Query 036963
Match_columns 194
No_of_seqs 175 out of 1124
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 07:09:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036963.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036963hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00018 AP2 DNA-binding domain 99.8 7.4E-21 1.6E-25 131.8 7.1 61 5-65 1-61 (61)
2 smart00380 AP2 DNA-binding dom 99.8 6.6E-20 1.4E-24 128.7 7.4 62 6-67 1-62 (64)
3 PHA00280 putative NHN endonucl 99.4 3.3E-13 7.1E-18 107.1 6.6 55 2-59 64-119 (121)
4 PF00847 AP2: AP2 domain; Int 99.2 5.2E-11 1.1E-15 80.4 5.8 52 5-56 1-56 (56)
5 PF14657 Integrase_AP2: AP2-li 88.4 1.6 3.4E-05 28.6 5.0 38 17-54 1-42 (46)
6 cd00801 INT_P4 Bacteriophage P 79.4 4 8.7E-05 34.7 5.1 39 15-53 9-49 (357)
7 PHA02601 int integrase; Provis 74.2 5.2 0.00011 34.6 4.4 44 9-53 2-46 (333)
8 PF13356 DUF4102: Domain of un 72.1 11 0.00024 27.3 5.1 38 16-53 35-74 (89)
9 PF08846 DUF1816: Domain of un 69.3 10 0.00022 27.7 4.2 42 17-58 9-50 (68)
10 PF05036 SPOR: Sporulation rel 57.9 9.9 0.00021 25.5 2.4 25 26-50 41-65 (76)
11 PRK09692 integrase; Provisiona 47.3 58 0.0012 29.4 6.2 38 11-48 34-77 (413)
12 PLN00062 TATA-box-binding prot 47.0 76 0.0016 26.8 6.5 55 5-62 34-89 (179)
13 COG0197 RplP Ribosomal protein 45.6 33 0.00071 28.5 4.0 37 17-56 95-131 (146)
14 cd04517 TLF TBP-like factors ( 43.9 78 0.0017 26.4 6.0 46 6-54 35-81 (174)
15 cd04516 TBP_eukaryotes eukaryo 39.9 1.1E+02 0.0025 25.5 6.4 49 5-56 34-83 (174)
16 PF08471 Ribonuc_red_2_N: Clas 37.9 34 0.00074 26.5 2.8 21 33-53 70-90 (93)
17 PF12286 DUF3622: Protein of u 35.6 59 0.0013 24.1 3.5 31 14-44 14-48 (71)
18 KOG2675 Adenylate cyclase-asso 34.2 31 0.00067 33.6 2.4 21 37-57 161-182 (480)
19 PF09954 DUF2188: Uncharacteri 32.8 1.3E+02 0.0028 20.4 4.8 39 10-52 3-41 (62)
20 TIGR01164 rplP_bact ribosomal 32.5 76 0.0017 25.3 4.1 33 17-53 91-124 (126)
21 PF10729 CedA: Cell division a 31.8 1.1E+02 0.0024 22.9 4.5 39 3-44 29-67 (80)
22 PF00352 TBP: Transcription fa 31.8 1.2E+02 0.0026 22.0 4.7 47 5-54 36-83 (86)
23 KOG4307 RNA binding protein RB 29.9 28 0.0006 36.0 1.4 29 35-63 46-74 (944)
24 cd00652 TBP_TLF TATA box bindi 29.2 2.2E+02 0.0047 23.7 6.4 47 5-54 34-81 (174)
25 PRK09203 rplP 50S ribosomal pr 29.0 84 0.0018 25.4 3.8 35 17-55 92-127 (138)
26 CHL00044 rpl16 ribosomal prote 28.9 91 0.002 25.2 4.0 35 17-55 92-127 (135)
27 PF14112 DUF4284: Domain of un 27.8 37 0.0008 26.7 1.5 18 29-46 2-19 (122)
28 PRK10927 essential cell divisi 27.6 82 0.0018 29.3 3.9 34 18-51 273-306 (319)
29 KOG1924 RhoA GTPase effector D 25.4 55 0.0012 34.4 2.6 24 83-106 536-564 (1102)
30 cd04518 TBP_archaea archaeal T 24.9 2.5E+02 0.0055 23.4 6.1 49 4-55 33-82 (174)
31 TIGR00279 L10e ribosomal prote 23.7 95 0.0021 26.4 3.3 36 17-55 121-158 (172)
32 COG3087 FtsN Cell division pro 23.4 1E+02 0.0022 28.0 3.6 32 18-49 216-249 (264)
33 smart00773 WGR Proposed nuclei 22.4 1.8E+02 0.0039 20.8 4.2 22 35-56 54-75 (84)
34 PRK10905 cell division protein 20.8 1.7E+02 0.0036 27.5 4.5 24 30-53 287-310 (328)
35 PF01213 CAP_N: Adenylate cycl 20.2 36 0.00077 31.2 0.1 10 39-48 159-168 (312)
36 KOG3422 Mitochondrial ribosoma 20.1 2.1E+02 0.0046 25.4 4.8 38 17-56 133-170 (221)
No 1
>cd00018 AP2 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor element essential for ethylene responsiveness. EREBPs and the C-repeat binding factor CBF1, which is involved in stress response, contain a single copy of the AP2 domain. APETALA2-like proteins, which play a role in plant development contain two copies.
Probab=99.84 E-value=7.4e-21 Score=131.85 Aligned_cols=61 Identities=70% Similarity=1.259 Sum_probs=57.0
Q ss_pred CceeeEEECCCCcEEEEEeCCCCCcEEecccccCHHHHHHHHHHHHHHhcCCCCCCCCChh
Q 036963 5 RHYRGVRQRPWGKWAAEIRDPKKAARVWLGTFDTAEAAALAYDEAALRFKGSKAKLNFPER 65 (194)
Q Consensus 5 S~YRGVr~r~~GKW~A~I~~~~kgkri~LGtFdT~EEAA~AYD~Aa~kl~G~~A~lNFP~~ 65 (194)
|+|+||+++++|||+|+|+++..++++|||+|+|+||||.|||+|+++++|.++.+|||++
T Consensus 1 s~~~GV~~~~~gkw~A~I~~~~~gk~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~ 61 (61)
T cd00018 1 SKYRGVRQRPWGKWVAEIRDPSGGRRIWLGTFDTAEEAARAYDRAALKLRGSSAVLNFPDS 61 (61)
T ss_pred CCccCEEECCCCcEEEEEEeCCCCceEccCCCCCHHHHHHHHHHHHHHhcCCccccCCCCC
Confidence 6899998888899999999876688999999999999999999999999999999999974
No 2
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.81 E-value=6.6e-20 Score=128.67 Aligned_cols=62 Identities=71% Similarity=1.283 Sum_probs=57.8
Q ss_pred ceeeEEECCCCcEEEEEeCCCCCcEEecccccCHHHHHHHHHHHHHHhcCCCCCCCCChhhh
Q 036963 6 HYRGVRQRPWGKWAAEIRDPKKAARVWLGTFDTAEAAALAYDEAALRFKGSKAKLNFPERVQ 67 (194)
Q Consensus 6 ~YRGVr~r~~GKW~A~I~~~~kgkri~LGtFdT~EEAA~AYD~Aa~kl~G~~A~lNFP~~~~ 67 (194)
+|+||+++++|||+|+|+++.+++.++||+|+|+||||.|||.|+++++|..+++|||...+
T Consensus 1 ~~kGV~~~~~gkw~A~I~~~~~~k~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~~y 62 (64)
T smart00380 1 KYRGVRQRPWGKWVAEIRDPSKGKRVWLGTFDTAEEAARAYDRAAFKFRGRSARLNFPNSLY 62 (64)
T ss_pred CEeeEEeCCCCeEEEEEEecCCCcEEecCCCCCHHHHHHHHHHHHHHhcCCccccCCCCccC
Confidence 59999878889999999987788999999999999999999999999999999999998654
No 3
>PHA00280 putative NHN endonuclease
Probab=99.42 E-value=3.3e-13 Score=107.11 Aligned_cols=55 Identities=15% Similarity=0.267 Sum_probs=48.3
Q ss_pred CCCCceeeEE-ECCCCcEEEEEeCCCCCcEEecccccCHHHHHHHHHHHHHHhcCCCCC
Q 036963 2 VRRRHYRGVR-QRPWGKWAAEIRDPKKAARVWLGTFDTAEAAALAYDEAALRFKGSKAK 59 (194)
Q Consensus 2 ~r~S~YRGVr-~r~~GKW~A~I~~~~kgkri~LGtFdT~EEAA~AYD~Aa~kl~G~~A~ 59 (194)
.++|+|+||. .+..|||+|+|. .+||+++||.|+++|+|+.||+ ++++++|++|.
T Consensus 64 ~N~SG~kGV~~~k~~~kw~A~I~--~~gK~~~lG~f~~~e~A~~a~~-~~~~lhGeFa~ 119 (121)
T PHA00280 64 SNTSGLKGLSWSKEREMWRGTVT--AEGKQHNFRSRDLLEVVAWIYR-TRRELHGQFAR 119 (121)
T ss_pred CCCCCCCeeEEecCCCeEEEEEE--ECCEEEEcCCCCCHHHHHHHHH-HHHHHhhcccc
Confidence 3579999994 567899999999 6677999999999999999997 77889999875
No 4
>PF00847 AP2: AP2 domain; InterPro: IPR001471 Pathogenesis-related genes transcriptional activator binds to the GCC-box pathogenesis-related promoter element and activates the plant's defence genes. Ethylene, chemically the simplest plant hormone, participates in a number of stress responses and developmental processes: e.g., fruit ripening, inhibition of stem and root elongation, promotion of seed germination and flowering, senescence of leaves and flowers, and sex determination []. DNA sequence elements that confer ethylene responsiveness have been shown to contain two 11bp GCC boxes, which are necessary and sufficient for transcriptional control by ethylene. Ethylene responsive element binding proteins (EREBPs) have now been identified in a variety of plants. The proteins share a similar domain of around 59 amino acids, which interacts directly with the GCC box in the ERE.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3IGM_A 3GCC_A 1GCC_A 2GCC_A.
Probab=99.18 E-value=5.2e-11 Score=80.44 Aligned_cols=52 Identities=35% Similarity=0.503 Sum_probs=44.5
Q ss_pred CceeeEE-ECCCCcEEEEEeCCC---CCcEEecccccCHHHHHHHHHHHHHHhcCC
Q 036963 5 RHYRGVR-QRPWGKWAAEIRDPK---KAARVWLGTFDTAEAAALAYDEAALRFKGS 56 (194)
Q Consensus 5 S~YRGVr-~r~~GKW~A~I~~~~---kgkri~LGtFdT~EEAA~AYD~Aa~kl~G~ 56 (194)
|+|+||+ .+..++|+|+|++.. +++.++||.|+++|||++|++.++++++|+
T Consensus 1 s~~~GV~~~~~~~~W~a~i~~~~~~g~~k~f~~g~fg~~~eA~~~a~~~r~~~~~e 56 (56)
T PF00847_consen 1 SGYKGVSWDKRRGRWRAQIRVWSENGKRKRFSVGKFGFEEEAKRAAIEARKELEGE 56 (56)
T ss_dssp SSSTTEEEETTTTEEEEEEEECCCTTEEEEEEECCCCCHHHHHHHHHHHHHHCTS-
T ss_pred CCcEEEEEcCCCCEEEEEEEEcccCcccEEEeCccCCCHHHHHHHHHHHHHHhcCC
Confidence 6899995 556899999999731 148999999999999999999999999875
No 5
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=88.39 E-value=1.6 Score=28.59 Aligned_cols=38 Identities=18% Similarity=0.226 Sum_probs=30.0
Q ss_pred cEEEEEe--C--CCCCcEEecccccCHHHHHHHHHHHHHHhc
Q 036963 17 KWAAEIR--D--PKKAARVWLGTFDTAEAAALAYDEAALRFK 54 (194)
Q Consensus 17 KW~A~I~--~--~~kgkri~LGtFdT~EEAA~AYD~Aa~kl~ 54 (194)
+|..+|. + .++.++++-+-|.|..||..+..++...+.
T Consensus 1 ~w~~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~~~~~ 42 (46)
T PF14657_consen 1 TWYYRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKIEAELE 42 (46)
T ss_pred CEEEEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHHHHHHH
Confidence 5888883 3 355678899999999999999988776653
No 6
>cd00801 INT_P4 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall reaction mechanism with the superfamily of DNA breaking-rejoining enzymes. The P4 integrase mediates integrative and excisive site-specific recombination between two sites, called attachment sites, located on the phage genome and the bacterial chromosome. The phage attachment site is often found adjacent to the integrase gene, while the host attachment sites are typically situated near tRNA genes.
Probab=79.36 E-value=4 Score=34.74 Aligned_cols=39 Identities=26% Similarity=0.290 Sum_probs=30.1
Q ss_pred CCcEEEEEeCCCCCcEEeccccc--CHHHHHHHHHHHHHHh
Q 036963 15 WGKWAAEIRDPKKAARVWLGTFD--TAEAAALAYDEAALRF 53 (194)
Q Consensus 15 ~GKW~A~I~~~~kgkri~LGtFd--T~EEAA~AYD~Aa~kl 53 (194)
.+.|..+++..++.+++.||+|+ +.++|.....+....+
T Consensus 9 ~~~~~~~~~~~g~~~~~~~g~~~~~~~~~A~~~~~~~~~~~ 49 (357)
T cd00801 9 SKSWRFRYRLAGKRKRLTLGSYPAVSLAEAREKADEARALL 49 (357)
T ss_pred CEEEEEEeccCCceeEEeCcCCCCCCHHHHHHHHHHHHHHH
Confidence 45799999988888889999995 6777777766654444
No 7
>PHA02601 int integrase; Provisional
Probab=74.15 E-value=5.2 Score=34.59 Aligned_cols=44 Identities=25% Similarity=0.301 Sum_probs=29.9
Q ss_pred eEEECCCCcEEEEEeCC-CCCcEEecccccCHHHHHHHHHHHHHHh
Q 036963 9 GVRQRPWGKWAAEIRDP-KKAARVWLGTFDTAEAAALAYDEAALRF 53 (194)
Q Consensus 9 GVr~r~~GKW~A~I~~~-~kgkri~LGtFdT~EEAA~AYD~Aa~kl 53 (194)
+|++.++|+|+++|... ..|+++. .+|.|..||...-+......
T Consensus 2 ~~~~~~~g~w~~~~~~~~~~g~r~~-~~f~tk~eA~~~~~~~~~~~ 46 (333)
T PHA02601 2 AVRKLKDGKWLCEIYPNGRDGKRIR-KRFATKGEALAFENYTMAEV 46 (333)
T ss_pred ceEEcCCCCEEEEEEECCCCCchhh-hhhcCHHHHHHHHHHHHHhc
Confidence 57777789999999853 2355554 36999998876655544443
No 8
>PF13356 DUF4102: Domain of unknown function (DUF4102); PDB: 3JU0_A 3RMP_A 3JTZ_A 2KJ8_A.
Probab=72.06 E-value=11 Score=27.34 Aligned_cols=38 Identities=18% Similarity=0.100 Sum_probs=28.3
Q ss_pred CcEEEEEeCCCCCcEEecccccC--HHHHHHHHHHHHHHh
Q 036963 16 GKWAAEIRDPKKAARVWLGTFDT--AEAAALAYDEAALRF 53 (194)
Q Consensus 16 GKW~A~I~~~~kgkri~LGtFdT--~EEAA~AYD~Aa~kl 53 (194)
..|..+.+..++.+++-||.|.. .+||.....+....+
T Consensus 35 kt~~~r~~~~gk~~~~~lG~~p~~sl~~AR~~a~~~~~~~ 74 (89)
T PF13356_consen 35 KTFYFRYRINGKRRRITLGRYPELSLAEAREKARELRALV 74 (89)
T ss_dssp EEEEEEEEETTEEEEEEEEECTTS-HHHHHHHHHHHHHHH
T ss_pred eEEEEEEEecceEEEeccCCCccCCHHHHHHHHHHHHHHH
Confidence 35999999888888999999976 666666655544444
No 9
>PF08846 DUF1816: Domain of unknown function (DUF1816); InterPro: IPR014945 Q4C9H3 from SWISSPROT is associated with the IPR008213 from INTERPRO domain suggesting this protein could have a role in phycobilisomes.
Probab=69.32 E-value=10 Score=27.73 Aligned_cols=42 Identities=24% Similarity=0.377 Sum_probs=32.5
Q ss_pred cEEEEEeCCCCCcEEecccccCHHHHHHHHHHHHHHhcCCCC
Q 036963 17 KWAAEIRDPKKAARVWLGTFDTAEAAALAYDEAALRFKGSKA 58 (194)
Q Consensus 17 KW~A~I~~~~kgkri~LGtFdT~EEAA~AYD~Aa~kl~G~~A 58 (194)
.|=++|.-..-.-.+|.|-|++.+||..+-..-...+..+.+
T Consensus 9 aWWveI~T~~P~ctYyFGPF~s~~eA~~~~~gyieDL~~Ega 50 (68)
T PF08846_consen 9 AWWVEIETQNPNCTYYFGPFDSREEAEAALPGYIEDLESEGA 50 (68)
T ss_pred cEEEEEEcCCCCEEEEeCCcCCHHHHHHHhccHHHHHHhhCc
Confidence 466888866666789999999999999987766666655543
No 10
>PF05036 SPOR: Sporulation related domain; InterPro: IPR007730 This 70 residue domain is composed of two 35 residue repeats that are found in bacterial proteins involved in sporulation and cell division, such as FtsN, CwlM and RlpA. This repeat might be involved in binding peptidoglycan. FtsN is an essential cell division protein with a simple bitopic topology: a short N-terminal cytoplasmic segment fused to a large carboxy periplasmic domain through a single transmembrane domain. The repeats lie at the periplasmic C terminus, which has an RNP-like fold []. FtsN localises to the septum ring complex. The CwlM protein is a cell wall hydrolase, where the C-terminal region, including the repeats, determines substrate specificity []. RlpA is a rare lipoprotein A protein that may be important for cell division. Its N-terminal cysteine may be attached to thioglyceride and N-fatty acyl residues [].; PDB: 1X60_A 1UTA_A.
Probab=57.91 E-value=9.9 Score=25.51 Aligned_cols=25 Identities=28% Similarity=0.300 Sum_probs=20.0
Q ss_pred CCCcEEecccccCHHHHHHHHHHHH
Q 036963 26 KKAARVWLGTFDTAEAAALAYDEAA 50 (194)
Q Consensus 26 ~kgkri~LGtFdT~EEAA~AYD~Aa 50 (194)
..--+|.+|.|++.+||..+..+..
T Consensus 41 ~~~yrV~~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 41 GPWYRVRVGPFSSREEAEAALRKLK 65 (76)
T ss_dssp TTCEEEEECCECTCCHHHHHHHHHH
T ss_pred CceEEEEECCCCCHHHHHHHHHHHh
Confidence 3445789999999999988887666
No 11
>PRK09692 integrase; Provisional
Probab=47.29 E-value=58 Score=29.44 Aligned_cols=38 Identities=24% Similarity=0.283 Sum_probs=23.9
Q ss_pred EECCCC--cEEEEEeCC--CCCcEEeccccc--CHHHHHHHHHH
Q 036963 11 RQRPWG--KWAAEIRDP--KKAARVWLGTFD--TAEAAALAYDE 48 (194)
Q Consensus 11 r~r~~G--KW~A~I~~~--~kgkri~LGtFd--T~EEAA~AYD~ 48 (194)
+-.+.| .|..+.+.+ ++.+.+-||.|. |..||..+..+
T Consensus 34 ~v~~~G~k~~~~rY~~~~~gk~~~~~lG~yp~~sl~~AR~~a~~ 77 (413)
T PRK09692 34 LIKSSGSKIWQFRYYRPLTKTRAKKSFGPYPSVTLADARNYRAE 77 (413)
T ss_pred EEECCCcEEEEEEEecCCCCceeeeeCCCCCCCCHHHHHHHHHH
Confidence 334444 599988644 444457899998 66666554433
No 12
>PLN00062 TATA-box-binding protein; Provisional
Probab=47.02 E-value=76 Score=26.76 Aligned_cols=55 Identities=18% Similarity=0.070 Sum_probs=36.2
Q ss_pred CceeeEE-ECCCCcEEEEEeCCCCCcEEecccccCHHHHHHHHHHHHHHhcCCCCCCCC
Q 036963 5 RHYRGVR-QRPWGKWAAEIRDPKKAARVWLGTFDTAEAAALAYDEAALRFKGSKAKLNF 62 (194)
Q Consensus 5 S~YRGVr-~r~~GKW~A~I~~~~kgkri~LGtFdT~EEAA~AYD~Aa~kl~G~~A~lNF 62 (194)
.+|.||. +-..-|-.+-|. ..||-+--| -.++|||..|.++.+..+..-....+|
T Consensus 34 e~fpgli~Rl~~Pk~t~lIF--~SGKiviTG-aks~e~a~~a~~~~~~~L~~lg~~~~~ 89 (179)
T PLN00062 34 KRFAAVIMRIREPKTTALIF--ASGKMVCTG-AKSEHDSKLAARKYARIIQKLGFPAKF 89 (179)
T ss_pred ccCcEEEEEeCCCcEEEEEE--CCCeEEEEe-cCCHHHHHHHHHHHHHHHHHcCCCcCC
Confidence 4688984 334556778888 445455555 478899999999888877433333333
No 13
>COG0197 RplP Ribosomal protein L16/L10E [Translation, ribosomal structure and biogenesis]
Probab=45.59 E-value=33 Score=28.49 Aligned_cols=37 Identities=22% Similarity=0.187 Sum_probs=30.1
Q ss_pred cEEEEEeCCCCCcEEecccccCHHHHHHHHHHHHHHhcCC
Q 036963 17 KWAAEIRDPKKAARVWLGTFDTAEAAALAYDEAALRFKGS 56 (194)
Q Consensus 17 KW~A~I~~~~kgkri~LGtFdT~EEAA~AYD~Aa~kl~G~ 56 (194)
.|+|+|. .|+.++-=...+++.|.+|..+|+.+|=+.
T Consensus 95 gwaArVk---pG~vlfei~g~~e~~A~EAlr~Aa~KLP~~ 131 (146)
T COG0197 95 GWAARVK---PGRVLFEIAGVPEELAREALRRAAAKLPVK 131 (146)
T ss_pred EEEEEec---CCcEEEEEecCcHHHHHHHHHHHhhcCCCc
Confidence 3999998 455777777788999999999999888544
No 14
>cd04517 TLF TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans. TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the basal transcription machinery. Yet, in contrast to TBPs, TLFs seem not to interact with the TATA-box and even have a negative effect on the transcription of TATA-containing promoters. Recent results indicate that TLFs are involved in the transcription via TATA-less promoters.
Probab=43.89 E-value=78 Score=26.39 Aligned_cols=46 Identities=22% Similarity=0.143 Sum_probs=33.1
Q ss_pred ceeeEEEC-CCCcEEEEEeCCCCCcEEecccccCHHHHHHHHHHHHHHhc
Q 036963 6 HYRGVRQR-PWGKWAAEIRDPKKAARVWLGTFDTAEAAALAYDEAALRFK 54 (194)
Q Consensus 6 ~YRGVr~r-~~GKW~A~I~~~~kgkri~LGtFdT~EEAA~AYD~Aa~kl~ 54 (194)
+|.||..| ..-|-.+-|.. .||-+--| ..++|+|++|.++.+..+.
T Consensus 35 ~fpgli~R~~~Pk~t~lIF~--sGKiviTG-aks~~~~~~a~~~~~~~l~ 81 (174)
T cd04517 35 RYPKVTMRLREPRATASVWS--SGKITITG-ATSEEEAKQAARRAARLLQ 81 (174)
T ss_pred CCCEEEEEecCCcEEEEEEC--CCeEEEEc-cCCHHHHHHHHHHHHHHHH
Confidence 78898433 44677888884 44454444 5889999999998877773
No 15
>cd04516 TBP_eukaryotes eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=39.91 E-value=1.1e+02 Score=25.50 Aligned_cols=49 Identities=18% Similarity=0.100 Sum_probs=34.4
Q ss_pred CceeeEE-ECCCCcEEEEEeCCCCCcEEecccccCHHHHHHHHHHHHHHhcCC
Q 036963 5 RHYRGVR-QRPWGKWAAEIRDPKKAARVWLGTFDTAEAAALAYDEAALRFKGS 56 (194)
Q Consensus 5 S~YRGVr-~r~~GKW~A~I~~~~kgkri~LGtFdT~EEAA~AYD~Aa~kl~G~ 56 (194)
.+|.||. +-..-|-.+.|. ..||-+--|. .++|||..|.++.+..+..-
T Consensus 34 e~fpgli~Rl~~Pk~t~lIF--~SGKiviTGa-ks~e~a~~a~~~i~~~L~~~ 83 (174)
T cd04516 34 KRFAAVIMRIREPKTTALIF--SSGKMVCTGA-KSEDDSKLAARKYARIIQKL 83 (174)
T ss_pred ccCcEEEEEeCCCcEEEEEE--CCCeEEEEec-CCHHHHHHHHHHHHHHHHHc
Confidence 5688984 334457778888 4555666665 57889999999888777433
No 16
>PF08471 Ribonuc_red_2_N: Class II vitamin B12-dependent ribonucleotide reductase; InterPro: IPR013678 This domain is found to the N terminus of the ribonucleotide reductase barrel domain (IPR000788 from INTERPRO). It occurs in bacterial class II ribonucleotide reductase proteins which depend upon coenzyme B12 (deoxyadenosylcobalamine) []. ; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0050897 cobalt ion binding, 0055114 oxidation-reduction process
Probab=37.91 E-value=34 Score=26.48 Aligned_cols=21 Identities=38% Similarity=0.438 Sum_probs=18.1
Q ss_pred cccccCHHHHHHHHHHHHHHh
Q 036963 33 LGTFDTAEAAALAYDEAALRF 53 (194)
Q Consensus 33 LGtFdT~EEAA~AYD~Aa~kl 53 (194)
-|.|+|+|+|..-||..+..|
T Consensus 70 ~GYF~t~eDA~~FydEl~~mL 90 (93)
T PF08471_consen 70 GGYFATEEDAEAFYDELTYML 90 (93)
T ss_pred CCCcCCHHHHHHHHHHHHHHH
Confidence 399999999999999877655
No 17
>PF12286 DUF3622: Protein of unknown function (DUF3622); InterPro: IPR022069 This family of proteins is found in bacteria. Proteins in this family are typically between 72 and 107 amino acids in length. There is a conserved VSK sequence motif.
Probab=35.64 E-value=59 Score=24.10 Aligned_cols=31 Identities=19% Similarity=0.319 Sum_probs=19.3
Q ss_pred CCCcEEEEEeCCCCCcEEec----ccccCHHHHHH
Q 036963 14 PWGKWAAEIRDPKKAARVWL----GTFDTAEAAAL 44 (194)
Q Consensus 14 ~~GKW~A~I~~~~kgkri~L----GtFdT~EEAA~ 44 (194)
..+.|.|+|.-....++..+ --|++++||..
T Consensus 14 ~~~~W~aEItR~vTsrkTvVSK~~~GF~SEaeAq~ 48 (71)
T PF12286_consen 14 KRNGWTAEITRRVTSRKTVVSKRQDGFASEAEAQA 48 (71)
T ss_pred cCCceeeeeeeeecCceeEEEecccCcccHHHHHH
Confidence 34679999985543333222 35899988643
No 18
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=34.19 E-value=31 Score=33.57 Aligned_cols=21 Identities=19% Similarity=0.222 Sum_probs=12.6
Q ss_pred cCHHHHHHHHHH-HHHHhcCCC
Q 036963 37 DTAEAAALAYDE-AALRFKGSK 57 (194)
Q Consensus 37 dT~EEAA~AYD~-Aa~kl~G~~ 57 (194)
..-.|||.-|.. ..+.|++.+
T Consensus 161 ke~~daa~FY~NrvLkEyk~~D 182 (480)
T KOG2675|consen 161 KEFKDAAQFYTNRVLKEYKEKD 182 (480)
T ss_pred HHHHHHHHHHHHHHHHHhccCC
Confidence 345678888854 444565555
No 19
>PF09954 DUF2188: Uncharacterized protein conserved in bacteria (DUF2188); InterPro: IPR018691 This family has no known function.
Probab=32.85 E-value=1.3e+02 Score=20.43 Aligned_cols=39 Identities=33% Similarity=0.251 Sum_probs=25.3
Q ss_pred EEECCCCcEEEEEeCCCCCcEEecccccCHHHHHHHHHHHHHH
Q 036963 10 VRQRPWGKWAAEIRDPKKAARVWLGTFDTAEAAALAYDEAALR 52 (194)
Q Consensus 10 Vr~r~~GKW~A~I~~~~kgkri~LGtFdT~EEAA~AYD~Aa~k 52 (194)
|..+..+.|..+.. +.. --..+|+|.+||..+=...+..
T Consensus 3 V~p~~~~~W~v~~e--g~~--ra~~~~~Tk~eAi~~Ar~~a~~ 41 (62)
T PF09954_consen 3 VVPREDGGWAVKKE--GAK--RASKTFDTKAEAIEAARELAKN 41 (62)
T ss_pred EEecCCCCceEEeC--CCc--ccccccCcHHHHHHHHHHHHHh
Confidence 33345577998876 332 2268999999998765544443
No 20
>TIGR01164 rplP_bact ribosomal protein L16, bacterial/organelle. This model describes bacterial and organellar ribosomal protein L16. The homologous protein of the eukaryotic cytosol is designated L10
Probab=32.47 E-value=76 Score=25.26 Aligned_cols=33 Identities=21% Similarity=0.274 Sum_probs=25.5
Q ss_pred cEEEEEeCCCCCcEE-ecccccCHHHHHHHHHHHHHHh
Q 036963 17 KWAAEIRDPKKAARV-WLGTFDTAEAAALAYDEAALRF 53 (194)
Q Consensus 17 KW~A~I~~~~kgkri-~LGtFdT~EEAA~AYD~Aa~kl 53 (194)
.|+|+|. .|+-+ -++. .+++.|..|...|+.+|
T Consensus 91 ~~varV~---~G~ilfEi~~-~~~~~a~~al~~a~~KL 124 (126)
T TIGR01164 91 YWVAVVK---PGKILFEIAG-VPEEVAREAFRLAASKL 124 (126)
T ss_pred EEEEEEC---CCCEEEEEeC-CCHHHHHHHHHHHHhcC
Confidence 4999999 33344 4455 89999999999998776
No 21
>PF10729 CedA: Cell division activator CedA; InterPro: IPR019666 CedA is made up of four antiparallel beta-strands and an alpha-helix. It activates cell division by inhibiting chromosome over-replication. This is mediated by binding to dsDNA via the beta-sheet [, ]. ; GO: 0003677 DNA binding, 0051301 cell division; PDB: 2BN8_A 2D35_A.
Probab=31.82 E-value=1.1e+02 Score=22.85 Aligned_cols=39 Identities=23% Similarity=0.205 Sum_probs=23.7
Q ss_pred CCCceeeEEECCCCcEEEEEeCCCCCcEEecccccCHHHHHH
Q 036963 3 RRRHYRGVRQRPWGKWAAEIRDPKKAARVWLGTFDTAEAAAL 44 (194)
Q Consensus 3 r~S~YRGVr~r~~GKW~A~I~~~~kgkri~LGtFdT~EEAA~ 44 (194)
+--+||-||.-+ |||+|.+..... -.---.|..+|.|-+
T Consensus 29 k~dgfrdvw~lr-gkyvafvl~ge~--f~rsp~fs~pesaqr 67 (80)
T PF10729_consen 29 KMDGFRDVWQLR-GKYVAFVLMGEH--FRRSPAFSVPESAQR 67 (80)
T ss_dssp -TTTECCECCCC-CEEEEEEESSS---EEE---BSSHHHHHH
T ss_pred hcccccceeeec-cceEEEEEecch--hccCCCcCCcHHHHH
Confidence 345788897666 999999985332 223356777776654
No 22
>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ]. TBP associates with a host of factors, including the general transcription factors TFIIA, -B, -D, -E, and -H, to form huge multi-subunit pre-initiation complexes on the core promoter. Through its association with different transcription factors, TBP can initiate transcription from different RNA polymerases. There are several related TBPs, including TBP-like (TBPL) proteins []. The C-terminal core of TBP (~180 residues) is highly conserved and contains two 77-amino acid repeats that produce a saddle-shaped structure that straddles the DNA; this region binds to the TATA box and interacts with transcription factors and regulatory proteins []. By contrast, the N-terminal region varies in both length and sequence.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0006367 transcription initiation from RNA polymerase II promoter; PDB: 1D3U_A 1PCZ_B 1AIS_A 1NGM_A 1TBP_A 1TBA_B 1YTB_A 1RM1_A 1YTF_A 1NH2_A ....
Probab=31.75 E-value=1.2e+02 Score=21.99 Aligned_cols=47 Identities=19% Similarity=0.142 Sum_probs=32.8
Q ss_pred CceeeEEEC-CCCcEEEEEeCCCCCcEEecccccCHHHHHHHHHHHHHHhc
Q 036963 5 RHYRGVRQR-PWGKWAAEIRDPKKAARVWLGTFDTAEAAALAYDEAALRFK 54 (194)
Q Consensus 5 S~YRGVr~r-~~GKW~A~I~~~~kgkri~LGtFdT~EEAA~AYD~Aa~kl~ 54 (194)
.+|.||..+ ..-+-.+.|. ..||-+..|. .++|||..|.++....+.
T Consensus 36 e~fpgl~~r~~~p~~t~~IF--~sGki~itGa-ks~~~~~~a~~~i~~~L~ 83 (86)
T PF00352_consen 36 ERFPGLIYRLRNPKATVLIF--SSGKIVITGA-KSEEEAKKAIEKILPILQ 83 (86)
T ss_dssp TTESSEEEEETTTTEEEEEE--TTSEEEEEEE-SSHHHHHHHHHHHHHHHH
T ss_pred ccCCeEEEeecCCcEEEEEE--cCCEEEEEec-CCHHHHHHHHHHHHHHHH
Confidence 468898433 3446677777 5665666664 789999999988776653
No 23
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=29.89 E-value=28 Score=35.96 Aligned_cols=29 Identities=31% Similarity=0.452 Sum_probs=24.8
Q ss_pred cccCHHHHHHHHHHHHHHhcCCCCCCCCC
Q 036963 35 TFDTAEAAALAYDEAALRFKGSKAKLNFP 63 (194)
Q Consensus 35 tFdT~EEAA~AYD~Aa~kl~G~~A~lNFP 63 (194)
.|.|.|||..|--|-.++++|....|=+-
T Consensus 46 ~FsTDeDARlaM~kdr~~i~g~~VrLlLS 74 (944)
T KOG4307|consen 46 GFSTDEDARLAMTKDRLMIHGAEVRLLLS 74 (944)
T ss_pred EecccchhhhhhhhcccceecceEEEEec
Confidence 48999999999999999999988765543
No 24
>cd00652 TBP_TLF TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. New members of the TBP family, called TBP-like proteins (TBLP, TLF, TLP) or TBP-related factors (TRF1, TRF2,TRP), are similar to the core domain of TBPs, with identical or chemically similar amino acids at many
Probab=29.17 E-value=2.2e+02 Score=23.69 Aligned_cols=47 Identities=28% Similarity=0.217 Sum_probs=33.1
Q ss_pred CceeeEEEC-CCCcEEEEEeCCCCCcEEecccccCHHHHHHHHHHHHHHhc
Q 036963 5 RHYRGVRQR-PWGKWAAEIRDPKKAARVWLGTFDTAEAAALAYDEAALRFK 54 (194)
Q Consensus 5 S~YRGVr~r-~~GKW~A~I~~~~kgkri~LGtFdT~EEAA~AYD~Aa~kl~ 54 (194)
.+|.||..| ..-+-.+.|. ..||-+--|. .++|||..|.++.+..+.
T Consensus 34 e~fpgli~R~~~P~~t~lIf--~sGKivitGa-ks~~~~~~a~~~~~~~L~ 81 (174)
T cd00652 34 KRFPGVIMRLREPKTTALIF--SSGKMVITGA-KSEEDAKLAARKYARILQ 81 (174)
T ss_pred CccceEEEEcCCCcEEEEEE--CCCEEEEEec-CCHHHHHHHHHHHHHHHH
Confidence 578898443 4456777777 5555666565 578899999888877774
No 25
>PRK09203 rplP 50S ribosomal protein L16; Reviewed
Probab=29.04 E-value=84 Score=25.41 Aligned_cols=35 Identities=20% Similarity=0.170 Sum_probs=26.4
Q ss_pred cEEEEEeCCCCCcEE-ecccccCHHHHHHHHHHHHHHhcC
Q 036963 17 KWAAEIRDPKKAARV-WLGTFDTAEAAALAYDEAALRFKG 55 (194)
Q Consensus 17 KW~A~I~~~~kgkri-~LGtFdT~EEAA~AYD~Aa~kl~G 55 (194)
.|+|+|. .|+-| -++. .+++.|..|...|+.+|=+
T Consensus 92 ~~varVk---~G~iifEi~~-~~~~~a~~al~~a~~KLP~ 127 (138)
T PRK09203 92 YWVAVVK---PGRILFEIAG-VSEELAREALRLAAAKLPI 127 (138)
T ss_pred EEEEEEC---CCCEEEEEeC-CCHHHHHHHHHHHhccCCC
Confidence 4999999 33344 4555 8999999999999887744
No 26
>CHL00044 rpl16 ribosomal protein L16
Probab=28.91 E-value=91 Score=25.18 Aligned_cols=35 Identities=20% Similarity=0.221 Sum_probs=25.2
Q ss_pred cEEEEEeCCCCCcEE-ecccccCHHHHHHHHHHHHHHhcC
Q 036963 17 KWAAEIRDPKKAARV-WLGTFDTAEAAALAYDEAALRFKG 55 (194)
Q Consensus 17 KW~A~I~~~~kgkri-~LGtFdT~EEAA~AYD~Aa~kl~G 55 (194)
.|+|+|. .|+-+ -++. .+++.|..|...|+.+|=.
T Consensus 92 ~~va~V~---~G~ilfEi~g-~~~~~ak~al~~a~~KLP~ 127 (135)
T CHL00044 92 YWVAVVK---PGRILYEMGG-VSETIARAAIKIAAYKMPI 127 (135)
T ss_pred EEEEEEC---CCcEEEEEeC-CCHHHHHHHHHHHhhcCCC
Confidence 4999999 34444 4444 6678999999988887743
No 27
>PF14112 DUF4284: Domain of unknown function (DUF4284)
Probab=27.77 E-value=37 Score=26.65 Aligned_cols=18 Identities=17% Similarity=0.698 Sum_probs=13.8
Q ss_pred cEEecccccCHHHHHHHH
Q 036963 29 ARVWLGTFDTAEAAALAY 46 (194)
Q Consensus 29 kri~LGtFdT~EEAA~AY 46 (194)
..||||+|++++|-..=.
T Consensus 2 VsiWiG~f~s~~el~~Y~ 19 (122)
T PF14112_consen 2 VSIWIGNFKSEDELEEYF 19 (122)
T ss_pred eEEEEecCCCHHHHHHHh
Confidence 369999999988765443
No 28
>PRK10927 essential cell division protein FtsN; Provisional
Probab=27.63 E-value=82 Score=29.30 Aligned_cols=34 Identities=18% Similarity=0.258 Sum_probs=26.0
Q ss_pred EEEEEeCCCCCcEEecccccCHHHHHHHHHHHHH
Q 036963 18 WAAEIRDPKKAARVWLGTFDTAEAAALAYDEAAL 51 (194)
Q Consensus 18 W~A~I~~~~kgkri~LGtFdT~EEAA~AYD~Aa~ 51 (194)
+.|+|...+.-.||.||-|.+.++|.++.++...
T Consensus 273 ~~A~I~~~g~~~RVrVGPf~sr~eAe~a~~rLk~ 306 (319)
T PRK10927 273 FDSKITTNNGWNRVVIGPVKGKENADSTLNRLKM 306 (319)
T ss_pred CeeEEccCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 5666655444568999999999999998876554
No 29
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=25.40 E-value=55 Score=34.40 Aligned_cols=24 Identities=42% Similarity=0.844 Sum_probs=0.0
Q ss_pred cccccCCCCCCCCC-----CCCCCCCCCC
Q 036963 83 AAATTSQQVSNPPP-----PPPPRPLPLT 106 (194)
Q Consensus 83 ~~~~~~~~~~~~~~-----pp~~~~~~~~ 106 (194)
..++.++++|+||| +|||||++++
T Consensus 536 ~gG~g~pppPppPPlpggag~PPPPpplP 564 (1102)
T KOG1924|consen 536 TGGTGPPPPPPPPPLPGGAGPPPPPPPLP 564 (1102)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCccCCCCC
No 30
>cd04518 TBP_archaea archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=24.87 E-value=2.5e+02 Score=23.42 Aligned_cols=49 Identities=24% Similarity=0.212 Sum_probs=34.4
Q ss_pred CCceeeEEEC-CCCcEEEEEeCCCCCcEEecccccCHHHHHHHHHHHHHHhcC
Q 036963 4 RRHYRGVRQR-PWGKWAAEIRDPKKAARVWLGTFDTAEAAALAYDEAALRFKG 55 (194)
Q Consensus 4 ~S~YRGVr~r-~~GKW~A~I~~~~kgkri~LGtFdT~EEAA~AYD~Aa~kl~G 55 (194)
..+|.||..| ..-+-.+-|. ..||-+-.|. .++|||..|-++.+..+..
T Consensus 33 P~~fpgli~Rl~~Pk~t~lIF--~SGKiv~tGa-ks~~~a~~a~~~~~~~L~~ 82 (174)
T cd04518 33 PDQFPGLVYRLEDPKIAALIF--RSGKMVCTGA-KSVEDLHRAVKEIIKKLKD 82 (174)
T ss_pred CCcCcEEEEEccCCcEEEEEE--CCCeEEEEcc-CCHHHHHHHHHHHHHHHHh
Confidence 3578898433 4456677777 5555665554 7899999999988887753
No 31
>TIGR00279 L10e ribosomal protein L10.e. L10.e is distantly related to eubacterial ribosomal protein L16.
Probab=23.73 E-value=95 Score=26.43 Aligned_cols=36 Identities=19% Similarity=0.183 Sum_probs=26.4
Q ss_pred cEEEEEeCCCCCcEEeccccc--CHHHHHHHHHHHHHHhcC
Q 036963 17 KWAAEIRDPKKAARVWLGTFD--TAEAAALAYDEAALRFKG 55 (194)
Q Consensus 17 KW~A~I~~~~kgkri~LGtFd--T~EEAA~AYD~Aa~kl~G 55 (194)
-|+|+|. .|+.++--.-. +++.|..|...|+.+|=.
T Consensus 121 ~wvArVk---~Gqiifei~~~~~~~~~AkeAlr~A~~KLP~ 158 (172)
T TIGR00279 121 GTAARVK---IGQKIFSVWTKPSNFDVAKEALRRAAMKFPV 158 (172)
T ss_pred EEEEEEC---cCCEEEEEEeecCCHHHHHHHHHHHhccCCC
Confidence 4999998 45555544334 889999999988887743
No 32
>COG3087 FtsN Cell division protein [Cell division and chromosome partitioning]
Probab=23.45 E-value=1e+02 Score=28.00 Aligned_cols=32 Identities=22% Similarity=0.234 Sum_probs=24.2
Q ss_pred EEEEEe--CCCCCcEEecccccCHHHHHHHHHHH
Q 036963 18 WAAEIR--DPKKAARVWLGTFDTAEAAALAYDEA 49 (194)
Q Consensus 18 W~A~I~--~~~kgkri~LGtFdT~EEAA~AYD~A 49 (194)
..++|. .++...||-||-|.+.++|..|-+++
T Consensus 216 ~sskI~~~~~~~wyRV~vGP~n~~~~a~~aq~rL 249 (264)
T COG3087 216 ISSKITGVTNGGWYRVRVGPFNSKADAVKAQKRL 249 (264)
T ss_pred ccceeEeecCCceEEEEecCCCcHHHHHHHHHHH
Confidence 456666 44445689999999999999977654
No 33
>smart00773 WGR Proposed nucleic acid binding domain. This domain is named after its most conserved central motif. It is found in a variety of polyA polymerases as well as in molybdate metabolism regulators (e.g. in E.coli) and other proteins of unknown function. The domain is found in isolation in some proteins and is between 70 and 80 residues in length. It is proposed that it may be a nucleic acid binding domain.
Probab=22.43 E-value=1.8e+02 Score=20.77 Aligned_cols=22 Identities=23% Similarity=0.270 Sum_probs=17.3
Q ss_pred cccCHHHHHHHHHHHHHHhcCC
Q 036963 35 TFDTAEAAALAYDEAALRFKGS 56 (194)
Q Consensus 35 tFdT~EEAA~AYD~Aa~kl~G~ 56 (194)
.|++.++|..++++....-.+.
T Consensus 54 ~~~s~~~A~~~f~k~~~~Kt~~ 75 (84)
T smart00773 54 TFDSLEDAIKEFEKLFKEKTKN 75 (84)
T ss_pred cCCCHHHHHHHHHHHHHHHhcC
Confidence 6889999999999876655443
No 34
>PRK10905 cell division protein DamX; Validated
Probab=20.82 E-value=1.7e+02 Score=27.46 Aligned_cols=24 Identities=17% Similarity=0.147 Sum_probs=17.9
Q ss_pred EEecccccCHHHHHHHHHHHHHHh
Q 036963 30 RVWLGTFDTAEAAALAYDEAALRF 53 (194)
Q Consensus 30 ri~LGtFdT~EEAA~AYD~Aa~kl 53 (194)
.|..|.|.+.+||.+|-.+.-..+
T Consensus 287 VV~yG~YaSraeAk~AiakLPa~v 310 (328)
T PRK10905 287 VLVSGVYASKEEAKRAVSTLPADV 310 (328)
T ss_pred EEEecCCCCHHHHHHHHHHCCHHH
Confidence 456699999999999877643333
No 35
>PF01213 CAP_N: Adenylate cyclase associated (CAP) N terminal; InterPro: IPR013992 Cyclase-associated proteins (CAPs) are highly conserved actin-binding proteins present in a wide range of organisms including yeast, fly, plants, and mammals. CAPs are multifunctional proteins that contain several structural domains. CAP is involved in species-specific signalling pathways [, , , ]. In Drosophila, CAP functions in Hedgehog-mediated eye development and in establishing oocyte polarity. In Dictyostelium (slim mold), CAP is involved in microfilament reorganisation near the plasma membrane in a PIP2-regulated manner and is required to perpetuate the cAMP relay signal to organise fruitbody formation. In plants, CAP is involved in plant signalling pathways required for co-ordinated organ expansion. In yeast, CAP is involved in adenylate cyclase activation, as well as in vesicle trafficking and endocytosis. In both yeast and mammals, CAPs appear to be involved in recycling G-actin monomers from ADF/cofilins for subsequent rounds of filament assembly [, ]. In mammals, there are two different CAPs (CAP1 and CAP2) that share 64% amino acid identity. All CAPs appear to contain a C-terminal actin-binding domain that regulates actin remodelling in response to cellular signals and is required for normal cellular morphology, cell division, growth and locomotion in eukaryotes. CAP directly regulates actin filament dynamics and has been implicated in a number of complex developmental and morphological processes, including mRNA localisation and the establishment of cell polarity. Actin exists both as globular (G) (monomeric) actin subunits and assembled into filamentous (F) actin. In cells, actin cycles between these two forms. Proteins that bind F-actin often regulate F-actin assembly and its interaction with other proteins, while proteins that interact with G-actin often control the availability of unpolymerised actin. CAPs bind G-actin. In addition to actin-binding, CAPs can have additional roles, and may act as bifunctional proteins. In Saccharomyces cerevisiae (Baker's yeast), CAP is a component of the adenylyl cyclase complex (Cyr1p) that serves as an effector of Ras during normal cell signalling. S. cerevisiae CAP functions to expose adenylate cyclase binding sites to Ras, thereby enabling adenylate cyclase to be activated by Ras regulatory signals. In Schizosaccharomyces pombe (Fission yeast), CAP is also required for adenylate cyclase activity, but not through the Ras pathway. In both organisms, the N-terminal domain is responsible for adenylate cyclase activation, but the S cerevisiae and S. pombe N-termini cannot complement one another. Yeast CAPs are unique among the CAP family of proteins, because they are the only ones to directly interact with and activate adenylate cyclase []. S. cerevisiae CAP has four major domains. In addition to the N-terminal adenylate cyclase-interacting domain, and the C-terminal actin-binding domain, it possesses two other domains: a proline-rich domain that interacts with Src homology 3 (SH3) domains of specific proteins, and a domain that is responsible for CAP oligomerisation to form multimeric complexes (although oligomerisation appears to involve the N- and C-terminal domains as well). The proline-rich domain interacts with profilin, a protein that catalyses nucleotide exchange on G-actin monomers and promotes addition to barbed ends of filamentous F-actin []. Since CAP can bind profilin via a proline-rich domain, and G-actin via a C-terminal domain, it has been suggested that a ternary G-actin/CAP/profilin complex could be formed. This entry represents the N-terminal domain of CAP proteins. This domain has an all-alpha structure consisting of six helices in a bundle with a left-handed twist and an up-and-down topology [].; GO: 0003779 actin binding, 0007010 cytoskeleton organization; PDB: 1TJF_B 1S0P_A.
Probab=20.16 E-value=36 Score=31.22 Aligned_cols=10 Identities=20% Similarity=0.285 Sum_probs=5.1
Q ss_pred HHHHHHHHHH
Q 036963 39 AEAAALAYDE 48 (194)
Q Consensus 39 ~EEAA~AYD~ 48 (194)
..|||.-|-.
T Consensus 159 ~~dsA~Fy~N 168 (312)
T PF01213_consen 159 MKDSAQFYTN 168 (312)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHh
Confidence 3455555633
No 36
>KOG3422 consensus Mitochondrial ribosomal protein L16 [Translation, ribosomal structure and biogenesis]
Probab=20.08 E-value=2.1e+02 Score=25.38 Aligned_cols=38 Identities=21% Similarity=0.184 Sum_probs=28.9
Q ss_pred cEEEEEeCCCCCcEEecccccCHHHHHHHHHHHHHHhcCC
Q 036963 17 KWAAEIRDPKKAARVWLGTFDTAEAAALAYDEAALRFKGS 56 (194)
Q Consensus 17 KW~A~I~~~~kgkri~LGtFdT~EEAA~AYD~Aa~kl~G~ 56 (194)
.|+|+|. ..+--+-+|---+++||..|.+.|+.++-+.
T Consensus 133 ~wva~V~--~GrIl~EmgG~~~~~~Ar~al~~aa~klp~~ 170 (221)
T KOG3422|consen 133 HWVARVK--AGRILFEMGGDVEEEEARQALLQAAHKLPFK 170 (221)
T ss_pred eeEEEec--CCcEEEEeCCcccHHHHHHHHHHHHhcCCcc
Confidence 5999998 3433445666688999999999999887543
Done!