Query psy9430
Match_columns 255
No_of_seqs 305 out of 2109
Neff 5.3
Searched_HMMs 46136
Date Fri Aug 16 19:10:31 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9430.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9430hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00068 60S ribosomal protein 100.0 1.3E-63 2.8E-68 436.8 15.1 169 84-252 3-171 (202)
2 TIGR01077 L13_A_E ribosomal pr 100.0 8.7E-53 1.9E-57 351.8 9.2 142 87-229 1-142 (142)
3 PRK06394 rpl13p 50S ribosomal 100.0 4.2E-48 9.2E-53 324.8 10.1 140 85-226 3-143 (146)
4 KOG3204|consensus 100.0 1.2E-44 2.6E-49 313.4 10.1 162 83-251 4-165 (197)
5 CHL00159 rpl13 ribosomal prote 100.0 4.4E-43 9.5E-48 293.4 8.7 122 73-200 3-141 (143)
6 PRK09216 rplM 50S ribosomal pr 100.0 5.9E-43 1.3E-47 293.1 8.5 123 73-201 2-141 (144)
7 COG0102 RplM Ribosomal protein 100.0 3.6E-42 7.8E-47 287.9 9.7 129 72-206 1-143 (148)
8 TIGR01066 rplM_bact ribosomal 100.0 3.8E-42 8.3E-47 287.1 8.5 115 79-199 6-137 (140)
9 PF00572 Ribosomal_L13: Riboso 100.0 1.3E-40 2.8E-45 274.3 5.6 115 86-201 1-127 (128)
10 PLN00205 ribisomal protein L13 100.0 2.7E-39 5.8E-44 280.9 8.6 117 80-202 11-144 (191)
11 cd00392 Ribosomal_L13 Ribosoma 100.0 6.6E-37 1.4E-41 247.8 7.9 102 86-188 1-114 (114)
12 KOG3203|consensus 100.0 8.4E-35 1.8E-39 243.9 5.6 119 81-205 18-159 (165)
13 PTZ00068 60S ribosomal protein 99.9 4.9E-28 1.1E-32 212.5 2.9 82 6-87 3-84 (202)
14 COG0102 RplM Ribosomal protein 99.9 1E-24 2.2E-29 182.9 2.5 83 4-86 11-106 (148)
15 cd00392 Ribosomal_L13 Ribosoma 99.9 3.6E-23 7.9E-28 167.6 2.3 79 8-86 1-91 (114)
16 TIGR01077 L13_A_E ribosomal pr 99.9 1.4E-23 3.1E-28 175.8 -0.7 79 9-87 1-79 (142)
17 TIGR01066 rplM_bact ribosomal 99.9 1.1E-22 2.4E-27 170.0 1.5 83 4-86 9-103 (140)
18 PRK09216 rplM 50S ribosomal pr 99.8 1.4E-22 3E-27 170.2 0.8 78 4-86 11-105 (144)
19 PRK06394 rpl13p 50S ribosomal 99.8 3.5E-22 7.5E-27 168.2 2.0 81 6-86 2-83 (146)
20 PF00572 Ribosomal_L13: Riboso 99.8 7.3E-22 1.6E-26 162.9 0.1 77 8-85 1-90 (128)
21 CHL00159 rpl13 ribosomal prote 99.8 2E-20 4.3E-25 156.9 4.8 75 4-86 12-106 (143)
22 PLN00205 ribisomal protein L13 99.8 1.2E-20 2.7E-25 164.3 1.7 81 5-86 14-107 (191)
23 KOG3204|consensus 99.7 4.6E-17 1E-21 141.8 5.2 96 3-105 2-97 (197)
24 KOG3203|consensus 99.6 2E-16 4.3E-21 133.3 4.0 53 4-56 19-83 (165)
25 KOG3212|consensus 58.4 28 0.00061 31.2 5.8 68 23-91 72-149 (208)
26 PHA02754 hypothetical protein; 53.8 18 0.0004 26.6 3.2 16 31-46 43-58 (67)
27 TIGR00090 iojap_ybeB iojap-lik 53.7 69 0.0015 25.1 6.9 66 22-91 2-77 (99)
28 PF04760 IF2_N: Translation in 48.8 19 0.0004 24.8 2.6 23 214-236 2-24 (54)
29 PF00436 SSB: Single-strand bi 43.0 23 0.0005 26.7 2.6 30 84-117 47-76 (104)
30 PHA02754 hypothetical protein; 40.0 43 0.00094 24.6 3.4 15 109-123 43-57 (67)
31 PF12953 DUF3842: Domain of un 39.9 31 0.00066 29.1 3.0 35 93-127 78-115 (131)
32 PRK11538 ribosome-associated p 38.5 1.7E+02 0.0038 23.3 7.1 67 21-91 6-82 (105)
33 PF02410 Oligomerisation: Olig 37.2 1.1E+02 0.0025 23.7 5.7 67 22-91 2-78 (100)
34 cd02038 FleN-like FleN is a me 36.6 1.3E+02 0.0028 24.1 6.3 64 21-123 16-81 (139)
35 PF00436 SSB: Single-strand bi 35.9 35 0.00076 25.6 2.6 23 17-39 54-76 (104)
36 cd04496 SSB_OBF SSB_OBF: A sub 35.7 36 0.00078 25.2 2.6 30 84-117 43-72 (100)
37 PRK05853 hypothetical protein; 35.6 34 0.00073 29.5 2.7 23 95-117 49-71 (161)
38 KOG1481|consensus 35.0 47 0.001 32.0 3.7 51 9-63 318-375 (391)
39 COG0629 Ssb Single-stranded DN 34.7 38 0.00083 28.7 2.9 23 95-117 57-79 (167)
40 PF12953 DUF3842: Domain of un 34.5 45 0.00097 28.1 3.1 14 109-122 53-66 (131)
41 cd02042 ParA ParA and ParB of 32.4 2E+02 0.0043 21.4 6.3 62 21-126 16-79 (104)
42 PRK06752 single-stranded DNA-b 32.1 42 0.00092 26.5 2.6 30 84-117 46-75 (112)
43 PRK08182 single-stranded DNA-b 31.4 43 0.00093 28.2 2.6 23 95-117 60-82 (148)
44 PRK07274 single-stranded DNA-b 31.2 40 0.00087 27.6 2.4 30 84-117 46-75 (131)
45 PRK07772 single-stranded DNA-b 31.2 41 0.0009 29.6 2.6 23 95-117 59-81 (186)
46 cd04496 SSB_OBF SSB_OBF: A sub 31.0 52 0.0011 24.4 2.8 24 17-40 50-73 (100)
47 cd02036 MinD Bacterial cell di 30.3 2.1E+02 0.0044 23.1 6.5 23 20-42 15-38 (179)
48 PF09756 DDRGK: DDRGK domain; 30.3 51 0.0011 29.2 3.0 29 212-240 110-138 (188)
49 cd02034 CooC The accessory pro 28.8 2.1E+02 0.0046 22.7 6.1 22 21-42 15-37 (116)
50 KOG1154|consensus 28.5 59 0.0013 30.4 3.1 34 13-46 26-62 (285)
51 PRK08486 single-stranded DNA-b 28.4 47 0.001 29.1 2.4 28 85-116 49-76 (182)
52 PRK07275 single-stranded DNA-b 28.3 47 0.001 28.5 2.4 30 84-117 46-75 (162)
53 PRK07459 single-stranded DNA-b 27.7 51 0.0011 26.8 2.4 30 84-117 43-72 (121)
54 PRK13732 single-stranded DNA-b 27.6 53 0.0011 28.7 2.6 30 84-117 53-82 (175)
55 TIGR00621 ssb single stranded 27.1 49 0.0011 28.1 2.3 29 85-117 51-79 (164)
56 PRK08763 single-stranded DNA-b 26.6 52 0.0011 28.4 2.4 29 85-117 52-80 (164)
57 PF12324 HTH_15: Helix-turn-he 26.5 63 0.0014 24.8 2.5 28 212-239 35-62 (77)
58 COG0629 Ssb Single-stranded DN 26.2 61 0.0013 27.5 2.7 23 17-39 57-79 (167)
59 PRK06863 single-stranded DNA-b 25.9 76 0.0016 27.5 3.2 30 84-117 51-80 (168)
60 PF09012 FeoC: FeoC like trans 25.8 76 0.0016 22.8 2.8 26 213-238 12-37 (69)
61 PRK07274 single-stranded DNA-b 25.7 61 0.0013 26.5 2.5 28 7-38 47-74 (131)
62 PF04967 HTH_10: HTH DNA bindi 25.5 59 0.0013 23.0 2.1 24 214-237 22-45 (53)
63 PRK05853 hypothetical protein; 25.2 66 0.0014 27.7 2.7 23 17-39 49-71 (161)
64 PRK09010 single-stranded DNA-b 25.2 57 0.0012 28.5 2.3 30 84-117 53-82 (177)
65 PRK06751 single-stranded DNA-b 25.1 55 0.0012 28.5 2.3 30 84-117 46-75 (173)
66 PRK07772 single-stranded DNA-b 24.9 64 0.0014 28.5 2.6 22 17-38 59-80 (186)
67 PRK06752 single-stranded DNA-b 24.7 65 0.0014 25.5 2.4 23 16-38 52-74 (112)
68 PF11994 DUF3489: Protein of u 24.6 82 0.0018 23.9 2.8 26 214-239 23-48 (72)
69 PF03447 NAD_binding_3: Homose 24.5 97 0.0021 24.0 3.4 34 84-119 59-92 (117)
70 PRK09010 single-stranded DNA-b 24.2 74 0.0016 27.8 2.9 28 7-38 54-81 (177)
71 PF04989 CmcI: Cephalosporin h 23.7 77 0.0017 28.5 2.9 33 6-39 111-147 (206)
72 PRK08182 single-stranded DNA-b 23.4 75 0.0016 26.8 2.7 23 16-38 59-81 (148)
73 TIGR00621 ssb single stranded 23.1 68 0.0015 27.3 2.4 23 17-39 57-79 (164)
74 PRK08486 single-stranded DNA-b 22.7 71 0.0015 28.0 2.5 22 17-38 55-76 (182)
75 KOG1154|consensus 22.7 86 0.0019 29.4 3.1 33 91-123 26-61 (285)
76 PRK13732 single-stranded DNA-b 22.6 70 0.0015 27.9 2.4 22 17-38 60-81 (175)
77 PRK06863 single-stranded DNA-b 22.1 86 0.0019 27.2 2.9 28 7-38 52-79 (168)
78 smart00846 Gp_dh_N Glyceraldeh 21.2 4.1E+02 0.0088 22.2 6.7 31 87-119 90-120 (149)
79 PF01726 LexA_DNA_bind: LexA D 21.1 1E+02 0.0022 22.3 2.7 21 217-237 27-48 (65)
80 PRK05733 single-stranded DNA-b 21.0 84 0.0018 27.3 2.6 30 84-117 52-81 (172)
81 PF04379 DUF525: Protein of un 20.8 45 0.00098 25.9 0.8 14 4-17 31-44 (90)
82 PRK05097 Ter macrodomain organ 20.8 1.1E+02 0.0025 26.1 3.2 81 153-243 48-131 (150)
83 PRK06751 single-stranded DNA-b 20.3 75 0.0016 27.6 2.1 22 17-38 53-74 (173)
84 PF14419 SPOUT_MTase_2: AF2226 20.1 1.6E+02 0.0036 25.8 4.1 35 8-42 96-130 (173)
85 KOG1384|consensus 20.0 1.1E+02 0.0024 29.6 3.4 33 9-45 11-43 (348)
No 1
>PTZ00068 60S ribosomal protein L13a; Provisional
Probab=100.00 E-value=1.3e-63 Score=436.83 Aligned_cols=169 Identities=58% Similarity=0.989 Sum_probs=164.9
Q ss_pred ceeEEEcCCCCcchhhHHHHHHHHhCCCEEEEEeecceeecCccccchhhhhhhcceeecCCCCCccccccCchHhHHHH
Q psy9430 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPARGPFHYRAPARIFWKT 163 (255)
Q Consensus 84 r~w~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVNaeki~itG~k~~~k~~Y~~~lk~~~~~np~~g~~~~r~P~~Il~ra 163 (255)
.+|+||||+||+||||||.||+.|+|||+|||||||+|.|||++++++.+|.++++.++++||..|++|+|+|++||++|
T Consensus 3 ~~w~vIDA~g~vLGRLAS~VAk~Ll~Gd~VVVVNaeki~iTG~k~~~K~~y~~~lk~~~~~nP~~g~~~~r~P~~Il~ra 82 (202)
T PTZ00068 3 KKVIVIDCKGHLLGRLASVVAKELLLGQKIVVVRCEDLNISGSLFRNKVKYEEFLRKRMNTNPRRGPFHHRAPSDIFWRT 82 (202)
T ss_pred CceEEEECCCCcHHHHHHHHHHHHhCCCEEEEEecceeEeecchhhheeeeEeeeEeeccCCCCcchhcccCHHHHHHHH
Confidence 37999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhccCCCCChhHHHhhccCeeecCCCCchhhcccccccccccccccCCCCCeeehhhhhhhhCCchHHHHHHHHHHHHHH
Q psy9430 164 VRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVPTALRTVCLKPGRSYCSVGRISHEVGWKYKTIVRHLERKRREK 243 (255)
Q Consensus 164 VrGMLPkkn~~gr~~l~rLkvy~G~~hp~~~qk~~~~p~al~~~~l~~~~k~~~lgel~~~~Gwk~~~~~~~le~~r~~~ 243 (255)
|+||||+||++|+++|+||+||+|+||||++++++++|+|+++.+|+|.++||||||||++|||+|+++|++||++|+++
T Consensus 83 VrGMLPkk~~~Gr~alkrLkVy~G~php~~~~k~~vvp~A~r~~rl~~~~ky~~lg~ls~~vGwky~~vv~~le~krk~k 162 (202)
T PTZ00068 83 VRGMLPHKTKRGAAALKRLKVFEGVPAPYDKVKRVVIPSALRVLRLKPERPYTVLGDLSAHVGWKYADVVAKLEEKRKER 162 (202)
T ss_pred HhhhCCCCChhHHHHHhCCEEecCCCCchhccCcccccchhhhhccCCCCceeeHHHHHHHhCccHHHHHHHHHHHHHHH
Confidence 99999998999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhh
Q psy9430 244 SIEKIKLHT 252 (255)
Q Consensus 244 ~~~~~~~~~ 252 (255)
++.||+++.
T Consensus 163 ~~~~~~~k~ 171 (202)
T PTZ00068 163 AAAYYKKKV 171 (202)
T ss_pred HHHHHHHHH
Confidence 999998764
No 2
>TIGR01077 L13_A_E ribosomal protein L13, archaeal/eukaryotic. This model represents ribosomal protein of L13 from the Archaea and from the eukaryotic cytosol. Bacterial and organellar forms are represented by TIGR01066.
Probab=100.00 E-value=8.7e-53 Score=351.83 Aligned_cols=142 Identities=59% Similarity=1.025 Sum_probs=134.7
Q ss_pred EEEcCCCCcchhhHHHHHHHHhCCCEEEEEeecceeecCccccchhhhhhhcceeecCCCCCccccccCchHhHHHHHhc
Q psy9430 87 ILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPARGPFHYRAPARIFWKTVRG 166 (255)
Q Consensus 87 ~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVNaeki~itG~k~~~k~~Y~~~lk~~~~~np~~g~~~~r~P~~Il~raVrG 166 (255)
+||||+||+||||||.||+.|+|||+|||||||+|.+||+|++++.+|.+.....+..+|+.+++++++|++||++||+|
T Consensus 1 ivIDA~~~vlGRLAs~IA~~L~~Gd~VvViNaeki~~TG~k~~~k~~y~~~~~~g~~~~~~~~~~~~r~P~~il~~aVrG 80 (142)
T TIGR01077 1 TVIDGSGHILGRLASVVAKQLLNGEKVVVVNAEKIVISGNFYRNKLKYKEFLRKRTLTNPRRGPFFPRAPSRIFRRTVRG 80 (142)
T ss_pred CEEeCCCCchHHHHHHHHHHHhcCCEEEEEechHheecCchhhheeEEEEECCCCCcccCCHHHhhhcCHHHHHHHHHHH
Confidence 58999999999999999999999999999999999999999999997766666667778888999999999999999999
Q ss_pred cCCCCChhHHHhhccCeeecCCCCchhhcccccccccccccccCCCCCeeehhhhhhhhCCch
Q psy9430 167 MTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVPTALRTVCLKPGRSYCSVGRISHEVGWKY 229 (255)
Q Consensus 167 MLPkkn~~gr~~l~rLkvy~G~~hp~~~qk~~~~p~al~~~~l~~~~k~~~lgel~~~~Gwk~ 229 (255)
|||+++.+|+++|+||+||+|+||||++|+++++|+|+ +.+++|.+|||+|||||+.|||||
T Consensus 81 MLPk~~~~Gr~~~krLkvy~G~~h~~~~qk~~~~~~a~-~~~~~~~~~~~~lg~l~~~~G~k~ 142 (142)
T TIGR01077 81 MLPHKTARGRAALRRLKVYVGIPPELDKKKRVVVPEAL-VSRLSPTRKYVTLGELAKFLGWKF 142 (142)
T ss_pred hCCCCChhHHHHHhCcEEecCCCCCccccCccccChhh-hhccCCCCceEEHHHHHHHhCCcC
Confidence 99996699999999999999999999999999999998 889999999999999999999996
No 3
>PRK06394 rpl13p 50S ribosomal protein L13P; Reviewed
Probab=100.00 E-value=4.2e-48 Score=324.85 Aligned_cols=140 Identities=42% Similarity=0.610 Sum_probs=131.4
Q ss_pred eeEEEcCCCCcchhhHHHHHHHHhCCCEEEEEeecceeecCccccchhhhhhhcceeecCCC-CCccccccCchHhHHHH
Q psy9430 85 TPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNP-ARGPFHYRAPARIFWKT 163 (255)
Q Consensus 85 ~w~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVNaeki~itG~k~~~k~~Y~~~lk~~~~~np-~~g~~~~r~P~~Il~ra 163 (255)
+.+||||+||+||||||.||++|++||+||||||++|.+||+|+.++.+|.++.+.++.+|| +.+++++++|++||++|
T Consensus 3 ~~~viDA~~~vlGRLAs~IA~~L~~Gd~VVViNa~kv~~tG~K~~~~~~y~~~~~~k~~~np~~~~~~~~r~P~~il~~A 82 (146)
T PRK06394 3 AMVVIDAEGQILGRLASYVAKRLLEGEEVVIVNAEKAVITGNRERVIEKYKQRRERGSHYNPYRNGPKYPRRPDRIFKRT 82 (146)
T ss_pred ccEEEECCCCchHHHHHHHHHHHhCCCEEEEEechheEecCchhhheeeEeCCCCCcccCCCCChHHhhhcCHHHHHHHH
Confidence 46899999999999999999999999999999999999999999888877777777778898 68999999999999999
Q ss_pred HhccCCCCChhHHHhhccCeeecCCCCchhhcccccccccccccccCCCCCeeehhhhhhhhC
Q psy9430 164 VRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVPTALRTVCLKPGRSYCSVGRISHEVG 226 (255)
Q Consensus 164 VrGMLPkkn~~gr~~l~rLkvy~G~~hp~~~qk~~~~p~al~~~~l~~~~k~~~lgel~~~~G 226 (255)
|+||||+||++|+++|+||+||+|+||||++|+|+++|.|+. .+++ .++||||||||+++|
T Consensus 83 V~gMLP~kn~~gr~~~~rLkvy~G~~h~~~~qkp~~~~~a~~-~~~~-~~k~~~lgel~~~~G 143 (146)
T PRK06394 83 IRGMLPYKKPRGREALKRLKVYVGVPKELEGKEFEVIDEADL-SRLS-TIKYVTLGEVSKELG 143 (146)
T ss_pred HHhcCCCCChhHHHHHhCcEEecCCCCCcccCCCEEecHHHH-hccC-CCCcEEHHHHHHHhC
Confidence 999999769999999999999999999999999999999985 5777 689999999999999
No 4
>KOG3204|consensus
Probab=100.00 E-value=1.2e-44 Score=313.39 Aligned_cols=162 Identities=59% Similarity=1.005 Sum_probs=156.0
Q ss_pred cceeEEEcCCCCcchhhHHHHHHHHhCCCEEEEEeecceeecCccccchhhhhhhcceeecCCCCCccccccCchHhHHH
Q psy9430 83 WKTPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPARGPFHYRAPARIFWK 162 (255)
Q Consensus 83 ~r~w~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVNaeki~itG~k~~~k~~Y~~~lk~~~~~np~~g~~~~r~P~~Il~r 162 (255)
..+-.+||+.||++|||||.||+.|+.|+.|||+.||.|.|||+.++++ ++|+++++.| ||||++.|++||++
T Consensus 4 ~~~~~vidg~~hllGrlAa~vaK~ll~g~kvvvvr~E~i~isg~f~r~k----~~lrk~~~~n---g~~hfr~ps~i~~~ 76 (197)
T KOG3204|consen 4 EVKLVVIDGRGHLLGRLAAIVAKQLLLGRKVVVVRCEEINISGNFYRNK----LFLRKRLNRN---GPFHFRAPSRILQK 76 (197)
T ss_pred eEEEeeccchhhhhhhHHHHHHHHHhcCCeEEEEEEeEEEEecceecch----HHHhhhhccc---CcchhhhHHHHHHH
Confidence 3466899999999999999999999999999999999999999999999 5688888877 99999999999999
Q ss_pred HHhccCCCCChhHHHhhccCeeecCCCCchhhcccccccccccccccCCCCCeeehhhhhhhhCCchHHHHHHHHHHHHH
Q psy9430 163 TVRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVPTALRTVCLKPGRSYCSVGRISHEVGWKYKTIVRHLERKRRE 242 (255)
Q Consensus 163 aVrGMLPkkn~~gr~~l~rLkvy~G~~hp~~~qk~~~~p~al~~~~l~~~~k~~~lgel~~~~Gwk~~~~~~~le~~r~~ 242 (255)
+|+||+|+++++|+.++++|++|+|.|+|++.|+++++|.|+++.+|+|.+|||+||.||+++||||++++++||+||||
T Consensus 77 ~vrgm~~~kt~rg~aal~~l~~~eGip~~~dk~~r~v~p~a~~v~~lk~~~K~c~lG~L~~eVGWkyq~vtatLEeKRKe 156 (197)
T KOG3204|consen 77 AVRGMYPHKTKRGRAALERLRVFEGIPPPYDKQKRLVVPVAFQVLRLKPYKKYCLLGRLSHEVGWKYQAVTATLEEKRKE 156 (197)
T ss_pred hhccccccCCCccHHHHHHHHHhCCCCChhhhcCCccCCcceeeecccCCceeEEeccchhhhcchhHHHHHHHHHHHhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhh
Q psy9430 243 KSIEKIKLH 251 (255)
Q Consensus 243 ~~~~~~~~~ 251 (255)
+++.||.++
T Consensus 157 K~~~~y~kK 165 (197)
T KOG3204|consen 157 KAKIHYQKK 165 (197)
T ss_pred hhhhhHHHH
Confidence 999999965
No 5
>CHL00159 rpl13 ribosomal protein L13; Validated
Probab=100.00 E-value=4.4e-43 Score=293.38 Aligned_cols=122 Identities=27% Similarity=0.376 Sum_probs=111.1
Q ss_pred CcccCCCccccceeEEEcCCCCcchhhHHHHHHHHh------------CCCEEEEEeecceeecCccccchhh-----hh
Q psy9430 73 FHYRAPARIFWKTPILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFRNKLK-----YL 135 (255)
Q Consensus 73 ~t~raPs~If~r~w~vIDA~g~~LGRLAs~VAk~Ll------------~Gd~VVVVNaeki~itG~k~~~k~~-----Y~ 135 (255)
.|+.+.+..+.++|+||||+||+||||||.||++|+ |||+|||||||+|.+||+|+.+|.| |+
T Consensus 3 ~t~~~~~~~~~r~W~viDA~~~~lGRlAs~iA~~L~GKhKp~ytP~~d~Gd~VVViNa~kv~~TG~K~~~K~y~~htg~p 82 (143)
T CHL00159 3 KTFIPSKDYKNRKWYIIDAKDQTLGRLATKIASLLRGKNKPSYHPSVDTGDYVIVINAEKIKVTGNKTSQKFYVRHSGRP 82 (143)
T ss_pred ccccCCchhcCCCEEEEeCCCCchHHHHHHHHHHHhccCCCCcCCCcCCCCEEEEEecceeEEeCchhhheEEEecCCCC
Confidence 477888889999999999999999999999999999 9999999999999999999999984 33
Q ss_pred hhcceeecCCCCCccccccCchHhHHHHHhccCCCCChhHHHhhccCeeecCCCCchhhcccccc
Q psy9430 136 AFLNKRCNVNPARGPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCV 200 (255)
Q Consensus 136 ~~lk~~~~~np~~g~~~~r~P~~Il~raVrGMLPkkn~~gr~~l~rLkvy~G~~hp~~~qk~~~~ 200 (255)
++++.. +++++++++|++||++||+||||+ |++|+.+|+||+||+|++|||++|+|..+
T Consensus 83 Gg~k~~-----~~~~~~~r~P~~il~~aV~gMLPk-n~lgr~~~~rLkvy~G~~hph~aq~p~~~ 141 (143)
T CHL00159 83 GGLKIE-----TFEELQNRLPNRIIEKAVKGMLPK-GPLGRKLFTKLKVYKGESHPHVAQKPIKI 141 (143)
T ss_pred CCcccc-----cHHHHhhcCHHHHHHHHHHhcCCC-ChhHHHHHhCCEEeCCCCCCccccCCeec
Confidence 444444 788999999999999999999997 99999999999999999999999996544
No 6
>PRK09216 rplM 50S ribosomal protein L13; Reviewed
Probab=100.00 E-value=5.9e-43 Score=293.10 Aligned_cols=123 Identities=31% Similarity=0.437 Sum_probs=112.2
Q ss_pred CcccCCCccccceeEEEcCCCCcchhhHHHHHHHHh------------CCCEEEEEeecceeecCccccchhhh-----h
Q psy9430 73 FHYRAPARIFWKTPILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFRNKLKY-----L 135 (255)
Q Consensus 73 ~t~raPs~If~r~w~vIDA~g~~LGRLAs~VAk~Ll------------~Gd~VVVVNaeki~itG~k~~~k~~Y-----~ 135 (255)
.|+.+.+.++.++|+||||+||+||||||.||++|+ |||+|||||||+|.+||++|+++.|| +
T Consensus 2 ~t~~~~~~~~~~~W~viDA~~~~lGRlAs~IAk~L~GKhKp~y~p~~d~Gd~VvViNa~ki~~tG~k~~~k~y~~htg~p 81 (144)
T PRK09216 2 KTFSAKPAEVERKWYVIDAEGKVLGRLASEVASILRGKHKPTFTPHVDTGDFVIVINAEKVKLTGKKLTDKIYYRHSGYP 81 (144)
T ss_pred CcccCChhhcCCCEEEEeCCCCchHHHHHHHHHHHhccCCCCcCCCCCCCCEEEEEeCceeEEcCchHhheeeEEecccC
Confidence 467777788899999999999999999999999999 99999999999999999999999963 4
Q ss_pred hhcceeecCCCCCccccccCchHhHHHHHhccCCCCChhHHHhhccCeeecCCCCchhhccccccc
Q psy9430 136 AFLNKRCNVNPARGPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVP 201 (255)
Q Consensus 136 ~~lk~~~~~np~~g~~~~r~P~~Il~raVrGMLPkkn~~gr~~l~rLkvy~G~~hp~~~qk~~~~p 201 (255)
++++.. +.+++++++|++||++||+||||+ |++|+++|+||+||+|++|||++|+|..+.
T Consensus 82 Gglk~~-----~~~~~~~r~P~~il~~aVrgMLPk-n~lgr~~~~rLkvy~G~~hp~~~q~p~~~~ 141 (144)
T PRK09216 82 GGLKEI-----TFGELLAKKPERVIEKAVKGMLPK-NPLGRAMFKKLKVYAGAEHPHAAQQPEVLE 141 (144)
T ss_pred CCCEEe-----cHHHHhhhCHHHHHHHHHHhcCCC-CccHHHHHhCcEEeCCCCCCccccCCEecc
Confidence 446655 679999999999999999999997 999999999999999999999999955443
No 7
>COG0102 RplM Ribosomal protein L13 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.6e-42 Score=287.87 Aligned_cols=129 Identities=40% Similarity=0.551 Sum_probs=113.0
Q ss_pred CCcccCCCccccceeEEEcCCCCcchhhHHHHHHHHh------------CCCEEEEEeecceeecCccccchhhhhhhcc
Q psy9430 72 PFHYRAPARIFWKTPILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFRNKLKYLAFLN 139 (255)
Q Consensus 72 p~t~raPs~If~r~w~vIDA~g~~LGRLAs~VAk~Ll------------~Gd~VVVVNaeki~itG~k~~~k~~Y~~~lk 139 (255)
+.|+.+.+..+.++|+||||+|++||||||.||+.|+ |||+|||||||+|+|||+|..++.|| +|..
T Consensus 1 ~~t~~~k~~~~~r~w~vIDA~g~vLGRLAs~VA~~Lrgkhkp~ytP~~d~Gd~ViVINAeKv~iTG~K~~~k~yy-~hs~ 79 (148)
T COG0102 1 MKTFTAKPSEVERKWYVIDAEGKVLGRLASEVAKRLRGKHKPTYTPHVDTGDYVIVINAEKVVITGKKLTDKKYY-RHSG 79 (148)
T ss_pred CceeccCcccccceEEEEeCCCCChHHHHHHHHHHHhcCCCCCcCcCcCCCCEEEEEeceeeEEecccccceEEE-Eeec
Confidence 4567777777999999999999999999999999998 77999999999999999999999954 4433
Q ss_pred e-eecCCCCC-ccccccCchHhHHHHHhccCCCCChhHHHhhccCeeecCCCCchhhcccccccccccc
Q psy9430 140 K-RCNVNPAR-GPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVPTALRT 206 (255)
Q Consensus 140 ~-~~~~np~~-g~~~~r~P~~Il~raVrGMLPkkn~~gr~~l~rLkvy~G~~hp~~~qk~~~~p~al~~ 206 (255)
. .+..++++ +++++|.|++||++||+||||+ |++||++|+||+||.|+||||.+|+ |+++++
T Consensus 80 ~~gglk~~t~~~~~~~r~P~ri~~~AVrGMLPk-~~lGr~~~krLkVy~G~~h~~~aq~----p~~l~~ 143 (148)
T COG0102 80 YPGGLKNPTRGGPLAPRRPERILERAVRGMLPK-NPLGRAALKRLKVYAGIPHPHEAQK----PEALEL 143 (148)
T ss_pred cCCcccccccccccccCCHHHHHHHHHhccCCC-ChhHHHHHhCceEecCCCCcccccc----chhhhh
Confidence 3 34556666 6666699999999999999999 9999999999999999999999998 776644
No 8
>TIGR01066 rplM_bact ribosomal protein L13, bacterial type. This model distinguishes ribosomal protein L13 of bacteria and organelles from its eukarytotic and archaeal counterparts.
Probab=100.00 E-value=3.8e-42 Score=287.05 Aligned_cols=115 Identities=30% Similarity=0.437 Sum_probs=105.9
Q ss_pred CccccceeEEEcCCCCcchhhHHHHHHHHh------------CCCEEEEEeecceeecCccccchhhh-----hhhccee
Q psy9430 79 ARIFWKTPILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFRNKLKY-----LAFLNKR 141 (255)
Q Consensus 79 s~If~r~w~vIDA~g~~LGRLAs~VAk~Ll------------~Gd~VVVVNaeki~itG~k~~~k~~Y-----~~~lk~~ 141 (255)
+..+.++|+||||+||+||||||.||++|+ |||+|||||||+|.+||++++++.|| +++++++
T Consensus 6 ~~~~~r~W~viDA~~~~lGRLAs~iAk~L~GKhKp~y~p~~d~Gd~VvViNa~ki~~tG~k~~~k~y~~htg~pgg~k~~ 85 (140)
T TIGR01066 6 SDDKKRKWYVVDAAGKTLGRLASEVARLLRGKHKPTYTPHVDCGDYVIVINAEKVRLTGKKLEQKVYYRHSGYPGGLKSR 85 (140)
T ss_pred hhhhcccEEEEeCCCCchHHHHHHHHHHHhccCCCccCCCccCCCEEEEEeccEEEEeCchhhceeeEEEcccCCccccc
Confidence 457889999999999999999999999999 99999999999999999999999953 3455555
Q ss_pred ecCCCCCccccccCchHhHHHHHhccCCCCChhHHHhhccCeeecCCCCchhhccccc
Q psy9430 142 CNVNPARGPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLC 199 (255)
Q Consensus 142 ~~~np~~g~~~~r~P~~Il~raVrGMLPkkn~~gr~~l~rLkvy~G~~hp~~~qk~~~ 199 (255)
+++++++++|++||++||+||||+ |++|+++|+||+||+|+||||++|+|..
T Consensus 86 -----~~~~~~~r~P~~ii~~aVrGMLPk-n~lgr~~l~rLkvy~G~~hp~~~q~p~~ 137 (140)
T TIGR01066 86 -----TFEEMIARKPERVLEHAVKGMLPK-NRLGRKLFKKLKVYAGSEHPHEAQKPIV 137 (140)
T ss_pred -----cHHHhhhcCHHHHHHHHHHhcCCC-CccHHHHHhCeEEeCCCCCChhhcCCee
Confidence 789999999999999999999996 9999999999999999999999999544
No 9
>PF00572 Ribosomal_L13: Ribosomal protein L13; InterPro: IPR005822 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L13 is one of the proteins from the large ribosomal subunit []. In Escherichia coli, L13 is known to be one of the early assembly proteins of the 50S ribosomal subunit.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 4A17_I 4A1E_I 4A1A_I 4A1C_I 3D5B_N 3MS1_J 1VSP_H 3PYT_J 3PYO_J 3PYV_J ....
Probab=100.00 E-value=1.3e-40 Score=274.26 Aligned_cols=115 Identities=39% Similarity=0.580 Sum_probs=103.5
Q ss_pred eEEEcCCCCcchhhHHHHHHHHh------------CCCEEEEEeecceeecCccccchhhhhhhcceeecCCCCCccccc
Q psy9430 86 PILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPARGPFHY 153 (255)
Q Consensus 86 w~vIDA~g~~LGRLAs~VAk~Ll------------~Gd~VVVVNaeki~itG~k~~~k~~Y~~~lk~~~~~np~~g~~~~ 153 (255)
|+||||+||+||||||.||+.|+ |||+|||||||+|.+||++|.++.||.......+..+++++.+++
T Consensus 1 W~viDA~~~~lGRLAs~iAk~L~GKhk~~y~p~~d~Gd~VvViNae~i~~tG~k~~~k~y~~h~~~~g~~~~~~~~~~~~ 80 (128)
T PF00572_consen 1 WYVIDAKGQILGRLASKIAKLLLGKHKPTYTPNVDCGDHVVVINAEKIVLTGKKWRQKVYYRHTGYPGGLKNPTAKGLHE 80 (128)
T ss_dssp EEEEETTTBBHHHHHHHHHHHHCTTSSTSSBTTSSTTEEEEEECGGGBEESSHHHHHHHHHHEHSSSTSCEEEECHHHHC
T ss_pred CEEEeCCCCchHHHHHHHHHHHhCCCCCccCcCccCCCEEEEEcCeeeEecCCeecceEEEeecccchhhcccchhhhhh
Confidence 99999999999999999999999 999999999999999999999999543222223445557888888
Q ss_pred cCchHhHHHHHhccCCCCChhHHHhhccCeeecCCCCchhhccccccc
Q psy9430 154 RAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVP 201 (255)
Q Consensus 154 r~P~~Il~raVrGMLPkkn~~gr~~l~rLkvy~G~~hp~~~qk~~~~p 201 (255)
++|++||++||+||||+ |.+|+++|+||+||+|+||||++|+|++++
T Consensus 81 ~~P~~i~~~aVrgMLP~-n~~g~~~l~rL~vy~g~~hp~~~~~~~~~~ 127 (128)
T PF00572_consen 81 KDPSRILKRAVRGMLPK-NKLGREALKRLKVYPGEPHPHAAQKPVVLE 127 (128)
T ss_dssp SSHHHHHHHHHHTTSTT-SHHHHHHHTTEEEESSSSCSTTSSSCBEEE
T ss_pred cCHHHHHHHHHHHHCCC-ChhhhHHhhceEEECCCCCChhccCCEeCC
Confidence 99999999999999998 999999999999999999999999987765
No 10
>PLN00205 ribisomal protein L13 family protein; Provisional
Probab=100.00 E-value=2.7e-39 Score=280.90 Aligned_cols=117 Identities=20% Similarity=0.343 Sum_probs=105.8
Q ss_pred ccccceeEEEcCCCCcchhhHHHHHHHHh------------CCCEEEEEeecceeecCccccchhh-----hhhhcceee
Q psy9430 80 RIFWKTPILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFRNKLK-----YLAFLNKRC 142 (255)
Q Consensus 80 ~If~r~w~vIDA~g~~LGRLAs~VAk~Ll------------~Gd~VVVVNaeki~itG~k~~~k~~-----Y~~~lk~~~ 142 (255)
..-.++|+||||+||+||||||.||++|+ |||+|||||||+|.+||+||.++.| |+++++.+
T Consensus 11 ~~~~r~W~VIDA~~~iLGRLAS~IAk~L~GKhKP~ytP~~D~GD~VVVINAekI~lTG~K~~~K~Y~~htgypGglk~~- 89 (191)
T PLN00205 11 NLEGLRWRVFDAKGQVLGRLASQISTVLQGKDKPTYAPNRDDGDICIVLNAKDISVTGRKLTDKFYRWHTGYIGHLKER- 89 (191)
T ss_pred ccCCCcEEEEeCCCCchHHHHHHHHHHHhccCCCCcCCCcCCCCEEEEEeccEEEEeCChhhcceEEEecCCCCCcccc-
Confidence 44568999999999999999999999999 9999999999999999999999995 45555555
Q ss_pred cCCCCCccccccCchHhHHHHHhccCCCCChhHHHhhccCeeecCCCCchhhcccccccc
Q psy9430 143 NVNPARGPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVPT 202 (255)
Q Consensus 143 ~~np~~g~~~~r~P~~Il~raVrGMLPkkn~~gr~~l~rLkvy~G~~hp~~~qk~~~~p~ 202 (255)
+++++++++|++||++||+||||+ |.+|+.+++||+||+|+||||++|+|+.+.-
T Consensus 90 ----~~~~~~~r~P~~Il~kAVrGMLPk-n~lr~~~~krLkVY~G~~hp~~~q~p~~~~~ 144 (191)
T PLN00205 90 ----SLKDQMAKDPTEVIRKAVLRMLPR-NRLRDDRDRKLRIFAGSEHPFGDKPLEPFVM 144 (191)
T ss_pred ----cHHHHhccCHHHHHHHHHHhcCCC-CchHHHHHhCCEEECCCCCChhccCCeEecC
Confidence 789999999999999999999998 7888889999999999999999999865443
No 11
>cd00392 Ribosomal_L13 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the polypeptide exit site. It interacts with proteins L3 and L6, and forms an extensive network of interactions with 23S rRNA. L13 has been identified as a homolog of the human breast basic conserved protein 1 (BBC1), a protein identified through its increased expression in breast cancer. L13 expression is also upregulated in a variety of human gastrointestinal cancers, suggesting it may play a role in the etiology of a variety of human malignancies.
Probab=100.00 E-value=6.6e-37 Score=247.75 Aligned_cols=102 Identities=50% Similarity=0.688 Sum_probs=93.1
Q ss_pred eEEEcCCCCcchhhHHHHHHHHh------------CCCEEEEEeecceeecCccccchhhhhhhcceeecCCCCCccccc
Q psy9430 86 PILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPARGPFHY 153 (255)
Q Consensus 86 w~vIDA~g~~LGRLAs~VAk~Ll------------~Gd~VVVVNaeki~itG~k~~~k~~Y~~~lk~~~~~np~~g~~~~ 153 (255)
|+||||+||+||||||.||++|+ |||+|||||||+|.+||++++++.||.+.....+..+++++++++
T Consensus 1 w~viDA~~~~lGRlAs~iA~~L~gKhKp~y~p~~d~Gd~VvViNa~~i~~tG~k~~~k~y~~~~~~~g~~~~~~~~~~~~ 80 (114)
T cd00392 1 WHVIDAKGQVLGRLASKVAKLLLGKHKPTYTPHVDCGDYVVVVNAEKIVITGKKWRQKVYYRHTGYPGGLKNPTAGPLHP 80 (114)
T ss_pred CEEEeCCCCchHHHHHHHHHHHcCCCCCCcCCCccCCCEEEEEeccEEEEeCchhhccceEEeccCCCCCccCCcchhhh
Confidence 99999999999999999999999 599999999999999999999999544333334566779999999
Q ss_pred cCchHhHHHHHhccCCCCChhHHHhhccCeeecCC
Q psy9430 154 RAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGI 188 (255)
Q Consensus 154 r~P~~Il~raVrGMLPkkn~~gr~~l~rLkvy~G~ 188 (255)
++|++||++||+||||+ |++|+++|+||+||+|+
T Consensus 81 ~~P~~il~~aV~gMLPk-n~~g~~~l~rLkvy~g~ 114 (114)
T cd00392 81 RAPERILKRAVRGMLPK-NKLGRAALKRLKVYEGA 114 (114)
T ss_pred hCHHHHHHHHHHhcCCC-ChhHHHHHhCcEEeCCC
Confidence 99999999999999995 99999999999999985
No 12
>KOG3203|consensus
Probab=100.00 E-value=8.4e-35 Score=243.86 Aligned_cols=119 Identities=29% Similarity=0.396 Sum_probs=106.2
Q ss_pred cccceeEEEcCCCCcchhhHHHHHHHHh------------CCCEEEEEeecceeecCccccchhh-----hhhhcceeec
Q psy9430 81 IFWKTPILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFRNKLK-----YLAFLNKRCN 143 (255)
Q Consensus 81 If~r~w~vIDA~g~~LGRLAs~VAk~Ll------------~Gd~VVVVNaeki~itG~k~~~k~~-----Y~~~lk~~~~ 143 (255)
.|.|.|+||||++++||||||+||..|+ |||+|||+||++|.+||+||.++.| |+++++..
T Consensus 18 afaRvW~vvDa~~q~lGrLAs~ia~~L~GkhKPiYhP~~DcGD~VVV~N~~~Ia~sG~K~~qk~Y~~HsGyPG~lk~~-- 95 (165)
T KOG3203|consen 18 AFARVWHVVDAKQQPLGRLASQIATTLQGKHKPIYHPSTDCGDHVVVTNCKKIAFSGKKWEQKIYRSHSGYPGGLKQT-- 95 (165)
T ss_pred HHhhhheeeccccCchHHHHHHHHHHHhhccCCccCCccCCCCEEEEecchhheeccchhhhhhhhhcCCCCCchhhh--
Confidence 5668899999999999999999999998 9999999999999999999999994 45555533
Q ss_pred CCCCCccccccCchHhHHHHHhccCCCCChhHHHhhccCeeecCCCCc------hhhccccccccccc
Q psy9430 144 VNPARGPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPK------YARRQRLCVPTALR 205 (255)
Q Consensus 144 ~np~~g~~~~r~P~~Il~raVrGMLPkkn~~gr~~l~rLkvy~G~~hp------~~~qk~~~~p~al~ 205 (255)
+..+++.++|++|+++||+||||+ |.+++..|+||++|+|++|| ++.+++..+|+-++
T Consensus 96 ---~~~q~~~rdp~~Iv~~AV~gMLPk-N~Lrr~~~~rL~lf~g~e~p~~~Ni~~~~~q~~~vp~r~~ 159 (165)
T KOG3203|consen 96 ---TADQLADRDPCRIVRLAVYGMLPK-NLLRRRRMQRLHLFPGEEHPEKVNIGSELHQPQGVPKRLD 159 (165)
T ss_pred ---HHHHHhhhCHHHHHHHHHHhhCcc-chHHHHHhheeeccCCccCchhhhhHHHhccccCCCchhH
Confidence 678889999999999999999998 99999999999999999999 66777777776553
No 13
>PTZ00068 60S ribosomal protein L13a; Provisional
Probab=99.94 E-value=4.9e-28 Score=212.54 Aligned_cols=82 Identities=65% Similarity=1.057 Sum_probs=79.4
Q ss_pred cccEEEeCCCCchhhHHHHHHHHHcCCCEEEEEeccceeeccchhhhhhhhHHHhhhhhccCCCCCCCcccCCCccccce
Q psy9430 6 RKPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPARGPFHYRAPARIFWKT 85 (255)
Q Consensus 6 ~~w~viDa~~~~lGrlas~iA~~L~~Gd~vvvina~~i~~tG~k~~~k~~~~~~~~kr~~~np~~Gp~t~raPs~If~r~ 85 (255)
.+|+||||+||+||||||+||++|++||+|||||||+|.|||+|+++|+||..++++++++||.+||++++.|+++|++.
T Consensus 3 ~~w~vIDA~g~vLGRLAS~VAk~Ll~Gd~VVVVNaeki~iTG~k~~~K~~y~~~lk~~~~~nP~~g~~~~r~P~~Il~ra 82 (202)
T PTZ00068 3 KKVIVIDCKGHLLGRLASVVAKELLLGQKIVVVRCEDLNISGSLFRNKVKYEEFLRKRMNTNPRRGPFHHRAPSDIFWRT 82 (202)
T ss_pred CceEEEECCCCcHHHHHHHHHHHHhCCCEEEEEecceeEeecchhhheeeeEeeeEeeccCCCCcchhcccCHHHHHHHH
Confidence 47999999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred eE
Q psy9430 86 PI 87 (255)
Q Consensus 86 w~ 87 (255)
..
T Consensus 83 Vr 84 (202)
T PTZ00068 83 VR 84 (202)
T ss_pred Hh
Confidence 53
No 14
>COG0102 RplM Ribosomal protein L13 [Translation, ribosomal structure and biogenesis]
Probab=99.90 E-value=1e-24 Score=182.89 Aligned_cols=83 Identities=39% Similarity=0.522 Sum_probs=78.9
Q ss_pred CCcccEEEeCCCCchhhHHHHHHHHHc------------CCCEEEEEeccceeeccchhhhhhhhHHHhhhhhccCCCC-
Q psy9430 4 ISRKPILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPAR- 70 (255)
Q Consensus 4 ~~~~w~viDa~~~~lGrlas~iA~~L~------------~Gd~vvvina~~i~~tG~k~~~k~~~~~~~~kr~~~np~~- 70 (255)
++|+|+||||+|++||||||.||++|+ |||+|||||||||.|||+|.++|.||.......+..||..
T Consensus 11 ~~r~w~vIDA~g~vLGRLAs~VA~~Lrgkhkp~ytP~~d~Gd~ViVINAeKv~iTG~K~~~k~yy~hs~~~gglk~~t~~ 90 (148)
T COG0102 11 VERKWYVIDAEGKVLGRLASEVAKRLRGKHKPTYTPHVDTGDYVIVINAEKVVITGKKLTDKKYYRHSGYPGGLKNPTRG 90 (148)
T ss_pred ccceEEEEeCCCCChHHHHHHHHHHHhcCCCCCcCcCcCCCCEEEEEeceeeEEecccccceEEEEeeccCCcccccccc
Confidence 689999999999999999999999999 7799999999999999999999999999999999999886
Q ss_pred CCCcccCCCcccccee
Q psy9430 71 GPFHYRAPARIFWKTP 86 (255)
Q Consensus 71 Gp~t~raPs~If~r~w 86 (255)
||+.|+.|+++|++..
T Consensus 91 ~~~~~r~P~ri~~~AV 106 (148)
T COG0102 91 GPLAPRRPERILERAV 106 (148)
T ss_pred cccccCCHHHHHHHHH
Confidence 9999999999999864
No 15
>cd00392 Ribosomal_L13 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the polypeptide exit site. It interacts with proteins L3 and L6, and forms an extensive network of interactions with 23S rRNA. L13 has been identified as a homolog of the human breast basic conserved protein 1 (BBC1), a protein identified through its increased expression in breast cancer. L13 expression is also upregulated in a variety of human gastrointestinal cancers, suggesting it may play a role in the etiology of a variety of human malignancies.
Probab=99.87 E-value=3.6e-23 Score=167.62 Aligned_cols=79 Identities=44% Similarity=0.591 Sum_probs=75.5
Q ss_pred cEEEeCCCCchhhHHHHHHHHHc------------CCCEEEEEeccceeeccchhhhhhhhHHHhhhhhccCCCCCCCcc
Q psy9430 8 PILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPARGPFHY 75 (255)
Q Consensus 8 w~viDa~~~~lGrlas~iA~~L~------------~Gd~vvvina~~i~~tG~k~~~k~~~~~~~~kr~~~np~~Gp~t~ 75 (255)
|+||||+|++||||||.||++|+ |||+|||||||+|.|||+|+++|.||......+.+.++..|++++
T Consensus 1 w~viDA~~~~lGRlAs~iA~~L~gKhKp~y~p~~d~Gd~VvViNa~~i~~tG~k~~~k~y~~~~~~~g~~~~~~~~~~~~ 80 (114)
T cd00392 1 WHVIDAKGQVLGRLASKVAKLLLGKHKPTYTPHVDCGDYVVVVNAEKIVITGKKWRQKVYYRHTGYPGGLKNPTAGPLHP 80 (114)
T ss_pred CEEEeCCCCchHHHHHHHHHHHcCCCCCCcCCCccCCCEEEEEeccEEEEeCchhhccceEEeccCCCCCccCCcchhhh
Confidence 99999999999999999999999 599999999999999999999999999998899999999999999
Q ss_pred cCCCcccccee
Q psy9430 76 RAPARIFWKTP 86 (255)
Q Consensus 76 raPs~If~r~w 86 (255)
+.|++++++..
T Consensus 81 ~~P~~il~~aV 91 (114)
T cd00392 81 RAPERILKRAV 91 (114)
T ss_pred hCHHHHHHHHH
Confidence 99999988754
No 16
>TIGR01077 L13_A_E ribosomal protein L13, archaeal/eukaryotic. This model represents ribosomal protein of L13 from the Archaea and from the eukaryotic cytosol. Bacterial and organellar forms are represented by TIGR01066.
Probab=99.86 E-value=1.4e-23 Score=175.85 Aligned_cols=79 Identities=65% Similarity=1.013 Sum_probs=75.4
Q ss_pred EEEeCCCCchhhHHHHHHHHHcCCCEEEEEeccceeeccchhhhhhhhHHHhhhhhccCCCCCCCcccCCCccccceeE
Q psy9430 9 ILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPARGPFHYRAPARIFWKTPI 87 (255)
Q Consensus 9 ~viDa~~~~lGrlas~iA~~L~~Gd~vvvina~~i~~tG~k~~~k~~~~~~~~kr~~~np~~Gp~t~raPs~If~r~w~ 87 (255)
+||||+||+||||||.||+.|+|||+|||||||+|.|||+|+++|.||..++..++..+|..|+++++.|++++++...
T Consensus 1 ivIDA~~~vlGRLAs~IA~~L~~Gd~VvViNaeki~~TG~k~~~k~~y~~~~~~g~~~~~~~~~~~~r~P~~il~~aVr 79 (142)
T TIGR01077 1 TVIDGSGHILGRLASVVAKQLLNGEKVVVVNAEKIVISGNFYRNKLKYKEFLRKRTLTNPRRGPFFPRAPSRIFRRTVR 79 (142)
T ss_pred CEEeCCCCchHHHHHHHHHHHhcCCEEEEEechHheecCchhhheeEEEEECCCCCcccCCHHHhhhcCHHHHHHHHHH
Confidence 5899999999999999999999999999999999999999999999999888999999999999999999999998653
No 17
>TIGR01066 rplM_bact ribosomal protein L13, bacterial type. This model distinguishes ribosomal protein L13 of bacteria and organelles from its eukarytotic and archaeal counterparts.
Probab=99.85 E-value=1.1e-22 Score=170.03 Aligned_cols=83 Identities=28% Similarity=0.329 Sum_probs=68.1
Q ss_pred CCcccEEEeCCCCchhhHHHHHHHHHc------------CCCEEEEEeccceeeccchhhhhhhhHHHhhhhhccCCCCC
Q psy9430 4 ISRKPILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPARG 71 (255)
Q Consensus 4 ~~~~w~viDa~~~~lGrlas~iA~~L~------------~Gd~vvvina~~i~~tG~k~~~k~~~~~~~~kr~~~np~~G 71 (255)
++|+|+||||+|++||||||.||+.|+ |||+|||||||+|.|||+|+++|.||..-........+..+
T Consensus 9 ~~r~W~viDA~~~~lGRLAs~iAk~L~GKhKp~y~p~~d~Gd~VvViNa~ki~~tG~k~~~k~y~~htg~pgg~k~~~~~ 88 (140)
T TIGR01066 9 KKRKWYVVDAAGKTLGRLASEVARLLRGKHKPTYTPHVDCGDYVIVINAEKVRLTGKKLEQKVYYRHSGYPGGLKSRTFE 88 (140)
T ss_pred hcccEEEEeCCCCchHHHHHHHHHHHhccCCCccCCCccCCCEEEEEeccEEEEeCchhhceeeEEEcccCCccccccHH
Confidence 579999999999999999999999999 99999999999999999999999998531111111112347
Q ss_pred CCcccCCCcccccee
Q psy9430 72 PFHYRAPARIFWKTP 86 (255)
Q Consensus 72 p~t~raPs~If~r~w 86 (255)
+++++.|++++++..
T Consensus 89 ~~~~r~P~~ii~~aV 103 (140)
T TIGR01066 89 EMIARKPERVLEHAV 103 (140)
T ss_pred HhhhcCHHHHHHHHH
Confidence 788899999888754
No 18
>PRK09216 rplM 50S ribosomal protein L13; Reviewed
Probab=99.85 E-value=1.4e-22 Score=170.20 Aligned_cols=78 Identities=33% Similarity=0.541 Sum_probs=68.2
Q ss_pred CCcccEEEeCCCCchhhHHHHHHHHHc------------CCCEEEEEeccceeeccchhhhhhhhHH--H---hhhhhcc
Q psy9430 4 ISRKPILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFRNKLKYLA--F---LNKRCNV 66 (255)
Q Consensus 4 ~~~~w~viDa~~~~lGrlas~iA~~L~------------~Gd~vvvina~~i~~tG~k~~~k~~~~~--~---~~kr~~~ 66 (255)
++|+|+||||+|++||||||.||+.|+ |||+|||||||+|.|||+|+++|.||.. + ++.+
T Consensus 11 ~~~~W~viDA~~~~lGRlAs~IAk~L~GKhKp~y~p~~d~Gd~VvViNa~ki~~tG~k~~~k~y~~htg~pGglk~~--- 87 (144)
T PRK09216 11 VERKWYVIDAEGKVLGRLASEVASILRGKHKPTFTPHVDTGDFVIVINAEKVKLTGKKLTDKIYYRHSGYPGGLKEI--- 87 (144)
T ss_pred cCCCEEEEeCCCCchHHHHHHHHHHHhccCCCCcCCCCCCCCEEEEEeCceeEEcCchHhheeeEEecccCCCCEEe---
Confidence 579999999999999999999999999 9999999999999999999999999874 2 2222
Q ss_pred CCCCCCCcccCCCcccccee
Q psy9430 67 NPARGPFHYRAPARIFWKTP 86 (255)
Q Consensus 67 np~~Gp~t~raPs~If~r~w 86 (255)
..|+++++.|++++++..
T Consensus 88 --~~~~~~~r~P~~il~~aV 105 (144)
T PRK09216 88 --TFGELLAKKPERVIEKAV 105 (144)
T ss_pred --cHHHHhhhCHHHHHHHHH
Confidence 238888899999988754
No 19
>PRK06394 rpl13p 50S ribosomal protein L13P; Reviewed
Probab=99.84 E-value=3.5e-22 Score=168.15 Aligned_cols=81 Identities=43% Similarity=0.569 Sum_probs=75.9
Q ss_pred cccEEEeCCCCchhhHHHHHHHHHcCCCEEEEEeccceeeccchhhhhhhhHHHhhhhhccCCC-CCCCcccCCCccccc
Q psy9430 6 RKPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPA-RGPFHYRAPARIFWK 84 (255)
Q Consensus 6 ~~w~viDa~~~~lGrlas~iA~~L~~Gd~vvvina~~i~~tG~k~~~k~~~~~~~~kr~~~np~-~Gp~t~raPs~If~r 84 (255)
.+-+||||+||+||||||.||++|++||+|||||||+|.|||+|++++.+|..+.+.++++||. .|+++++.|++++++
T Consensus 2 ~~~~viDA~~~vlGRLAs~IA~~L~~Gd~VVViNa~kv~~tG~K~~~~~~y~~~~~~k~~~np~~~~~~~~r~P~~il~~ 81 (146)
T PRK06394 2 EAMVVIDAEGQILGRLASYVAKRLLEGEEVVIVNAEKAVITGNRERVIEKYKQRRERGSHYNPYRNGPKYPRRPDRIFKR 81 (146)
T ss_pred CccEEEECCCCchHHHHHHHHHHHhCCCEEEEEechheEecCchhhheeeEeCCCCCcccCCCCChHHhhhcCHHHHHHH
Confidence 3568999999999999999999999999999999999999999999999999888999999995 599999999999998
Q ss_pred ee
Q psy9430 85 TP 86 (255)
Q Consensus 85 ~w 86 (255)
..
T Consensus 82 AV 83 (146)
T PRK06394 82 TI 83 (146)
T ss_pred HH
Confidence 65
No 20
>PF00572 Ribosomal_L13: Ribosomal protein L13; InterPro: IPR005822 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L13 is one of the proteins from the large ribosomal subunit []. In Escherichia coli, L13 is known to be one of the early assembly proteins of the 50S ribosomal subunit.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 4A17_I 4A1E_I 4A1A_I 4A1C_I 3D5B_N 3MS1_J 1VSP_H 3PYT_J 3PYO_J 3PYV_J ....
Probab=99.82 E-value=7.3e-22 Score=162.90 Aligned_cols=77 Identities=36% Similarity=0.549 Sum_probs=71.5
Q ss_pred cEEEeCCCCchhhHHHHHHHHHc------------CCCEEEEEeccceeeccchhhhhhhhHHHhhhhhccCCCC-CCCc
Q psy9430 8 PILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPAR-GPFH 74 (255)
Q Consensus 8 w~viDa~~~~lGrlas~iA~~L~------------~Gd~vvvina~~i~~tG~k~~~k~~~~~~~~kr~~~np~~-Gp~t 74 (255)
|+||||+|++||||||.||+.|+ +||+|||||||+|.|||+++.+|.||.-....+...||.. +++.
T Consensus 1 W~viDA~~~~lGRLAs~iAk~L~GKhk~~y~p~~d~Gd~VvViNae~i~~tG~k~~~k~y~~h~~~~g~~~~~~~~~~~~ 80 (128)
T PF00572_consen 1 WYVIDAKGQILGRLASKIAKLLLGKHKPTYTPNVDCGDHVVVINAEKIVLTGKKWRQKVYYRHTGYPGGLKNPTAKGLHE 80 (128)
T ss_dssp EEEEETTTBBHHHHHHHHHHHHCTTSSTSSBTTSSTTEEEEEECGGGBEESSHHHHHHHHHHEHSSSTSCEEEECHHHHC
T ss_pred CEEEeCCCCchHHHHHHHHHHHhCCCCCccCcCccCCCEEEEEcCeeeEecCCeecceEEEeecccchhhcccchhhhhh
Confidence 99999999999999999999999 9999999999999999999999999988888999999887 5555
Q ss_pred ccCCCccccce
Q psy9430 75 YRAPARIFWKT 85 (255)
Q Consensus 75 ~raPs~If~r~ 85 (255)
+.|++++++.
T Consensus 81 -~~P~~i~~~a 90 (128)
T PF00572_consen 81 -KDPSRILKRA 90 (128)
T ss_dssp -SSHHHHHHHH
T ss_pred -cCHHHHHHHH
Confidence 9999988864
No 21
>CHL00159 rpl13 ribosomal protein L13; Validated
Probab=99.80 E-value=2e-20 Score=156.93 Aligned_cols=75 Identities=32% Similarity=0.459 Sum_probs=63.6
Q ss_pred CCcccEEEeCCCCchhhHHHHHHHHHc------------CCCEEEEEeccceeeccchhhhhhhhHHHhhhhhccCCCCC
Q psy9430 4 ISRKPILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPARG 71 (255)
Q Consensus 4 ~~~~w~viDa~~~~lGrlas~iA~~L~------------~Gd~vvvina~~i~~tG~k~~~k~~~~~~~~kr~~~np~~G 71 (255)
++|+|+||||+|++||||||.||++|+ |||+|||||||+|.|||+|+++|.||. ++ ...|
T Consensus 12 ~~r~W~viDA~~~~lGRlAs~iA~~L~GKhKp~ytP~~d~Gd~VVViNa~kv~~TG~K~~~K~y~~-------ht-g~pG 83 (143)
T CHL00159 12 KNRKWYIIDAKDQTLGRLATKIASLLRGKNKPSYHPSVDTGDYVIVINAEKIKVTGNKTSQKFYVR-------HS-GRPG 83 (143)
T ss_pred cCCCEEEEeCCCCchHHHHHHHHHHHhccCCCCcCCCcCCCCEEEEEecceeEEeCchhhheEEEe-------cC-CCCC
Confidence 579999999999999999999999999 999999999999999999999998742 22 1124
Q ss_pred --------CCcccCCCcccccee
Q psy9430 72 --------PFHYRAPARIFWKTP 86 (255)
Q Consensus 72 --------p~t~raPs~If~r~w 86 (255)
..+++.|++++++..
T Consensus 84 g~k~~~~~~~~~r~P~~il~~aV 106 (143)
T CHL00159 84 GLKIETFEELQNRLPNRIIEKAV 106 (143)
T ss_pred CcccccHHHHhhcCHHHHHHHHH
Confidence 466788888887643
No 22
>PLN00205 ribisomal protein L13 family protein; Provisional
Probab=99.79 E-value=1.2e-20 Score=164.34 Aligned_cols=81 Identities=19% Similarity=0.304 Sum_probs=64.9
Q ss_pred CcccEEEeCCCCchhhHHHHHHHHHc------------CCCEEEEEeccceeeccchhhhhhhhHHHhhhhhccCCC-CC
Q psy9430 5 SRKPILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPA-RG 71 (255)
Q Consensus 5 ~~~w~viDa~~~~lGrlas~iA~~L~------------~Gd~vvvina~~i~~tG~k~~~k~~~~~~~~kr~~~np~-~G 71 (255)
.|+|+||||+|++||||||+||+.|+ |||+|||||||+|.|||+|+.+|.||.-- ..--..++. -+
T Consensus 14 ~r~W~VIDA~~~iLGRLAS~IAk~L~GKhKP~ytP~~D~GD~VVVINAekI~lTG~K~~~K~Y~~ht-gypGglk~~~~~ 92 (191)
T PLN00205 14 GLRWRVFDAKGQVLGRLASQISTVLQGKDKPTYAPNRDDGDICIVLNAKDISVTGRKLTDKFYRWHT-GYIGHLKERSLK 92 (191)
T ss_pred CCcEEEEeCCCCchHHHHHHHHHHHhccCCCCcCCCcCCCCEEEEEeccEEEEeCChhhcceEEEec-CCCCCcccccHH
Confidence 47999999999999999999999999 99999999999999999999999985310 000001222 26
Q ss_pred CCcccCCCcccccee
Q psy9430 72 PFHYRAPARIFWKTP 86 (255)
Q Consensus 72 p~t~raPs~If~r~w 86 (255)
+++.+.|++++++..
T Consensus 93 ~~~~r~P~~Il~kAV 107 (191)
T PLN00205 93 DQMAKDPTEVIRKAV 107 (191)
T ss_pred HHhccCHHHHHHHHH
Confidence 788888999888744
No 23
>KOG3204|consensus
Probab=99.67 E-value=4.6e-17 Score=141.77 Aligned_cols=96 Identities=55% Similarity=0.796 Sum_probs=85.9
Q ss_pred CCCcccEEEeCCCCchhhHHHHHHHHHcCCCEEEEEeccceeeccchhhhhhhhHHHhhhhhccCCCCCCCcccCCCccc
Q psy9430 3 GISRKPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPARGPFHYRAPARIF 82 (255)
Q Consensus 3 ~~~~~w~viDa~~~~lGrlas~iA~~L~~Gd~vvvina~~i~~tG~k~~~k~~~~~~~~kr~~~np~~Gp~t~raPs~If 82 (255)
|++.+-.+||+.||+||||||.+|+.|+.|+.|||+.||.|.|||+.+++| .|++++|++| |||||++|+++|
T Consensus 2 ~~~~~~~vidg~~hllGrlAa~vaK~ll~g~kvvvvr~E~i~isg~f~r~k----~~lrk~~~~n---g~~hfr~ps~i~ 74 (197)
T KOG3204|consen 2 MLEVKLVVIDGRGHLLGRLAAIVAKQLLLGRKVVVVRCEEINISGNFYRNK----LFLRKRLNRN---GPFHFRAPSRIL 74 (197)
T ss_pred cceEEEeeccchhhhhhhHHHHHHHHHhcCCeEEEEEEeEEEEecceecch----HHHhhhhccc---CcchhhhHHHHH
Confidence 556777899999999999999999999999999999999999999999999 8899999999 999999999999
Q ss_pred cceeEEEcCCCCcchhhHHHHHH
Q psy9430 83 WKTPILIDGRGHLLGRLASIVAK 105 (255)
Q Consensus 83 ~r~w~vIDA~g~~LGRLAs~VAk 105 (255)
++.-...=...-.-|+.|..-+.
T Consensus 75 ~~~vrgm~~~kt~rg~aal~~l~ 97 (197)
T KOG3204|consen 75 QKAVRGMYPHKTKRGRAALERLR 97 (197)
T ss_pred HHhhccccccCCCccHHHHHHHH
Confidence 99877666666666666665555
No 24
>KOG3203|consensus
Probab=99.62 E-value=2e-16 Score=133.32 Aligned_cols=53 Identities=32% Similarity=0.468 Sum_probs=51.1
Q ss_pred CCcccEEEeCCCCchhhHHHHHHHHHc------------CCCEEEEEeccceeeccchhhhhhhh
Q psy9430 4 ISRKPILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFRNKLKY 56 (255)
Q Consensus 4 ~~~~w~viDa~~~~lGrlas~iA~~L~------------~Gd~vvvina~~i~~tG~k~~~k~~~ 56 (255)
|+|.|+||||++++||||||+||..|+ |||+|||+||++|.|||+|++||+|+
T Consensus 19 faRvW~vvDa~~q~lGrLAs~ia~~L~GkhKPiYhP~~DcGD~VVV~N~~~Ia~sG~K~~qk~Y~ 83 (165)
T KOG3203|consen 19 FARVWHVVDAKQQPLGRLASQIATTLQGKHKPIYHPSTDCGDHVVVTNCKKIAFSGKKWEQKIYR 83 (165)
T ss_pred HhhhheeeccccCchHHHHHHHHHHHhhccCCccCCccCCCCEEEEecchhheeccchhhhhhhh
Confidence 578999999999999999999999999 99999999999999999999999984
No 25
>KOG3212|consensus
Probab=58.43 E-value=28 Score=31.20 Aligned_cols=68 Identities=22% Similarity=0.171 Sum_probs=48.5
Q ss_pred HHHHHHHc--CCCEEEEEecc--------ceeeccchhhhhhhhHHHhhhhhccCCCCCCCcccCCCccccceeEEEcC
Q psy9430 23 SIVAKTIL--NGNRVVVVRAE--------LLNISGNFFRNKLKYLAFLNKRCNVNPARGPFHYRAPARIFWKTPILIDG 91 (255)
Q Consensus 23 s~iA~~L~--~Gd~vvvina~--------~i~~tG~k~~~k~~~~~~~~kr~~~np~~Gp~t~raPs~If~r~w~vIDA 91 (255)
-.+.++|+ .-|-|.||-.. .|..||.-.++-.-.-.++.+..-...-+|+.|.+.+... .+.|+++|-
T Consensus 72 e~vv~lLrdenadDVfVi~vpeem~y~dh~VIcSgrs~rhl~aiAe~lv~m~Kik~~kgd~hvriegk~-s~dW~v~D~ 149 (208)
T KOG3212|consen 72 EEVVKLLRDENADDVFVIPVPEEMFYADHTVICSGRSDRHLRAIAEALVYMAKIKSQKGDKHVRIEGKQ-SSDWIVIDY 149 (208)
T ss_pred HHHHHHHHhcccCceEEEeccccceeeeeEEEEecCchHHHHHHHHHHHHHHHHhhcCCCccccccccc-CCCeEEEEe
Confidence 34566676 56777777654 4777888777655544556555555555799999988777 789999997
No 26
>PHA02754 hypothetical protein; Provisional
Probab=53.83 E-value=18 Score=26.57 Aligned_cols=16 Identities=31% Similarity=0.769 Sum_probs=14.2
Q ss_pred CCCEEEEEeccceeec
Q psy9430 31 NGNRVVVVRAELLNIS 46 (255)
Q Consensus 31 ~Gd~vvvina~~i~~t 46 (255)
.||+||||-|+.|++-
T Consensus 43 SGdkIVVi~aD~I~i~ 58 (67)
T PHA02754 43 SGDKIVVITADAIKIE 58 (67)
T ss_pred cCCEEEEEEcceEEEE
Confidence 7999999999998873
No 27
>TIGR00090 iojap_ybeB iojap-like ribosome-associated protein. This model describes a widely distributed family of bacterial proteins related to iojap from plants. It includes YbeB from E. coli. The gene iojap is a pattern-striping gene in maize, reflecting a chloroplast development defect in some cells. More recent work in bacteria suggests that the bacterial iojap-related protein physically associates with ribosomes. The function remains unknown.
Probab=53.69 E-value=69 Score=25.06 Aligned_cols=66 Identities=12% Similarity=0.046 Sum_probs=34.4
Q ss_pred HHHHHHHHc--CCCEEEEEeccc--------eeeccchhhhhhhhHHHhhhhhccCCCCCCCcccCCCccccceeEEEcC
Q psy9430 22 ASIVAKTIL--NGNRVVVVRAEL--------LNISGNFFRNKLKYLAFLNKRCNVNPARGPFHYRAPARIFWKTPILIDG 91 (255)
Q Consensus 22 as~iA~~L~--~Gd~vvvina~~--------i~~tG~k~~~k~~~~~~~~kr~~~np~~Gp~t~raPs~If~r~w~vIDA 91 (255)
+..+|+.|. .|+-|+|++-.+ |..||+-.++-.--...+.+... ..|-. +......-...|+++|.
T Consensus 2 ~~~i~~~l~~kka~dI~vldv~~~~~~~dy~VI~Tg~S~rh~~aia~~v~~~~k---~~~~~-~~~~EG~~~~~WillD~ 77 (99)
T TIGR00090 2 LELIVEALDDKKAEDIVVLDVRGKSSIADYFVIASGTSSRHVKAIADNVEEELK---EAGLK-PLGVEGLEEGDWVLVDL 77 (99)
T ss_pred HHHHHHHHHHcCCCCEEEEECCCCCcccCEEEEEEeCCHHHHHHHHHHHHHHHH---HcCCC-cccccCCCCCCEEEEEC
Confidence 456677776 566677776665 44566655554333333333331 11211 11122223568999998
No 28
>PF04760 IF2_N: Translation initiation factor IF-2, N-terminal region; InterPro: IPR006847 This region is found in the N-terminal half of translation initiation factor IF-2. It is found in two copies in IF-2 alpha isoforms, and in only one copy in the N-terminally truncated beta and gamma isoforms []. Its function is unknown.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1ND9_A.
Probab=48.84 E-value=19 Score=24.79 Aligned_cols=23 Identities=26% Similarity=0.434 Sum_probs=20.1
Q ss_pred CeeehhhhhhhhCCchHHHHHHH
Q psy9430 214 SYCSVGRISHEVGWKYKTIVRHL 236 (255)
Q Consensus 214 k~~~lgel~~~~Gwk~~~~~~~l 236 (255)
..+++.|||+++|=.-.++++.|
T Consensus 2 ~~i~V~elAk~l~v~~~~ii~~l 24 (54)
T PF04760_consen 2 EKIRVSELAKELGVPSKEIIKKL 24 (54)
T ss_dssp -EE-TTHHHHHHSSSHHHHHHHH
T ss_pred CceEHHHHHHHHCcCHHHHHHHH
Confidence 36889999999999999999999
No 29
>PF00436 SSB: Single-strand binding protein family; InterPro: IPR000424 The Escherichia coli single-strand binding protein [] (gene ssb), also known as the helix-destabilising protein, is a protein of 177 amino acids. It binds tightly, as a homotetramer, to single-stranded DNA (ss-DNA) and plays an important role in DNA replication, recombination and repair. Closely related variants of SSB are encoded in the genome of a variety of large self-transmissible plasmids. SSB has also been characterised in bacteria such as Proteus mirabilis or Serratia marcescens. Eukaryotic mitochondrial proteins that bind ss-DNA and are probably involved in mitochondrial DNA replication are structurally and evolutionary related to prokaryotic SSB.; GO: 0003697 single-stranded DNA binding; PDB: 3UDG_B 1SE8_A 2CWA_A 3ULL_B 1S3O_A 2DUD_A 3AFP_A 3AFQ_A 3VDY_A 3EIV_C ....
Probab=43.00 E-value=23 Score=26.66 Aligned_cols=30 Identities=33% Similarity=0.358 Sum_probs=19.9
Q ss_pred ceeEEEcCCCCcchhhHHHHHHHHhCCCEEEEEe
Q psy9430 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVR 117 (255)
Q Consensus 84 r~w~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVN 117 (255)
..|+=+-+ .|.+|..++..|..||.|.|.-
T Consensus 47 ~~~~~v~~----~g~~A~~~~~~l~kG~~V~V~G 76 (104)
T PF00436_consen 47 TDWINVVA----WGKLAENVAEYLKKGDRVYVEG 76 (104)
T ss_dssp EEEEEEEE----EHHHHHHHHHH--TT-EEEEEE
T ss_pred eEEEEEEe----eeecccccceEEcCCCEEEEEE
Confidence 34554443 4889999999999999888754
No 30
>PHA02754 hypothetical protein; Provisional
Probab=39.98 E-value=43 Score=24.63 Aligned_cols=15 Identities=33% Similarity=0.815 Sum_probs=13.1
Q ss_pred CCCEEEEEeecceee
Q psy9430 109 NGNRVVVVRAELLNI 123 (255)
Q Consensus 109 ~Gd~VVVVNaeki~i 123 (255)
.||++|||-|+-|.+
T Consensus 43 SGdkIVVi~aD~I~i 57 (67)
T PHA02754 43 SGDKIVVITADAIKI 57 (67)
T ss_pred cCCEEEEEEcceEEE
Confidence 699999999988875
No 31
>PF12953 DUF3842: Domain of unknown function (DUF3842); InterPro: IPR024208 This family of proteins has no known function.
Probab=39.92 E-value=31 Score=29.06 Aligned_cols=35 Identities=17% Similarity=0.272 Sum_probs=22.7
Q ss_pred CCcchhhHHHHHHHHh---CCCEEEEEeecceeecCcc
Q psy9430 93 GHLLGRLASIVAKTIL---NGNRVVVVRAELLNISGNF 127 (255)
Q Consensus 93 g~~LGRLAs~VAk~Ll---~Gd~VVVVNaeki~itG~k 127 (255)
+-.+|.+...+|...- +=...+=+|.+++.+-|-.
T Consensus 78 ~smlGEiTp~mA~AI~~S~A~KiLiPl~~~~~~ivG~~ 115 (131)
T PF12953_consen 78 NSMLGEITPAMAEAIAQSPAKKILIPLNRCNIEIVGVE 115 (131)
T ss_pred CcccccccHHHHHHHhcCCCCEEEEeecCCCCEEECCC
Confidence 5567777777777664 2333455777777777754
No 32
>PRK11538 ribosome-associated protein; Provisional
Probab=38.54 E-value=1.7e+02 Score=23.26 Aligned_cols=67 Identities=15% Similarity=0.102 Sum_probs=35.7
Q ss_pred HHHHHHHHHc--CCCEEEEEeccce--------eeccchhhhhhhhHHHhhhhhccCCCCCCCcccCCCccccceeEEEc
Q psy9430 21 LASIVAKTIL--NGNRVVVVRAELL--------NISGNFFRNKLKYLAFLNKRCNVNPARGPFHYRAPARIFWKTPILID 90 (255)
Q Consensus 21 las~iA~~L~--~Gd~vvvina~~i--------~~tG~k~~~k~~~~~~~~kr~~~np~~Gp~t~raPs~If~r~w~vID 90 (255)
|+..+++.|. .|+-|+|++-.+. ..||+-.++-.--...+.+... ..|.. +......-...|+++|
T Consensus 6 ~~~~i~~~l~dkKa~DI~vlDv~~~~~~~Dy~VIatg~S~rh~~aia~~v~~~~k---~~~~~-~~~~eG~~~~~WillD 81 (105)
T PRK11538 6 LQDFVIDKIDDLKGQDIIALDVQGKSSITDCMIICTGTSSRHVMSIADHVVQESR---AAGLL-PLGVEGENAADWIVVD 81 (105)
T ss_pred HHHHHHHHHHHcCCCCeEEEECCCCCcccCEEEEEEeCCHHHHHHHHHHHHHHHH---HcCCC-CCcccCCCCCCEEEEe
Confidence 4566777777 6777788776653 4566655543322223322221 11222 1122223346899999
Q ss_pred C
Q psy9430 91 G 91 (255)
Q Consensus 91 A 91 (255)
.
T Consensus 82 ~ 82 (105)
T PRK11538 82 L 82 (105)
T ss_pred C
Confidence 8
No 33
>PF02410 Oligomerisation: Oligomerisation domain; InterPro: IPR004394 The gene iojap is a pattern-striping gene in maize, reflecting a chloroplast development defect in some cells. Maize has two RNA polymerases in plastids, but the plastid-encoded one, similar to bacterial RNA polymerases, is missing in iojap mutants. The role of iojap in chloroplast development, and the role of its bacterial orthologs modeled here, is unclear [, ]. This entry contains the bacterial protein YbeB (P0AAT6 from SWISSPROT), which has been shown to comigrate with the mature 50S ribosome subunit. Therefore it either represents a novel ribosome-associated protein or it is associated with a different oligomeric complex that comigrates with ribosomal particles [].; PDB: 2O5A_A 2ID1_B 3UPS_A.
Probab=37.18 E-value=1.1e+02 Score=23.67 Aligned_cols=67 Identities=13% Similarity=0.066 Sum_probs=32.5
Q ss_pred HHHHHHHHc--CCCEEEEEeccc--------eeeccchhhhhhhhHHHhhhhhccCCCCCCCcccCCCccccceeEEEcC
Q psy9430 22 ASIVAKTIL--NGNRVVVVRAEL--------LNISGNFFRNKLKYLAFLNKRCNVNPARGPFHYRAPARIFWKTPILIDG 91 (255)
Q Consensus 22 as~iA~~L~--~Gd~vvvina~~--------i~~tG~k~~~k~~~~~~~~kr~~~np~~Gp~t~raPs~If~r~w~vIDA 91 (255)
+..|+..|. .|+-|+++|-.+ |..||+-.++=.--...+.+...- ..|...+. ....-...|+++|+
T Consensus 2 ~~~i~~~l~~~k~~dI~v~dv~~~~~~~dy~II~T~~S~rh~~aia~~v~~~~~k--~~~~~~~~-~eG~~~~~W~lvD~ 78 (100)
T PF02410_consen 2 LEEIVEALEDKKAEDIVVLDVREKSSWADYFIIATGRSERHVRAIADEVEKALKK--EYGERPLR-IEGLDESDWVLVDY 78 (100)
T ss_dssp HHHHHHHHHHTT-EEEEEEEGCTTBSS-SEEEEEEESSHHHHHHHHHHHHHHH-H--HTT----E-EESTTTTSEEEEEE
T ss_pred HHHHHHHHHHcCCCCeEEEECCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHH--HcCCcccc-cCCCCCCCEEEEcc
Confidence 456677776 678888888776 445665544432222333333200 01111111 11122458999998
No 34
>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.
Probab=36.65 E-value=1.3e+02 Score=24.15 Aligned_cols=64 Identities=23% Similarity=0.261 Sum_probs=39.7
Q ss_pred HHHHHHHHHc-CCCEEEEEeccceeeccchhhhhhhhHHHhhhhhccCCCCCCCcccCCCccccceeEEEcCCCCcchhh
Q psy9430 21 LASIVAKTIL-NGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPARGPFHYRAPARIFWKTPILIDGRGHLLGRL 99 (255)
Q Consensus 21 las~iA~~L~-~Gd~vvvina~~i~~tG~k~~~k~~~~~~~~kr~~~np~~Gp~t~raPs~If~r~w~vIDA~g~~LGRL 99 (255)
+|..+|..+. .|..|+++++|. .|.-.. -.|+|||.-.. ++..
T Consensus 16 ~~~~~a~~~~~~~~~~~~vd~D~---~~~~~~--------------------------------yd~VIiD~p~~-~~~~ 59 (139)
T cd02038 16 ISANLALALAKLGKRVLLLDADL---GLANLD--------------------------------YDYIIIDTGAG-ISDN 59 (139)
T ss_pred HHHHHHHHHHHCCCcEEEEECCC---CCCCCC--------------------------------CCEEEEECCCC-CCHH
Confidence 6777777766 789999999984 222111 68999999764 4555
Q ss_pred HHHHHHHHhCCCEE-EEEeecceee
Q psy9430 100 ASIVAKTILNGNRV-VVVRAELLNI 123 (255)
Q Consensus 100 As~VAk~Ll~Gd~V-VVVNaeki~i 123 (255)
+.. .+..-|.| +|+.++...+
T Consensus 60 ~~~---~l~~aD~vviv~~~~~~s~ 81 (139)
T cd02038 60 VLD---FFLAADEVIVVTTPEPTSI 81 (139)
T ss_pred HHH---HHHhCCeEEEEcCCChhHH
Confidence 433 34444554 4555554433
No 35
>PF00436 SSB: Single-strand binding protein family; InterPro: IPR000424 The Escherichia coli single-strand binding protein [] (gene ssb), also known as the helix-destabilising protein, is a protein of 177 amino acids. It binds tightly, as a homotetramer, to single-stranded DNA (ss-DNA) and plays an important role in DNA replication, recombination and repair. Closely related variants of SSB are encoded in the genome of a variety of large self-transmissible plasmids. SSB has also been characterised in bacteria such as Proteus mirabilis or Serratia marcescens. Eukaryotic mitochondrial proteins that bind ss-DNA and are probably involved in mitochondrial DNA replication are structurally and evolutionary related to prokaryotic SSB.; GO: 0003697 single-stranded DNA binding; PDB: 3UDG_B 1SE8_A 2CWA_A 3ULL_B 1S3O_A 2DUD_A 3AFP_A 3AFQ_A 3VDY_A 3EIV_C ....
Probab=35.92 E-value=35 Score=25.65 Aligned_cols=23 Identities=39% Similarity=0.495 Sum_probs=16.9
Q ss_pred chhhHHHHHHHHHcCCCEEEEEe
Q psy9430 17 LLGRLASIVAKTILNGNRVVVVR 39 (255)
Q Consensus 17 ~lGrlas~iA~~L~~Gd~vvvin 39 (255)
+.|.+|..++..|..||.|.|.-
T Consensus 54 ~~g~~A~~~~~~l~kG~~V~V~G 76 (104)
T PF00436_consen 54 AWGKLAENVAEYLKKGDRVYVEG 76 (104)
T ss_dssp EEHHHHHHHHHH--TT-EEEEEE
T ss_pred eeeecccccceEEcCCCEEEEEE
Confidence 45889999999999999988754
No 36
>cd04496 SSB_OBF SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart
Probab=35.68 E-value=36 Score=25.23 Aligned_cols=30 Identities=30% Similarity=0.306 Sum_probs=22.9
Q ss_pred ceeEEEcCCCCcchhhHHHHHHHHhCCCEEEEEe
Q psy9430 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVR 117 (255)
Q Consensus 84 r~w~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVN 117 (255)
..|+=+-+ -|.+|..+++.|..||.|.|.-
T Consensus 43 ~~~~~v~~----~g~~a~~~~~~~~kG~~V~v~G 72 (100)
T cd04496 43 TDWIRVVA----FGKLAENAAKYLKKGDLVYVEG 72 (100)
T ss_pred cEEEEEEE----EhHHHHHHHHHhCCCCEEEEEE
Confidence 34555544 4559999999999999998864
No 37
>PRK05853 hypothetical protein; Validated
Probab=35.63 E-value=34 Score=29.52 Aligned_cols=23 Identities=35% Similarity=0.453 Sum_probs=20.5
Q ss_pred cchhhHHHHHHHHhCCCEEEEEe
Q psy9430 95 LLGRLASIVAKTILNGNRVVVVR 117 (255)
Q Consensus 95 ~LGRLAs~VAk~Ll~Gd~VVVVN 117 (255)
+.|++|..++++|..|+.|+|.-
T Consensus 49 ~wg~lAe~v~~~L~KG~~V~V~G 71 (161)
T PRK05853 49 CWGRLVTGVGAALGKGAPVIVVG 71 (161)
T ss_pred EEhHHHHHHHHHcCCCCEEEEEE
Confidence 56789999999999999999864
No 38
>KOG1481|consensus
Probab=35.00 E-value=47 Score=31.95 Aligned_cols=51 Identities=33% Similarity=0.464 Sum_probs=42.4
Q ss_pred EEEeCCCCchhh-------HHHHHHHHHcCCCEEEEEeccceeeccchhhhhhhhHHHhhhh
Q psy9430 9 ILIDGRGHLLGR-------LASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKR 63 (255)
Q Consensus 9 ~viDa~~~~lGr-------las~iA~~L~~Gd~vvvina~~i~~tG~k~~~k~~~~~~~~kr 63 (255)
|++|-+|-.+|- -|.++|+.|-.|..||.|=|| ||.+.-.|++-..|++.+
T Consensus 318 ~Ll~~dGLFvGsSsa~N~VaAv~vAk~LgpG~~iVtilCD----sG~rh~sk~~~~~~l~~~ 375 (391)
T KOG1481|consen 318 YLLDNDGLFVGSSSALNCVAAVRVAKTLGPGHTIVTILCD----SGSRHLSKLFSESFLESK 375 (391)
T ss_pred HhhhcCceEecchhhHHHHHHHHHHHhcCCCceEEEEEeC----CcchHHHHhcCHHHHhhc
Confidence 566667766664 467899999999999999998 799999999988888765
No 39
>COG0629 Ssb Single-stranded DNA-binding protein [DNA replication, recombination, and repair]
Probab=34.68 E-value=38 Score=28.73 Aligned_cols=23 Identities=30% Similarity=0.387 Sum_probs=20.3
Q ss_pred cchhhHHHHHHHHhCCCEEEEEe
Q psy9430 95 LLGRLASIVAKTILNGNRVVVVR 117 (255)
Q Consensus 95 ~LGRLAs~VAk~Ll~Gd~VVVVN 117 (255)
+.|++|..++.+|..|+.|.|.-
T Consensus 57 ~wgk~Ae~~~~yl~KG~~V~VeG 79 (167)
T COG0629 57 IWGKLAENAAEYLKKGSLVYVEG 79 (167)
T ss_pred EehHHHHHHHHHhcCCCEEEEEE
Confidence 46889999999999999998864
No 40
>PF12953 DUF3842: Domain of unknown function (DUF3842); InterPro: IPR024208 This family of proteins has no known function.
Probab=34.53 E-value=45 Score=28.07 Aligned_cols=14 Identities=29% Similarity=0.484 Sum_probs=11.5
Q ss_pred CCCEEEEEeeccee
Q psy9430 109 NGNRVVVVRAELLN 122 (255)
Q Consensus 109 ~Gd~VVVVNaeki~ 122 (255)
+|+.-||+||.++-
T Consensus 53 TGENaIv~n~~~aD 66 (131)
T PF12953_consen 53 TGENAIVVNARKAD 66 (131)
T ss_pred cccchheeccCCCC
Confidence 68888888888865
No 41
>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.
Probab=32.39 E-value=2e+02 Score=21.37 Aligned_cols=62 Identities=23% Similarity=0.321 Sum_probs=40.6
Q ss_pred HHHHHHHHHc-CCCEEEEEeccceeeccchhhhhhhhHHHhhhhhccCCCCCCCcccCCCccccceeEEEcCCCCcchhh
Q psy9430 21 LASIVAKTIL-NGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPARGPFHYRAPARIFWKTPILIDGRGHLLGRL 99 (255)
Q Consensus 21 las~iA~~L~-~Gd~vvvina~~i~~tG~k~~~k~~~~~~~~kr~~~np~~Gp~t~raPs~If~r~w~vIDA~g~~LGRL 99 (255)
+|+.+|..|. .|..|.++.++-- -.|+|||.-+.. +..
T Consensus 16 ~~~~la~~~~~~~~~vl~~d~d~~----------------------------------------~d~viiD~p~~~-~~~ 54 (104)
T cd02042 16 TAVNLAAALARRGKRVLLIDLDPQ----------------------------------------YDYIIIDTPPSL-GLL 54 (104)
T ss_pred HHHHHHHHHHhCCCcEEEEeCCCC----------------------------------------CCEEEEeCcCCC-CHH
Confidence 5666777666 8999999998864 479999986653 222
Q ss_pred HHHHHHHHh-CCCEEEEEeecceeecCc
Q psy9430 100 ASIVAKTIL-NGNRVVVVRAELLNISGN 126 (255)
Q Consensus 100 As~VAk~Ll-~Gd~VVVVNaeki~itG~ 126 (255)
+. ..|. +...|++++++...+.+-
T Consensus 55 ~~---~~l~~ad~viv~~~~~~~s~~~~ 79 (104)
T cd02042 55 TR---NALAAADLVLIPVQPSPLDLDGL 79 (104)
T ss_pred HH---HHHHHCCEEEEeccCCHHHHHHH
Confidence 22 3333 555566777776666543
No 42
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=32.14 E-value=42 Score=26.54 Aligned_cols=30 Identities=17% Similarity=0.016 Sum_probs=23.8
Q ss_pred ceeEEEcCCCCcchhhHHHHHHHHhCCCEEEEEe
Q psy9430 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVR 117 (255)
Q Consensus 84 r~w~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVN 117 (255)
..|+=+- ..|++|..++..|..||.|.|.-
T Consensus 46 t~~~~v~----~wg~~Ae~~~~~l~KG~~V~V~G 75 (112)
T PRK06752 46 VDFINCV----VWRKSAENVTEYCTKGSLVGITG 75 (112)
T ss_pred EEEEEEE----EehHHHHHHHHhcCCCCEEEEEE
Confidence 4576554 56779999999999999998854
No 43
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=31.41 E-value=43 Score=28.21 Aligned_cols=23 Identities=35% Similarity=0.255 Sum_probs=20.3
Q ss_pred cchhhHHHHHHHHhCCCEEEEEe
Q psy9430 95 LLGRLASIVAKTILNGNRVVVVR 117 (255)
Q Consensus 95 ~LGRLAs~VAk~Ll~Gd~VVVVN 117 (255)
..|++|..+++.|..|+.|.|.-
T Consensus 60 ~wg~~Ae~v~~~l~KG~~V~V~G 82 (148)
T PRK08182 60 LWHRDAEHWARLYQKGMRVLVEG 82 (148)
T ss_pred EEhHHHHHHHHhcCCCCEEEEEE
Confidence 56789999999999999998864
No 44
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=31.20 E-value=40 Score=27.62 Aligned_cols=30 Identities=20% Similarity=0.159 Sum_probs=24.3
Q ss_pred ceeEEEcCCCCcchhhHHHHHHHHhCCCEEEEEe
Q psy9430 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVR 117 (255)
Q Consensus 84 r~w~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVN 117 (255)
..|+-|-+ .|++|..++..|..|+.|.|.-
T Consensus 46 t~w~~v~~----fg~~Ae~v~~~l~KG~~V~V~G 75 (131)
T PRK07274 46 ADFINVVL----WGKLAETLASYASKGSLISIDG 75 (131)
T ss_pred EEEEEEEE----ehHHHHHHHHHcCCCCEEEEEE
Confidence 46876654 5789999999999999988753
No 45
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=31.19 E-value=41 Score=29.63 Aligned_cols=23 Identities=30% Similarity=0.436 Sum_probs=20.4
Q ss_pred cchhhHHHHHHHHhCCCEEEEEe
Q psy9430 95 LLGRLASIVAKTILNGNRVVVVR 117 (255)
Q Consensus 95 ~LGRLAs~VAk~Ll~Gd~VVVVN 117 (255)
+.|++|..+|+.|..||.|+|.=
T Consensus 59 ~Wg~~Ae~va~~L~KGd~V~V~G 81 (186)
T PRK07772 59 IWRQAAENVAESLTKGMRVIVTG 81 (186)
T ss_pred EecHHHHHHHHhcCCCCEEEEEE
Confidence 56789999999999999999864
No 46
>cd04496 SSB_OBF SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart
Probab=31.03 E-value=52 Score=24.36 Aligned_cols=24 Identities=33% Similarity=0.390 Sum_probs=20.1
Q ss_pred chhhHHHHHHHHHcCCCEEEEEec
Q psy9430 17 LLGRLASIVAKTILNGNRVVVVRA 40 (255)
Q Consensus 17 ~lGrlas~iA~~L~~Gd~vvvina 40 (255)
+.|.+|..+++.|+.||.|+|.-.
T Consensus 50 ~~g~~a~~~~~~~~kG~~V~v~G~ 73 (100)
T cd04496 50 AFGKLAENAAKYLKKGDLVYVEGR 73 (100)
T ss_pred EEhHHHHHHHHHhCCCCEEEEEEE
Confidence 456799999999999999987543
No 47
>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.
Probab=30.33 E-value=2.1e+02 Score=23.09 Aligned_cols=23 Identities=22% Similarity=0.398 Sum_probs=18.1
Q ss_pred hHHHHHHHHHc-CCCEEEEEeccc
Q psy9430 20 RLASIVAKTIL-NGNRVVVVRAEL 42 (255)
Q Consensus 20 rlas~iA~~L~-~Gd~vvvina~~ 42 (255)
.+|+.+|..|. .|..|++|+++-
T Consensus 15 t~a~~la~~l~~~g~~vllvD~D~ 38 (179)
T cd02036 15 TTTANLGTALAQLGYKVVLIDADL 38 (179)
T ss_pred HHHHHHHHHHHhCCCeEEEEeCCC
Confidence 36667777775 799999999985
No 48
>PF09756 DDRGK: DDRGK domain; InterPro: IPR019153 This is a family of proteins of approximately 300 residues. They contain a highly conserved DDRGK motif. The function is unknown. ; PDB: 1WI9_A.
Probab=30.27 E-value=51 Score=29.17 Aligned_cols=29 Identities=7% Similarity=0.297 Sum_probs=22.1
Q ss_pred CCCeeehhhhhhhhCCchHHHHHHHHHHH
Q psy9430 212 GRSYCSVGRISHEVGWKYKTIVRHLERKR 240 (255)
Q Consensus 212 ~~k~~~lgel~~~~Gwk~~~~~~~le~~r 240 (255)
.+|.|.|.+||.+||-+.++++.++..-.
T Consensus 110 ~~Kvv~ledla~~f~l~t~~~i~ri~~L~ 138 (188)
T PF09756_consen 110 EHKVVNLEDLAAEFGLRTQDVINRIQELE 138 (188)
T ss_dssp H-SEE-HHHHHHHH-S-HHHHHHHHHHHH
T ss_pred HcceeeHHHHHHHcCCCHHHHHHHHHHHH
Confidence 46899999999999999999999987643
No 49
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=28.79 E-value=2.1e+02 Score=22.68 Aligned_cols=22 Identities=23% Similarity=0.514 Sum_probs=17.2
Q ss_pred HHHHHHHHHc-CCCEEEEEeccc
Q psy9430 21 LASIVAKTIL-NGNRVVVVRAEL 42 (255)
Q Consensus 21 las~iA~~L~-~Gd~vvvina~~ 42 (255)
+|+.+|..|. .|..|++|.+|-
T Consensus 15 ~a~~la~~l~~~g~~V~~id~D~ 37 (116)
T cd02034 15 IAALLARYLAEKGKPVLAIDADP 37 (116)
T ss_pred HHHHHHHHHHHCCCcEEEEECCc
Confidence 5666676665 688999999998
No 50
>KOG1154|consensus
Probab=28.49 E-value=59 Score=30.39 Aligned_cols=34 Identities=35% Similarity=0.451 Sum_probs=26.5
Q ss_pred CCCCchhhHHHHHH---HHHcCCCEEEEEeccceeec
Q psy9430 13 GRGHLLGRLASIVA---KTILNGNRVVVVRAELLNIS 46 (255)
Q Consensus 13 a~~~~lGrlas~iA---~~L~~Gd~vvvina~~i~~t 46 (255)
..|--|||||++|- +.=+.|..|++|-+..|.|-
T Consensus 26 ~~~laLgrla~IVEqV~~L~~~G~evilVSSGaVA~G 62 (285)
T KOG1154|consen 26 TCGLALGRLASIVEQVSELQRMGREVILVSSGAVAFG 62 (285)
T ss_pred CccchHHHHHHHHHHHHHHHhcCceEEEEecchhhhh
Confidence 34558999999864 44449999999999988873
No 51
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=28.36 E-value=47 Score=29.12 Aligned_cols=28 Identities=32% Similarity=0.471 Sum_probs=22.2
Q ss_pred eeEEEcCCCCcchhhHHHHHHHHhCCCEEEEE
Q psy9430 85 TPILIDGRGHLLGRLASIVAKTILNGNRVVVV 116 (255)
Q Consensus 85 ~w~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVV 116 (255)
.|+=|- +.|++|..+++.|..|+.|.|.
T Consensus 49 ~fi~v~----~fg~~AE~~~~~l~KG~~V~Ve 76 (182)
T PRK08486 49 CFIDIR----LFGRTAEIANQYLSKGSKVLIE 76 (182)
T ss_pred eEEEEE----EEhHHHHHHHHHcCCCCEEEEE
Confidence 465443 4688999999999999988875
No 52
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=28.26 E-value=47 Score=28.53 Aligned_cols=30 Identities=17% Similarity=-0.005 Sum_probs=23.5
Q ss_pred ceeEEEcCCCCcchhhHHHHHHHHhCCCEEEEEe
Q psy9430 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVR 117 (255)
Q Consensus 84 r~w~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVN 117 (255)
..|+-+- +.|++|..+|++|..|+.|.|--
T Consensus 46 tdfi~vv----~wgk~Ae~~~~~l~KG~~V~VeG 75 (162)
T PRK07275 46 ADFINCV----IWRQQAENLANWAKKGALIGVTG 75 (162)
T ss_pred eeEEEEE----EEcHHHHHHHHHcCCCCEEEEEE
Confidence 4565443 57889999999999999988753
No 53
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=27.74 E-value=51 Score=26.76 Aligned_cols=30 Identities=13% Similarity=0.266 Sum_probs=23.6
Q ss_pred ceeEEEcCCCCcchhhHHHHHHHHhCCCEEEEEe
Q psy9430 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVR 117 (255)
Q Consensus 84 r~w~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVN 117 (255)
..|+=|= ..|++|..++++|..|+.|.|.-
T Consensus 43 t~w~~v~----~wg~~Ae~~~~~l~KG~~V~V~G 72 (121)
T PRK07459 43 PDWFNLE----IWGKTAQVAADYVKKGSLIGITG 72 (121)
T ss_pred ceEEEEE----EehHHHHHHHHHcCCCCEEEEEE
Confidence 3576443 46789999999999999988854
No 54
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=27.55 E-value=53 Score=28.67 Aligned_cols=30 Identities=20% Similarity=0.306 Sum_probs=24.0
Q ss_pred ceeEEEcCCCCcchhhHHHHHHHHhCCCEEEEEe
Q psy9430 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVR 117 (255)
Q Consensus 84 r~w~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVN 117 (255)
-.|+-|- +.|++|..++..|..|+.|.|.-
T Consensus 53 t~w~~Vv----~wgk~Ae~v~~~L~KG~~V~VeG 82 (175)
T PRK13732 53 TEWHRVV----LFGKLAEVAGEYLRKGAQVYIEG 82 (175)
T ss_pred eeEEEEE----EecHHHHHHHHhcCCCCEEEEEE
Confidence 4576664 46779999999999999998864
No 55
>TIGR00621 ssb single stranded DNA-binding protein (ssb). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=27.09 E-value=49 Score=28.14 Aligned_cols=29 Identities=31% Similarity=0.315 Sum_probs=23.6
Q ss_pred eeEEEcCCCCcchhhHHHHHHHHhCCCEEEEEe
Q psy9430 85 TPILIDGRGHLLGRLASIVAKTILNGNRVVVVR 117 (255)
Q Consensus 85 ~w~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVN 117 (255)
.|+=|- +.|++|..+++.|..|+.|.|.-
T Consensus 51 ~~~~v~----~wg~~Ae~~~~~l~KG~~V~V~G 79 (164)
T TIGR00621 51 EWHDIV----IFGRLAEVAAQYLKKGSLVYVEG 79 (164)
T ss_pred eEEEEE----EehHHHHHHHHhCCCCCEEEEEE
Confidence 466554 56779999999999999998864
No 56
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=26.63 E-value=52 Score=28.36 Aligned_cols=29 Identities=14% Similarity=0.295 Sum_probs=23.3
Q ss_pred eeEEEcCCCCcchhhHHHHHHHHhCCCEEEEEe
Q psy9430 85 TPILIDGRGHLLGRLASIVAKTILNGNRVVVVR 117 (255)
Q Consensus 85 ~w~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVN 117 (255)
.||=|- +.|++|..++..|..|+.|.|.-
T Consensus 52 ~w~~Vv----~fgk~Ae~v~~~L~KGs~V~VeG 80 (164)
T PRK08763 52 EWHRVK----FFGKLGEIAGEYLRKGSQCYIEG 80 (164)
T ss_pred eEEEEE----EehHHHHHHHHhcCCCCEEEEEE
Confidence 476554 46789999999999999988753
No 57
>PF12324 HTH_15: Helix-turn-helix domain of alkylmercury lyase; InterPro: IPR024259 Alkylmercury lyase (EC:4.99.1.2) cleaves the carbon-mercury bond of organomercurials such as phenylmercuric acetate. This entry represents the N-terminal helix-turn-helix domain.; PDB: 3FN8_B 3F2G_B 3F0P_A 3F2F_B 3F2H_A 3F0O_B 1S6L_A.
Probab=26.48 E-value=63 Score=24.80 Aligned_cols=28 Identities=14% Similarity=0.328 Sum_probs=20.3
Q ss_pred CCCeeehhhhhhhhCCchHHHHHHHHHH
Q psy9430 212 GRSYCSVGRISHEVGWKYKTIVRHLERK 239 (255)
Q Consensus 212 ~~k~~~lgel~~~~Gwk~~~~~~~le~~ 239 (255)
.-.=++..+||..+||...+|.+-|+.-
T Consensus 35 ~G~PVt~~~LA~a~g~~~e~v~~~L~~~ 62 (77)
T PF12324_consen 35 KGQPVTVEQLAAALGWPVEEVRAALAAM 62 (77)
T ss_dssp TTS-B-HHHHHHHHT--HHHHHHHHHH-
T ss_pred cCCCcCHHHHHHHHCCCHHHHHHHHHhC
Confidence 3467899999999999999999998864
No 58
>COG0629 Ssb Single-stranded DNA-binding protein [DNA replication, recombination, and repair]
Probab=26.24 E-value=61 Score=27.49 Aligned_cols=23 Identities=30% Similarity=0.387 Sum_probs=20.5
Q ss_pred chhhHHHHHHHHHcCCCEEEEEe
Q psy9430 17 LLGRLASIVAKTILNGNRVVVVR 39 (255)
Q Consensus 17 ~lGrlas~iA~~L~~Gd~vvvin 39 (255)
+.|++|..++..|+.|+.|+|.-
T Consensus 57 ~wgk~Ae~~~~yl~KG~~V~VeG 79 (167)
T COG0629 57 IWGKLAENAAEYLKKGSLVYVEG 79 (167)
T ss_pred EehHHHHHHHHHhcCCCEEEEEE
Confidence 68999999999999999988753
No 59
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=25.89 E-value=76 Score=27.52 Aligned_cols=30 Identities=20% Similarity=0.164 Sum_probs=24.5
Q ss_pred ceeEEEcCCCCcchhhHHHHHHHHhCCCEEEEEe
Q psy9430 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVR 117 (255)
Q Consensus 84 r~w~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVN 117 (255)
..|+-|. +.|++|..+++.|..|+.|.|.-
T Consensus 51 t~w~~Vv----~fgk~AE~v~~~LkKGs~V~VeG 80 (168)
T PRK06863 51 TEWHRIV----FYRRQAEVAGEYLRKGSQVYVEG 80 (168)
T ss_pred ceEEEEE----EEhHHHHHHHHHCCCCCEEEEEE
Confidence 3587774 56789999999999999998864
No 60
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=25.79 E-value=76 Score=22.76 Aligned_cols=26 Identities=23% Similarity=0.365 Sum_probs=19.1
Q ss_pred CCeeehhhhhhhhCCchHHHHHHHHH
Q psy9430 213 RSYCSVGRISHEVGWKYKTIVRHLER 238 (255)
Q Consensus 213 ~k~~~lgel~~~~Gwk~~~~~~~le~ 238 (255)
+.-+++.|||++||+....|-+-||.
T Consensus 12 ~~~~S~~eLa~~~~~s~~~ve~mL~~ 37 (69)
T PF09012_consen 12 RGRVSLAELAREFGISPEAVEAMLEQ 37 (69)
T ss_dssp S-SEEHHHHHHHTT--HHHHHHHHHH
T ss_pred cCCcCHHHHHHHHCcCHHHHHHHHHH
Confidence 46799999999999998887766653
No 61
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=25.72 E-value=61 Score=26.53 Aligned_cols=28 Identities=25% Similarity=0.292 Sum_probs=22.7
Q ss_pred ccEEEeCCCCchhhHHHHHHHHHcCCCEEEEE
Q psy9430 7 KPILIDGRGHLLGRLASIVAKTILNGNRVVVV 38 (255)
Q Consensus 7 ~w~viDa~~~~lGrlas~iA~~L~~Gd~vvvi 38 (255)
+|+-|- +.|++|..+++.|..|+.|.|-
T Consensus 47 ~w~~v~----~fg~~Ae~v~~~l~KG~~V~V~ 74 (131)
T PRK07274 47 DFINVV----LWGKLAETLASYASKGSLISID 74 (131)
T ss_pred EEEEEE----EehHHHHHHHHHcCCCCEEEEE
Confidence 465553 6789999999999999998774
No 62
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=25.50 E-value=59 Score=22.97 Aligned_cols=24 Identities=21% Similarity=0.387 Sum_probs=21.2
Q ss_pred CeeehhhhhhhhCCchHHHHHHHH
Q psy9430 214 SYCSVGRISHEVGWKYKTIVRHLE 237 (255)
Q Consensus 214 k~~~lgel~~~~Gwk~~~~~~~le 237 (255)
+=+++.|||.+||=.-..+.+.|-
T Consensus 22 R~~tl~elA~~lgis~st~~~~LR 45 (53)
T PF04967_consen 22 RRITLEELAEELGISKSTVSEHLR 45 (53)
T ss_pred CcCCHHHHHHHhCCCHHHHHHHHH
Confidence 578999999999999999888773
No 63
>PRK05853 hypothetical protein; Validated
Probab=25.23 E-value=66 Score=27.71 Aligned_cols=23 Identities=35% Similarity=0.453 Sum_probs=20.8
Q ss_pred chhhHHHHHHHHHcCCCEEEEEe
Q psy9430 17 LLGRLASIVAKTILNGNRVVVVR 39 (255)
Q Consensus 17 ~lGrlas~iA~~L~~Gd~vvvin 39 (255)
+.|++|..+++.|..|+.|+|.-
T Consensus 49 ~wg~lAe~v~~~L~KG~~V~V~G 71 (161)
T PRK05853 49 CWGRLVTGVGAALGKGAPVIVVG 71 (161)
T ss_pred EEhHHHHHHHHHcCCCCEEEEEE
Confidence 78999999999999999998864
No 64
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=25.16 E-value=57 Score=28.52 Aligned_cols=30 Identities=20% Similarity=0.319 Sum_probs=24.2
Q ss_pred ceeEEEcCCCCcchhhHHHHHHHHhCCCEEEEEe
Q psy9430 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVR 117 (255)
Q Consensus 84 r~w~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVN 117 (255)
..|+=|- +.|++|..+++.|..|+.|.|.-
T Consensus 53 t~w~~V~----~fgk~Ae~~~~~L~KGs~V~VeG 82 (177)
T PRK09010 53 TEWHRVV----LFGKLAEVAGEYLRKGSQVYIEG 82 (177)
T ss_pred eEEEEEE----EehhHHHHHHHhcCCCCEEEEEE
Confidence 4576663 56789999999999999998864
No 65
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=25.07 E-value=55 Score=28.45 Aligned_cols=30 Identities=20% Similarity=0.031 Sum_probs=23.9
Q ss_pred ceeEEEcCCCCcchhhHHHHHHHHhCCCEEEEEe
Q psy9430 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVR 117 (255)
Q Consensus 84 r~w~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVN 117 (255)
..|+-|- +.|++|..+|..|..|+.|.|.-
T Consensus 46 tdwi~~v----~wgk~Ae~~~~~l~KG~~V~VeG 75 (173)
T PRK06751 46 ADFINCV----IWRKQAENVANYLKKGSLAGVDG 75 (173)
T ss_pred EEEEEEE----EeCcHHHHHHHHcCCCCEEEEEE
Confidence 3577664 56779999999999999988753
No 66
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=24.93 E-value=64 Score=28.46 Aligned_cols=22 Identities=32% Similarity=0.471 Sum_probs=20.2
Q ss_pred chhhHHHHHHHHHcCCCEEEEE
Q psy9430 17 LLGRLASIVAKTILNGNRVVVV 38 (255)
Q Consensus 17 ~lGrlas~iA~~L~~Gd~vvvi 38 (255)
+.|.+|..+|+.|..||.|+|.
T Consensus 59 ~Wg~~Ae~va~~L~KGd~V~V~ 80 (186)
T PRK07772 59 IWRQAAENVAESLTKGMRVIVT 80 (186)
T ss_pred EecHHHHHHHHhcCCCCEEEEE
Confidence 7899999999999999999885
No 67
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=24.67 E-value=65 Score=25.47 Aligned_cols=23 Identities=17% Similarity=0.128 Sum_probs=20.2
Q ss_pred CchhhHHHHHHHHHcCCCEEEEE
Q psy9430 16 HLLGRLASIVAKTILNGNRVVVV 38 (255)
Q Consensus 16 ~~lGrlas~iA~~L~~Gd~vvvi 38 (255)
.+.|++|..++..|..||.|.|.
T Consensus 52 ~~wg~~Ae~~~~~l~KG~~V~V~ 74 (112)
T PRK06752 52 VVWRKSAENVTEYCTKGSLVGIT 74 (112)
T ss_pred EEehHHHHHHHHhcCCCCEEEEE
Confidence 47889999999999999998874
No 68
>PF11994 DUF3489: Protein of unknown function (DUF3489); InterPro: IPR021880 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 84 to 211 amino acids in length. This protein has a single completely conserved residue W that may be functionally important.
Probab=24.61 E-value=82 Score=23.88 Aligned_cols=26 Identities=19% Similarity=0.378 Sum_probs=22.7
Q ss_pred CeeehhhhhhhhCCchHHHHHHHHHH
Q psy9430 214 SYCSVGRISHEVGWKYKTIVRHLERK 239 (255)
Q Consensus 214 k~~~lgel~~~~Gwk~~~~~~~le~~ 239 (255)
.=.|+.|||+..||+-..+-..|-.-
T Consensus 23 ~GATi~ei~~atGWq~HTvRgalsg~ 48 (72)
T PF11994_consen 23 EGATIAEICEATGWQPHTVRGALSGL 48 (72)
T ss_pred CCCCHHHHHHhhCCchhhHHHHHHHH
Confidence 56899999999999999998877665
No 69
>PF03447 NAD_binding_3: Homoserine dehydrogenase, NAD binding domain; InterPro: IPR005106 Bacteria, plants and fungi metabolise aspartic acid to produce four amino acids - lysine, threonine, methionine and isoleucine - in a series of reactions known as the aspartate pathway. Additionally, several important metabolic intermediates are produced by these reactions, such as diaminopimelic acid, an essential component of bacterial cell wall biosynthesis, and dipicolinic acid, which is involved in sporulation in Gram-positive bacteria. Members of the animal kingdom do not posses this pathway and must therefore acquire these essential amino acids through their diet. Research into improving the metabolic flux through this pathway has the potential to increase the yield of the essential amino acids in important crops, thus improving their nutritional value. Additionally, since the enzymes are not present in animals, inhibitors of them are promising targets for the development of novel antibiotics and herbicides. For more information see []. Homoserine dehydrogenase (1.1.1.3 from EC) catalyses the third step in the aspartate pathway; theNAD(P)-dependent reduction of aspartate beta-semialdehyde into homoserine [, ]. Homoserine is an intermediate in the biosynthesis of threonine, isoleucine, and methionine. The enzyme can be found in a monofunctional form, in some bacteria and yeast, or a bifunctional form consisting of an N-terminal aspartokinase domain and a C-terminal homoserine dehydrogenase domain, as found in bacteria such as Escherichia coli and in plants. Structural analysis of the yeast monofunctional enzyme (P31116 from SWISSPROT) indicates that the enzyme is a dimer composed of three distinct regions; an N-terminal nucleotide-binding domain, a short central dimerisation region, and a C-terminal catalytic domain []. The N-terminal domain forms a modified Rossman fold, while the catalytic domain forms a novel alpha-beta mixed sheet. This entry represents the NAD(P)-binding domain of aspartate and homoserine dehydrogenase. Asparate dehydrogenase (1.4.1.21 from EC) is strictly specific for L-aspartate as substrate and catalyses the first step in NAD biosynthesis from aspartate. The enzyme has a higher affinity for NAD+ than NADP+ []. Note that the C terminus of the protein contributes a helix to this domain that is not covered by this model.; GO: 0016491 oxidoreductase activity, 0050661 NADP binding, 0055114 oxidation-reduction process; PDB: 3ING_A 3MTJ_A 3DO5_A 3JSA_A 3C8M_A 1J5P_A 1H2H_A 2EJW_E 1TVE_A 1EBU_D ....
Probab=24.45 E-value=97 Score=23.99 Aligned_cols=34 Identities=15% Similarity=0.268 Sum_probs=24.7
Q ss_pred ceeEEEcCCCCcchhhHHHHHHHHhCCCEEEEEeec
Q psy9430 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAE 119 (255)
Q Consensus 84 r~w~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVNae 119 (255)
+-=+|||+.+. .-++..+...|..|-+||..|-.
T Consensus 59 ~~dvvVE~t~~--~~~~~~~~~~L~~G~~VVt~nk~ 92 (117)
T PF03447_consen 59 DIDVVVECTSS--EAVAEYYEKALERGKHVVTANKG 92 (117)
T ss_dssp T-SEEEE-SSC--HHHHHHHHHHHHTTCEEEES-HH
T ss_pred CCCEEEECCCc--hHHHHHHHHHHHCCCeEEEECHH
Confidence 56699999766 44677888888899999998854
No 70
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=24.16 E-value=74 Score=27.80 Aligned_cols=28 Identities=21% Similarity=0.379 Sum_probs=22.9
Q ss_pred ccEEEeCCCCchhhHHHHHHHHHcCCCEEEEE
Q psy9430 7 KPILIDGRGHLLGRLASIVAKTILNGNRVVVV 38 (255)
Q Consensus 7 ~w~viDa~~~~lGrlas~iA~~L~~Gd~vvvi 38 (255)
.|+=| .+.|++|..+++.|+.|+.|.|.
T Consensus 54 ~w~~V----~~fgk~Ae~~~~~L~KGs~V~Ve 81 (177)
T PRK09010 54 EWHRV----VLFGKLAEVAGEYLRKGSQVYIE 81 (177)
T ss_pred EEEEE----EEehhHHHHHHHhcCCCCEEEEE
Confidence 45544 47889999999999999998774
No 71
>PF04989 CmcI: Cephalosporin hydroxylase; InterPro: IPR007072 This entry contains Rhamnosyl O-methyltransferase which catalyses the O-methylation of the hydroxyl group located on C-2 of the first rhamnosyl residue linked to the phenolic group of glycosylated phenolphthiocerol dimycocerosates (PGL) and p-hydroxybenzoic acid derivatives (p-HBAD) []. Members of this family are about 220 amino acids long. It also includes the CmcI protein O85726 from SWISSPROT, which is presumed to represent the cephalosporin-7--hydroxylase []. However this has not been experimentally verified.; GO: 0008168 methyltransferase activity, 0008610 lipid biosynthetic process; PDB: 2BR4_B 2BR3_E 2BR5_E 2BM8_J 2BM9_E.
Probab=23.72 E-value=77 Score=28.46 Aligned_cols=33 Identities=21% Similarity=0.318 Sum_probs=23.4
Q ss_pred cccEEEe-CC---CCchhhHHHHHHHHHcCCCEEEEEe
Q psy9430 6 RKPILID-GR---GHLLGRLASIVAKTILNGNRVVVVR 39 (255)
Q Consensus 6 ~~w~viD-a~---~~~lGrlas~iA~~L~~Gd~vvvin 39 (255)
+.|+||| +. .|+++-|.. .+..+..|++.||=.
T Consensus 111 ~~vlVilDs~H~~~hvl~eL~~-y~plv~~G~Y~IVeD 147 (206)
T PF04989_consen 111 HPVLVILDSSHTHEHVLAELEA-YAPLVSPGSYLIVED 147 (206)
T ss_dssp SSEEEEESS----SSHHHHHHH-HHHT--TT-EEEETS
T ss_pred CceEEEECCCccHHHHHHHHHH-hCccCCCCCEEEEEe
Confidence 5676665 55 699999999 999999999999844
No 72
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=23.42 E-value=75 Score=26.76 Aligned_cols=23 Identities=35% Similarity=0.276 Sum_probs=20.2
Q ss_pred CchhhHHHHHHHHHcCCCEEEEE
Q psy9430 16 HLLGRLASIVAKTILNGNRVVVV 38 (255)
Q Consensus 16 ~~lGrlas~iA~~L~~Gd~vvvi 38 (255)
...|++|..+++.|..||.|.|.
T Consensus 59 ~~wg~~Ae~v~~~l~KG~~V~V~ 81 (148)
T PRK08182 59 ELWHRDAEHWARLYQKGMRVLVE 81 (148)
T ss_pred EEEhHHHHHHHHhcCCCCEEEEE
Confidence 37899999999999999998774
No 73
>TIGR00621 ssb single stranded DNA-binding protein (ssb). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=23.12 E-value=68 Score=27.26 Aligned_cols=23 Identities=35% Similarity=0.544 Sum_probs=20.3
Q ss_pred chhhHHHHHHHHHcCCCEEEEEe
Q psy9430 17 LLGRLASIVAKTILNGNRVVVVR 39 (255)
Q Consensus 17 ~lGrlas~iA~~L~~Gd~vvvin 39 (255)
+.|++|..+++.|..|+.|+|.-
T Consensus 57 ~wg~~Ae~~~~~l~KG~~V~V~G 79 (164)
T TIGR00621 57 IFGRLAEVAAQYLKKGSLVYVEG 79 (164)
T ss_pred EehHHHHHHHHhCCCCCEEEEEE
Confidence 68889999999999999988753
No 74
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=22.73 E-value=71 Score=27.99 Aligned_cols=22 Identities=32% Similarity=0.608 Sum_probs=19.7
Q ss_pred chhhHHHHHHHHHcCCCEEEEE
Q psy9430 17 LLGRLASIVAKTILNGNRVVVV 38 (255)
Q Consensus 17 ~lGrlas~iA~~L~~Gd~vvvi 38 (255)
+.|++|..++..|..|+.|.|-
T Consensus 55 ~fg~~AE~~~~~l~KG~~V~Ve 76 (182)
T PRK08486 55 LFGRTAEIANQYLSKGSKVLIE 76 (182)
T ss_pred EEhHHHHHHHHHcCCCCEEEEE
Confidence 6899999999999999998763
No 75
>KOG1154|consensus
Probab=22.67 E-value=86 Score=29.35 Aligned_cols=33 Identities=36% Similarity=0.472 Sum_probs=25.6
Q ss_pred CCCCcchhhHHHH---HHHHhCCCEEEEEeecceee
Q psy9430 91 GRGHLLGRLASIV---AKTILNGNRVVVVRAELLNI 123 (255)
Q Consensus 91 A~g~~LGRLAs~V---Ak~Ll~Gd~VVVVNaeki~i 123 (255)
..|--|||||+.| +++=+.|..|++|-+.-|.+
T Consensus 26 ~~~laLgrla~IVEqV~~L~~~G~evilVSSGaVA~ 61 (285)
T KOG1154|consen 26 TCGLALGRLASIVEQVSELQRMGREVILVSSGAVAF 61 (285)
T ss_pred CccchHHHHHHHHHHHHHHHhcCceEEEEecchhhh
Confidence 3455899999965 55446999999999887776
No 76
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=22.55 E-value=70 Score=27.91 Aligned_cols=22 Identities=27% Similarity=0.570 Sum_probs=19.7
Q ss_pred chhhHHHHHHHHHcCCCEEEEE
Q psy9430 17 LLGRLASIVAKTILNGNRVVVV 38 (255)
Q Consensus 17 ~lGrlas~iA~~L~~Gd~vvvi 38 (255)
+.|++|..++..|..||.|+|.
T Consensus 60 ~wgk~Ae~v~~~L~KG~~V~Ve 81 (175)
T PRK13732 60 LFGKLAEVAGEYLRKGAQVYIE 81 (175)
T ss_pred EecHHHHHHHHhcCCCCEEEEE
Confidence 6788999999999999998774
No 77
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=22.15 E-value=86 Score=27.17 Aligned_cols=28 Identities=21% Similarity=0.202 Sum_probs=23.1
Q ss_pred ccEEEeCCCCchhhHHHHHHHHHcCCCEEEEE
Q psy9430 7 KPILIDGRGHLLGRLASIVAKTILNGNRVVVV 38 (255)
Q Consensus 7 ~w~viDa~~~~lGrlas~iA~~L~~Gd~vvvi 38 (255)
.|+=|. +.|++|..+++.|..|+.|.|.
T Consensus 52 ~w~~Vv----~fgk~AE~v~~~LkKGs~V~Ve 79 (168)
T PRK06863 52 EWHRIV----FYRRQAEVAGEYLRKGSQVYVE 79 (168)
T ss_pred eEEEEE----EEhHHHHHHHHHCCCCCEEEEE
Confidence 476663 6789999999999999998774
No 78
>smart00846 Gp_dh_N Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain. GAPDH is a tetrameric NAD-binding enzyme involved in glycolysis and glyconeogenesis. N-terminal domain is a Rossmann NAD(P) binding fold.
Probab=21.24 E-value=4.1e+02 Score=22.16 Aligned_cols=31 Identities=19% Similarity=0.383 Sum_probs=18.7
Q ss_pred EEEcCCCCcchhhHHHHHHHHhCCCEEEEEeec
Q psy9430 87 ILIDGRGHLLGRLASIVAKTILNGNRVVVVRAE 119 (255)
Q Consensus 87 ~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVNae 119 (255)
+|||++|...-+- .....|..|-+-||+-|.
T Consensus 90 iVie~tG~f~~~~--~~~~hl~~GakkViisap 120 (149)
T smart00846 90 IVVECTGKFTTRE--KASAHLKAGAKKVIISAP 120 (149)
T ss_pred EEEeccccccchH--HHHHHHHcCCCEEEeCCC
Confidence 8999999754433 334566677444444443
No 79
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=21.12 E-value=1e+02 Score=22.35 Aligned_cols=21 Identities=38% Similarity=0.618 Sum_probs=14.4
Q ss_pred ehhhhhhhhCCc-hHHHHHHHH
Q psy9430 217 SVGRISHEVGWK-YKTIVRHLE 237 (255)
Q Consensus 217 ~lgel~~~~Gwk-~~~~~~~le 237 (255)
|+.|||+.||++ ...|-..|+
T Consensus 27 t~rEIa~~~g~~S~~tv~~~L~ 48 (65)
T PF01726_consen 27 TVREIAEALGLKSTSTVQRHLK 48 (65)
T ss_dssp -HHHHHHHHTSSSHHHHHHHHH
T ss_pred CHHHHHHHhCCCChHHHHHHHH
Confidence 789999999999 444444443
No 80
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=20.99 E-value=84 Score=27.33 Aligned_cols=30 Identities=20% Similarity=0.342 Sum_probs=24.6
Q ss_pred ceeEEEcCCCCcchhhHHHHHHHHhCCCEEEEEe
Q psy9430 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVR 117 (255)
Q Consensus 84 r~w~vIDA~g~~LGRLAs~VAk~Ll~Gd~VVVVN 117 (255)
-.|+-|. +.|++|..++..|..|+.|.|.-
T Consensus 52 T~w~~Vv----~fgk~Ae~v~~~l~KGs~V~VeG 81 (172)
T PRK05733 52 TEWHRVS----LFGKVAEIAGEYLRKGSQVYIEG 81 (172)
T ss_pred ceEEEEE----EehHHHHHHHHHhCCCCEEEEEE
Confidence 4688775 46789999999999999988753
No 81
>PF04379 DUF525: Protein of unknown function (DUF525); InterPro: IPR007474 This domain is found in the bacterial protein ApaG and at the C termini of some F-box proteins (IPR001810 from INTERPRO). F-box proteins contain a carboxy-terminal domain that interacts with protein substrates []. The ApaG domain is ~125 amino acids in length, and is named after the bacterial ApaG protein, of which it forms the core. The Salmonella typhimurium ApaG domain protein, CorD, is involved in Co(2+) resistance and Mg(2+) efflux. Tertiary structures from different ApaG proteins show a fold of several beta-sheets. The ApaG domain may be involved in protein-protein interactions which could be implicated in substrate-specificity [, , ].; PDB: 2F1E_A 1XVS_A 1TZA_A 1XQ4_D.
Probab=20.80 E-value=45 Score=25.92 Aligned_cols=14 Identities=43% Similarity=0.733 Sum_probs=10.6
Q ss_pred CCcccEEEeCCCCc
Q psy9430 4 ISRKPILIDGRGHL 17 (255)
Q Consensus 4 ~~~~w~viDa~~~~ 17 (255)
.+|.|.|.|+.|++
T Consensus 31 ~sR~W~I~d~~g~~ 44 (90)
T PF04379_consen 31 LSRHWIITDADGHV 44 (90)
T ss_dssp EEEEEEEEETTS-E
T ss_pred EccEEEEEeCCCCE
Confidence 36899999999853
No 82
>PRK05097 Ter macrodomain organizer matS-binding protein; Provisional
Probab=20.79 E-value=1.1e+02 Score=26.10 Aligned_cols=81 Identities=14% Similarity=0.142 Sum_probs=55.0
Q ss_pred ccCchHhHHHHHhccCCCC-ChhHHHhhccCeeecCCCCchhhcccccccccccccccCCCCCeeehhhhhhhhCCchHH
Q psy9430 153 YRAPARIFWKTVRGMTPHK-LDRGAKALKRLKVYEGIPPKYARRQRLCVPTALRTVCLKPGRSYCSVGRISHEVGWKYKT 231 (255)
Q Consensus 153 ~r~P~~Il~raVrGMLPkk-n~~gr~~l~rLkvy~G~~hp~~~qk~~~~p~al~~~~l~~~~k~~~lgel~~~~Gwk~~~ 231 (255)
+..|+.|+...=..|-|-- |++....-.|=|=|-+.+|.|...+.+.+.-+ -.-.|..+|..+|-...|
T Consensus 48 e~~P~~v~~WI~~hm~p~l~nklkQaIRArRKRhFNAE~qhTrKKSIDLey~----------vW~rLs~~a~~~~~TLSe 117 (150)
T PRK05097 48 ENEPVKVLEWIDKHMNPELVNRMKQTIRARRKRHFNAEHQHTRKKSIDLEYR----------VWQRLAGLAQRRGKTLSE 117 (150)
T ss_pred ccCcHHHHHHHHHhcCHHHHHHHHHHHHHHHHccCCcccccccccCccccHH----------HHHHHHHHHHHcCCcHHH
Confidence 5689999999999999931 33443333344445577899988874433321 144566789999999999
Q ss_pred HHHHHHH--HHHHH
Q psy9430 232 IVRHLER--KRREK 243 (255)
Q Consensus 232 ~~~~le~--~r~~~ 243 (255)
.+..|-+ +|+++
T Consensus 118 tI~~li~eae~ke~ 131 (150)
T PRK05097 118 TIVQLIEDAERKEK 131 (150)
T ss_pred HHHHHHHHHHHHHH
Confidence 9988854 45544
No 83
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=20.33 E-value=75 Score=27.62 Aligned_cols=22 Identities=23% Similarity=0.166 Sum_probs=19.5
Q ss_pred chhhHHHHHHHHHcCCCEEEEE
Q psy9430 17 LLGRLASIVAKTILNGNRVVVV 38 (255)
Q Consensus 17 ~lGrlas~iA~~L~~Gd~vvvi 38 (255)
+.|++|..+|..|..||.|+|-
T Consensus 53 ~wgk~Ae~~~~~l~KG~~V~Ve 74 (173)
T PRK06751 53 IWRKQAENVANYLKKGSLAGVD 74 (173)
T ss_pred EeCcHHHHHHHHcCCCCEEEEE
Confidence 7788999999999999998763
No 84
>PF14419 SPOUT_MTase_2: AF2226-like SPOUT RNA Methylase fused to THUMP
Probab=20.13 E-value=1.6e+02 Score=25.78 Aligned_cols=35 Identities=20% Similarity=0.283 Sum_probs=29.6
Q ss_pred cEEEeCCCCchhhHHHHHHHHHcCCCEEEEEeccc
Q psy9430 8 PILIDGRGHLLGRLASIVAKTILNGNRVVVVRAEL 42 (255)
Q Consensus 8 w~viDa~~~~lGrlas~iA~~L~~Gd~vvvina~~ 42 (255)
-+|.|.+|..+-+++-.+|+.|+.++.|+|.-...
T Consensus 96 lIvtdPkG~~is~vk~~L~~~~r~~~eV~v~iGSR 130 (173)
T PF14419_consen 96 LIVTDPKGDPISEVKDKLAEDLRYAKEVVVFIGSR 130 (173)
T ss_pred EEEECCCCCcHHHHHHHHHHHHhhCcEEEEEEEcc
Confidence 36789999999999999999999998888765444
No 85
>KOG1384|consensus
Probab=20.02 E-value=1.1e+02 Score=29.64 Aligned_cols=33 Identities=18% Similarity=0.400 Sum_probs=27.4
Q ss_pred EEEeCCCCchhhHHHHHHHHHcCCCEEEEEeccceee
Q psy9430 9 ILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNI 45 (255)
Q Consensus 9 ~viDa~~~~lGrlas~iA~~L~~Gd~vvvina~~i~~ 45 (255)
+|+-++|--.-|||..+|+. ..| -||||++++|
T Consensus 11 vI~G~TGsGKSrLaVdLA~r-f~~---EIINsDkmQv 43 (348)
T KOG1384|consen 11 VIMGATGAGKSRLAVDLATR-FPG---EIINSDKMQV 43 (348)
T ss_pred EEecCCCCChhhhHHHHHHh-CCc---eeecccceee
Confidence 45678899999999999998 445 4789999987
Done!