identities=20% Similarity=0.258 Sum_probs=20.6
Q ss_pred CCCHHHHHHHHHhHcCCCCCCeEEEe
Q 032770 35 NVSKAELKEKLARMYDVRDANAIFVF 60 (134)
Q Consensus 35 Tpsr~eI~~kLA~~~~~~~~~~IvV~ 60 (134)
.|.-.++++.||+.+++ +++.|++.
T Consensus 85 ~~~~~~lr~~ia~~~~~-~~~~I~~t 109 (380)
T PLN03026 85 DPESRRLRAALAEDSGL-ESENILVG 109 (380)
T ss_pred CCCHHHHHHHHHHHhCc-ChhhEEEc
Confidence 35567999999999999 88887764
No 67
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=23.97 E-value=1.2e+02 Score=24.62 Aligned_cols=31 Identities=10% Similarity=0.178 Sum_probs=27.6
Q ss_pred CCCCCHHHHHHHHHhHcCCCCCCeEEEecee
Q 032770 33 RANVSKAELKEKLARMYDVRDANAIFVFKFR 63 (134)
Q Consensus 33 ~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~ 63 (134)
+.-|||.+.-..|++.+....+|+|++-|+-
T Consensus 59 k~~~~r~~~d~~l~~~l~~~~~dlvvLAGyM 89 (200)
T COG0299 59 KEFPSREAFDRALVEALDEYGPDLVVLAGYM 89 (200)
T ss_pred ccCCCHHHHHHHHHHHHHhcCCCEEEEcchH
Confidence 6789999999999999998899999998753
No 68
>PRK05387 histidinol-phosphate aminotransferase; Provisional
Probab=23.83 E-value=68 Score=25.99 Aligned_cols=25 Identities=24% Similarity=0.472 Sum_probs=20.7
Q ss_pred CCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 36 VSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 36 psr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
|.-.++++.||+.|++ +++.|+|..
T Consensus 60 ~~~~~lr~aia~~~~~-~~~~I~it~ 84 (353)
T PRK05387 60 PNADALRQAIAAYYGL-DPEQVFVGN 84 (353)
T ss_pred CcHHHHHHHHHHHhCC-CHHHEEEcC
Confidence 3457999999999999 888887765
No 69
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=23.74 E-value=1.5e+02 Score=25.63 Aligned_cols=46 Identities=15% Similarity=0.262 Sum_probs=28.4
Q ss_pred CCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEE-eCCHHHHH
Q 032770 34 ANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLI-YDSVESAK 85 (134)
Q Consensus 34 ~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~I-Yds~e~~k 85 (134)
.+.+-.+|++.+.. ||. =..+.++... ..|.+.|||.| |.+.+.+.
T Consensus 305 ~~~~~~~l~~~f~~-~G~-i~~~~~~~~~----~~g~~~g~afv~f~~~~~a~ 351 (509)
T TIGR01642 305 LYLGEDQIKELLES-FGD-LKAFNLIKDI----ATGLSKGYAFCEYKDPSVTD 351 (509)
T ss_pred CCCCHHHHHHHHHh-cCC-eeEEEEEecC----CCCCcCeEEEEEECCHHHHH
Confidence 45677888877754 554 2344444433 34667788887 77766654
No 70
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=23.72 E-value=1.8e+02 Score=21.10 Aligned_cols=48 Identities=25% Similarity=0.336 Sum_probs=37.7
Q ss_pred eEEEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEE
Q 032770 22 KQFVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKS 71 (134)
Q Consensus 22 rEi~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s 71 (134)
|-+++||+-| ---|+-.|+...|++.-|+ +.=+|.|..+.-..=+-..
T Consensus 6 RRlVLDvlKP-~~~p~ive~A~~lskl~gV-egVNItv~eiD~et~~~~i 53 (97)
T COG1888 6 RRLVLDVLKP-HRGPTIVELALELSKLEGV-EGVNITVTEIDVETENLKI 53 (97)
T ss_pred eeeeeeecCC-cCCCcHHHHHHHHhhcCCc-ceEEEEEEEeeehhcceEE
Confidence 4488999987 3469999999999999999 8888888887655443333
No 71
>cd00508 MopB_CT_Fdh-Nap-like This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. Formate dehydrogenase N (alpha subunit) is the major electron donor to the bacterial nitrate respiratory chain and nitrate reductases, Nap and Nas, catalyze the reduction of nitrate to nitrite. This CD (MopB_CT_Fdh-Nap-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=23.72 E-value=1.7e+02 Score=19.81 Aligned_cols=36 Identities=17% Similarity=0.164 Sum_probs=27.1
Q ss_pred HHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEEeCCH
Q 032770 41 LKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLIYDSV 81 (134)
Q Consensus 41 I~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~IYds~ 81 (134)
|-..-|+.+|+.+-|.|.|++ +.|...+.|.|-+++
T Consensus 39 inp~dA~~lgi~~Gd~V~v~~-----~~G~~~~~v~~~~~i 74 (120)
T cd00508 39 IHPEDAARLGIKDGDLVRVSS-----RRGSVVVRARVTDRV 74 (120)
T ss_pred ECHHHHHHcCCCCCCEEEEEe-----CCEEEEEEEEECCCc
Confidence 444579999998999999885 445677777776654
No 72
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=23.48 E-value=90 Score=19.13 Aligned_cols=19 Identities=16% Similarity=0.265 Sum_probs=13.3
Q ss_pred HHHHHHHhHcCCCCCCeEEE
Q 032770 40 ELKEKLARMYDVRDANAIFV 59 (134)
Q Consensus 40 eI~~kLA~~~~~~~~~~IvV 59 (134)
+|-+.|+..+++ +++.|+|
T Consensus 23 ~it~~l~~~~~~-p~~~v~V 41 (61)
T PRK02220 23 DVTAAVSKNTGA-PAEHIHV 41 (61)
T ss_pred HHHHHHHHHhCc-ChhhEEE
Confidence 456677889999 6665554
No 73
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=23.32 E-value=1.1e+02 Score=18.76 Aligned_cols=19 Identities=21% Similarity=0.352 Sum_probs=13.0
Q ss_pred HHHHHHHhHcCCCCCCeEEE
Q 032770 40 ELKEKLARMYDVRDANAIFV 59 (134)
Q Consensus 40 eI~~kLA~~~~~~~~~~IvV 59 (134)
+|-+.|+..+|+ +++.++|
T Consensus 23 ~it~~l~~~lg~-~~~~v~V 41 (63)
T TIGR00013 23 GVTEAMAETLGA-NLESIVV 41 (63)
T ss_pred HHHHHHHHHhCC-CcccEEE
Confidence 466677888999 6665554
No 74
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=23.30 E-value=91 Score=19.51 Aligned_cols=20 Identities=25% Similarity=0.385 Sum_probs=14.2
Q ss_pred HHHHHHHhHcCCCCCCeEEEe
Q 032770 40 ELKEKLARMYDVRDANAIFVF 60 (134)
Q Consensus 40 eI~~kLA~~~~~~~~~~IvV~ 60 (134)
+|-+.|+..+++ +++.|+|.
T Consensus 23 ~it~~l~~~lg~-p~~~v~V~ 42 (64)
T PRK01964 23 EVTEAISATLDV-PKERVRVI 42 (64)
T ss_pred HHHHHHHHHhCc-ChhhEEEE
Confidence 456677888999 77766653
No 75
>PF07904 Eaf7: Chromatin modification-related protein EAF7; InterPro: IPR012423 The Saccharomyces cerevisiae (Baker's yeast) member of this family P53911 from SWISSPROT is part of NuA4, the only essential histone acetyltransferase complex in S. cerevisiae involved in global histone acetylation []. ; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus, 0043189 H4/H2A histone acetyltransferase complex
Probab=22.96 E-value=82 Score=22.05 Aligned_cols=19 Identities=21% Similarity=0.475 Sum_probs=17.4
Q ss_pred CCCCCHHHHHHHHHhHcCC
Q 032770 33 RANVSKAELKEKLARMYDV 51 (134)
Q Consensus 33 ~~Tpsr~eI~~kLA~~~~~ 51 (134)
...+|-.+|+++|..+|+.
T Consensus 41 ~~~~t~~~IW~kL~~~YdL 59 (91)
T PF07904_consen 41 NKHFTIDDIWKKLRTLYDL 59 (91)
T ss_pred CCcCCHHHHHHHHHHhcCH
Confidence 5788999999999999997
No 76
>PRK07392 threonine-phosphate decarboxylase; Validated
Probab=22.81 E-value=86 Score=25.78 Aligned_cols=25 Identities=20% Similarity=0.094 Sum_probs=20.8
Q ss_pred CCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 36 VSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 36 psr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
|.-.++++.||+.|++ +++.|+|..
T Consensus 57 ~~~~~Lr~aia~~~~v-~~~~I~it~ 81 (360)
T PRK07392 57 PDYRELRLALAQHHQL-PPEWILPGN 81 (360)
T ss_pred cCHHHHHHHHHHHhCc-ChhhEEECC
Confidence 4456899999999999 888888765
No 77
>cd08059 MPN_prok_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); prokaryotic. This family contains bacterial and archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These catalytically active domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=22.81 E-value=94 Score=21.09 Aligned_cols=31 Identities=26% Similarity=0.392 Sum_probs=20.2
Q ss_pred EEEEEEcC-CCCCCCHHHHHHHHHhHcCCCCCCeEEE
Q 032770 24 FVIDVLHP-GRANVSKAELKEKLARMYDVRDANAIFV 59 (134)
Q Consensus 24 i~~~v~H~-g~~Tpsr~eI~~kLA~~~~~~~~~~IvV 59 (134)
+.+.=.|| |.+.||.+|+. ++..++. +.++|
T Consensus 59 v~i~HsHP~g~~~PS~~D~~--~~~~~~~---~~iIv 90 (101)
T cd08059 59 VGLVHSHPSGSCRPSEADLS--LFTRFGL---YHVIV 90 (101)
T ss_pred EEEEecCcCCCCCCCHHHHH--HHHhcCC---eEEEE
Confidence 34445677 67899999985 3344454 56666
No 78
>PF14330 DUF4387: Domain of unknown function (DUF4387)
Probab=22.79 E-value=54 Score=23.79 Aligned_cols=34 Identities=24% Similarity=0.465 Sum_probs=22.7
Q ss_pred EEEEEEEcCCCCCC-----CHHHHHHHHHhHcCCCCCCeE
Q 032770 23 QFVIDVLHPGRANV-----SKAELKEKLARMYDVRDANAI 57 (134)
Q Consensus 23 Ei~~~v~H~g~~Tp-----sr~eI~~kLA~~~~~~~~~~I 57 (134)
++.|||.+.+..+= |..--.+.+|++|++ +++.|
T Consensus 17 ~lT~DI~F~~~e~Y~~vk~s~~l~~~~ia~Ly~i-~~~~I 55 (99)
T PF14330_consen 17 ELTFDIIFKDKEAYERVKASGVLTPELIARLYGI-DPEDI 55 (99)
T ss_pred EEEEEEEECCHHHHHHHHHcCccCHHHHHHHHCC-CHHHE
Confidence 68899999753221 111124678999999 88877
No 79
>TIGR02189 GlrX-like_plant Glutaredoxin-like family. This family of glutaredoxin-like proteins is aparrently limited to plants. Multiple isoforms are found in A. thaliana and O.sativa.
Probab=22.59 E-value=1.2e+02 Score=20.91 Aligned_cols=48 Identities=21% Similarity=0.182 Sum_probs=31.3
Q ss_pred CccceEEEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCC
Q 032770 18 LLSRKQFVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGG 68 (134)
Q Consensus 18 LL~RrEi~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~ 68 (134)
+|+...+.+.+.... ..|.-.++++.|....|...--+|||.| .+.||
T Consensus 27 ~L~~~~i~~~~vdid-~~~~~~~~~~~l~~~tg~~tvP~Vfi~g--~~iGG 74 (99)
T TIGR02189 27 LLLTLGVNPAVHEID-KEPAGKDIENALSRLGCSPAVPAVFVGG--KLVGG 74 (99)
T ss_pred HHHHcCCCCEEEEcC-CCccHHHHHHHHHHhcCCCCcCeEEECC--EEEcC
Confidence 455555545544442 3577788899998877665667889887 45555
No 80
>TIGR02471 sucr_syn_bact_C sucrose phosphate synthase, sucrose phosphatase-like domain, bacterial. Sucrose phosphate synthase (SPS) and sucrose phosphate phosphatase (SPP) are the last two enzymes of sucrose biosynthesis. In cyanobacteria and plants, the C-terminal region of most or all versions of SPS has a domain homologous to the known SPP. This domain may serve a binding or regulatory rather than catalytic function. Sequences in this family are bacterial C-terminal regions found in all but two of the putative bacterial sucrose phosphate synthases described by TIGR02472.
Probab=22.48 E-value=1.2e+02 Score=23.44 Aligned_cols=32 Identities=25% Similarity=0.222 Sum_probs=23.0
Q ss_pred EEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 26 IDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 26 ~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
+++.++| .++.+....|++.++. +++.++.+|
T Consensus 151 ~ei~~~~---~~K~~al~~l~~~~g~-~~~~~i~~G 182 (236)
T TIGR02471 151 LDVLPLR---ASKGLALRYLSYRWGL-PLEQILVAG 182 (236)
T ss_pred EEEeeCC---CChHHHHHHHHHHhCC-CHHHEEEEc
Confidence 4555543 6888999999999999 665555543
No 81
>PRK10530 pyridoxal phosphate (PLP) phosphatase; Provisional
Probab=22.44 E-value=1.1e+02 Score=23.71 Aligned_cols=32 Identities=16% Similarity=0.238 Sum_probs=23.1
Q ss_pred EEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 26 IDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 26 ~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
+++..+| .++......|++.++. +++.++++|
T Consensus 191 ~ei~~~~---~~K~~~l~~l~~~~gi-~~~e~i~~G 222 (272)
T PRK10530 191 VDIARKG---NSKGKRLTQWVEAQGW-SMKNVVAFG 222 (272)
T ss_pred EEEecCC---CChHHHHHHHHHHcCC-CHHHeEEeC
Confidence 5666654 4688889999999999 665555443
No 82
>cd02794 MopB_CT_DmsA-EC The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-terminal iron-sulfur [4Fe-4S] cluster binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=22.14 E-value=2.4e+02 Score=19.55 Aligned_cols=39 Identities=15% Similarity=0.199 Sum_probs=29.7
Q ss_pred HHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEEeCCHH
Q 032770 39 AELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLIYDSVE 82 (134)
Q Consensus 39 ~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~IYds~e 82 (134)
-+|-...|+.+|+.+-|.|.|.+ +.|...+.|.|.++..
T Consensus 32 v~i~p~~A~~~gi~~Gd~V~v~s-----~~g~i~~~a~~~~~v~ 70 (121)
T cd02794 32 VWINPLDAAARGIKDGDRVLVFN-----DRGKVIRPVKVTERIM 70 (121)
T ss_pred EEECHHHHHHcCCCCCCEEEEEc-----CCceEEEEEEECCCcc
Confidence 35666789999998999998764 3357788888888754
No 83
>PRK14807 histidinol-phosphate aminotransferase; Provisional
Probab=21.97 E-value=1.1e+02 Score=25.06 Aligned_cols=26 Identities=35% Similarity=0.464 Sum_probs=20.9
Q ss_pred CCCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 35 NVSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 35 Tpsr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
.|.-.++++.||+.+++ +++.|+|..
T Consensus 58 ~~~~~~lr~~ia~~~~~-~~~~i~it~ 83 (351)
T PRK14807 58 DPTAEKLREELARYCSV-VPTNIFVGN 83 (351)
T ss_pred CccHHHHHHHHHHHhCC-CcccEEEec
Confidence 35568999999999999 887777654
No 84
>COG4099 Predicted peptidase [General function prediction only]
Probab=21.64 E-value=73 Score=28.09 Aligned_cols=25 Identities=28% Similarity=0.489 Sum_probs=21.6
Q ss_pred HHHHHHHHhHcCCCCCCeEEEeceee
Q 032770 39 AELKEKLARMYDVRDANAIFVFKFRT 64 (134)
Q Consensus 39 ~eI~~kLA~~~~~~~~~~IvV~~~~T 64 (134)
+-|.+.||..||+ |.+.|+|-|+.-
T Consensus 254 dli~~vlas~ynI-D~sRIYviGlSr 278 (387)
T COG4099 254 DLILEVLASTYNI-DRSRIYVIGLSR 278 (387)
T ss_pred HHHHHHHhhccCc-ccceEEEEeecC
Confidence 3466799999999 999999999864
No 85
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=21.36 E-value=1.1e+02 Score=19.07 Aligned_cols=25 Identities=20% Similarity=0.250 Sum_probs=18.9
Q ss_pred CCCCHHHHHHHHHhHcCCCCCCeEEE
Q 032770 34 ANVSKAELKEKLARMYDVRDANAIFV 59 (134)
Q Consensus 34 ~Tpsr~eI~~kLA~~~~~~~~~~IvV 59 (134)
++-+-.++++.|+...++ +++..-+
T Consensus 18 ~~~tv~~lK~~i~~~~gi-~~~~q~L 42 (71)
T cd01812 18 SQATFGDLKKMLAPVTGV-EPRDQKL 42 (71)
T ss_pred CCCcHHHHHHHHHHhhCC-ChHHeEE
Confidence 345688999999999999 6654333
No 86
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=21.25 E-value=2.2e+02 Score=24.86 Aligned_cols=52 Identities=27% Similarity=0.393 Sum_probs=36.7
Q ss_pred EEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEeceeecCCCCEEEEEEEE-eCCHHHHH
Q 032770 24 FVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFKFRTHFGGGKSTGFGLI-YDSVESAK 85 (134)
Q Consensus 24 i~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~~~T~fG~~~s~g~a~I-Yds~e~~k 85 (134)
|+..|.|. -|-.+|+..+ ..||- =..+.+|.+..| |++.|||.| |...-.|+
T Consensus 105 Fv~RLnyd----T~EskLrreF-~~YG~-IkrirlV~d~vT----gkskGYAFIeye~erdm~ 157 (335)
T KOG0113|consen 105 FVARLNYD----TSESKLRREF-EKYGP-IKRIRLVRDKVT----GKSKGYAFIEYEHERDMK 157 (335)
T ss_pred eeeecccc----ccHHHHHHHH-HhcCc-ceeEEEeeeccc----CCccceEEEEeccHHHHH
Confidence 45555665 3466788888 55665 588999999988 678899987 66655554
No 87
>PRK14809 histidinol-phosphate aminotransferase; Provisional
Probab=21.06 E-value=1.2e+02 Score=24.90 Aligned_cols=25 Identities=28% Similarity=0.492 Sum_probs=20.4
Q ss_pred CCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 36 VSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 36 psr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
+.-.++++.||+.+++ +++.|+|..
T Consensus 65 ~~~~~lr~~ia~~~~~-~~~~I~it~ 89 (357)
T PRK14809 65 ASHADLTAALADRWDV-SPEQVWLAN 89 (357)
T ss_pred CCHHHHHHHHHHHhCC-CcceEEECC
Confidence 4567999999999999 888877643
No 88
>PLN02862 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase
Probab=20.88 E-value=1.5e+02 Score=24.29 Aligned_cols=36 Identities=11% Similarity=0.280 Sum_probs=28.1
Q ss_pred EEEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 24 FVIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 24 i~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
+.+....| +-.|=+.++++.||+.+++ +++.|-|.-
T Consensus 155 ~tII~q~P-Ki~p~~~~m~~~La~lL~i-~~~~VnIKA 190 (216)
T PLN02862 155 ATLILQRP-KLSPHKEAIRSNLSKLLGA-DPSVVNLKA 190 (216)
T ss_pred EEEEcCCC-cchHHHHHHHHHHHHHhCC-CcceEEEEE
Confidence 33444455 5689999999999999999 888887754
No 89
>PF01394 Clathrin_propel: Clathrin propeller repeat; InterPro: IPR022365 This entry represents the propeller repeat found in clathrin heavy chains. The N terminus of the heavy chain is known as the globular domain, and is composed of seven repeats which form a beta propeller []. Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. More information about these proteins can be found at Protein of the Month: Clathrin [].; PDB: 1UTC_B 3GD1_I 3GC3_B 1BPO_C 1C9I_B 1C9L_A 2XZG_A 2XZH_A.
Probab=20.78 E-value=1e+02 Score=17.92 Aligned_cols=22 Identities=18% Similarity=0.329 Sum_probs=17.4
Q ss_pred CCCeEEEeceeecCCCCEEEEEEEEeC
Q 032770 53 DANAIFVFKFRTHFGGGKSTGFGLIYD 79 (134)
Q Consensus 53 ~~~~IvV~~~~T~fG~~~s~g~a~IYd 79 (134)
++...++.++. +...|+.++||
T Consensus 14 ~es~~~iigi~-----~~~~G~v~l~s 35 (37)
T PF01394_consen 14 MESWKFIIGIS-----GRVKGQVQLYS 35 (37)
T ss_dssp CCEEEEEEEEE-----TCTEEEEEEEE
T ss_pred CcCeEEEEEEE-----eeeeeEEEEEE
Confidence 56677888887 67789999986
No 90
>PHA01632 hypothetical protein
Probab=20.75 E-value=44 Score=22.29 Aligned_cols=36 Identities=19% Similarity=0.233 Sum_probs=24.3
Q ss_pred eeccCccceEEEEEEEcCCCCCCCHHHHHHHHHhHcCC
Q 032770 14 MTNRLLSRKQFVIDVLHPGRANVSKAELKEKLARMYDV 51 (134)
Q Consensus 14 ~~N~LL~RrEi~~~v~H~g~~Tpsr~eI~~kLA~~~~~ 51 (134)
..|.+|.=+ +.+-|.|. ---|+.+|++..|.+++..
T Consensus 8 eknk~lhik-iyilieqv-p~kpteeelrkvlpkilkd 43 (64)
T PHA01632 8 EKNKTLHIK-IYILIEQV-PQKPTEEELRKVLPKILKD 43 (64)
T ss_pred CCCcEEEEE-EEEehhhc-CCCCCHHHHHHHHHHHHHH
Confidence 356666543 44444443 3579999999999998864
No 91
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=20.73 E-value=1.3e+02 Score=18.03 Aligned_cols=19 Identities=16% Similarity=0.328 Sum_probs=12.2
Q ss_pred HHHHHHHhHcCCCCCCeEEE
Q 032770 40 ELKEKLARMYDVRDANAIFV 59 (134)
Q Consensus 40 eI~~kLA~~~~~~~~~~IvV 59 (134)
+|-+.|+..+++ +++.++|
T Consensus 22 ~i~~~l~~~~g~-~~~~v~V 40 (58)
T cd00491 22 RVTEAVSEILGA-PEATIVV 40 (58)
T ss_pred HHHHHHHHHhCc-CcccEEE
Confidence 455667778888 5555544
No 92
>PF08282 Hydrolase_3: haloacid dehalogenase-like hydrolase; InterPro: IPR013200 The Haloacid Dehydrogenase (HAD) superfamily includes phosphatases, phosphonatases, P-type ATPases, beta-phosphoglucomutases, phosphomannomutases, and dehalogenases, which are involved in a variety of cellular processes ranging from amino acid biosynthesis to detoxification []. This HAD domain is found in several distinct enzymes including: Phospholipid-transporting ATPase 1 (3.6.3.1 from EC), a putative lipid-flipping enzyme involved in cold tolerance in Arabidopsis [] 3-deoxy-D-manno-octulosonate (KDO) 8-phosphate phosphatase (3.1.3.45 from EC), which catalyses the final step in the biosynthesis of KDO - a component of lipopolysaccharide in Gram-negative bacteria [] Mannosyl-3-phosphoglycerate phosphatase (3.1.3.70 from EC), which hydrolyzes mannosyl-3-phosphoglycerate to form the osmolyte mannosylglycerate [] Phosphoglycolate phopshatase (3.1.3.18 from EC), which catalyses the dephosphorylation of 2-phosphoglycolate [] ; PDB: 2B30_B 3R4C_A 1XVI_B 3IJ5_B 3MMZ_C 3L7Y_A 1XPJ_C 1RLT_B 1RLM_B 2HF2_A ....
Probab=20.37 E-value=1.8e+02 Score=21.44 Aligned_cols=32 Identities=22% Similarity=0.390 Sum_probs=24.0
Q ss_pred EEEEEcCCCCCCCHHHHHHHHHhHcCCCCCCeEEEe
Q 032770 25 VIDVLHPGRANVSKAELKEKLARMYDVRDANAIFVF 60 (134)
Q Consensus 25 ~~~v~H~g~~Tpsr~eI~~kLA~~~~~~~~~~IvV~ 60 (134)
.++|...| .|+..-...|+..|+. +++.++++
T Consensus 177 ~lei~~~~---vsK~~ai~~l~~~~~i-~~~~~~~~ 208 (254)
T PF08282_consen 177 FLEITPKG---VSKGSAIKYLLEYLGI-SPEDIIAF 208 (254)
T ss_dssp EEEEEETT---SSHHHHHHHHHHHHTT-SGGGEEEE
T ss_pred ceEEeeCC---CCHHHHHHHHhhhccc-ccceeEEe
Confidence 34566654 8899999999999999 65555554
No 93
>PRK04635 histidinol-phosphate aminotransferase; Provisional
Probab=20.09 E-value=93 Score=25.57 Aligned_cols=25 Identities=16% Similarity=0.190 Sum_probs=20.9
Q ss_pred CCHHHHHHHHHhHcCCCCCCeEEEec
Q 032770 36 VSKAELKEKLARMYDVRDANAIFVFK 61 (134)
Q Consensus 36 psr~eI~~kLA~~~~~~~~~~IvV~~ 61 (134)
|.-.++++.||+.+++ +++.|++..
T Consensus 60 ~~~~~Lr~aia~~~~~-~~~~I~it~ 84 (354)
T PRK04635 60 CQPPELINAYSAYAGV-APEQILTSR 84 (354)
T ss_pred CCHHHHHHHHHHHhCc-CHHHEEEeC
Confidence 3457999999999999 898888754
Done!