Query psy2440
Match_columns 60
No_of_seqs 118 out of 1025
Neff 8.1
Searched_HMMs 46136
Date Sat Aug 17 00:59:19 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2440.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2440hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4171|consensus 99.9 6.8E-22 1.5E-26 133.4 6.8 60 1-60 482-542 (671)
2 KOG1023|consensus 99.6 3.9E-16 8.4E-21 103.4 4.9 59 2-60 337-398 (484)
3 KOG3618|consensus 99.5 2.5E-15 5.5E-20 103.9 2.3 59 2-60 381-439 (1318)
4 KOG3619|consensus 99.5 6E-14 1.3E-18 97.6 6.3 58 3-60 154-211 (867)
5 PF00211 Guanylate_cyc: Adenyl 99.4 4.9E-13 1.1E-17 77.7 5.3 59 2-60 49-107 (184)
6 KOG3619|consensus 99.3 2.4E-12 5.3E-17 89.7 4.5 60 1-60 697-766 (867)
7 cd07302 CHD cyclase homology d 99.2 1.2E-10 2.6E-15 66.2 8.0 59 2-60 42-102 (177)
8 smart00044 CYCc Adenylyl- / gu 99.2 2.1E-10 4.6E-15 67.3 7.9 58 3-60 78-137 (194)
9 COG2114 CyaA Adenylate cyclase 99.0 1.8E-09 3.9E-14 65.6 7.0 55 2-60 87-142 (227)
10 KOG3618|consensus 99.0 1.4E-10 3E-15 81.0 0.8 60 1-60 1128-1195(1318)
11 cd07556 Nucleotidyl_cyc_III Cl 92.1 1 2.2E-05 23.8 7.4 49 6-59 46-94 (133)
12 PRK02240 GTP cyclohydrolase II 73.1 12 0.00026 23.8 4.5 8 11-18 186-193 (254)
13 COG2429 Archaeal GTP cyclohydr 69.8 11 0.00025 23.8 3.9 11 11-21 182-192 (250)
14 cd01906 proteasome_protease_Hs 53.8 35 0.00075 19.4 3.8 21 2-22 29-50 (182)
15 PF05165 GGDN: GGDN family; I 50.7 18 0.00039 22.9 2.4 9 11-19 178-186 (246)
16 COG1058 CinA Predicted nucleot 43.1 56 0.0012 20.8 3.7 23 3-25 36-76 (255)
17 PF00990 GGDEF: GGDEF domain; 40.9 58 0.0013 17.3 3.3 49 9-59 79-129 (161)
18 cd03759 proteasome_beta_type_3 39.9 57 0.0012 19.2 3.3 19 3-21 33-52 (195)
19 cd03756 proteasome_alpha_arche 39.2 74 0.0016 18.9 3.8 21 2-22 56-77 (211)
20 PF10386 DUF2441: Protein of u 37.5 54 0.0012 19.1 2.8 21 3-23 102-123 (141)
21 cd00462 PTH Peptidyl-tRNA hydr 37.4 21 0.00046 21.2 1.2 10 51-60 123-132 (171)
22 COG0375 HybF Zn finger protein 37.3 60 0.0013 18.3 2.9 26 33-58 5-34 (115)
23 PF01195 Pept_tRNA_hydro: Pept 37.1 21 0.00046 21.3 1.2 10 51-60 124-133 (184)
24 cd03757 proteasome_beta_type_1 36.8 65 0.0014 19.3 3.3 20 2-21 37-57 (212)
25 PRK05426 peptidyl-tRNA hydrola 34.9 24 0.00053 21.2 1.2 10 51-60 127-136 (189)
26 TIGR03690 20S_bact_beta protea 34.3 87 0.0019 18.8 3.6 20 2-21 31-51 (219)
27 cd03762 proteasome_beta_type_6 34.1 91 0.002 18.1 3.6 21 2-22 29-50 (188)
28 cd01912 proteasome_beta protea 33.5 83 0.0018 18.1 3.3 20 2-21 29-49 (189)
29 cd03758 proteasome_beta_type_2 32.9 1.1E+02 0.0023 18.0 4.5 21 2-22 30-51 (193)
30 cd02406 CRS2 Chloroplast RNA s 32.4 70 0.0015 19.4 2.9 10 51-60 127-136 (191)
31 PF01155 HypA: Hydrogenase exp 31.3 95 0.0021 16.9 3.4 26 33-58 5-34 (113)
32 COG0193 Pth Peptidyl-tRNA hydr 30.6 30 0.00066 21.1 1.1 10 51-60 127-136 (190)
33 cd03755 proteasome_alpha_type_ 30.3 1.1E+02 0.0023 18.2 3.5 21 3-23 56-77 (207)
34 PF11590 DNAPolymera_Pol: DNA 30.3 67 0.0014 14.8 2.0 21 19-39 20-40 (41)
35 TIGR00447 pth peptidyl-tRNA hy 30.1 30 0.00066 20.8 1.1 10 51-60 126-135 (188)
36 PF07530 PRE_C2HC: Associated 27.4 39 0.00085 17.0 1.1 14 2-15 44-57 (68)
37 KOG0443|consensus 27.1 2.2E+02 0.0048 21.4 5.0 42 10-57 424-481 (827)
38 PF05770 Ins134_P3_kin: Inosit 26.9 80 0.0017 20.6 2.6 19 4-22 185-205 (307)
39 PF00885 DMRL_synthase: 6,7-di 26.0 1.3E+02 0.0029 17.2 3.2 20 26-45 125-144 (144)
40 KOG0185|consensus 25.6 1E+02 0.0023 19.7 2.9 18 1-18 69-86 (256)
41 cd03764 proteasome_beta_archea 24.5 1.2E+02 0.0026 17.6 2.9 20 2-21 29-49 (188)
42 TIGR00676 fadh2 5,10-methylene 24.2 51 0.0011 20.6 1.4 35 12-46 88-123 (272)
43 KOG1120|consensus 24.1 91 0.002 18.1 2.2 24 36-59 34-57 (134)
44 TIGR00612 ispG_gcpE 1-hydroxy- 23.4 1E+02 0.0022 20.6 2.6 10 51-60 120-129 (346)
45 PF10954 DUF2755: Protein of u 23.3 1.4E+02 0.0031 16.3 2.8 29 32-60 44-72 (100)
46 PF07865 DUF1652: Protein of u 23.3 1.2E+02 0.0026 15.4 3.0 30 10-39 36-65 (69)
47 PRK13302 putative L-aspartate 23.1 1.6E+02 0.0036 18.4 3.5 34 10-46 231-264 (271)
48 PF09826 Beta_propel: Beta pro 22.0 1E+02 0.0023 21.4 2.6 18 3-20 327-345 (521)
49 cd03754 proteasome_alpha_type_ 21.8 1.7E+02 0.0036 17.5 3.2 21 3-23 58-79 (215)
50 PRK13303 L-aspartate dehydroge 21.8 2E+02 0.0043 17.9 3.6 43 3-47 216-261 (265)
51 TIGR03855 NAD_NadX aspartate d 21.7 1.9E+02 0.0041 17.9 3.5 43 3-47 180-225 (229)
52 TIGR00100 hypA hydrogenase nic 21.6 1.6E+02 0.0034 16.2 2.8 24 35-58 7-34 (115)
53 PRK12380 hydrogenase nickel in 21.4 1.6E+02 0.0034 16.2 2.8 25 34-58 6-34 (113)
54 cd03753 proteasome_alpha_type_ 21.2 2E+02 0.0043 17.1 3.9 22 2-23 55-77 (213)
55 cd01831 Endoglucanase_E_like E 21.1 45 0.00097 18.8 0.6 15 6-20 1-15 (169)
56 PF04771 CAV_VP3: Chicken anae 21.1 59 0.0013 18.2 1.0 10 51-60 29-38 (121)
57 cd03751 proteasome_alpha_type_ 20.9 2E+02 0.0044 17.2 3.6 21 2-22 58-79 (212)
58 smart00596 PRE_C2HC PRE_C2HC d 20.9 41 0.00088 17.3 0.4 14 2-15 44-57 (69)
59 PRK12419 riboflavin synthase s 20.7 1.6E+02 0.0035 17.4 2.9 20 27-46 136-155 (158)
60 PF10379 nec1: Virulence prote 20.2 69 0.0015 18.8 1.3 21 5-26 3-24 (184)
61 PRK00366 ispG 4-hydroxy-3-meth 20.1 1.3E+02 0.0029 20.2 2.7 10 51-60 129-138 (360)
No 1
>KOG4171|consensus
Probab=99.86 E-value=6.8e-22 Score=133.39 Aligned_cols=60 Identities=37% Similarity=0.548 Sum_probs=57.6
Q ss_pred CCCceEEeeeCcEEEEEeCCCCCCchhHHHHHHHHHHHHHHHHHhhcCC-CCceEEEEecC
Q psy2440 1 MKIMRQVETVGQVYMAVSGAPEETPHHACNISDLSLSFIETVENMKEGS-DNNIQIRIDEG 60 (60)
Q Consensus 1 ~~~v~KvktiGD~ym~~~Glp~~~~~ha~~~~~~al~m~~~~~~~~~~~-~~~~~iRIGi~ 60 (60)
+++|||||||||+||+++|+|.++++||+.++++||+|+...+++-.+. +.+++|||||+
T Consensus 482 ~~~VYKVETIGDaYm~vsG~P~~~~~HAe~i~~~AL~Mm~~ak~v~~p~~~~pi~iRiGIH 542 (671)
T KOG4171|consen 482 THDVYKVETIGDAYMVVSGLPDASDYHAEHIADLALGMMEEAKEVVSPVTGEPIQIRIGIH 542 (671)
T ss_pred ccCeEEEeeccchheeecCCCCCChhHHHHHHHHHHHHHHHhhhhcCcCCCCceEEEEEec
Confidence 4799999999999999999999999999999999999999999999987 79999999996
No 2
>KOG1023|consensus
Probab=99.63 E-value=3.9e-16 Score=103.43 Aligned_cols=59 Identities=29% Similarity=0.455 Sum_probs=55.8
Q ss_pred CCceEEeeeCcEEEEEeCCCCCCc-hhHHHHHHHHHHHHHHHHHhhcCCC--CceEEEEecC
Q psy2440 2 KIMRQVETVGQVYMAVSGAPEETP-HHACNISDLSLSFIETVENMKEGSD--NNIQIRIDEG 60 (60)
Q Consensus 2 ~~v~KvktiGD~ym~~~Glp~~~~-~ha~~~~~~al~m~~~~~~~~~~~~--~~~~iRIGi~ 60 (60)
+|+|||+||||+||+++|+|..+. .|+..++.++++++..++.|..+|. .++++|||++
T Consensus 337 ~d~yKVetiGDaYmvvSglp~~n~~~H~~eia~msl~~~~~~~~f~i~H~P~~~l~iRig~~ 398 (484)
T KOG1023|consen 337 HDVYKVETIGDAYMVVSGLPIRNGYRHAREIASMALGLRSFLESFSLPHRPWEKLRLRIGFH 398 (484)
T ss_pred cCCeeEeccCcceeecccCceecHhHHHHHHHHHHHHHHHHHhccCCCCCCchhhheeeccc
Confidence 689999999999999999999987 5999999999999999999999986 8999999985
No 3
>KOG3618|consensus
Probab=99.54 E-value=2.5e-15 Score=103.92 Aligned_cols=59 Identities=20% Similarity=0.461 Sum_probs=56.9
Q ss_pred CCceEEeeeCcEEEEEeCCCCCCchhHHHHHHHHHHHHHHHHHhhcCCCCceEEEEecC
Q psy2440 2 KIMRQVETVGQVYMAVSGAPEETPHHACNISDLSLSFIETVENMKEGSDNNIQIRIDEG 60 (60)
Q Consensus 2 ~~v~KvktiGD~ym~~~Glp~~~~~ha~~~~~~al~m~~~~~~~~~~~~~~~~iRIGi~ 60 (60)
.+.+||.|.||||.|++|.|+|+.|||-+++++.|+|+.++++|....++.++||+|++
T Consensus 381 ~gcEKISTLGDCYYCVaGCPEPraDHA~ccvEMGLgMI~AirqFd~~r~e~VnMRVGvH 439 (1318)
T KOG3618|consen 381 TGCEKISTLGDCYYCVAGCPEPRADHAYCCVEMGLGMIKAIRQFDQERKEMVNMRVGVH 439 (1318)
T ss_pred cCcchhccccceeeeecCCCCCcccceeeehhhcchHHHHHHHHHHHhhcccceEEEEe
Confidence 47899999999999999999999999999999999999999999999999999999985
No 4
>KOG3619|consensus
Probab=99.49 E-value=6e-14 Score=97.56 Aligned_cols=58 Identities=24% Similarity=0.545 Sum_probs=55.7
Q ss_pred CceEEeeeCcEEEEEeCCCCCCchhHHHHHHHHHHHHHHHHHhhcCCCCceEEEEecC
Q psy2440 3 IMRQVETVGQVYMAVSGAPEETPHHACNISDLSLSFIETVENMKEGSDNNIQIRIDEG 60 (60)
Q Consensus 3 ~v~KvktiGD~ym~~~Glp~~~~~ha~~~~~~al~m~~~~~~~~~~~~~~~~iRIGi~ 60 (60)
...+||..||||.|++|+|.+++|||..++++.++|++.++.++...+.+++|||||+
T Consensus 154 ~clRiKiLGdcyyCvsglp~~~~dHA~~~v~mgl~Mi~aI~~vr~at~~dvnmrvGih 211 (867)
T KOG3619|consen 154 HCLRIKILGDCYYCVSGLPEARPDHAVCCVEMGLDMIKAIKQVREATGVDVNMRVGIH 211 (867)
T ss_pred ceEeeeeecceeEEecCCCCCChhHHHHHHHHHHHHHHHHHHHHHHhCCCCceEEEEe
Confidence 4678999999999999999999999999999999999999999999999999999985
No 5
>PF00211 Guanylate_cyc: Adenylate and Guanylate cyclase catalytic domain; InterPro: IPR001054 Guanylate cyclases (4.6.1.2 from EC) catalyse the formation of cyclic GMP (cGMP) from GTP. cGMP acts as an intracellular messenger, activating cGMP-dependent kinases and regulating cGMP-sensitive ion channels. The role of cGMP as a second messenger in vascular smooth muscle relaxation and retinal photo-transduction is well established. Guanylate cyclase is found both in the soluble and particulate fractions of eukaryotic cells. The soluble and plasma membrane-bound forms differ in structure, regulation and other properties [, , , ]. Most currently known plasma membrane-bound forms are receptors for small polypeptides. The soluble forms of guanylate cyclase are cytoplasmic heterodimers having alpha and beta subunits. In all characterised eukaryote guanylyl- and adenylyl cyclases, cyclic nucleotide synthesis is carried out by the conserved class III cyclase domain. ; GO: 0016849 phosphorus-oxygen lyase activity, 0009190 cyclic nucleotide biosynthetic process, 0035556 intracellular signal transduction; PDB: 3UVJ_A 1FX4_A 1WC4_B 2BW7_D 1WC1_A 1WC0_A 1WC3_A 1WC5_A 1WC6_A 3ET6_B ....
Probab=99.41 E-value=4.9e-13 Score=77.74 Aligned_cols=59 Identities=24% Similarity=0.334 Sum_probs=53.2
Q ss_pred CCceEEeeeCcEEEEEeCCCCCCchhHHHHHHHHHHHHHHHHHhhcCCCCceEEEEecC
Q psy2440 2 KIMRQVETVGQVYMAVSGAPEETPHHACNISDLSLSFIETVENMKEGSDNNIQIRIDEG 60 (60)
Q Consensus 2 ~~v~KvktiGD~ym~~~Glp~~~~~ha~~~~~~al~m~~~~~~~~~~~~~~~~iRIGi~ 60 (60)
++.++++++||+||++||.|.+..+|+..++++|+++++.+++++.....++++||||+
T Consensus 49 ~~g~~~~~~Gd~~~~~f~~~~~~~~~~~~a~~~al~~~~~~~~~~~~~~~~~~~rIGI~ 107 (184)
T PF00211_consen 49 HGGEIIKFIGDGVMAVFGLPEPDEDAAERAVQFALALLEALERLNKESGPPLSVRIGIH 107 (184)
T ss_dssp TTEEEEEEETTEEEEEESSSSCHCHHHHHHHHHHHHHHHHHHHHHHHHHSS-EEEEEEE
T ss_pred ccccccccccceeEEEeccccccccccccccccccchhhcccccccccceeeeeecccc
Confidence 35789999999999999999888899999999999999999998887778999999985
No 6
>KOG3619|consensus
Probab=99.31 E-value=2.4e-12 Score=89.72 Aligned_cols=60 Identities=23% Similarity=0.439 Sum_probs=52.8
Q ss_pred CCCceEEeeeCcEEEEEeCCC-CC----C-----chhHHHHHHHHHHHHHHHHHhhcCCCCceEEEEecC
Q psy2440 1 MKIMRQVETVGQVYMAVSGAP-EE----T-----PHHACNISDLSLSFIETVENMKEGSDNNIQIRIDEG 60 (60)
Q Consensus 1 ~~~v~KvktiGD~ym~~~Glp-~~----~-----~~ha~~~~~~al~m~~~~~~~~~~~~~~~~iRIGi~ 60 (60)
|++|+||||||.+|||++|+- .+ + ..|....++||++|...+...|...-+.+++||||+
T Consensus 697 F~~IEKIKTIGSTYMAAsGL~~~~~~~~~~~~~~~~h~~~l~eFAlal~~~L~~IN~~SfNnF~LrIGin 766 (867)
T KOG3619|consen 697 FSGVEKIKTIGSTYMAASGLNPTSAQENDQSLRQWSHLGALVEFALALMHKLDEINRHSFNNFELRIGIN 766 (867)
T ss_pred cccceeEEEecchhhhhhCCChhhhhccCcchhHHhhHHHHHHHHHHHHHHHHhhhHHhhccceeeecee
Confidence 789999999999999999993 22 1 158899999999999999999977779999999985
No 7
>cd07302 CHD cyclase homology domain. Catalytic domains of the mononucleotidyl cyclases (MNC's), also called cyclase homology domains (CHDs), are part of the class III nucleotidyl cyclases. This class includes eukaryotic and prokaryotic adenylate cyclases (AC's) and guanylate cyclases (GC's). They seem to share a common catalytic mechanism in their requirement for two magnesium ions to bind the polyphosphate moiety of the nucleotide.
Probab=99.23 E-value=1.2e-10 Score=66.22 Aligned_cols=59 Identities=22% Similarity=0.273 Sum_probs=53.7
Q ss_pred CCceEEeeeCcEEEEEeCCCCCCchhHHHHHHHHHHHHHHHHHhhcC--CCCceEEEEecC
Q psy2440 2 KIMRQVETVGQVYMAVSGAPEETPHHACNISDLSLSFIETVENMKEG--SDNNIQIRIDEG 60 (60)
Q Consensus 2 ~~v~KvktiGD~ym~~~Glp~~~~~ha~~~~~~al~m~~~~~~~~~~--~~~~~~iRIGi~ 60 (60)
.+.+++++.||++|++|+.|....+++.+++++|+++++.+.+++.+ ....+++||||+
T Consensus 42 ~~g~~~~~~gd~~~~~f~~~~~~~~~~~~A~~~a~~i~~~~~~~~~~~~~~~~~~~riGi~ 102 (177)
T cd07302 42 HGGTVDKTIGDAVMAVFGLPGAHEDHAERAVRAALEMQEALAELNAEREGGPPLRLRIGIH 102 (177)
T ss_pred cCCEEEEEeCceEEEEeCCCCCchhHHHHHHHHHHHHHHHHHHHhhcccCCCCeEEEEEEe
Confidence 36789999999999999999999999999999999999999998876 458999999985
No 8
>smart00044 CYCc Adenylyl- / guanylyl cyclase, catalytic domain. Present in two copies in mammalian adenylyl cyclases. Eubacterial homologues are known. Two residues (Asn, Arg) are thought to be involved in catalysis. These cyclases have important roles in a diverse range of cellular processes.
Probab=99.18 E-value=2.1e-10 Score=67.35 Aligned_cols=58 Identities=31% Similarity=0.469 Sum_probs=52.1
Q ss_pred CceEEeeeCcEEEEEeCCCCCC-chhHHHHHHHHHHHHHHHHHhhcCC-CCceEEEEecC
Q psy2440 3 IMRQVETVGQVYMAVSGAPEET-PHHACNISDLSLSFIETVENMKEGS-DNNIQIRIDEG 60 (60)
Q Consensus 3 ~v~KvktiGD~ym~~~Glp~~~-~~ha~~~~~~al~m~~~~~~~~~~~-~~~~~iRIGi~ 60 (60)
+.+.++++||++|++||.|... .+|+.+++.+|+++++.+.+++.+. ..++++||||+
T Consensus 78 gg~v~~~~Gd~~l~~F~~~~~~~~~~a~~a~~~al~l~~~~~~~~~~~~~~~l~~riGih 137 (194)
T smart00044 78 GGYKVKTIGDAYMVVSGLPTEALVDHAELAADEALDMVESLKTVLSQHRGNGLRVRIGIH 137 (194)
T ss_pred CeEEEEEeCCEEEEEECCCCCcchHHHHHHHHHHHHHHHHHHHHHhhccCCCeeEEEEEe
Confidence 5688999999999999999887 4999999999999999999988765 48899999985
No 9
>COG2114 CyaA Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]
Probab=99.02 E-value=1.8e-09 Score=65.61 Aligned_cols=55 Identities=24% Similarity=0.352 Sum_probs=43.0
Q ss_pred CCceEEeeeCcEEEEEeCCCCCCchhHHHHHH-HHHHHHHHHHHhhcCCCCceEEEEecC
Q psy2440 2 KIMRQVETVGQVYMAVSGAPEETPHHACNISD-LSLSFIETVENMKEGSDNNIQIRIDEG 60 (60)
Q Consensus 2 ~~v~KvktiGD~ym~~~Glp~~~~~ha~~~~~-~al~m~~~~~~~~~~~~~~~~iRIGi~ 60 (60)
++...+|+|||++|++||.|.+.+ ++.+++. ..++|.+...+++.+. +++||||+
T Consensus 87 ~gG~v~k~iGD~~la~F~~p~~~~-~A~~~a~~~~~~~~~~~~~~~~~~---l~~riGi~ 142 (227)
T COG2114 87 HGGRVVKFIGDGFLAVFGRPSPLE-DAVACALDLQLALRNPLARLRRES---LRVRIGIH 142 (227)
T ss_pred cCCEEEEEecceEEEEeCCCCCcH-HHHHHHHHHHHHHHHHHhhccCcC---eeEEEEEE
Confidence 456788999999999999998877 5544444 6777877777766554 99999986
No 10
>KOG3618|consensus
Probab=98.97 E-value=1.4e-10 Score=81.00 Aligned_cols=60 Identities=18% Similarity=0.350 Sum_probs=51.6
Q ss_pred CCCceEEeeeCcEEEEEeCCCCC-C------chhHHHHHHHHHHHHHHHHHhhcCCC-CceEEEEecC
Q psy2440 1 MKIMRQVETVGQVYMAVSGAPEE-T------PHHACNISDLSLSFIETVENMKEGSD-NNIQIRIDEG 60 (60)
Q Consensus 1 ~~~v~KvktiGD~ym~~~Glp~~-~------~~ha~~~~~~al~m~~~~~~~~~~~~-~~~~iRIGi~ 60 (60)
|..++||||||-+|||++||-.. . .+|-....+||++|++.+..||.... -++.+|||++
T Consensus 1128 f~~iEKIKTIG~tyMAASGLnp~~~~~~~hp~EHl~~l~eFa~amq~Vvd~FN~dlL~Fnf~lrvG~N 1195 (1318)
T KOG3618|consen 1128 FSSIEKIKTIGATYMAASGLNPAQAQDGSHPQEHLQILFEFAKAMQRVVDDFNNDLLWFNFKLRVGFN 1195 (1318)
T ss_pred chhhHHHhhhhHHHHHhcCCChHHccCCCChHHHHHHHHHHHHHHHHHHHHhhhhhhheeeeEEeecc
Confidence 67899999999999999999322 1 26889999999999999999998765 6899999975
No 11
>cd07556 Nucleotidyl_cyc_III Class III nucleotidyl cyclases. Class III nucleotidyl cyclases are the largest, most diverse group of nucleotidyl cyclases (NC's) containing prokaryotic and eukaryotic proteins. They can be divided into two major groups; the mononucleotidyl cyclases (MNC's) and the diguanylate cyclases (DGC's). The MNC's, which include the adenylate cyclases (AC's) and the guanylate cyclases (GC's), have a conserved cyclase homology domain (CHD), while the DGC's have a conserved GGDEF domain, named after a conserved motif within this subgroup. Their products, cyclic guanylyl and adenylyl nucleotides, are second messengers that play important roles in eukaryotic signal transduction and prokaryotic sensory pathways.
Probab=92.06 E-value=1 Score=23.82 Aligned_cols=49 Identities=24% Similarity=0.494 Sum_probs=33.8
Q ss_pred EEeeeCcEEEEEeCCCCCCchhHHHHHHHHHHHHHHHHHhhcCCCCceEEEEec
Q psy2440 6 QVETVGQVYMAVSGAPEETPHHACNISDLSLSFIETVENMKEGSDNNIQIRIDE 59 (60)
Q Consensus 6 KvktiGD~ym~~~Glp~~~~~ha~~~~~~al~m~~~~~~~~~~~~~~~~iRIGi 59 (60)
-.++-||.+++++.. +....+..++..+.+.+.+........+.++||+
T Consensus 46 ~~r~~~d~f~~l~~~-----~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~ig~ 94 (133)
T cd07556 46 KIKTIGDEFMVVSGL-----DHPAAAVAFAEDMREAVSALNQSEGNPVRVRIGI 94 (133)
T ss_pred EEEeecceEEEEECc-----hHHHHHHHHHHHHHHHHHHHHhccCCceEEEEEE
Confidence 445789999999743 2346677788888888776554344567777775
No 12
>PRK02240 GTP cyclohydrolase III; Provisional
Probab=73.12 E-value=12 Score=23.83 Aligned_cols=8 Identities=38% Similarity=0.642 Sum_probs=7.0
Q ss_pred CcEEEEEe
Q psy2440 11 GQVYMAVS 18 (60)
Q Consensus 11 GD~ym~~~ 18 (60)
||-+|++|
T Consensus 186 GDN~~~~~ 193 (254)
T PRK02240 186 GDNFMAPC 193 (254)
T ss_pred CceEEEEC
Confidence 59999998
No 13
>COG2429 Archaeal GTP cyclohydrolase III [Nucleotide transport and metabolism]
Probab=69.83 E-value=11 Score=23.81 Aligned_cols=11 Identities=36% Similarity=0.347 Sum_probs=8.6
Q ss_pred CcEEEEEeCCC
Q psy2440 11 GQVYMAVSGAP 21 (60)
Q Consensus 11 GD~ym~~~Glp 21 (60)
||-||+++..-
T Consensus 182 GDN~ma~~p~~ 192 (250)
T COG2429 182 GDNIMAVCPGL 192 (250)
T ss_pred CcceEEECCCC
Confidence 59999998554
No 14
>cd01906 proteasome_protease_HslV proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins, the breakdown of regulatory proteins, and the processing of proteins such as the preparation of peptides for immune presentation. Two main proteasomal types are distinguished by their different tertiary structures: the eukaryotic/archeal 20S proteasome and the prokaryotic proteasome-like heat shock protein encoded by heat shock locus V, hslV. The proteasome core particle is a highly conserved cylindrical structure made up of non-identical subunits that have their active sites on the inner walls of a large central cavity. The proteasome subunits of bacteria, archaea, and eukaryotes all share a conserved Ntn (N terminal nucleophile) hydrolase fold and a catalytic mechanism involving an N-terminal nucleo
Probab=53.81 E-value=35 Score=19.43 Aligned_cols=21 Identities=10% Similarity=0.222 Sum_probs=16.9
Q ss_pred CCceEEeeeCc-EEEEEeCCCC
Q psy2440 2 KIMRQVETVGQ-VYMAVSGAPE 22 (60)
Q Consensus 2 ~~v~KvktiGD-~ym~~~Glp~ 22 (60)
.++.||-.|+| .+++.+|.+.
T Consensus 29 ~~~~Ki~~i~~~i~~~~sG~~~ 50 (182)
T cd01906 29 STVEKIFKIDDHIGCAFAGLAA 50 (182)
T ss_pred CCcceEEEECCCEEEEEeeCHH
Confidence 45778999998 6888999974
No 15
>PF05165 GGDN: GGDN family; InterPro: IPR007839 GTP cyclohydrolase III catalyses the formation of 2-amino-5-formylamino-6- ribofuranosylamino-4(3H)-pyrimidinone ribonucleotide monophosphate and inorganic phosphate from GTP. The enzyme also has an independent pyrophosphate phosphohydrolase activity. The proteins are 200-270 amino acids in length.; GO: 0003933 GTP cyclohydrolase activity, 0009058 biosynthetic process; PDB: 2QV6_B.
Probab=50.73 E-value=18 Score=22.92 Aligned_cols=9 Identities=44% Similarity=0.490 Sum_probs=6.7
Q ss_pred CcEEEEEeC
Q psy2440 11 GQVYMAVSG 19 (60)
Q Consensus 11 GD~ym~~~G 19 (60)
||-+|+++.
T Consensus 178 GDNi~~v~p 186 (246)
T PF05165_consen 178 GDNIMAVCP 186 (246)
T ss_dssp TTEEEEE-T
T ss_pred CceEEEECC
Confidence 699999883
No 16
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=43.08 E-value=56 Score=20.80 Aligned_cols=23 Identities=26% Similarity=0.504 Sum_probs=15.2
Q ss_pred CceEEeeeCc-----------------EEEEEeCC-CCCCc
Q psy2440 3 IMRQVETVGQ-----------------VYMAVSGA-PEETP 25 (60)
Q Consensus 3 ~v~KvktiGD-----------------~ym~~~Gl-p~~~~ 25 (60)
+|+++.++|| -.+..+|| |.+++
T Consensus 36 ~v~~~~~VgD~~~~I~~~l~~a~~r~D~vI~tGGLGPT~DD 76 (255)
T COG1058 36 DLARITTVGDNPDRIVEALREASERADVVITTGGLGPTHDD 76 (255)
T ss_pred eEEEEEecCCCHHHHHHHHHHHHhCCCEEEECCCcCCCccH
Confidence 4677777775 45777788 66543
No 17
>PF00990 GGDEF: GGDEF domain; InterPro: IPR000160 This domain appears to be ubiquitous in bacteria and is often linked to a regulatory domain, such as a phosphorylation receiver or oxygen sensing domain. Its function is to synthesize cyclic di-GMP, which is used as an intracellular signalling molecule in a wide variety of bacteria [,]. Enzymatic activity can be strongly influenced by the adjacent domains. Processes regulated by this domain include exopolysaccharide synthesis, biofilm formation, motility and cell differentiation. Structural studies of PleD from Caulobacter crescentus show that this domain forms a five-stranded beta sheet surrounded by helices, similar to the catalytic core of adenylate cyclase [].; PDB: 3IGN_A 3BRE_B 3EZU_A 3ICL_B 3PJX_A 3PJW_A 3HVW_A 3HVA_B 3I5C_B 3I5B_B ....
Probab=40.86 E-value=58 Score=17.28 Aligned_cols=49 Identities=8% Similarity=0.152 Sum_probs=25.5
Q ss_pred eeCcEEEEEeCCCCCCchhHHHHHHHHHHHHHHHHHhhcCCC--CceEEEEec
Q psy2440 9 TVGQVYMAVSGAPEETPHHACNISDLSLSFIETVENMKEGSD--NNIQIRIDE 59 (60)
Q Consensus 9 tiGD~ym~~~Glp~~~~~ha~~~~~~al~m~~~~~~~~~~~~--~~~~iRIGi 59 (60)
+=+|.|+++ +|..+.+.+..+.+...++++.+.......+ ..+.+.+|+
T Consensus 79 ~~~~~f~il--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~ 129 (161)
T PF00990_consen 79 LGDDEFAIL--LPDTDSEEAEELAERLERLIDELNEPIDIDGIEVHLTLSIGI 129 (161)
T ss_dssp EETTEEEEE--EETCTHHHHHHHHHHHHHHHHHHCCEEESTTEEEECEEEEEE
T ss_pred ccchheeec--ccccccccchhhhhhhhhhhhhcccccccccccccccccceE
Confidence 445666665 3444444455555555555554443322223 347777775
No 18
>cd03759 proteasome_beta_type_3 proteasome beta type-3 subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=39.86 E-value=57 Score=19.17 Aligned_cols=19 Identities=21% Similarity=0.560 Sum_probs=15.4
Q ss_pred CceEEeeeCc-EEEEEeCCC
Q psy2440 3 IMRQVETVGQ-VYMAVSGAP 21 (60)
Q Consensus 3 ~v~KvktiGD-~ym~~~Glp 21 (60)
++.||-.|+| .+|+.+|++
T Consensus 33 ~~~KI~~I~~~i~~~~sG~~ 52 (195)
T cd03759 33 DFQKVFRIGDRLYIGLAGLA 52 (195)
T ss_pred CCCeEEEeCCCEEEEccchH
Confidence 5789999997 678888986
No 19
>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=39.18 E-value=74 Score=18.91 Aligned_cols=21 Identities=19% Similarity=0.245 Sum_probs=16.0
Q ss_pred CCceEEeeeCc-EEEEEeCCCC
Q psy2440 2 KIMRQVETVGQ-VYMAVSGAPE 22 (60)
Q Consensus 2 ~~v~KvktiGD-~ym~~~Glp~ 22 (60)
+++.||-.|.| .+|+.+|++.
T Consensus 56 ~~~~KI~~I~~~i~~~~sG~~~ 77 (211)
T cd03756 56 ESIEKIYKIDDHVGAATSGLVA 77 (211)
T ss_pred CccceEEEEcCCEEEEEecCHH
Confidence 35678888886 7788899963
No 20
>PF10386 DUF2441: Protein of unknown function (DUF2441); InterPro: IPR018840 This is a family of highly conserved predicted proteins primarily found in Bacillus species. Structurally they form homo-dimers, but their function is unknown. ; PDB: 2AUA_A.
Probab=37.55 E-value=54 Score=19.15 Aligned_cols=21 Identities=19% Similarity=0.417 Sum_probs=14.7
Q ss_pred CceEEeeeCcEEEEEeCC-CCC
Q psy2440 3 IMRQVETVGQVYMAVSGA-PEE 23 (60)
Q Consensus 3 ~v~KvktiGD~ym~~~Gl-p~~ 23 (60)
++.|++++|+.+-.-+.+ |..
T Consensus 102 qIvKl~v~gn~fegD~n~lp~~ 123 (141)
T PF10386_consen 102 QIVKLRVIGNSFEGDSNLLPKE 123 (141)
T ss_dssp EEEEEEEEEEEEEE-GGGS--S
T ss_pred eEEEEEecCCccccccccccCC
Confidence 578999999998777765 543
No 21
>cd00462 PTH Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through abortion of translation and is essential for cell viability.This group also contains chloroplast RNA splicing 2 (CRS2), which is closely related nuclear-encoded protein required for the splicing of nine group II introns in chloroplasts.
Probab=37.39 E-value=21 Score=21.18 Aligned_cols=10 Identities=30% Similarity=0.451 Sum_probs=7.1
Q ss_pred CceEEEEecC
Q psy2440 51 NNIQIRIDEG 60 (60)
Q Consensus 51 ~~~~iRIGi~ 60 (60)
.-.++|||||
T Consensus 123 ~f~RlriGIG 132 (171)
T cd00462 123 DFPRLRIGIG 132 (171)
T ss_pred CeeEEEEEeC
Confidence 4567788875
No 22
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=37.32 E-value=60 Score=18.26 Aligned_cols=26 Identities=23% Similarity=0.372 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHhhcCCC----CceEEEEe
Q psy2440 33 DLSLSFIETVENMKEGSD----NNIQIRID 58 (60)
Q Consensus 33 ~~al~m~~~~~~~~~~~~----~~~~iRIG 58 (60)
.+|..+++.+.+....++ ..+.+|||
T Consensus 5 Sla~aii~~i~~~A~~~~a~~V~~V~l~IG 34 (115)
T COG0375 5 SLAQAIIELIEEQAEKHGAKRVTAVWLEIG 34 (115)
T ss_pred HHHHHHHHHHHHHHHHcCCceEEEEEEEEc
Confidence 456666666666665554 57777777
No 23
>PF01195 Pept_tRNA_hydro: Peptidyl-tRNA hydrolase; InterPro: IPR001328 Peptidyl-tRNA hydrolase (3.1.1.29 from EC) (PTH) is a bacterial enzyme that cleaves peptidyl-tRNA or N-acyl-aminoacyl-tRNA to yield free peptides or N-acyl-amino acids and tRNA. The natural substrate for this enzyme may be peptidyl-tRNA which drop off the ribosome during protein synthesis [, ]. Bacterial PTH has been found to be evolutionary related to a yeast protein [].; GO: 0004045 aminoacyl-tRNA hydrolase activity; PDB: 3KJZ_A 3KK0_A 3P2J_A 3V2I_A 3TCN_A 3TD6_A 2Z2K_A 3TD2_A 2Z2J_B 2JRC_A ....
Probab=37.07 E-value=21 Score=21.27 Aligned_cols=10 Identities=30% Similarity=0.451 Sum_probs=6.6
Q ss_pred CceEEEEecC
Q psy2440 51 NNIQIRIDEG 60 (60)
Q Consensus 51 ~~~~iRIGi~ 60 (60)
.-.++|||||
T Consensus 124 ~f~RlrIGIG 133 (184)
T PF01195_consen 124 DFPRLRIGIG 133 (184)
T ss_dssp GSEEEEEEE-
T ss_pred cceeEEEecC
Confidence 5677788875
No 24
>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=36.77 E-value=65 Score=19.27 Aligned_cols=20 Identities=10% Similarity=0.111 Sum_probs=15.8
Q ss_pred CCceEEeeeCc-EEEEEeCCC
Q psy2440 2 KIMRQVETVGQ-VYMAVSGAP 21 (60)
Q Consensus 2 ~~v~KvktiGD-~ym~~~Glp 21 (60)
+++.||.-|+| .+++.+|+.
T Consensus 37 ~~~~KI~~I~~~i~~~~sG~~ 57 (212)
T cd03757 37 RDSPKIFKLTDKCVLGSSGFQ 57 (212)
T ss_pred CCCCeEEEcCCCEEEEccchH
Confidence 46789999997 668888985
No 25
>PRK05426 peptidyl-tRNA hydrolase; Provisional
Probab=34.92 E-value=24 Score=21.24 Aligned_cols=10 Identities=30% Similarity=0.478 Sum_probs=6.9
Q ss_pred CceEEEEecC
Q psy2440 51 NNIQIRIDEG 60 (60)
Q Consensus 51 ~~~~iRIGi~ 60 (60)
.-.++|||||
T Consensus 127 ~f~RlriGIG 136 (189)
T PRK05426 127 DFWRLRIGIG 136 (189)
T ss_pred CeeEEEEEeC
Confidence 4567777775
No 26
>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type. Members of this family are the beta subunit of the 20S proteasome as found in Actinobacteria such as Mycobacterium, Rhodococcus, and Streptomyces. In Streptomyces, maturation during proteasome assembly was shown to remove a 53-amino acid propeptide. Most of the length of the propeptide is not included in this model.
Probab=34.34 E-value=87 Score=18.84 Aligned_cols=20 Identities=10% Similarity=0.262 Sum_probs=15.4
Q ss_pred CCceEEeeeCc-EEEEEeCCC
Q psy2440 2 KIMRQVETVGQ-VYMAVSGAP 21 (60)
Q Consensus 2 ~~v~KvktiGD-~ym~~~Glp 21 (60)
+++.||-.|.| .+|+.+|+.
T Consensus 31 ~~~~KI~~i~~~i~~~~sG~~ 51 (219)
T TIGR03690 31 RDVEKVYPTDEYSAVGIAGTA 51 (219)
T ss_pred CCcceEEEcCCcEEEEecccH
Confidence 46789999997 567778985
No 27
>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=34.12 E-value=91 Score=18.05 Aligned_cols=21 Identities=14% Similarity=0.447 Sum_probs=14.6
Q ss_pred CCceEEeeeCc-EEEEEeCCCC
Q psy2440 2 KIMRQVETVGQ-VYMAVSGAPE 22 (60)
Q Consensus 2 ~~v~KvktiGD-~ym~~~Glp~ 22 (60)
+++.||..|.| .+|+.+|++-
T Consensus 29 ~~~~Ki~~i~~~i~~~~sG~~~ 50 (188)
T cd03762 29 RVTDKLTQLHDRIYCCRSGSAA 50 (188)
T ss_pred CCcccEEEccCCEEEEecccHH
Confidence 35677777775 4777889863
No 28
>cd01912 proteasome_beta proteasome beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=33.50 E-value=83 Score=18.09 Aligned_cols=20 Identities=5% Similarity=0.366 Sum_probs=15.6
Q ss_pred CCceEEeeeCc-EEEEEeCCC
Q psy2440 2 KIMRQVETVGQ-VYMAVSGAP 21 (60)
Q Consensus 2 ~~v~KvktiGD-~ym~~~Glp 21 (60)
+.+.||-.|+| .+++.+|+.
T Consensus 29 ~~~~Ki~~i~~~i~~~~sG~~ 49 (189)
T cd01912 29 RNFDKIFKISDNILLGTAGSA 49 (189)
T ss_pred CCcCcEEEccCCEEEEccccH
Confidence 35678888885 788888985
No 29
>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis.Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=32.94 E-value=1.1e+02 Score=18.01 Aligned_cols=21 Identities=19% Similarity=0.205 Sum_probs=16.4
Q ss_pred CCceEEeeeCc-EEEEEeCCCC
Q psy2440 2 KIMRQVETVGQ-VYMAVSGAPE 22 (60)
Q Consensus 2 ~~v~KvktiGD-~ym~~~Glp~ 22 (60)
+.+.||-.|.| .+++.+|+.-
T Consensus 30 ~~~~KI~~I~~~i~~~~sG~~a 51 (193)
T cd03758 30 DDEDKIYKLSDHKLMACSGEAG 51 (193)
T ss_pred cCcccEEEeCCCeEEEEccchH
Confidence 45778888997 5789999963
No 30
>cd02406 CRS2 Chloroplast RNA splicing 2 (CRS2) is a nuclear-encoded protein required for the splicing of group II introns in the chloroplast. CRS2 forms stable complexes with two CRS2-associated factors, CAF1 and CAF2, which are required for the splicing of distinct subsets of CRS2-dependent introns. CRS2 is closely related to bacterial peptidyl-tRNA hydrolases (PTH).
Probab=32.40 E-value=70 Score=19.42 Aligned_cols=10 Identities=20% Similarity=0.245 Sum_probs=7.3
Q ss_pred CceEEEEecC
Q psy2440 51 NNIQIRIDEG 60 (60)
Q Consensus 51 ~~~~iRIGi~ 60 (60)
.-.++|||||
T Consensus 127 ~f~RlrIGIG 136 (191)
T cd02406 127 EFPRLSIGIG 136 (191)
T ss_pred CeEEEEEEeC
Confidence 4567888886
No 31
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=31.26 E-value=95 Score=16.94 Aligned_cols=26 Identities=23% Similarity=0.445 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHhhcCCC----CceEEEEe
Q psy2440 33 DLSLSFIETVENMKEGSD----NNIQIRID 58 (60)
Q Consensus 33 ~~al~m~~~~~~~~~~~~----~~~~iRIG 58 (60)
..+..+++.+.+....++ ..+.++||
T Consensus 5 si~~~iv~~v~~~a~~~~~~kV~~V~l~iG 34 (113)
T PF01155_consen 5 SIAQSIVEIVEEEAEENGAKKVTKVRLEIG 34 (113)
T ss_dssp HHHHHHHHHHHHHHHCTT-SEEEEEEEEEE
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEEEEEEC
Confidence 445666677766665443 57777777
No 32
>COG0193 Pth Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=30.63 E-value=30 Score=21.12 Aligned_cols=10 Identities=40% Similarity=0.567 Sum_probs=5.9
Q ss_pred CceEEEEecC
Q psy2440 51 NNIQIRIDEG 60 (60)
Q Consensus 51 ~~~~iRIGi~ 60 (60)
.-.++|||||
T Consensus 127 ~f~RlRiGIG 136 (190)
T COG0193 127 NFYRLRIGIG 136 (190)
T ss_pred ccceEEEEcC
Confidence 4456666664
No 33
>cd03755 proteasome_alpha_type_7 proteasome_alpha_type_7. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=30.27 E-value=1.1e+02 Score=18.20 Aligned_cols=21 Identities=19% Similarity=0.430 Sum_probs=16.1
Q ss_pred CceEEeeeCc-EEEEEeCCCCC
Q psy2440 3 IMRQVETVGQ-VYMAVSGAPEE 23 (60)
Q Consensus 3 ~v~KvktiGD-~ym~~~Glp~~ 23 (60)
...||-.|+| .+|+.+|+.-.
T Consensus 56 ~~~KI~~I~~~i~~~~sG~~~D 77 (207)
T cd03755 56 TVRKICMLDDHVCLAFAGLTAD 77 (207)
T ss_pred ccCcEEEECCCEEEEEecchhh
Confidence 3678889997 67888899643
No 34
>PF11590 DNAPolymera_Pol: DNA polymerase catalytic subunit Pol; InterPro: IPR021639 This family of proteins represents the catalytic subunit, Pol, of the Herpes simplex virus DNA polymerase. Pol binds UL42, making up the DNA polymerase. UL42 is a processivity subunit which binds to the C-terminal of Pol in a similar way that the cell cycle regulator p21 binds to PCNA []. ; GO: 0003887 DNA-directed DNA polymerase activity, 0004523 ribonuclease H activity; PDB: 1DML_H.
Probab=30.26 E-value=67 Score=14.84 Aligned_cols=21 Identities=10% Similarity=0.214 Sum_probs=11.3
Q ss_pred CCCCCCchhHHHHHHHHHHHH
Q psy2440 19 GAPEETPHHACNISDLSLSFI 39 (60)
Q Consensus 19 Glp~~~~~ha~~~~~~al~m~ 39 (60)
|+|...++...+-++-|++++
T Consensus 20 g~~~~~eeEt~qkL~~AF~iL 40 (41)
T PF11590_consen 20 GLPSSEEEETRQKLRRAFDIL 40 (41)
T ss_dssp ------HHHHHHHHHHHHHHH
T ss_pred cccchhhHHHHHHHHHHHHhh
Confidence 557666677777788888775
No 35
>TIGR00447 pth peptidyl-tRNA hydrolase. The natural substrate for this enzyme may be peptidyl-tRNAs that drop off the ribosome during protein synthesis. Peptidyl-tRNA hydrolase is a bacterial protein; YHR189W from Saccharomyces cerevisiae appears to be orthologous and likely has the same function.
Probab=30.07 E-value=30 Score=20.84 Aligned_cols=10 Identities=40% Similarity=0.498 Sum_probs=6.6
Q ss_pred CceEEEEecC
Q psy2440 51 NNIQIRIDEG 60 (60)
Q Consensus 51 ~~~~iRIGi~ 60 (60)
.-.++|||||
T Consensus 126 ~f~RlrIGIG 135 (188)
T TIGR00447 126 NFNRLRIGIG 135 (188)
T ss_pred CcceEEEEeC
Confidence 4557777775
No 36
>PF07530 PRE_C2HC: Associated with zinc fingers; InterPro: IPR006579 This domain is present in proteins found exclusively in the arthropods, including a number of Drosophila species, the silk moth and the gypsy moth. These proteins are possibly involved in RNA binding or single strand DNA binding.
Probab=27.42 E-value=39 Score=16.99 Aligned_cols=14 Identities=14% Similarity=0.159 Sum_probs=11.0
Q ss_pred CCceEEeeeCcEEE
Q psy2440 2 KIMRQVETVGQVYM 15 (60)
Q Consensus 2 ~~v~KvktiGD~ym 15 (60)
+++|+|+++|-.-+
T Consensus 44 k~i~~Ik~l~~~~V 57 (68)
T PF07530_consen 44 KEIYKIKTLCGQRV 57 (68)
T ss_pred cceeehHhhCCeEE
Confidence 57899999987653
No 37
>KOG0443|consensus
Probab=27.13 E-value=2.2e+02 Score=21.38 Aligned_cols=42 Identities=19% Similarity=0.400 Sum_probs=25.6
Q ss_pred eCcEEEEEeCCCCC----------------CchhHHHHHHHHHHHHHHHHHhhcCCCCceEEEE
Q psy2440 10 VGQVYMAVSGAPEE----------------TPHHACNISDLSLSFIETVENMKEGSDNNIQIRI 57 (60)
Q Consensus 10 iGD~ym~~~Glp~~----------------~~~ha~~~~~~al~m~~~~~~~~~~~~~~~~iRI 57 (60)
-||||++.-.-|.. ..+...+++.+|-.|...++ +.+++.||
T Consensus 424 ~GdcYlvlYtY~~~~~~~~~iiY~W~G~qAs~ee~~~a~~~A~~l~~s~k------g~~vq~rv 481 (827)
T KOG0443|consen 424 GGDCYLVLYTYPRGEERTEHIIYVWQGKQASQEERAAAISLAKALVESLK------GVPVQVRI 481 (827)
T ss_pred CCCeEEEEEeeccCCcccceEEEEEecccCCHHHHHHHHHHHHHHhhhcC------CceeEEEe
Confidence 38999998877722 12344566677766666553 34555554
No 38
>PF05770 Ins134_P3_kin: Inositol 1, 3, 4-trisphosphate 5/6-kinase; InterPro: IPR008656 This entry represents inositol-tetrakisphosphate 1-kinase which is also called inositol 1,3,4-trisphosphate 5/6-kinase. Inositol-tetrakisphosphate 1-kinase can phosphorylate various inositol polyphosphate such as Ins(3,4,5,6)P4 or Ins(1,3,4)P3. This enzyme phosphorylates Ins(3,4,5,6)P4 at position 1 to form Ins(1,3,4,5,6)P5. This reaction is thought to have regulatory importance, since Ins(3,4,5,6)P4 is an inhibitor of plasma membrane Ca(2+)-activated Cl(-) channels, while Ins(1,3,4,5,6)P5 is not. It also phosphorylates Ins(1,3,4)P3 on O-5 and O-6 to form Ins(1,3,4,6)P4, an essential molecule in the hexakisphosphate (InsP6) pathway [, , , , ].; GO: 0000287 magnesium ion binding, 0005524 ATP binding, 0047325 inositol tetrakisphosphate 1-kinase activity, 0052725 inositol-1,3,4-trisphosphate 6-kinase activity, 0052726 inositol-1,3,4-trisphosphate 5-kinase activity, 0032957 inositol trisphosphate metabolic process, 0005622 intracellular; PDB: 1Z2P_X 1Z2O_X 1Z2N_X 2Q7D_A 2QB5_B 2ODT_X.
Probab=26.93 E-value=80 Score=20.58 Aligned_cols=19 Identities=26% Similarity=0.401 Sum_probs=13.5
Q ss_pred ceEEeeeCcEEEEEe--CCCC
Q psy2440 4 MRQVETVGQVYMAVS--GAPE 22 (60)
Q Consensus 4 v~KvktiGD~ym~~~--Glp~ 22 (60)
+|||-.+||.+.++- .+|+
T Consensus 185 LfKVyVvGd~v~~v~R~SLpn 205 (307)
T PF05770_consen 185 LFKVYVVGDKVFVVKRPSLPN 205 (307)
T ss_dssp EEEEEEETTEEEEEEEE----
T ss_pred EEEEEEecCEEEEEECCCCCC
Confidence 799999999998875 5543
No 39
>PF00885 DMRL_synthase: 6,7-dimethyl-8-ribityllumazine synthase; InterPro: IPR002180 6,7-dimethyl-8-ribityllumazine synthase (riboflavin synthase) catalyses the biosynthesis of riboflavin according to the reaction: 2 6,7-dimethyl-8-(1-D-ribityl)lumazine = riboflavin + 4-(1-D-ribitylamino)-5-amino-2,6-dihydroxypyrimidine. The biosynthesis of one riboflavin molecule requires one molecule of GTP and two molecules of ribulose 5-phosphate as substrates. The final step in the biosynthesis of the vitamin involves the dismutation of 6,7-dimethyl-8-ribityllumazine catalyzed by riboflavin synthase. The second product, 5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione, is recycled in the biosynthetic pathway by 6,7-dimethyl-8-ribityllumazine synthase []. N-[2,4-dioxo-6-d-ribitylamino-1,2,3,4-tetrahydropyrimidin-5-yl]oxalamic acid derivatives inhibit riboflavin synthase []. This family includes the beta chain of 6,7-dimethyl-8-ribityllumazine synthase 2.5.1.9 from EC. The family also includes a subfamily of distant archaebacterial proteins that may also have the same function for example O28856 from SWISSPROT.; GO: 0009231 riboflavin biosynthetic process, 0009349 riboflavin synthase complex; PDB: 2O6H_D 1C41_C 2OBX_H 1VSX_H 1VSW_3 3JV8_C 3MK3_r 3NQ4_G 2A58_A 2A57_D ....
Probab=26.03 E-value=1.3e+02 Score=17.22 Aligned_cols=20 Identities=5% Similarity=0.243 Sum_probs=16.3
Q ss_pred hhHHHHHHHHHHHHHHHHHh
Q psy2440 26 HHACNISDLSLSFIETVENM 45 (60)
Q Consensus 26 ~ha~~~~~~al~m~~~~~~~ 45 (60)
++...+++.|++|++..+++
T Consensus 125 nkG~eaA~aal~m~~l~~~l 144 (144)
T PF00885_consen 125 NKGREAAEAALEMAKLLRQL 144 (144)
T ss_dssp EHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHhcC
Confidence 57788899999999887653
No 40
>KOG0185|consensus
Probab=25.58 E-value=1e+02 Score=19.67 Aligned_cols=18 Identities=17% Similarity=0.172 Sum_probs=14.6
Q ss_pred CCCceEEeeeCcEEEEEe
Q psy2440 1 MKIMRQVETVGQVYMAVS 18 (60)
Q Consensus 1 ~~~v~KvktiGD~ym~~~ 18 (60)
|++|++|.-+||--+.-.
T Consensus 69 ~~nVeRi~kVgdntllG~ 86 (256)
T KOG0185|consen 69 YKNVERIFKVGDNTLLGA 86 (256)
T ss_pred hcCceeeEEecCceEEec
Confidence 689999999998765544
No 41
>cd03764 proteasome_beta_archeal Archeal proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme for non-lysosomal protein degradation in both the cytosol and the nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are both members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=24.54 E-value=1.2e+02 Score=17.55 Aligned_cols=20 Identities=15% Similarity=0.424 Sum_probs=15.1
Q ss_pred CCceEEeeeCc-EEEEEeCCC
Q psy2440 2 KIMRQVETVGQ-VYMAVSGAP 21 (60)
Q Consensus 2 ~~v~KvktiGD-~ym~~~Glp 21 (60)
+++.||..|+| .+++++|++
T Consensus 29 ~~~~KI~~i~~~i~~~~sG~~ 49 (188)
T cd03764 29 KNVKKIFQIDDKIAMTIAGSV 49 (188)
T ss_pred CCcccEEEccCCEEEEcCccH
Confidence 35778888884 577788986
No 42
>TIGR00676 fadh2 5,10-methylenetetrahydrofolate reductase, prokaryotic form. This protein is an FAD-containing flavoprotein.
Probab=24.15 E-value=51 Score=20.64 Aligned_cols=35 Identities=14% Similarity=0.160 Sum_probs=19.7
Q ss_pred cEEEEEeCCCCCCch-hHHHHHHHHHHHHHHHHHhh
Q psy2440 12 QVYMAVSGAPEETPH-HACNISDLSLSFIETVENMK 46 (60)
Q Consensus 12 D~ym~~~Glp~~~~~-ha~~~~~~al~m~~~~~~~~ 46 (60)
+.++++.|.|....+ .+....+.|.++++.+++.+
T Consensus 88 ~nvL~l~GD~~~~~~~~~~~~f~~a~~Li~~i~~~~ 123 (272)
T TIGR00676 88 RHILALRGDPPKGEGTPTPGGFNYASELVEFIRNEF 123 (272)
T ss_pred CEEEEeCCCCCCCCCCCCCCCCCCHHHHHHHHHHhc
Confidence 457888888764332 22122334677777776543
No 43
>KOG1120|consensus
Probab=24.12 E-value=91 Score=18.06 Aligned_cols=24 Identities=13% Similarity=0.282 Sum_probs=16.5
Q ss_pred HHHHHHHHHhhcCCCCceEEEEec
Q psy2440 36 LSFIETVENMKEGSDNNIQIRIDE 59 (60)
Q Consensus 36 l~m~~~~~~~~~~~~~~~~iRIGi 59 (60)
-.-++.++++.....+++-+|||+
T Consensus 34 p~Av~~ik~ll~~~~e~~~lrigV 57 (134)
T KOG1120|consen 34 PSAVNHIKQLLSDKPEDVCLRIGV 57 (134)
T ss_pred HHHHHHHHHHHHhCCcCceeEEEE
Confidence 344455666666667888899986
No 44
>TIGR00612 ispG_gcpE 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase. Chlamydial members of the family have a long insert. The family is largely restricted to Bacteria, where it is widely but not universally distributed. No homology can be detected between the GcpE family and other proteins.
Probab=23.43 E-value=1e+02 Score=20.65 Aligned_cols=10 Identities=20% Similarity=0.305 Sum_probs=8.0
Q ss_pred CceEEEEecC
Q psy2440 51 NNIQIRIDEG 60 (60)
Q Consensus 51 ~~~~iRIGi~ 60 (60)
..+.||||+|
T Consensus 120 ~~ipIRIGVN 129 (346)
T TIGR00612 120 HGKAMRIGVN 129 (346)
T ss_pred CCCCEEEecC
Confidence 5678899986
No 45
>PF10954 DUF2755: Protein of unknown function (DUF2755); InterPro: IPR020513 This entry contains membrane proteins with no known function.; GO: 0016021 integral to membrane
Probab=23.34 E-value=1.4e+02 Score=16.27 Aligned_cols=29 Identities=10% Similarity=0.193 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHhhcCCCCceEEEEecC
Q psy2440 32 SDLSLSFIETVENMKEGSDNNIQIRIDEG 60 (60)
Q Consensus 32 ~~~al~m~~~~~~~~~~~~~~~~iRIGi~ 60 (60)
.-.|..+.+.+-+......+.++|-.|+|
T Consensus 44 LvHAPGV~EhLmQ~Qds~RPrveigl~Vg 72 (100)
T PF10954_consen 44 LVHAPGVYEHLMQVQDSGRPRVEIGLGVG 72 (100)
T ss_pred HHhCcHHHHHHHHHHhcCCCceEEeehhH
Confidence 34455667777777666667777666553
No 46
>PF07865 DUF1652: Protein of unknown function (DUF1652); InterPro: IPR012448 The proteins in this entry have not been characterised.
Probab=23.28 E-value=1.2e+02 Score=15.43 Aligned_cols=30 Identities=20% Similarity=0.294 Sum_probs=20.2
Q ss_pred eCcEEEEEeCCCCCCchhHHHHHHHHHHHH
Q psy2440 10 VGQVYMAVSGAPEETPHHACNISDLSLSFI 39 (60)
Q Consensus 10 iGD~ym~~~Glp~~~~~ha~~~~~~al~m~ 39 (60)
-|+..+.+.|+|...-...+.++.+..++.
T Consensus 36 sg~~~l~vtGI~~~~l~s~rdI~~LI~eLr 65 (69)
T PF07865_consen 36 SGRVELTVTGISTSALNSSRDIVRLIAELR 65 (69)
T ss_pred CCcEEEEEcCcCHHHcCCHHHHHHHHHHHH
Confidence 366778899998766666666666555543
No 47
>PRK13302 putative L-aspartate dehydrogenase; Provisional
Probab=23.15 E-value=1.6e+02 Score=18.40 Aligned_cols=34 Identities=15% Similarity=0.143 Sum_probs=23.8
Q ss_pred eCcEEEEEeCCCCCCchhHHHHHHHHHHHHHHHHHhh
Q psy2440 10 VGQVYMAVSGAPEETPHHACNISDLSLSFIETVENMK 46 (60)
Q Consensus 10 iGD~ym~~~Glp~~~~~ha~~~~~~al~m~~~~~~~~ 46 (60)
.|+.++.+.|.|.. +.+-..-.|+..++.+++..
T Consensus 231 ~g~~~~~~~~~p~~---npkts~laa~s~~~~l~~~~ 264 (271)
T PRK13302 231 SARFSMTIENIPSE---NPKTGRITAQSVIALLRKQS 264 (271)
T ss_pred eEEEEEEEEcCcCC---CCchHHHHHHHHHHHHHhhc
Confidence 56788999999984 33444566777777777665
No 48
>PF09826 Beta_propel: Beta propeller domain; InterPro: IPR019198 This entry consists of predicted secreted proteins containing a C-terminal beta-propeller domain distantly related to WD-40 repeats.
Probab=21.99 E-value=1e+02 Score=21.41 Aligned_cols=18 Identities=17% Similarity=0.298 Sum_probs=14.1
Q ss_pred CceEEeeeCc-EEEEEeCC
Q psy2440 3 IMRQVETVGQ-VYMAVSGA 20 (60)
Q Consensus 3 ~v~KvktiGD-~ym~~~Gl 20 (60)
.+|-++++|| +||+.+--
T Consensus 327 ~IysvRF~Gd~~Y~VTFrq 345 (521)
T PF09826_consen 327 RIYSVRFMGDRAYLVTFRQ 345 (521)
T ss_pred eEEEEEEeCCeEEEEEEee
Confidence 5789999997 67777754
No 49
>cd03754 proteasome_alpha_type_6 proteasome_alpha_type_6. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=21.84 E-value=1.7e+02 Score=17.55 Aligned_cols=21 Identities=5% Similarity=0.161 Sum_probs=15.2
Q ss_pred CceEEeeeCc-EEEEEeCCCCC
Q psy2440 3 IMRQVETVGQ-VYMAVSGAPEE 23 (60)
Q Consensus 3 ~v~KvktiGD-~ym~~~Glp~~ 23 (60)
...||-.|.| .+|+.+|+...
T Consensus 58 ~~~Ki~~I~~~i~~~~sG~~~D 79 (215)
T cd03754 58 TVTHLFRITDEIGCVMTGMIAD 79 (215)
T ss_pred ccCceEEEcCCEEEEEEechhh
Confidence 3567888886 67888899643
No 50
>PRK13303 L-aspartate dehydrogenase; Provisional
Probab=21.81 E-value=2e+02 Score=17.92 Aligned_cols=43 Identities=21% Similarity=0.274 Sum_probs=26.1
Q ss_pred CceEEee---eCcEEEEEeCCCCCCchhHHHHHHHHHHHHHHHHHhhc
Q psy2440 3 IMRQVET---VGQVYMAVSGAPEETPHHACNISDLSLSFIETVENMKE 47 (60)
Q Consensus 3 ~v~Kvkt---iGD~ym~~~Glp~~~~~ha~~~~~~al~m~~~~~~~~~ 47 (60)
++.+|+- .|+.++-+.|.|.+.. .+-..-.|+..++.+++...
T Consensus 216 n~h~i~~~g~~g~~~~~~~~~p~~~n--pkts~laa~S~~~~l~~~~~ 261 (265)
T PRK13303 216 NVHEIEARGAFGEFEFEMSGKPLPDN--PKTSALTALSAIRALRNRAA 261 (265)
T ss_pred ceEEEEEEeccEEEEEEEeCCcCCCC--CchHHHHHHHHHHHHHhhcC
Confidence 3444544 4567888889886532 23444556777777776543
No 51
>TIGR03855 NAD_NadX aspartate dehydrogenase. Members of this protein family are L-aspartate dehydrogenase, as shown for the NADP-dependent enzyme TM_1643 of Thermotoga maritima. Members lack homology to NadB, the aspartate oxidase (EC 1.4.3.16) of most mesophilic bacteria (described by TIGR00551), which this enzyme replaces in the generation of oxaloacetate from aspartate for the NAD biosynthetic pathway. All members of the seed alignment are found adjacent to other genes of NAD biosynthesis, although other uses of L-aspartate dehydrogenase may occur.
Probab=21.71 E-value=1.9e+02 Score=17.87 Aligned_cols=43 Identities=14% Similarity=0.203 Sum_probs=26.3
Q ss_pred CceEEee---eCcEEEEEeCCCCCCchhHHHHHHHHHHHHHHHHHhhc
Q psy2440 3 IMRQVET---VGQVYMAVSGAPEETPHHACNISDLSLSFIETVENMKE 47 (60)
Q Consensus 3 ~v~Kvkt---iGD~ym~~~Glp~~~~~ha~~~~~~al~m~~~~~~~~~ 47 (60)
++.+|+- .|+.++-+.|.|.+.. .+-..-.|+.+++.++++..
T Consensus 180 n~h~i~~~g~~g~~~~~~~~~p~~~n--pkts~laa~S~~~~l~~~~~ 225 (229)
T TIGR03855 180 NIHEIFVESDFGEMEIRVENVPSPEN--PRTSYLAALSALRLLRNLAS 225 (229)
T ss_pred cEEEEEEEeccEEEEEEEeCCcCCCC--CcHHHHHHHHHHHHHHhhcC
Confidence 3445544 4567888889886533 23344556777777776653
No 52
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=21.58 E-value=1.6e+02 Score=16.19 Aligned_cols=24 Identities=21% Similarity=0.386 Sum_probs=12.3
Q ss_pred HHHHHHHHHHhhcCCC----CceEEEEe
Q psy2440 35 SLSFIETVENMKEGSD----NNIQIRID 58 (60)
Q Consensus 35 al~m~~~~~~~~~~~~----~~~~iRIG 58 (60)
+..+++.+.+....++ ..+.++||
T Consensus 7 a~~iv~~v~~~a~~~~~~~V~~V~l~iG 34 (115)
T TIGR00100 7 AEAMLEIVEEQAEKHQAKKVTRVTLEIG 34 (115)
T ss_pred HHHHHHHHHHHHHHhCCCeEEEEEEEEc
Confidence 4444444444332222 56777777
No 53
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=21.39 E-value=1.6e+02 Score=16.16 Aligned_cols=25 Identities=24% Similarity=0.364 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHhhcCCC----CceEEEEe
Q psy2440 34 LSLSFIETVENMKEGSD----NNIQIRID 58 (60)
Q Consensus 34 ~al~m~~~~~~~~~~~~----~~~~iRIG 58 (60)
.+..+++.+.+....++ ..+.++||
T Consensus 6 i~~~iv~~v~~~a~~~~~~rV~~V~l~iG 34 (113)
T PRK12380 6 LCQSAVEIIQRQAEQHDVKRVTAVWLEIG 34 (113)
T ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEEEEc
Confidence 34455555544332222 57778877
No 54
>cd03753 proteasome_alpha_type_5 proteasome_alpha_type_5. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=21.18 E-value=2e+02 Score=17.11 Aligned_cols=22 Identities=14% Similarity=0.261 Sum_probs=15.3
Q ss_pred CCceEEeeeC-cEEEEEeCCCCC
Q psy2440 2 KIMRQVETVG-QVYMAVSGAPEE 23 (60)
Q Consensus 2 ~~v~KvktiG-D~ym~~~Glp~~ 23 (60)
+++.||..|. ..+|+.+|+...
T Consensus 55 ~~~~KI~~I~~~i~~~~sG~~~D 77 (213)
T cd03753 55 SSVEKIMEIDDHIGCAMSGLIAD 77 (213)
T ss_pred CccceEEEEcCCEEEEEecCHHH
Confidence 3567887777 567888898633
No 55
>cd01831 Endoglucanase_E_like Endoglucanase E-like members of the SGNH hydrolase family; Endoglucanase E catalyzes the endohydrolysis of 1,4-beta-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans.
Probab=21.06 E-value=45 Score=18.75 Aligned_cols=15 Identities=20% Similarity=0.363 Sum_probs=11.9
Q ss_pred EEeeeCcEEEEEeCC
Q psy2440 6 QVETVGQVYMAVSGA 20 (60)
Q Consensus 6 KvktiGD~ym~~~Gl 20 (60)
||..|||.+.+=.|.
T Consensus 1 ~i~~iGDSit~G~~~ 15 (169)
T cd01831 1 KIEFIGDSITCGYGV 15 (169)
T ss_pred CEEEEeccccccCcc
Confidence 688999999775555
No 56
>PF04771 CAV_VP3: Chicken anaemia virus VP-3 protein; InterPro: IPR006858 Chicken anaemia virus (CAV) is a circovirus which can cause severe depletion of some cell types, such as lymphocytes, by the induction of apoptosis []. Studies indicate that expression of the viral VP3 protein, also known as apoptin, is sufficient to induce apoptosis in susceptible cells and to produce the doughnut-shaped apoptosis body formations observed in cells during CAV infections. This protein induces apoptosis in tumor cells and transformed cells, but is incapable of inducing apoptosis in normal cells unless tranforming signals are supplied which induce its phosphorylation. Cell death occurs in a p53- and Bcl-2-independent manner []. Apoptin contains putative nuclear localisation and nuclear export domains, and has a positively charged C terminus which is thought to allow direct interaction with nucleic acids. Localisation to the nucleus appears to be necessary for apoptosis, but is not sufficient on its own. The biologically active form of the protein appears to be large complexes of 30-40 molecules which form distinct superstructures upon DNA binding. A number of cellular factors including Nmi, and several death domain superfamily proteins, have been shown to interact apoptin. It has been suggested that in the nucleus, it this binding of phosphorylated apoptin to DNA and other factors which starts the apoptotic machinery, triggering cell death.; GO: 0019051 induction by virus of host apoptosis, 0042025 host cell nucleus
Probab=21.06 E-value=59 Score=18.21 Aligned_cols=10 Identities=30% Similarity=0.498 Sum_probs=7.5
Q ss_pred CceEEEEecC
Q psy2440 51 NNIQIRIDEG 60 (60)
Q Consensus 51 ~~~~iRIGi~ 60 (60)
.-.+|+||||
T Consensus 29 ~~~EIqIGig 38 (121)
T PF04771_consen 29 HSREIQIGIG 38 (121)
T ss_pred ceeEEEEeee
Confidence 4568899886
No 57
>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=20.94 E-value=2e+02 Score=17.21 Aligned_cols=21 Identities=19% Similarity=0.246 Sum_probs=15.9
Q ss_pred CCceEEeeeCc-EEEEEeCCCC
Q psy2440 2 KIMRQVETVGQ-VYMAVSGAPE 22 (60)
Q Consensus 2 ~~v~KvktiGD-~ym~~~Glp~ 22 (60)
+.+.||..|+| .+++.+|+..
T Consensus 58 ~~~~KI~~I~~~i~~~~sG~~~ 79 (212)
T cd03751 58 GSNKRIFNVDRHIGIAVAGLLA 79 (212)
T ss_pred chhcceeEecCcEEEEEEEChH
Confidence 35678888886 6788889863
No 58
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=20.87 E-value=41 Score=17.31 Aligned_cols=14 Identities=21% Similarity=0.335 Sum_probs=9.7
Q ss_pred CCceEEeeeCcEEE
Q psy2440 2 KIMRQVETVGQVYM 15 (60)
Q Consensus 2 ~~v~KvktiGD~ym 15 (60)
+++++++++|-.=+
T Consensus 44 ~~Il~ik~Lg~~~V 57 (69)
T smart00596 44 KEILNIKTLGGQRV 57 (69)
T ss_pred cceEeehhhCCeeE
Confidence 45788888875543
No 59
>PRK12419 riboflavin synthase subunit beta; Provisional
Probab=20.75 E-value=1.6e+02 Score=17.38 Aligned_cols=20 Identities=5% Similarity=0.137 Sum_probs=16.5
Q ss_pred hHHHHHHHHHHHHHHHHHhh
Q psy2440 27 HACNISDLSLSFIETVENMK 46 (60)
Q Consensus 27 ha~~~~~~al~m~~~~~~~~ 46 (60)
+-..++..|++|....+++.
T Consensus 136 KG~eaA~aalem~~l~~~l~ 155 (158)
T PRK12419 136 KGAEAAHACADTLLSRERLR 155 (158)
T ss_pred cHHHHHHHHHHHHHHHHHhc
Confidence 45778999999999888775
No 60
>PF10379 nec1: Virulence protein nec1; InterPro: IPR018836 The Nec1 protein has necrogenic activity on excised potato tuber tissue, and the encoding gene is highly conserved in plant-pathogenic Streptomyces spp. The G+C content of nec1 indicates lateral transfer from an unrelated taxon, but its origins are unclear. Deletion analysis of nec1 demonstrated that the 151-amino-acid C-terminal region of the Nec1 protein is sufficient to confer necrogenic activity. Streptomyces turgidiscabies containing a nec1 deletion was greatly compromised in virulence on Arabidopsis thaliana (Mouse-ear cress), Nicotiana tabacum (Common tobacco), and Raphanus sativus (Radish) seedlings. The wild-type strain, S. turgidiscabies Car8, aggressively colonized and infected the root meristem of radish, whereas the delta-nec1 mutant Car811 did not. Taken together, the data suggest that Nec1 is a secreted virulence protein with a conserved plant cell target that acts early in plant infection [].
Probab=20.24 E-value=69 Score=18.82 Aligned_cols=21 Identities=29% Similarity=0.602 Sum_probs=13.9
Q ss_pred eEEeeeCcEEEEEeCC-CCCCch
Q psy2440 5 RQVETVGQVYMAVSGA-PEETPH 26 (60)
Q Consensus 5 ~KvktiGD~ym~~~Gl-p~~~~~ 26 (60)
.||+|+||. |-.+|. |..+..
T Consensus 3 lkirtlgdl-mrtsgvtpktqsS 24 (184)
T PF10379_consen 3 LKIRTLGDL-MRTSGVTPKTQSS 24 (184)
T ss_pred ceeeehhhH-HhhcCCCcccccc
Confidence 489999996 555666 544443
No 61
>PRK00366 ispG 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed
Probab=20.13 E-value=1.3e+02 Score=20.21 Aligned_cols=10 Identities=40% Similarity=0.471 Sum_probs=8.0
Q ss_pred CceEEEEecC
Q psy2440 51 NNIQIRIDEG 60 (60)
Q Consensus 51 ~~~~iRIGi~ 60 (60)
..+.||||+|
T Consensus 129 ~~ipIRIGvN 138 (360)
T PRK00366 129 YGIPIRIGVN 138 (360)
T ss_pred CCCCEEEecC
Confidence 5678899986
Done!