Query psy9215
Match_columns 73
No_of_seqs 101 out of 124
Neff 4.4
Searched_HMMs 46136
Date Fri Aug 16 21:51:33 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9215.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9215hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4590|consensus 99.9 5E-28 1.1E-32 188.0 1.7 65 1-65 47-111 (409)
2 cd01206 Homer Homer type EVH1 99.9 6.5E-27 1.4E-31 156.2 4.8 53 1-53 55-109 (111)
3 cd01207 Ena-Vasp Enabled-VASP- 99.9 1.4E-25 3E-30 149.2 6.4 55 1-55 57-111 (111)
4 smart00461 WH1 WASP homology r 99.8 7.8E-21 1.7E-25 123.3 5.7 51 1-51 56-106 (106)
5 cd00837 EVH1 EVH1 (Enabled, Va 99.8 5.8E-20 1.3E-24 118.5 5.7 51 1-51 54-104 (104)
6 PF00568 WH1: WH1 domain; Int 99.8 2.5E-18 5.5E-23 111.4 6.7 50 1-50 61-110 (111)
7 cd01205 WASP WASP-type EVH1 do 98.2 5.2E-06 1.1E-10 54.9 5.6 49 1-49 55-103 (105)
8 smart00160 RanBD Ran-binding d 97.9 4.3E-05 9.3E-10 51.0 5.4 50 1-50 71-130 (130)
9 cd00835 RanBD Ran-binding doma 97.8 5.6E-05 1.2E-09 49.4 5.6 51 1-51 61-121 (122)
10 PF00638 Ran_BP1: RanBP1 domai 96.7 0.011 2.3E-07 38.1 6.6 52 1-52 60-121 (122)
11 KOG3671|consensus 96.6 0.0025 5.4E-08 52.2 3.6 50 2-51 90-139 (569)
12 PF06058 DCP1: Dcp1-like decap 74.0 12 0.00026 24.9 5.1 44 6-50 77-121 (122)
13 PF07485 DUF1529: Domain of Un 64.5 5.6 0.00012 26.8 2.0 38 16-53 84-122 (123)
14 cd00900 PH-like Pleckstrin hom 60.7 26 0.00056 19.2 4.1 34 17-50 63-99 (99)
15 PF04800 ETC_C1_NDUFA4: ETC co 55.7 11 0.00023 24.7 2.1 22 30-51 51-72 (101)
16 KOG1865|consensus 55.4 12 0.00026 31.2 2.8 40 32-71 188-227 (545)
17 PF08471 Ribonuc_red_2_N: Clas 54.6 15 0.00033 24.1 2.7 28 23-51 63-90 (93)
18 KOG3389|consensus 50.6 12 0.00027 26.9 1.9 17 30-46 127-143 (178)
19 PF00847 AP2: AP2 domain; Int 50.2 42 0.00091 18.3 4.0 40 8-50 3-52 (56)
20 PF08553 VID27: VID27 cytoplas 45.3 48 0.001 28.7 4.9 51 13-63 312-364 (794)
21 COG4894 Uncharacterized conser 42.8 27 0.00059 24.9 2.7 37 15-55 121-157 (159)
22 COG3141 DNA damage-inducible g 42.5 33 0.00071 22.7 2.8 40 32-71 17-58 (97)
23 PF14657 Integrase_AP2: AP2-li 41.4 40 0.00087 18.3 2.7 25 28-52 18-42 (46)
24 PRK10061 DNA damage-inducible 38.4 44 0.00094 22.1 2.9 43 30-72 15-59 (96)
25 PLN02837 threonine-tRNA ligase 36.3 52 0.0011 27.0 3.7 29 23-51 181-215 (614)
26 PF02132 RecR: RecR protein; 34.4 56 0.0012 17.6 2.6 18 38-55 1-18 (41)
27 COG2832 Uncharacterized protei 31.6 5.7 0.00012 27.1 -2.1 20 13-32 39-58 (119)
28 PRK10527 hypothetical protein; 30.8 4.3 9.4E-05 27.4 -2.8 20 13-32 39-58 (125)
29 PRK14799 thrS threonyl-tRNA sy 29.7 66 0.0014 26.4 3.3 40 10-51 94-136 (545)
30 COG5171 YRB1 Ran GTPase-activa 28.6 93 0.002 23.0 3.6 26 28-53 178-203 (211)
31 COG4050 Uncharacterized protei 27.8 63 0.0014 22.7 2.5 27 31-57 123-150 (152)
32 KOG3424|consensus 26.5 20 0.00044 24.8 -0.1 42 28-69 70-111 (132)
33 PF01693 Cauli_VI: Caulimoviru 25.2 58 0.0013 17.6 1.6 27 17-43 11-44 (44)
34 PF11360 DUF3110: Protein of u 25.1 1.8E+02 0.004 18.2 4.4 40 11-51 4-45 (86)
35 TIGR00995 3a0901s06TIC22 chlor 24.8 1E+02 0.0022 23.5 3.3 34 26-59 102-135 (270)
36 cd01251 PH_centaurin_alpha Cen 24.8 1.6E+02 0.0035 18.2 3.8 28 26-53 75-102 (103)
37 PRK14128 iraD DNA replication/ 23.4 1.2E+02 0.0025 18.3 2.8 24 32-55 1-24 (69)
38 TIGR03357 VI_zyme type VI secr 22.8 97 0.0021 20.0 2.6 26 33-58 60-85 (133)
39 PF07130 YebG: YebG protein; 21.7 42 0.00092 21.2 0.6 40 32-71 17-58 (75)
40 PF09003 Phage_integ_N: Bacter 20.1 2.4E+02 0.0051 17.6 5.9 46 8-54 13-63 (75)
41 PF05573 NosL: NosL; InterPro 20.0 90 0.0019 20.9 2.0 29 18-46 91-133 (149)
No 1
>KOG4590|consensus
Probab=99.94 E-value=5e-28 Score=188.02 Aligned_cols=65 Identities=54% Similarity=0.827 Sum_probs=60.9
Q ss_pred CeEeeeeecCceeeeccCcceeeeeCCeEEeeecCCHHHHHHHHHHHHHHhHhcCCCCccchhhh
Q psy9215 1 VVINCVILKSLKYNQATSTFHQWRDNKQVYGLNFSSKEDADSFARAMLYAVECNSPKLKWTRHIR 65 (73)
Q Consensus 1 VviNc~I~~gl~Ynkatp~FHqWrd~~~vyGL~F~s~~da~~F~~~~~~Ale~L~~~~~~~~~~~ 65 (73)
|||||.|.+||+||||||+||||||.++||||||+|++||+.|+++|+.|||.|.++.+-|.-++
T Consensus 47 vVlnC~I~kGlkYnkatptFHqWR~arqvyGLnFqs~~DA~~Fa~~~~~A~e~l~~g~~~p~~~~ 111 (409)
T KOG4590|consen 47 VVLNCLILKGLKYNKATPTFHQWRDARQVYGLTFQSEQDARAFARGVPVAIEALSGGTPEPPPQP 111 (409)
T ss_pred cccccccccCcceeecccchhhhhhhhhhhcccccChhhhhhhhhhhhhhhhhhccCCCCCCCcC
Confidence 79999999999999999999999999999999999999999999999999999998887664443
No 2
>cd01206 Homer Homer type EVH1 domain. Homer type EVH1 domain. Homer is a synaptic scaffolding protein, involved in neuronal signaling. It contains an EVH1 domain, which binds to both neurotransmitter receptors, such as the metabotropic glutamate receptor (mGluR) and to other scaffolding proteins via PPXXF motifs, in order to target them to the synaptic junction. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=99.93 E-value=6.5e-27 Score=156.20 Aligned_cols=53 Identities=32% Similarity=0.643 Sum_probs=51.5
Q ss_pred CeEeeeeecCceeeeccCcceeeeeCC--eEEeeecCCHHHHHHHHHHHHHHhHh
Q psy9215 1 VVINCVILKSLKYNQATSTFHQWRDNK--QVYGLNFSSKEDADSFARAMLYAVEC 53 (73)
Q Consensus 1 VviNc~I~~gl~Ynkatp~FHqWrd~~--~vyGL~F~s~~da~~F~~~~~~Ale~ 53 (73)
|||||+|.+||+|||+||+||||||.| +||||||+|++||..|+.+|.+|+|.
T Consensus 55 ~iINc~i~~~~~y~kas~~FhQWrD~R~~tVyGLnF~Sk~ea~~F~~~f~~~~~~ 109 (111)
T cd01206 55 AIINSTITPNMTFTKTSQKFGQWADSRANTVYGLGFSSEQQLTKFAEKFQEVKEA 109 (111)
T ss_pred EEEeccccCCcceeecccccccccccccceeeecccCCHHHHHHHHHHHHHHHHh
Confidence 689999999999999999999999999 99999999999999999999999985
No 3
>cd01207 Ena-Vasp Enabled-VASP-type homology (EVH1) domain. Enabled-VASP-type homology (EVH1) domain. The EVH1 domain binds to other proteins at proline rich sequences. It is found in proteins involved in cytoskeletal reorganization such as Enabled and VASP. Ena-VASP type EVH1 domains specifically recognize FPPPP motifs in the focal adhesion proteins zyxin and vinculin, and the ActA surface protein of Listeria monocytogenes. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=99.92 E-value=1.4e-25 Score=149.23 Aligned_cols=55 Identities=73% Similarity=1.094 Sum_probs=53.5
Q ss_pred CeEeeeeecCceeeeccCcceeeeeCCeEEeeecCCHHHHHHHHHHHHHHhHhcC
Q psy9215 1 VVINCVILKSLKYNQATSTFHQWRDNKQVYGLNFSSKEDADSFARAMLYAVECNS 55 (73)
Q Consensus 1 VviNc~I~~gl~Ynkatp~FHqWrd~~~vyGL~F~s~~da~~F~~~~~~Ale~L~ 55 (73)
|||||.|.++|+||+++|+||||||++++|||||+|++||++|.++|..||+.|+
T Consensus 57 ~v~e~~l~~~l~y~k~~p~Fh~w~~~~~v~GLnF~Se~eA~~F~~~v~~Al~~L~ 111 (111)
T cd01207 57 VVINCAIVKGLKYNQATPTFHQWRDARQVYGLNFGSKEDATMFASAMLSALEVLN 111 (111)
T ss_pred EEEEEEecCCceeeecCCcceeeecCCeEEeeccCCHHHHHHHHHHHHHHHHhhC
Confidence 5899999999999999999999999999999999999999999999999999984
No 4
>smart00461 WH1 WASP homology region 1. Region of the Wiskott-Aldrich syndrome protein (WASp) that contains point mutations in the majority of patients with WAS. Unknown function. Ena-like WH1 domains bind polyproline-containing peptides, and that Homer contains a WH1 domain.
Probab=99.83 E-value=7.8e-21 Score=123.30 Aligned_cols=51 Identities=55% Similarity=0.903 Sum_probs=49.0
Q ss_pred CeEeeeeecCceeeeccCcceeeeeCCeEEeeecCCHHHHHHHHHHHHHHh
Q psy9215 1 VVINCVILKSLKYNQATSTFHQWRDNKQVYGLNFSSKEDADSFARAMLYAV 51 (73)
Q Consensus 1 VviNc~I~~gl~Ynkatp~FHqWrd~~~vyGL~F~s~~da~~F~~~~~~Al 51 (73)
|++||.|.+||+||+++|+||||++++.+|||||+|++||+.|.++|..|+
T Consensus 56 vv~e~ely~~~~y~~~~~~Fh~f~~~~~~~GLnF~se~EA~~F~~~v~~~~ 106 (106)
T smart00461 56 VIWNQELYKNFKYNQATPTFHQWADDKCVYGLNFASEEEAKKFRKKVLKAL 106 (106)
T ss_pred EEEEEeccCCCEEeecCCceEEEEeCCeEEEeecCCHHHHHHHHHHHHhcC
Confidence 589999999999999999999999999999999999999999999998874
No 5
>cd00837 EVH1 EVH1 (Enabled, Vasp-Homology) or WASP Homology (WH1) domain. EVH1 (Enabled, Vasp-Homology) or WASP Homology (WH1) domain. The EVH1 domain binds to other proteins at proline rich sequences in either FPPPP or PPXXF motifs. It is found in the cytoskeletal reorganization proteins Enabled VASP, and WASP, and in the synaptic scaffolding protein Homer. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=99.80 E-value=5.8e-20 Score=118.53 Aligned_cols=51 Identities=53% Similarity=0.859 Sum_probs=48.9
Q ss_pred CeEeeeeecCceeeeccCcceeeeeCCeEEeeecCCHHHHHHHHHHHHHHh
Q psy9215 1 VVINCVILKSLKYNQATSTFHQWRDNKQVYGLNFSSKEDADSFARAMLYAV 51 (73)
Q Consensus 1 VviNc~I~~gl~Ynkatp~FHqWrd~~~vyGL~F~s~~da~~F~~~~~~Al 51 (73)
|++||.|.+||+|++++|+||+|++.+.+|||||.|++||+.|.++|..++
T Consensus 54 vv~~~~l~~~~~y~~~~~~Fh~w~~~~~~~GL~F~se~eA~~F~~~v~~~~ 104 (104)
T cd00837 54 VIWNQEIYKGLKYTQATPFFHQWEDDNCVYGLNFASEEEAAQFRKKVLEAI 104 (104)
T ss_pred EEEEEEecCCcEEeecCCeEEEEEcCCcEEEEeeCCHHHHHHHHHHHHhcC
Confidence 589999999999999999999999999999999999999999999998764
No 6
>PF00568 WH1: WH1 domain; InterPro: IPR000697 The EVH1 (WH1, RanBP1-WASP) domain is found in multi-domain proteins implicated in a diverse range of signalling, nuclear transport and cytoskeletal events. This domain of around 115 amino acids is present in species ranging from yeast to mammals. Many EVH1-containing proteins associate with actin-based structures and play a role in cytoskeletal organisation. EVH1 domains recognise and bind the proline-rich motif FPPPP with low-affinity, further interactions then form between flanking residues [][]. WASP family proteins contain a EVH1 (WH1) in their N-terminals which bind proline-rich sequences in the WASP interacting protein. Proteins of the RanBP1 family contain a WH1 domain in their N-terminal region, which seems to bind a different sequence motif present in the C-terminal part of RanGTP protein [,]. Tertiary structure of the WH1 domain of the Mena protein revealed structure similarities with the pleckstrin homology (PH) domain. The overall fold consists of a compact parallel beta-sandwich, closed along one edge by a long alpha-helix. A highly conserved cluster of three surface-exposed aromatic side-chains forms the recognition site for the molecules target ligands. [].; GO: 0005515 protein binding; PDB: 1I2H_A 1DDV_A 1DDW_A 1EGX_A 3SYX_A 1TJ6_B 1XOD_B 1EVH_A 1I7A_B 2JP2_A ....
Probab=99.75 E-value=2.5e-18 Score=111.43 Aligned_cols=50 Identities=40% Similarity=0.646 Sum_probs=47.2
Q ss_pred CeEeeeeecCceeeeccCcceeeeeCCeEEeeecCCHHHHHHHHHHHHHH
Q psy9215 1 VVINCVILKSLKYNQATSTFHQWRDNKQVYGLNFSSKEDADSFARAMLYA 50 (73)
Q Consensus 1 VviNc~I~~gl~Ynkatp~FHqWrd~~~vyGL~F~s~~da~~F~~~~~~A 50 (73)
+++||.|.++|.|++++|+||||++.+.+|||||.|++||+.|.+.|++|
T Consensus 61 ~v~e~~l~~~~~Y~~~~~~Fh~f~~~~~~~GLnF~se~eA~~F~~~v~~~ 110 (111)
T PF00568_consen 61 VVWEQELYPGFVYTKARPFFHQFEDDDCVYGLNFASEEEADQFYKKVQEA 110 (111)
T ss_dssp EEEEEEESTT-EEEEESSSEEEEEETTCEEEEEESSHHHHHHHHHHHHHH
T ss_pred EEEEeEecCCCEEEeCCCcEEEEEeCCeEEEEecCCHHHHHHHHHHHhcc
Confidence 57999999999999999999999999999999999999999999999886
No 7
>cd01205 WASP WASP-type EVH1 domain. WASP-type EVH1 domain. Wiskott-Aldrich syndrome (WAS) is an X-linked recessive disease, characterized by eczema, immunodeficiency, and thrombocytopenia. The majority of patients with WAS, or a milder version of the disorder, X-linked thrombocytopenia (XLT), have point mutations in the EVH1 domain of WASP (Wiskott-Aldrich syndrome protein). WASP is an actin regulatory protein consisting of an N-terminal EVH1 domain, a basic region, a GTP binding domain, a proline rich region and a WH2 acidic region. Yeast members lack the GTP binding domain. WASP binds a 25 residue proline rich motif from the WASP Interacting Protein (WIP) via its N-terminal EVH1 domain.
Probab=98.18 E-value=5.2e-06 Score=54.91 Aligned_cols=49 Identities=24% Similarity=0.533 Sum_probs=44.2
Q ss_pred CeEeeeeecCceeeeccCcceeeeeCCeEEeeecCCHHHHHHHHHHHHH
Q psy9215 1 VVINCVILKSLKYNQATSTFHQWRDNKQVYGLNFSSKEDADSFARAMLY 49 (73)
Q Consensus 1 VviNc~I~~gl~Ynkatp~FHqWrd~~~vyGL~F~s~~da~~F~~~~~~ 49 (73)
|+-+--|..|+.|++..|.||-+.-.+-..||+|.+++||..|.+.+..
T Consensus 55 v~weqElY~~f~y~~~r~fFhtFe~d~c~~GL~Fade~EA~~F~k~v~~ 103 (105)
T cd01205 55 IIWEQELYDNFEYQQPRPFFHTFEGDDCVVGLNFADETEAAEFRKKVLD 103 (105)
T ss_pred EEEEEEcccCcEEccCCCcEEEEeccCcEEEEEECCHHHHHHHHHHHHh
Confidence 3556778899999999999999999999999999999999999987753
No 8
>smart00160 RanBD Ran-binding domain. Domain of apporximately 150 residues that stabilises the GTP-bound form of Ran (the Ras-like nuclear small GTPase).
Probab=97.85 E-value=4.3e-05 Score=51.04 Aligned_cols=50 Identities=28% Similarity=0.377 Sum_probs=40.8
Q ss_pred CeEeeeeecCceeeeccCcceeeee-------C---CeEEeeecCCHHHHHHHHHHHHHH
Q psy9215 1 VVINCVILKSLKYNQATSTFHQWRD-------N---KQVYGLNFSSKEDADSFARAMLYA 50 (73)
Q Consensus 1 VviNc~I~~gl~Ynkatp~FHqWrd-------~---~~vyGL~F~s~~da~~F~~~~~~A 50 (73)
|+|||.|.++|+|..+.+...-|.. . ...|.+.|.++++|..|..+|..|
T Consensus 71 v~lN~~i~~~~~~~~~~~~~~~~~~~~~d~~d~~~~~~~~~irfk~~e~a~~f~~~~~ea 130 (130)
T smart00160 71 VCANHPIFKSMTLKPLAGSNRALKWTPEDFADDIPKLVLYAVRFKTKEEADSFKNIFEEA 130 (130)
T ss_pred EEeccEecCCcEEeecCCCcceEEEeeeecCCCCCceEEEEEEeCCHHHHHHHHHHHHhC
Confidence 5799999999999988765554432 1 267999999999999999998765
No 9
>cd00835 RanBD Ran-binding domain. Ran-binding domain; This domain of approximately 150 residues shares structural similarity to the PH domain, but lacks detectable sequence similarity. Ran is a Ras-like nuclear small GTPase, which regulates receptor-mediated transport between the nucleus and the cytoplasm. RanGTP hydrolysis is stimulated by RanGAP together with the Ran-binding domain containing acessory proteins RanBP1 and RanBP2. These accessory proteins stabilize the active GTP-bound form of Ran . The Ran-binding domain is found in multiple copies in Nuclear pore complex proteins.
Probab=97.84 E-value=5.6e-05 Score=49.39 Aligned_cols=51 Identities=22% Similarity=0.378 Sum_probs=44.2
Q ss_pred CeEeeeeecCceeeecc--Ccceeee--eC------CeEEeeecCCHHHHHHHHHHHHHHh
Q psy9215 1 VVINCVILKSLKYNQAT--STFHQWR--DN------KQVYGLNFSSKEDADSFARAMLYAV 51 (73)
Q Consensus 1 VviNc~I~~gl~Ynkat--p~FHqWr--d~------~~vyGL~F~s~~da~~F~~~~~~Al 51 (73)
|++|+.|.++|+|.++. .++..|- |. ...|.|.|.++++|..|...|..|.
T Consensus 61 v~lN~~i~~~~~~~~~~~~~k~~~~~~~d~~~~~~~~~~~~lrfk~~~~a~~f~~~~~~~~ 121 (122)
T cd00835 61 LCLNHKLVPGMKLQPMGNSDKSIVWAAMDFSDDEPKPETFAIRFKTEEIADEFKEAIEEAK 121 (122)
T ss_pred EEEeeEecCCcEEeecCCCCcEEEEEeeecCCCCCcEEEEEEEECCHHHHHHHHHHHHHhh
Confidence 57999999999999998 7999995 21 2579999999999999999988764
No 10
>PF00638 Ran_BP1: RanBP1 domain; InterPro: IPR000156 Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran Binding Protein 1 (RanBP1) has guanine nucleotide dissociation inhibitory activity, specific for the GTP form of Ran and also functions to stimulate Ran GTPase activating protein(GAP)-mediated GTP hydrolysis by Ran. RanBP1 contributes to maintaining the gradient of RanGTP across the nuclear envelope high (GDI activity) or the cytoplasmic levels of RanGTP low (GAP cofactor) []. All RanBP1 proteins contain an approx 150 amino acid residue Ran binding domain. Ran BP1 binds directly to RanGTP with high affinity. There are four sites of contact between Ran and the Ran binding domain. One of these involves binding of the C-terminal segment of Ran to a groove on the Ran binding domain that is analogous to the surface utilised in the EVH1-peptide interaction []. Nup358 contains four Ran binding domains. The structure of the first of these is known [].; GO: 0046907 intracellular transport; PDB: 2Y8F_A 2Y8G_B 2CRF_A 1XKE_A 1RRP_D 2EC1_A 3M1I_B 1K5D_E 3OAN_A 3N7C_A ....
Probab=96.68 E-value=0.011 Score=38.06 Aligned_cols=52 Identities=33% Similarity=0.510 Sum_probs=37.6
Q ss_pred CeEeeeeecCceeeec--cCcceee--ee---C---CeEEeeecCCHHHHHHHHHHHHHHhH
Q psy9215 1 VVINCVILKSLKYNQA--TSTFHQW--RD---N---KQVYGLNFSSKEDADSFARAMLYAVE 52 (73)
Q Consensus 1 VviNc~I~~gl~Ynka--tp~FHqW--rd---~---~~vyGL~F~s~~da~~F~~~~~~Ale 52 (73)
|+||+.|.++|+|... +...-=| .| . -..|-+.|.++++|..|...|..|.+
T Consensus 60 v~lN~~i~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~irf~~~e~a~~f~~~i~e~~~ 121 (122)
T PF00638_consen 60 VLLNHPIFKGMKLKPMKGSEKSLVWTAIDYADEEGKPETYLIRFKSAEDADEFKKKIEEAKE 121 (122)
T ss_dssp EEEEEE--TTC-EEESTTTTTEEEEEEEECTTSSSEEEEEEEE-SSHHHHHHHHHHHHHHHH
T ss_pred eeEEEEecCCceecccccCCcEEEEEeccccCCCCceEEEEEEECCHHHHHHHHHHHHHHhc
Confidence 5799999999999643 4556666 33 1 15799999999999999999998865
No 11
>KOG3671|consensus
Probab=96.57 E-value=0.0025 Score=52.24 Aligned_cols=50 Identities=24% Similarity=0.504 Sum_probs=43.4
Q ss_pred eEeeeeecCceeeeccCcceeeeeCCeEEeeecCCHHHHHHHHHHHHHHh
Q psy9215 2 VINCVILKSLKYNQATSTFHQWRDNKQVYGLNFSSKEDADSFARAMLYAV 51 (73)
Q Consensus 2 viNc~I~~gl~Ynkatp~FHqWrd~~~vyGL~F~s~~da~~F~~~~~~Al 51 (73)
|-+.-|..+|.|++-..-||-+.-++.+-||||-+++||..|.+.+..-+
T Consensus 90 iWdqELY~nf~y~q~r~ffhtFegddc~aGLnF~~E~EA~~F~k~V~~r~ 139 (569)
T KOG3671|consen 90 IWDQELYQNFEYRQPRTFFHTFEGDDCQAGLNFASEEEAQKFRKKVQDRI 139 (569)
T ss_pred eehHHhhhhceeccCccceeeeccccceeeecccCHHHHHHHHHHHHHHh
Confidence 34556788999999999999999999999999999999999988766554
No 12
>PF06058 DCP1: Dcp1-like decapping family; InterPro: IPR010334 An essential step in mRNA turnover is decapping. In yeast, two proteins have been identified that are essential for decapping, Dcp1 (this family) and Dcp2 (IPR007722 from INTERPRO). The precise role of these proteins in the decapping reaction has not been established. Evidence suggests that the Dcp1 may enhance the function of Dcp2 [].; PDB: 1Q67_A 2QKM_C 2QKL_A.
Probab=74.02 E-value=12 Score=24.87 Aligned_cols=44 Identities=18% Similarity=0.429 Sum_probs=34.6
Q ss_pred eeecCceeeeccCcceeeeeC-CeEEeeecCCHHHHHHHHHHHHHH
Q psy9215 6 VILKSLKYNQATSTFHQWRDN-KQVYGLNFSSKEDADSFARAMLYA 50 (73)
Q Consensus 6 ~I~~gl~Ynkatp~FHqWrd~-~~vyGL~F~s~~da~~F~~~~~~A 50 (73)
.|.+++.+ +..+.|--+|.. ..+||+=|-+++|......-|++-
T Consensus 77 ~i~~~~~~-e~~~~~l~~r~~~~~I~GiWf~~~~d~~ri~~~l~~l 121 (122)
T PF06058_consen 77 PITPDLDF-ELQDPYLIYRNDNQEIYGIWFYDDEDRQRIYNLLQRL 121 (122)
T ss_dssp EE-SGGGE-EEETTEEEEEETTTEEEEEEESSHHHHHHHHHHHHHH
T ss_pred ecCCCcEE-EEeCCEEEEEcCCceEEEEEEEeHHHHHHHHHHHHhc
Confidence 36777777 577778889985 489999999999999888776653
No 13
>PF07485 DUF1529: Domain of Unknown Function (DUF1259); InterPro: IPR011094 This family is the lppY/lpqO homologue family. They are related to 'probable conserved lipoproteins' LppY and LpqO from Mycobacterium bovis.
Probab=64.51 E-value=5.6 Score=26.76 Aligned_cols=38 Identities=16% Similarity=0.319 Sum_probs=31.3
Q ss_pred ccCcceeeeeCC-eEEeeecCCHHHHHHHHHHHHHHhHh
Q psy9215 16 ATSTFHQWRDNK-QVYGLNFSSKEDADSFARAMLYAVEC 53 (73)
Q Consensus 16 atp~FHqWrd~~-~vyGL~F~s~~da~~F~~~~~~Ale~ 53 (73)
+|..=.||-..+ +.|=+.|.+.+|+..|+++++.||+.
T Consensus 84 vtAlHNH~l~e~Prl~ymH~~~~gdp~~lA~~vr~Ald~ 122 (123)
T PF07485_consen 84 VTALHNHWLFEQPRLFYMHIWGVGDPAKLARKVRAALDV 122 (123)
T ss_pred EEEEecccccCCCCEEEEEEEecCCHHHHHHHHHHHHhc
Confidence 344556787754 78999999999999999999999973
No 14
>cd00900 PH-like Pleckstrin homology-like domain. Pleckstrin homology-like domain. This family includes the PH domain, both the Shc-like and IRS-like PTB domains, the ran-binding domain, the EVH1 domain, a domain in neurobeachin and the third domain of FERM. All of these domains have a PH fold, but lack significant sequence similarity. They are generally involved in targeting to protein to the appropriate cellular location or interacting with a binding partner. The PH domain is commonly found in eukaryotic signaling proteins. This domain family possesses multiple functions including the ability to bind inositol phosphates and to other proteins.
Probab=60.66 E-value=26 Score=19.16 Aligned_cols=34 Identities=18% Similarity=0.283 Sum_probs=28.3
Q ss_pred cCcceeeeeC---CeEEeeecCCHHHHHHHHHHHHHH
Q psy9215 17 TSTFHQWRDN---KQVYGLNFSSKEDADSFARAMLYA 50 (73)
Q Consensus 17 tp~FHqWrd~---~~vyGL~F~s~~da~~F~~~~~~A 50 (73)
.+..-++... .+.|-|...+++++.....+|+.|
T Consensus 63 ~~~~F~i~~~~~~~~~~~~~~~~~~~~~~W~~al~~~ 99 (99)
T cd00900 63 DPNCFAIVTKDRGRRVFVFQADSEEEAQEWVEALQQA 99 (99)
T ss_pred CCceEEEECCCCCcEEEEEEcCCHHHHHHHHHHHhcC
Confidence 3567788876 689999999999999999888764
No 15
>PF04800 ETC_C1_NDUFA4: ETC complex I subunit conserved region; InterPro: IPR006885 This entry represents prokaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC, 1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022900 electron transport chain, 0005743 mitochondrial inner membrane; PDB: 2JYA_A 2LJU_A.
Probab=55.66 E-value=11 Score=24.74 Aligned_cols=22 Identities=36% Similarity=0.410 Sum_probs=17.1
Q ss_pred EeeecCCHHHHHHHHHHHHHHh
Q psy9215 30 YGLNFSSKEDADSFARAMLYAV 51 (73)
Q Consensus 30 yGL~F~s~~da~~F~~~~~~Al 51 (73)
--|.|.|+|||-+|++...-..
T Consensus 51 v~l~F~skE~Ai~yaer~G~~Y 72 (101)
T PF04800_consen 51 VRLKFDSKEDAIAYAERNGWDY 72 (101)
T ss_dssp CEEEESSHHHHHHHHHHCT-EE
T ss_pred eEeeeCCHHHHHHHHHHcCCeE
Confidence 5799999999999987544433
No 16
>KOG1865|consensus
Probab=55.39 E-value=12 Score=31.18 Aligned_cols=40 Identities=23% Similarity=0.160 Sum_probs=32.1
Q ss_pred eecCCHHHHHHHHHHHHHHhHhcCCCCccchhhhhhhhhh
Q psy9215 32 LNFSSKEDADSFARAMLYAVECNSPKLKWTRHIRDQEETA 71 (73)
Q Consensus 32 L~F~s~~da~~F~~~~~~Ale~L~~~~~~~~~~~~~~~~~ 71 (73)
+.++.+|||..|.+.+-.+++...-+.....+.+.||+|-
T Consensus 188 f~~grQEDAHEFLr~~vd~mqk~cL~g~~~~~~~sq~ttl 227 (545)
T KOG1865|consen 188 FGRGRQEDAHEFLRFTVDAMQKACLPGHKQVDPRSQDTTL 227 (545)
T ss_pred ccCCchhhHHHHHHHHHHHHHHhhcCCCccCCccccccee
Confidence 4558999999999999999988876666667778888764
No 17
>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=54.60 E-value=15 Score=24.06 Aligned_cols=28 Identities=29% Similarity=0.535 Sum_probs=20.4
Q ss_pred eeeCCeEEeeecCCHHHHHHHHHHHHHHh
Q psy9215 23 WRDNKQVYGLNFSSKEDADSFARAMLYAV 51 (73)
Q Consensus 23 Wrd~~~vyGL~F~s~~da~~F~~~~~~Al 51 (73)
|++-..+.|. |.|++||..|..-|...|
T Consensus 63 w~~wG~~~GY-F~t~eDA~~FydEl~~mL 90 (93)
T PF08471_consen 63 WTYWGWKGGY-FATEEDAEAFYDELTYML 90 (93)
T ss_pred HHHHHHhCCC-cCCHHHHHHHHHHHHHHH
Confidence 4443344454 899999999998887765
No 18
>KOG3389|consensus
Probab=50.61 E-value=12 Score=26.86 Aligned_cols=17 Identities=53% Similarity=0.765 Sum_probs=14.8
Q ss_pred EeeecCCHHHHHHHHHH
Q psy9215 30 YGLNFSSKEDADSFARA 46 (73)
Q Consensus 30 yGL~F~s~~da~~F~~~ 46 (73)
--|.|.++|||.+|++.
T Consensus 127 m~L~F~tkEdA~sFaEk 143 (178)
T KOG3389|consen 127 MALAFDTKEDAKSFAEK 143 (178)
T ss_pred eeeeeccHHHHHHHHHH
Confidence 46899999999999864
No 19
>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=50.22 E-value=42 Score=18.32 Aligned_cols=40 Identities=18% Similarity=0.416 Sum_probs=25.0
Q ss_pred ecCceeeeccCcceeeeeC---------CeEEee-ecCCHHHHHHHHHHHHHH
Q psy9215 8 LKSLKYNQATSTFHQWRDN---------KQVYGL-NFSSKEDADSFARAMLYA 50 (73)
Q Consensus 8 ~~gl~Ynkatp~FHqWrd~---------~~vyGL-~F~s~~da~~F~~~~~~A 50 (73)
.+|+.|++.+.. |+-. ++.|.| .|+++++|..-+..++..
T Consensus 3 ~~GV~~~~~~~~---W~a~i~~~~~~g~~k~f~~g~fg~~~eA~~~a~~~r~~ 52 (56)
T PF00847_consen 3 YKGVSWDKRRGR---WRAQIRVWSENGKRKRFSVGKFGFEEEAKRAAIEARKE 52 (56)
T ss_dssp STTEEEETTTTE---EEEEEEECCCTTEEEEEEECCCCCHHHHHHHHHHHHHH
T ss_pred cEEEEEcCCCCE---EEEEEEEcccCcccEEEeCccCCCHHHHHHHHHHHHHH
Confidence 468888876665 5433 244444 488988887766554443
No 20
>PF08553 VID27: VID27 cytoplasmic protein; InterPro: IPR013863 This entry represents fungal and plant proteins and contains many hypothetical proteins. Vid27p is a cytoplasmic protein of unknown function, possibly regulates import of fructose-1,6-bisphosphatase into Vacuolar Import and Degradation (Vid) vesicles and is not essential for proteasome-dependent degradation of fructose-1,6-bisphosphatase (FBPase) [, ].
Probab=45.26 E-value=48 Score=28.74 Aligned_cols=51 Identities=20% Similarity=0.446 Sum_probs=39.4
Q ss_pred eeeccCcceeeeeCC--eEEeeecCCHHHHHHHHHHHHHHhHhcCCCCccchh
Q psy9215 13 YNQATSTFHQWRDNK--QVYGLNFSSKEDADSFARAMLYAVECNSPKLKWTRH 63 (73)
Q Consensus 13 Ynkatp~FHqWrd~~--~vyGL~F~s~~da~~F~~~~~~Ale~L~~~~~~~~~ 63 (73)
+..-+=+|-+.+..+ -+|=|.|.+.++...|..+++.||=.-..+.+|...
T Consensus 312 ~e~lSFiFN~~~~~~~~~sw~lkF~~~~~~~~F~~~~~~~l~E~~n~~~w~~~ 364 (794)
T PF08553_consen 312 FEHLSFIFNYYTEDGSAYSWLLKFKDQEDYERFQEKFMKCLWENLNKMKWSKI 364 (794)
T ss_pred cceeEEEEEeEcCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHhhcCCcccC
Confidence 334455666776642 679999999999999999999999666666677765
No 21
>COG4894 Uncharacterized conserved protein [Function unknown]
Probab=42.82 E-value=27 Score=24.91 Aligned_cols=37 Identities=27% Similarity=0.484 Sum_probs=27.1
Q ss_pred eccCcceeeeeCCeEEeeecCCHHHHHHHHHHHHHHhHhcC
Q psy9215 15 QATSTFHQWRDNKQVYGLNFSSKEDADSFARAMLYAVECNS 55 (73)
Q Consensus 15 katp~FHqWrd~~~vyGL~F~s~~da~~F~~~~~~Ale~L~ 55 (73)
+++-+.-+|||+ |+|.+.-.+||.... ++..||+.+.
T Consensus 121 eVsKkwf~~rdT---Y~l~vapde~a~lii-~i~VaLD~v~ 157 (159)
T COG4894 121 EVSKKWFSWRDT---YHLQVAPDEDALLII-AIAVALDMVL 157 (159)
T ss_pred hheeeeEeccce---EEEEEcCchhhHHHH-HHHHHHHHHh
Confidence 456666788888 999997666666554 4788887654
No 22
>COG3141 DNA damage-inducible gene in SOS regulon, dependent on cyclic AMP and H-NS , pqiA [General function prediction only]
Probab=42.51 E-value=33 Score=22.69 Aligned_cols=40 Identities=20% Similarity=0.275 Sum_probs=31.0
Q ss_pred eecCCHHHHHHHHHHHHHH--hHhcCCCCccchhhhhhhhhh
Q psy9215 32 LNFSSKEDADSFARAMLYA--VECNSPKLKWTRHIRDQEETA 71 (73)
Q Consensus 32 L~F~s~~da~~F~~~~~~A--le~L~~~~~~~~~~~~~~~~~ 71 (73)
..|.|+.+|++++.-+..| |..+.+.++.+-.-.++|+-+
T Consensus 17 m~FtsK~EADayDKMLd~Ad~L~e~L~ks~~~leeeq~E~Ls 58 (97)
T COG3141 17 MSFTSKKEADAYDKMLDTADLLDEWLTKSPVSLEEEQREALS 58 (97)
T ss_pred hccccHHHHhHHHHHHHHHHHHHHHHhcCCccchHHHHHHHH
Confidence 5799999999998754443 566778888888888888754
No 23
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=41.40 E-value=40 Score=18.28 Aligned_cols=25 Identities=20% Similarity=0.209 Sum_probs=18.7
Q ss_pred eEEeeecCCHHHHHHHHHHHHHHhH
Q psy9215 28 QVYGLNFSSKEDADSFARAMLYAVE 52 (73)
Q Consensus 28 ~vyGL~F~s~~da~~F~~~~~~Ale 52 (73)
++.=-+|.++.||......|..-++
T Consensus 18 ~~~k~GF~TkkeA~~~~~~~~~~~~ 42 (46)
T PF14657_consen 18 QKTKRGFKTKKEAEKALAKIEAELE 42 (46)
T ss_pred EEEcCCCCcHHHHHHHHHHHHHHHH
Confidence 3344579999999999887766554
No 24
>PRK10061 DNA damage-inducible protein YebG; Provisional
Probab=38.38 E-value=44 Score=22.08 Aligned_cols=43 Identities=16% Similarity=0.229 Sum_probs=30.8
Q ss_pred EeeecCCHHHHHHHHHHH--HHHhHhcCCCCccchhhhhhhhhhc
Q psy9215 30 YGLNFSSKEDADSFARAM--LYAVECNSPKLKWTRHIRDQEETAL 72 (73)
Q Consensus 30 yGL~F~s~~da~~F~~~~--~~Ale~L~~~~~~~~~~~~~~~~~~ 72 (73)
=-+.|.|+.+|++.++-. -..|..+...++..-+-.+.|+-+|
T Consensus 15 EkmtFtsKKEADAyDKMLD~Ad~L~~~L~~s~~~ldE~q~E~L~l 59 (96)
T PRK10061 15 EKMSFTSKKEADAYDKMLDTADLLDTWLTNSPVQMEDEQREALSL 59 (96)
T ss_pred eeeccCcHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Confidence 357899999999998633 3345666677777777777776553
No 25
>PLN02837 threonine-tRNA ligase
Probab=36.31 E-value=52 Score=27.02 Aligned_cols=29 Identities=24% Similarity=0.551 Sum_probs=24.7
Q ss_pred eeeCC------eEEeeecCCHHHHHHHHHHHHHHh
Q psy9215 23 WRDNK------QVYGLNFSSKEDADSFARAMLYAV 51 (73)
Q Consensus 23 Wrd~~------~vyGL~F~s~~da~~F~~~~~~Al 51 (73)
||-.. ++||..|.++++...+...+.+|.
T Consensus 181 wrg~~~~~~l~ri~g~~~~~~~~l~~~~~~~~e~~ 215 (614)
T PLN02837 181 WRGDEKNQMLQRIYGTAWESEEQLKAYLHFKEEAK 215 (614)
T ss_pred hcccccCcceEEEEEEecCCHHHHHHHHHHHHHhh
Confidence 77632 689999999999999998888776
No 26
>PF02132 RecR: RecR protein; InterPro: IPR023628 The bacterial protein RecR seems to play a role in a recombinational process of DNA repair []. It may act with RecF and RecO. RecR's structure consists of a N-terminal helix-hairpin-helix (HhH) motif, followed by a Cys4 zinc-finger motif, a Toprim domain and a Walker B motif []. This entry represents the C4-type zinc finger.; PDB: 1VDD_D 2V1C_B.
Probab=34.42 E-value=56 Score=17.57 Aligned_cols=18 Identities=33% Similarity=0.296 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHhHhcC
Q psy9215 38 EDADSFARAMLYAVECNS 55 (73)
Q Consensus 38 ~da~~F~~~~~~Ale~L~ 55 (73)
|++..|+.+|..|.+.+.
T Consensus 1 e~~~~La~al~~~~~~i~ 18 (41)
T PF02132_consen 1 EEAEQLADALKEAKENIK 18 (41)
T ss_dssp HHHHHHHHHHHHHHHH-E
T ss_pred CcHHHHHHHHHHHHHcCC
Confidence 578899999999988764
No 27
>COG2832 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.56 E-value=5.7 Score=27.10 Aligned_cols=20 Identities=20% Similarity=0.677 Sum_probs=16.9
Q ss_pred eeeccCcceeeeeCCeEEee
Q psy9215 13 YNQATSTFHQWRDNKQVYGL 32 (73)
Q Consensus 13 Ynkatp~FHqWrd~~~vyGL 32 (73)
|-|.+|.||+|--++..||=
T Consensus 39 FaRsSpRf~~WLl~~~~fg~ 58 (119)
T COG2832 39 FARSSPRFHAWLLRHKYFGP 58 (119)
T ss_pred HHcCCcHHHHHHHcCchhhH
Confidence 45889999999998888874
No 28
>PRK10527 hypothetical protein; Provisional
Probab=30.77 E-value=4.3 Score=27.38 Aligned_cols=20 Identities=20% Similarity=0.640 Sum_probs=17.1
Q ss_pred eeeccCcceeeeeCCeEEee
Q psy9215 13 YNQATSTFHQWRDNKQVYGL 32 (73)
Q Consensus 13 Ynkatp~FHqWrd~~~vyGL 32 (73)
|-|.||.||+|=.+-+.||=
T Consensus 39 faRsSpR~~~WL~~h~~fGp 58 (125)
T PRK10527 39 FARSSPRFHAWLLYRSWFGS 58 (125)
T ss_pred HHcCCHHHHHHHHcCchhhH
Confidence 56889999999998888874
No 29
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=29.70 E-value=66 Score=26.35 Aligned_cols=40 Identities=13% Similarity=0.207 Sum_probs=28.6
Q ss_pred CceeeeccCcceeeeeCC---eEEeeecCCHHHHHHHHHHHHHHh
Q psy9215 10 SLKYNQATSTFHQWRDNK---QVYGLNFSSKEDADSFARAMLYAV 51 (73)
Q Consensus 10 gl~Ynkatp~FHqWrd~~---~vyGL~F~s~~da~~F~~~~~~Al 51 (73)
-++-.+.+.- .+..+. ++||..|.++++...+...+.+|.
T Consensus 94 ~fkl~~~~~~--g~~~~~~l~Riyg~~f~~~~~l~~~~~~~eea~ 136 (545)
T PRK14799 94 YFEILNISTH--HPNPNEQYVRIRGVAFETEEQLKDYLTWLEKAE 136 (545)
T ss_pred eEEEEEeccC--CCccCceeEEEEEeecCCHHHHHHHHHHHHhcc
Confidence 3444444544 344443 679999999999999988877775
No 30
>COG5171 YRB1 Ran GTPase-activating protein (Ran-binding protein) [Intracellular trafficking and secretion]
Probab=28.65 E-value=93 Score=23.03 Aligned_cols=26 Identities=27% Similarity=0.429 Sum_probs=22.2
Q ss_pred eEEeeecCCHHHHHHHHHHHHHHhHh
Q psy9215 28 QVYGLNFSSKEDADSFARAMLYAVEC 53 (73)
Q Consensus 28 ~vyGL~F~s~~da~~F~~~~~~Ale~ 53 (73)
+-|-+.|.|+++|..|..-+..+.++
T Consensus 178 ~tFairF~s~Ena~~FkEefek~qe~ 203 (211)
T COG5171 178 QTFAIRFYSEENAKRFKEEFEKGQEH 203 (211)
T ss_pred eEEEEeeccHHHHHHHHHHHHHHHHH
Confidence 67999999999999999888776543
No 31
>COG4050 Uncharacterized protein conserved in archaea [Function unknown]
Probab=27.78 E-value=63 Score=22.71 Aligned_cols=27 Identities=19% Similarity=0.303 Sum_probs=22.0
Q ss_pred eeec-CCHHHHHHHHHHHHHHhHhcCCC
Q psy9215 31 GLNF-SSKEDADSFARAMLYAVECNSPK 57 (73)
Q Consensus 31 GL~F-~s~~da~~F~~~~~~Ale~L~~~ 57 (73)
-|.+ .|+|||..|.+.+..-|+.|..+
T Consensus 123 elkYP~s~Eea~~~VnkI~~FL~sLe~~ 150 (152)
T COG4050 123 ELKYPRSEEEAIDFVNKIANFLKSLEAQ 150 (152)
T ss_pred EEeCCCcHHHHHHHHHHHHHHHHhhhhh
Confidence 3444 58999999999999999998754
No 32
>KOG3424|consensus
Probab=26.55 E-value=20 Score=24.83 Aligned_cols=42 Identities=21% Similarity=0.214 Sum_probs=36.3
Q ss_pred eEEeeecCCHHHHHHHHHHHHHHhHhcCCCCccchhhhhhhh
Q psy9215 28 QVYGLNFSSKEDADSFARAMLYAVECNSPKLKWTRHIRDQEE 69 (73)
Q Consensus 28 ~vyGL~F~s~~da~~F~~~~~~Ale~L~~~~~~~~~~~~~~~ 69 (73)
+-|||=+.|-+.|..|....+.|---|.+..+-++.|+-++.
T Consensus 70 tgfalIYdsve~akkfEpkyrl~r~gl~e~~kt~RkqrKerk 111 (132)
T KOG3424|consen 70 TGFALIYDSVEYAKKFEPKYRLVRLGLAEKIKTSRKQRKERK 111 (132)
T ss_pred ceeeeeeehHHHHHhcCcceeeeecccccccccHHHHHHHHh
Confidence 348899999999999999988888888888888888887764
No 33
>PF01693 Cauli_VI: Caulimovirus viroplasmin; InterPro: IPR011320 This entry represents the N-terminal domain of RNase HI, which has a 3-layer alpha/beta/alpha structure []. This domain is lacking in retroviral and prokaryotic enzymes, but shows a striking structural similarity to the ribosomal protein L9 N-terminal domain, and may function as a regulatory RNA-binding module. However, the topology of this domain differs from structures of known RNA binding domains such as the double-stranded RNA binding domain (dsRBD), the hnRNP K homology (KH) domain and the RNP motif. Eukaryotic RNases HI possess either one or two copies of this small N-terminal domain, in addition to the well-conserved catalytic RNase H domain. RNase HI belongs to the family of ribonuclease H enzymes that recognise RNA:DNA hybrids and degrade the RNA component. ; PDB: 1QHK_A 3BSU_C.
Probab=25.18 E-value=58 Score=17.59 Aligned_cols=27 Identities=30% Similarity=0.651 Sum_probs=18.2
Q ss_pred cCcceeeeeC-CeE------EeeecCCHHHHHHH
Q psy9215 17 TSTFHQWRDN-KQV------YGLNFSSKEDADSF 43 (73)
Q Consensus 17 tp~FHqWrd~-~~v------yGL~F~s~~da~~F 43 (73)
..+|.-|.+- .++ .=..|.|.++|..|
T Consensus 11 ~GIy~~W~~~~~~v~g~~ga~~k~F~t~~eA~~~ 44 (44)
T PF01693_consen 11 PGIYTSWAECKKQVSGYPGAIYKSFKTREEAEEF 44 (44)
T ss_dssp -EEECCHHHHHHHCTT-TT-EEEEESSHHHHHHH
T ss_pred CCeECCHHHHHHHhCCCCCceECCcCCHHHHhhC
Confidence 4677778762 122 34789999999886
No 34
>PF11360 DUF3110: Protein of unknown function (DUF3110); InterPro: IPR021503 This family of proteins has no known function.
Probab=25.15 E-value=1.8e+02 Score=18.23 Aligned_cols=40 Identities=25% Similarity=0.370 Sum_probs=27.9
Q ss_pred ceeeec--cCcceeeeeCCeEEeeecCCHHHHHHHHHHHHHHh
Q psy9215 11 LKYNQA--TSTFHQWRDNKQVYGLNFSSKEDADSFARAMLYAV 51 (73)
Q Consensus 11 l~Ynka--tp~FHqWrd~~~vyGL~F~s~~da~~F~~~~~~Al 51 (73)
|.||.- +.-.|..+..++.==|-|.+++||..|.. +.+|-
T Consensus 4 L~f~~~~~~eGI~si~~~~~~~Vl~FE~edDA~RYa~-lLEAq 45 (86)
T PF11360_consen 4 LLFNAGTETEGIYSIQNKDRNVVLMFEDEDDAERYAG-LLEAQ 45 (86)
T ss_pred EEecCCCCCCcEEEEEeCCCCEEEEEccHHHHHHHHH-HHHhc
Confidence 345533 44477888776666688999999999987 34443
No 35
>TIGR00995 3a0901s06TIC22 chloroplast protein import component, Tic22 family. Two families of proteins are involved in the chloroplast envelope import appartus.They are the three proteins of the outer membrane (TOC) and four proteins in the inner membrane (TIC). This family is specific for the Tic22 protein.
Probab=24.84 E-value=1e+02 Score=23.52 Aligned_cols=34 Identities=21% Similarity=0.208 Sum_probs=25.9
Q ss_pred CCeEEeeecCCHHHHHHHHHHHHHHhHhcCCCCc
Q psy9215 26 NKQVYGLNFSSKEDADSFARAMLYAVECNSPKLK 59 (73)
Q Consensus 26 ~~~vyGL~F~s~~da~~F~~~~~~Ale~L~~~~~ 59 (73)
+..+.|+-|+..+||.+|...++..-..+.++..
T Consensus 102 ~~~~~gvf~s~qedA~afL~~lk~~~p~l~~~~k 135 (270)
T TIGR00995 102 GEKSIGLLCFRQEDAEAFLAQLRKRKPEVGSQAK 135 (270)
T ss_pred CCceEEEEECCHHHHHHHHHHHHhhCccccCCce
Confidence 4578999888888899999988777666655443
No 36
>cd01251 PH_centaurin_alpha Centaurin alpha Pleckstrin homology (PH) domain. Centaurin alpha Pleckstrin homology (PH) domain. Centaurin alpha is a phophatidlyinositide binding protein consisting of an N-terminal ArfGAP domain and two PH domains. In response to growth factor activation, PI3K phosphorylates phosphatidylinositol 4,5-bisphosphate to phosphatidylinositol 3,4,5-trisphosphate. Centaurin alpha 1 is recruited to the plasma membrane following growth factor stimulation by specific binding of its PH domain to phosphatidylinositol 3,4,5-trisphosphate. Centaurin alpha 2 is constitutively bound to the plasma membrane since it binds phosphatidylinositol 4,5-bisphosphate and phosphatidylinositol 3,4,5-trisphosphate with equal affinity. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specifici
Probab=24.80 E-value=1.6e+02 Score=18.22 Aligned_cols=28 Identities=7% Similarity=0.162 Sum_probs=25.2
Q ss_pred CCeEEeeecCCHHHHHHHHHHHHHHhHh
Q psy9215 26 NKQVYGLNFSSKEDADSFARAMLYAVEC 53 (73)
Q Consensus 26 ~~~vyGL~F~s~~da~~F~~~~~~Ale~ 53 (73)
.+++|=|.-.|++|+.....+|+.|++.
T Consensus 75 ~~Rty~l~a~s~~e~~~Wi~ai~~v~~~ 102 (103)
T cd01251 75 PERKFLFACETEQDRREWIAAFQNVLSR 102 (103)
T ss_pred CCeEEEEECCCHHHHHHHHHHHHHHhcC
Confidence 4688999999999999999999999864
No 37
>PRK14128 iraD DNA replication/recombination/repair protein; Provisional
Probab=23.42 E-value=1.2e+02 Score=18.34 Aligned_cols=24 Identities=21% Similarity=0.170 Sum_probs=20.9
Q ss_pred eecCCHHHHHHHHHHHHHHhHhcC
Q psy9215 32 LNFSSKEDADSFARAMLYAVECNS 55 (73)
Q Consensus 32 L~F~s~~da~~F~~~~~~Ale~L~ 55 (73)
||-+.+++...+.+.|++|+..-+
T Consensus 1 ~~~~~~~~r~~i~~~I~~aI~~fE 24 (69)
T PRK14128 1 HNVSDKRLQSWYCRQLRSALLFHE 24 (69)
T ss_pred CCcccHHHHHHHHHHHHHHHHHcC
Confidence 577899999999999999997654
No 38
>TIGR03357 VI_zyme type VI secretion system lysozyme-related protein. The description for PFAM family pfam04965 cites acidic lysozyme activity for some phage-encoded members. This family represents a different subgroup of the proteins from pfam04965, where all members are associated with bacterial type VI secretion system genomic contexts.
Probab=22.83 E-value=97 Score=20.02 Aligned_cols=26 Identities=35% Similarity=0.497 Sum_probs=20.2
Q ss_pred ecCCHHHHHHHHHHHHHHhHhcCCCC
Q psy9215 33 NFSSKEDADSFARAMLYAVECNSPKL 58 (73)
Q Consensus 33 ~F~s~~da~~F~~~~~~Ale~L~~~~ 58 (73)
.+++.+....+...+++|++.-+-.-
T Consensus 60 ~~~~~~~~~~i~~~I~~aI~r~EPRl 85 (133)
T TIGR03357 60 SLSSADDRRRIRRAIEQAIERYEPRL 85 (133)
T ss_pred cccCHHHHHHHHHHHHHHHHhcCCCc
Confidence 56777788889999999997765443
No 39
>PF07130 YebG: YebG protein; InterPro: IPR009813 This family consists of several bacterial YebG proteins of around 75 residues in length. The exact function of this protein is unknown but it is thought to be involved in the SOS response. The induction of the yebG gene occurs as cell enter into the stationary growth phase and is dependent on is dependent on cyclic AMP and H-NS [].; PDB: 3ERM_E.
Probab=21.73 E-value=42 Score=21.16 Aligned_cols=40 Identities=20% Similarity=0.228 Sum_probs=21.9
Q ss_pred eecCCHHHHHHHHHHHHH--HhHhcCCCCccchhhhhhhhhh
Q psy9215 32 LNFSSKEDADSFARAMLY--AVECNSPKLKWTRHIRDQEETA 71 (73)
Q Consensus 32 L~F~s~~da~~F~~~~~~--Ale~L~~~~~~~~~~~~~~~~~ 71 (73)
+.|.|+.+|++.++-..- .|..+.+.++..-+-.+.|+-+
T Consensus 17 mtF~sKkEADAyDKmLd~Ad~L~~~L~~~~~~lde~~~E~l~ 58 (75)
T PF07130_consen 17 MTFTSKKEADAYDKMLDLADNLTDFLEQSVLGLDEAQAEELA 58 (75)
T ss_dssp ----HHHHHHHHHHHHHHHHHHHHHHHHHSTT--HHHHHHHH
T ss_pred eeeccHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHH
Confidence 899999999999874333 3455555555555666666554
No 40
>PF09003 Phage_integ_N: Bacteriophage lambda integrase, N-terminal domain ; InterPro: IPR015094 The amino terminal domain of bacteriophage lambda integrase folds into a three-stranded, antiparallel beta-sheet that packs against a C-terminal alpha-helix, adopting a fold that is structurally related to the three-stranded beta-sheet family of DNA-binding domains (which includes the GCC-box DNA-binding domain and the N-terminal domain of Tn916 integrase). This domain is responsible for high-affinity binding to each of the five DNA arm-type sites and is also a context-sensitive modulator of DNA cleavage []. ; GO: 0003677 DNA binding, 0008907 integrase activity, 0015074 DNA integration; PDB: 1Z1G_B 1Z1B_A 2WCC_3 1KJK_A.
Probab=20.11 E-value=2.4e+02 Score=17.62 Aligned_cols=46 Identities=15% Similarity=0.151 Sum_probs=25.5
Q ss_pred ecCceeee---ccCcceeeee--CCeEEeeecCCHHHHHHHHHHHHHHhHhc
Q psy9215 8 LKSLKYNQ---ATSTFHQWRD--NKQVYGLNFSSKEDADSFARAMLYAVECN 54 (73)
Q Consensus 8 ~~gl~Ynk---atp~FHqWrd--~~~vyGL~F~s~~da~~F~~~~~~Ale~L 54 (73)
-++|-+.. ..-.+=+||+ +++.+||+= .+++|..=+......+..-
T Consensus 13 P~NLy~~~dkr~~k~Yy~Yr~P~tGk~~~LG~-d~~~Ai~~A~eaN~~i~~~ 63 (75)
T PF09003_consen 13 PPNLYCRKDKRNGKGYYQYRNPITGKEHGLGT-DRAEAIAQAIEANLRIAEQ 63 (75)
T ss_dssp -TTEEEETT-----SEEEEE-TTTS-EEEEES--HHHHHHHHHHHHHHHTSS
T ss_pred CCCccccCCcCcceeEEEEecCCCCceeeCCC-CHHHHHHHHHHHHHHHHHh
Confidence 34555543 2346889999 578999987 7777766555555544433
No 41
>PF05573 NosL: NosL; InterPro: IPR008719 NosL is one of the accessory proteins of the nos (nitrous oxide reductase) gene cluster. NosL is a monomeric protein of 18,540 MW that specifically and stoichiometrically binds Cu(I). The copper ion in NosL is ligated by a Cys residue, and one Met and one His are thought to serve as the other ligands. It is possible that NosL is a copper chaperone involved in metallocentre assembly []. This entry also contains HTH-type transcriptional repressors, including YcnK. YcnK may act as a negative transcriptional regulator of YcnJ in the presence of copper and may use copper as a corepressor. The gene, ycnK, is significantly induced under copper-limiting conditions.; PDB: 2HQ3_A 2HPU_A.
Probab=20.02 E-value=90 Score=20.87 Aligned_cols=29 Identities=45% Similarity=0.776 Sum_probs=18.5
Q ss_pred CcceeeeeCCe---EEe-----------eecCCHHHHHHHHHH
Q psy9215 18 STFHQWRDNKQ---VYG-----------LNFSSKEDADSFARA 46 (73)
Q Consensus 18 p~FHqWrd~~~---vyG-----------L~F~s~~da~~F~~~ 46 (73)
|.-++|-|.++ |+| +-|.++++|.+|...
T Consensus 91 p~~~~~Ida~~A~yV~gs~~~~pMg~~~~aF~~~~~A~~F~~~ 133 (149)
T PF05573_consen 91 PGDGEWIDAKKAYYVVGSDVRGPMGPDLIAFASKEDAEAFAKE 133 (149)
T ss_dssp S---EEEEGGGSEEEEESSSS-TTS--EEEES-HHHHHHHHHH
T ss_pred CCCCceEEcceEEEEECCCcCCCCCCcccccCCHHHHHHHHHH
Confidence 33378999652 344 339999999999875
Done!