Query 033097
Match_columns 127
No_of_seqs 109 out of 180
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 09:46:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033097.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033097hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 CHL00165 ftrB ferredoxin thior 100.0 1.1E-43 2.3E-48 263.3 8.6 90 35-124 5-94 (116)
2 PF02943 FeThRed_B: Ferredoxin 100.0 1.9E-41 4.1E-46 247.9 4.6 84 41-124 1-88 (108)
3 COG4802 FtrB Ferredoxin-thiore 100.0 1.5E-39 3.3E-44 238.3 8.4 84 38-124 1-89 (110)
4 PF05511 ATP-synt_F6: Mitochon 90.8 0.46 1E-05 34.9 4.2 81 1-85 1-84 (99)
5 PHA00425 DNA packaging protein 72.4 7.4 0.00016 28.2 4.0 46 39-84 28-76 (88)
6 PRK10780 periplasmic chaperone 66.3 8 0.00017 29.3 3.4 38 38-75 117-164 (165)
7 PF03938 OmpH: Outer membrane 64.4 14 0.00031 26.9 4.4 37 39-75 111-157 (158)
8 PF10431 ClpB_D2-small: C-term 55.0 34 0.00073 22.5 4.5 38 45-85 13-50 (81)
9 TIGR02417 fruct_sucro_rep D-fr 53.6 20 0.00044 28.2 3.8 67 44-110 31-127 (327)
10 PF11123 DNA_Packaging_2: DNA 53.5 31 0.00066 24.7 4.3 46 39-84 26-74 (82)
11 PF00356 LacI: Bacterial regul 52.4 13 0.00028 23.2 2.0 19 44-62 28-46 (46)
12 TIGR01924 rsbW_low_gc serine-p 51.5 66 0.0014 24.0 6.1 56 32-88 8-63 (159)
13 TIGR01481 ccpA catabolite cont 51.0 28 0.0006 27.3 4.2 46 44-89 30-95 (329)
14 PRK05452 anaerobic nitric oxid 50.7 11 0.00023 33.4 2.0 34 32-67 371-404 (479)
15 COG5502 Uncharacterized conser 50.1 26 0.00057 27.1 3.8 39 41-79 73-112 (135)
16 PHA02745 hypothetical protein; 49.7 46 0.001 28.3 5.5 58 28-85 207-264 (265)
17 PF00078 RVT_1: Reverse transc 49.5 24 0.00052 25.5 3.4 29 39-67 171-199 (214)
18 PRK13612 photosystem II reacti 49.2 19 0.00041 27.2 2.8 25 38-62 87-111 (113)
19 PF03912 Psb28: Psb28 protein; 49.2 14 0.00031 27.6 2.1 24 38-61 84-107 (108)
20 TIGR03047 PS_II_psb28 photosys 49.1 18 0.0004 27.0 2.7 24 38-61 84-107 (109)
21 PRK13611 photosystem II reacti 48.2 20 0.00043 26.7 2.8 24 38-61 80-103 (104)
22 COG2825 HlpA Outer membrane pr 48.1 22 0.00047 27.7 3.1 40 36-75 118-167 (170)
23 PRK11303 DNA-binding transcrip 48.1 33 0.00071 26.9 4.2 45 44-88 32-96 (328)
24 CHL00128 psbW photosystem II p 47.9 20 0.00043 27.0 2.8 25 38-62 87-111 (113)
25 PLN00039 photosystem II reacti 47.9 20 0.00043 26.9 2.7 25 38-62 85-109 (111)
26 PRK11041 DNA-binding transcrip 47.5 33 0.00071 26.5 4.0 42 44-85 6-67 (309)
27 PRK10401 DNA-binding transcrip 47.4 33 0.00071 27.4 4.1 44 44-87 30-93 (346)
28 PF14791 DNA_pol_B_thumb: DNA 45.0 28 0.0006 23.1 2.8 20 45-64 10-29 (64)
29 TIGR02405 trehalos_R_Ecol treh 42.0 43 0.00094 26.3 4.0 42 44-85 30-91 (311)
30 PRK10727 DNA-binding transcrip 40.2 51 0.0011 26.2 4.2 43 44-86 30-92 (343)
31 cd01646 RT_Bac_retron_I RT_Bac 39.9 42 0.00091 24.5 3.4 36 39-74 98-133 (158)
32 PRK10423 transcriptional repre 39.5 53 0.0011 25.7 4.1 41 45-85 28-88 (327)
33 PF12683 DUF3798: Protein of u 39.5 63 0.0014 27.7 4.8 50 42-92 187-236 (275)
34 PRK10703 DNA-binding transcrip 38.0 57 0.0012 25.8 4.1 21 65-85 71-91 (341)
35 KOG3820 Aromatic amino acid hy 37.4 18 0.00039 32.9 1.3 36 36-71 395-430 (461)
36 PRK14987 gluconate operon tran 36.9 65 0.0014 25.4 4.3 43 44-86 34-96 (331)
37 PRK09492 treR trehalose repres 36.0 56 0.0012 25.4 3.7 42 45-86 34-95 (315)
38 KOG4634 Mitochondrial F1F0-ATP 35.8 75 0.0016 23.7 4.1 35 49-83 41-77 (105)
39 KOG1220 Phosphoglucomutase/pho 35.4 29 0.00064 32.6 2.4 46 40-85 457-502 (607)
40 PF04748 Polysacc_deac_2: Dive 35.0 1.3E+02 0.0029 23.9 5.8 47 33-79 150-199 (213)
41 PF11794 HpaB_N: 4-hydroxyphen 34.1 76 0.0016 26.6 4.4 47 38-84 74-120 (264)
42 TIGR00050 rRNA_methyl_1 RNA me 33.7 98 0.0021 24.9 4.9 39 37-75 169-207 (233)
43 PF01402 RHH_1: Ribbon-helix-h 33.6 94 0.002 17.6 3.8 30 44-76 8-37 (39)
44 PHA01748 hypothetical protein 32.3 1E+02 0.0022 20.0 4.0 31 45-77 12-42 (60)
45 cd01648 TERT TERT: Telomerase 31.8 65 0.0014 22.8 3.2 30 40-69 69-99 (119)
46 PRK10014 DNA-binding transcrip 31.6 77 0.0017 25.0 3.9 42 45-86 36-97 (342)
47 PF13410 GST_C_2: Glutathione 31.2 1.3E+02 0.0027 18.4 5.0 46 39-84 7-52 (69)
48 PRK09526 lacI lac repressor; R 30.4 77 0.0017 25.0 3.7 43 44-86 34-96 (342)
49 KOG4198 RNA-binding Ran Zn-fin 30.0 20 0.00044 30.5 0.4 14 98-111 135-149 (280)
50 KOG1671 Ubiquinol cytochrome c 29.6 17 0.00037 30.0 -0.1 15 75-89 160-174 (210)
51 PRK05802 hypothetical protein; 29.5 26 0.00055 29.4 0.9 13 81-93 9-21 (320)
52 cd01651 RT_G2_intron RT_G2_int 29.3 78 0.0017 23.4 3.4 31 39-69 182-212 (226)
53 COG1609 PurR Transcriptional r 28.6 1.1E+02 0.0025 25.2 4.6 47 45-91 30-98 (333)
54 PF13581 HATPase_c_2: Histidin 28.1 1.5E+02 0.0032 20.2 4.4 48 40-88 5-52 (125)
55 COG2861 Uncharacterized protei 27.8 1.9E+02 0.0042 24.5 5.8 45 34-78 183-230 (250)
56 cd01650 RT_nLTR_like RT_nLTR: 27.7 77 0.0017 23.5 3.1 29 41-69 160-188 (220)
57 PF03869 Arc: Arc-like DNA bin 26.6 1.3E+02 0.0027 19.0 3.5 33 44-78 13-45 (50)
58 TIGR02793 nikR nickel-responsi 26.3 1.3E+02 0.0027 22.6 4.1 38 44-82 9-46 (129)
59 KOG3651 Protein kinase C, alph 25.8 29 0.00063 30.9 0.6 25 82-106 24-51 (429)
60 TIGR03164 UHCUDC OHCU decarbox 25.7 1E+02 0.0022 23.6 3.5 25 37-61 87-111 (157)
61 PF00570 HRDC: HRDC domain Blo 25.7 1.2E+02 0.0027 18.8 3.4 37 41-79 3-39 (68)
62 TIGR03180 UraD_2 OHCU decarbox 25.2 1E+02 0.0023 23.6 3.5 26 36-61 86-111 (158)
63 PF14747 DUF4473: Domain of un 24.1 2.4E+02 0.0052 19.2 5.4 47 35-82 17-63 (82)
64 TIGR01463 mtaA_cmuA methyltran 24.1 1.4E+02 0.003 24.5 4.2 55 30-84 278-340 (340)
65 PF08722 Tn7_Tnp_TnsA_N: TnsA 23.9 90 0.0019 20.8 2.7 29 34-62 56-84 (88)
66 cd00304 RT_like RT_like: Rever 23.7 99 0.0022 20.0 2.8 26 42-67 58-83 (98)
67 PRK13798 putative OHCU decarbo 23.3 1.2E+02 0.0025 23.6 3.5 25 37-61 92-116 (166)
68 PRK07308 flavodoxin; Validated 23.0 1.1E+02 0.0023 22.0 3.1 25 32-56 121-145 (146)
69 cd07015 Clp_protease_NfeD Nodu 22.0 33 0.00071 26.8 0.2 42 39-80 113-167 (172)
70 KOG0707 Guanylate kinase [Nucl 21.5 50 0.0011 27.5 1.2 55 7-61 64-118 (231)
71 PRK06242 flavodoxin; Provision 21.5 1.1E+02 0.0024 21.6 2.9 22 35-56 128-149 (150)
72 PF08608 Wyosine_form: Wyosine 21.4 1E+02 0.0022 20.4 2.5 28 32-62 22-49 (62)
73 cd03487 RT_Bac_retron_II RT_Ba 21.3 1.6E+02 0.0034 22.6 3.9 30 41-70 154-183 (214)
74 PF10905 DUF2695: Protein of u 21.0 1.2E+02 0.0027 19.8 2.7 34 46-91 17-50 (53)
75 PF03732 Retrotrans_gag: Retro 20.9 1E+02 0.0022 19.6 2.4 36 39-75 59-94 (96)
76 KOG0917 Uncharacterized conser 20.8 2.3E+02 0.005 24.9 5.1 60 12-75 269-330 (338)
77 PF08369 PCP_red: Proto-chloro 20.8 98 0.0021 19.2 2.2 17 44-60 18-34 (45)
78 PRK13590 putative bifunctional 20.1 1.8E+02 0.004 26.3 4.6 25 37-61 97-121 (591)
No 1
>CHL00165 ftrB ferredoxin thioreductase subunit beta; Validated
Probab=100.00 E-value=1.1e-43 Score=263.30 Aligned_cols=90 Identities=56% Similarity=1.078 Sum_probs=86.6
Q ss_pred cCCcCHHHHHHHHHHHHHHhhhcCceeccChhhHHHHHHHHHHhHhhhCCCCCCCccccchhhhhhCCceeecCcccccc
Q 033097 35 QVEPSEKSVEIMRKFSEQYARRSDTFFCVDKSVTSVVIKGLADHKDSLGAPLCPCRHYDDKAAEAQQGFWNCPCVPMRER 114 (127)
Q Consensus 35 ~~~~se~~~e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa~nK~ryG~~~CPCR~~~dkE~ev~d~diICPC~y~~e~ 114 (127)
+...+++++|+|++|+++||+++||+||||+++|+.||+|||+||++||+||||||+++|+++|+++++|||||++|+|+
T Consensus 5 ~~~~~~~~~e~m~~f~ekya~~~G~~fnpD~~vt~~Vi~GLa~nK~~yG~p~CPCR~~~~k~~e~~~~~~iCPCv~m~e~ 84 (116)
T CHL00165 5 NEKSKPESLEAMRKFAETYAKRTNTFFCSDLSITAVVIEGLARHKDEYGAPLCPCRHYEDKKVEVSAAYWNCPCVPMRER 84 (116)
T ss_pred ccccchhhHHHHHHHHHHHHHHhCCeeCCCHHHHHHHHHHHHHHHHHhCCCCCCCcCCCCcHHHhhcCCeecCCHhHHHc
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cceeEeeecc
Q 033097 115 YNIFTIVSGA 124 (127)
Q Consensus 115 G~ChCgLf~~ 124 (127)
|+||||||+.
T Consensus 85 g~CHC~LF~t 94 (116)
T CHL00165 85 KECHCMLFLT 94 (116)
T ss_pred CCceEeeeec
Confidence 9999999985
No 2
>PF02943 FeThRed_B: Ferredoxin thioredoxin reductase catalytic beta chain; InterPro: IPR004209 Ferredoxin thioredoxin reductase is a [4FE-4S] protein present in organisms performing oxygenic photosynthesis, and plays an important role in the ferredoxin/thioredoxin regulatory chain. It converts an electron signal (photoreduced ferredoxin) to a thiol signal (reduced thioredoxin), regulating enzymes by reduction of specific disulphide groups. It catalyses the light-dependent activation of several photosynthetis enzymes. Ferredoxin thioredoxin reductase is a heterodimer of subunit alpha and subunit beta. Subunit alpha is the variable subunit, and beta is the catalytic chain []. The structure of the beta subunit has been determined and found to fold around the FeS cluster [].; GO: 0008937 ferredoxin-NAD(P) reductase activity, 0055114 oxidation-reduction process; PDB: 2PUK_E 2PVD_A 2PVG_A 2PUO_A 2PU9_A 1DJ7_A 2PVO_A.
Probab=100.00 E-value=1.9e-41 Score=247.94 Aligned_cols=84 Identities=37% Similarity=0.554 Sum_probs=65.3
Q ss_pred HHHHHHHHHHHHHhhhcCceeccChhhHHHHHHHHHHhHhhhCCCCCCCccccchhhhhhCCceeecCccc----ccccc
Q 033097 41 KSVEIMRKFSEQYARRSDTFFCVDKSVTSVVIKGLADHKDSLGAPLCPCRHYDDKAAEAQQGFWNCPCVPM----RERYN 116 (127)
Q Consensus 41 ~~~e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa~nK~ryG~~~CPCR~~~dkE~ev~d~diICPC~y~----~e~G~ 116 (127)
+++|+|++|+++||+++||+||||+++|+.|++||++||++||++|||||++++++++++|+||||||+++ .++|+
T Consensus 1 ~~le~~~~~~~~~a~~~G~~~NpD~~~~~~v~~GL~~nk~~yG~~~CPCr~~~~~~ee~~d~~iiCPC~~~r~~~~~~G~ 80 (108)
T PF02943_consen 1 KELEKMYKFLEKYAEKSGYKLNPDEEVTDDVLEGLARNKERYGYPYCPCRLASGKEEEVKDRDIICPCVPYREDDIEYGH 80 (108)
T ss_dssp HHHHHHHHHHHHHHHHTT-B-BSSHHHHHHHHHHHHHHHHHHSS-B-SSC--S-HHHHHHH-TTBSS-HHHHHH------
T ss_pred ChHHHHHHHHHHHHHHhCCEECCCHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCchhhhccCCeecCCHHHHhhcccccc
Confidence 68999999999999999999999999999999999999999999999999999887879999999999963 47999
Q ss_pred eeEeeecc
Q 033097 117 IFTIVSGA 124 (127)
Q Consensus 117 ChCgLf~~ 124 (127)
||||||+.
T Consensus 81 ChC~Lf~~ 88 (108)
T PF02943_consen 81 CHCGLFVS 88 (108)
T ss_dssp -TTSSSB-
T ss_pred ceEeeeEC
Confidence 99999985
No 3
>COG4802 FtrB Ferredoxin-thioredoxin reductase, catalytic subunit [Energy production and conversion]
Probab=100.00 E-value=1.5e-39 Score=238.27 Aligned_cols=84 Identities=32% Similarity=0.562 Sum_probs=79.4
Q ss_pred cCHHHHHHHHHHHHHHhhhcCceeccChhhHHHHHHHHHHhHhhhCCCCCCCcccc-chhhhhhCCceeecCcc----cc
Q 033097 38 PSEKSVEIMRKFSEQYARRSDTFFCVDKSVTSVVIKGLADHKDSLGAPLCPCRHYD-DKAAEAQQGFWNCPCVP----MR 112 (127)
Q Consensus 38 ~se~~~e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa~nK~ryG~~~CPCR~~~-dkE~ev~d~diICPC~y----~~ 112 (127)
.+++++++|++|+++||+|+||+||||.++|+.|++||+.||++||+++||||+++ ++|+ |++|||||+| ++
T Consensus 1 ~~~e~l~~my~~~eq~AeksG~~lnpD~e~~~~v~~gL~~~ke~yG~~~CPCRl~~g~eee---dk~ivCPCvy~~ddi~ 77 (110)
T COG4802 1 ESDEELNKMYRFTEQYAEKSGYRLNPDREFTAEVLRGLASNKERYGYPSCPCRLVTGKEEE---DKDIVCPCVYRDDDIR 77 (110)
T ss_pred CcHHHHHHHHHHHHHHHHhcCceeCCCHHHHHHHHHHHHHhHHHhCCCCCCeecccCCHHH---hhceeccCcCCccchh
Confidence 36899999999999999999999999999999999999999999999999999999 6666 7779999999 69
Q ss_pred cccceeEeeecc
Q 033097 113 ERYNIFTIVSGA 124 (127)
Q Consensus 113 e~G~ChCgLf~~ 124 (127)
+||.||||||++
T Consensus 78 e~g~C~C~Lyl~ 89 (110)
T COG4802 78 EYGECYCGLYLS 89 (110)
T ss_pred hhCceeEEEEec
Confidence 999999999985
No 4
>PF05511 ATP-synt_F6: Mitochondrial ATP synthase coupling factor 6; InterPro: IPR008387 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunit F6 (or coupling factor 6) found in the F0 complex of F-ATPases in mitochondria. The F6 subunit is part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In mitochondria, the peripheral stalk is composed of one copy each of subunits OSCP (oligomycin sensitivity conferral protein), F6, B and D []. There is no homologue of subunit F6 in bacterial or chloroplast F-ATPase, whose peripheral stalks are composed of one copy of the delta subunit (homologous to OSCP), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o); PDB: 2WSS_V 2CLY_C 1VZS_A.
Probab=90.78 E-value=0.46 Score=34.88 Aligned_cols=81 Identities=15% Similarity=0.185 Sum_probs=40.4
Q ss_pred CcccccccccccccccCCCccccccCCcceeeec--cCCcCHH-HHHHHHHHHHHHhhhcCceeccChhhHHHHHHHHHH
Q 033097 1 MTLQSSLCGSGVSTFICTPRPIIARPRPVTQIRA--QVEPSEK-SVEIMRKFSEQYARRSDTFFCVDKSVTSVVIKGLAD 77 (127)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~se~-~~e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa~ 77 (127)
|.+|+-+.++..++.+...+ |.-...++.+ ..+|.++ =+++++++..|-..+.|=-.++++++-..+-+-|.+
T Consensus 1 m~~~~~~~~~~~~~~s~~~~----Rni~~sa~~~~k~~DPIQklFldKIREY~~Ksks~gGklVD~~Pe~~kel~eel~k 76 (99)
T PF05511_consen 1 MALQRRLSSLLRSAVSVHLR----RNIGTSAVAFNKALDPIQKLFLDKIREYNQKSKSSGGKLVDAGPEYEKELNEELEK 76 (99)
T ss_dssp ------------------------------------S--TTTHHHHHHHHHHHHHHTTTSS-STT--THHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHHH----HHhhhhHHHHhcccChHHHHHHHHHHHHHHHhccCCCCCCCCCHHHHHHHHHHHHH
Confidence 67777444444444443333 2222223322 2456555 478999999999999998999999999999999999
Q ss_pred hHhhhCCC
Q 033097 78 HKDSLGAP 85 (127)
Q Consensus 78 nK~ryG~~ 85 (127)
-...||..
T Consensus 77 L~r~YG~g 84 (99)
T PF05511_consen 77 LARQYGGG 84 (99)
T ss_dssp HHHHHHSS
T ss_pred HHHHhCCc
Confidence 99999864
No 5
>PHA00425 DNA packaging protein, small subunit
Probab=72.36 E-value=7.4 Score=28.15 Aligned_cols=46 Identities=17% Similarity=0.203 Sum_probs=39.7
Q ss_pred CHHHHHHHHHHHHHHhhhcCce---eccChhhHHHHHHHHHHhHhhhCC
Q 033097 39 SEKSVEIMRKFSEQYARRSDTF---FCVDKSVTSVVIKGLADHKDSLGA 84 (127)
Q Consensus 39 se~~~e~~~~f~ekyaek~G~~---lNPD~ev~~~Vi~GLa~nK~ryG~ 84 (127)
.++.--++|+-+.|+-+++-|. +.||+++.-.+..||+.-+..+|.
T Consensus 28 dekRtPQLYnAIgKlL~RHkF~isKl~pD~~iLg~la~~l~ey~~~~g~ 76 (88)
T PHA00425 28 DEKRTPQLYNAIGKLLDRHKFQISKLQPDENILGGLAAALEEYKEKVGA 76 (88)
T ss_pred ccccChHHHHHHHHHHHHhcccccccCCcHHHHHHHHHHHHHHHHhcCC
Confidence 3455568899999999999985 579999999999999999999885
No 6
>PRK10780 periplasmic chaperone; Provisional
Probab=66.27 E-value=8 Score=29.27 Aligned_cols=38 Identities=18% Similarity=0.219 Sum_probs=29.4
Q ss_pred cCHHHHHHHHHHHHHHhhhcCcee----------ccChhhHHHHHHHH
Q 033097 38 PSEKSVEIMRKFSEQYARRSDTFF----------CVDKSVTSVVIKGL 75 (127)
Q Consensus 38 ~se~~~e~~~~f~ekyaek~G~~l----------NPD~ev~~~Vi~GL 75 (127)
..+.-++++.+.++++|++.||-+ +|..++|+.|++-|
T Consensus 117 ~~~~i~~ki~~ai~~vak~~gy~~Vld~~~v~Y~~~~~DIT~~Vik~l 164 (165)
T PRK10780 117 ERNKILTRIQTAVKSVANKQGYDLVVDANAVAYNSSDKDITADVLKQV 164 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCeEEEeCCceeeeCCCCCchHHHHHhh
Confidence 345567788899999999999854 46678888888755
No 7
>PF03938 OmpH: Outer membrane protein (OmpH-like); InterPro: IPR005632 This entry includes outer membrane proteins such as OmpH (Skp) among others. OmpH (outer membrane protein H) is a major structural protein of the outer membrane. In Pasteurella multocida it acts as a channel-forming transmembrane porin []. Porins act as molecular sieves to allow the diffusion of small hydrophilic solutes through the outer membrane and also acts as a receptor for bacteriophages and bacteriocins. Porins are highly immunogenic and are conserved in bacterial families, making them attractive vaccine candidates []. The 17kDa protein (Skp, OmpH) of Escherichia coli is a homotrimeric periplasmic chaperone for newly synthesised outer-membrane proteins, the X-ray structure of which has been reported at resolutions of 2.35 A and 2.30 A [, ]. Three hairpin-shaped alpha-helical extensions reach out by approximately 60 A from a trimerisation domain, which is composed of three intersubunit beta-sheets that wind around a central axis. The alpha-helical extensions approach each other at their distal turns, resulting in a fold that resembles a 'three-pronged grasping forcep'. The overall shape of Skp is reminiscent of the cytosolic chaperone prefoldin (IPR009053 from INTERPRO), although it is based on a radically different topology. The peculiar architecture, with apparent plasticity of the prongs and distinct electrostatic and hydrophobic surface properties, supports the recently proposed biochemical mechanism of this chaperone: formation of a Skp(3)-Omp complex protects the outer membrane protein from aggregation during passage through the bacterial periplasm. The ability of Skp to prevent the aggregation of model substrates in vitro is independent of ATP. Skp can interact directly with membrane lipids and lipopolysaccharide. These interactions are needed for efficient Skp-assisted folding of membrane proteins [].; GO: 0051082 unfolded protein binding; PDB: 1SG2_C 1U2M_C.
Probab=64.37 E-value=14 Score=26.86 Aligned_cols=37 Identities=24% Similarity=0.275 Sum_probs=26.6
Q ss_pred CHHHHHHHHHHHHHHhhhcCc----------eeccChhhHHHHHHHH
Q 033097 39 SEKSVEIMRKFSEQYARRSDT----------FFCVDKSVTSVVIKGL 75 (127)
Q Consensus 39 se~~~e~~~~f~ekyaek~G~----------~lNPD~ev~~~Vi~GL 75 (127)
...-.+++...++.||+..|| +.+|..++|+.|++.|
T Consensus 111 ~~~i~~~i~~~v~~~a~~~g~~~Vl~~~~vly~~~~~DIT~~Vi~~L 157 (158)
T PF03938_consen 111 LQPIQKKINKAVEEYAKENGYDLVLDKNAVLYADPAYDITDEVIKAL 157 (158)
T ss_dssp HHHHHHHHHHHHHHHHHHTT-SEEEEGGGEEEE-TTSE-HHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHcCCeEEEeCCceEeeCCCCChHHHHHHHh
Confidence 445566788899999999998 5577779999998876
No 8
>PF10431 ClpB_D2-small: C-terminal, D2-small domain, of ClpB protein ; InterPro: IPR019489 Most Clp ATPases form complexes with peptidase subunits and are involved in protein degradation, though some, such as ClpB, do not associate with peptidases and are involved in protein disaggregation []. This entry represents the C-terminal domain of Clp ATPases, often referred to as the D2-small domain, which forms a mixed alpha-beta structure. Compared with the adjacent AAA D1-small domain (IPR003959 from INTERPRO) it lacks the long coiled-coil insertion, and instead of helix C4 contains a beta-strand (e3) that is part of a three stranded beta-pleated sheet. In Thermophilus the whole protein forms a hexamer with the D1-small and D2-small domains located on the outside of the hexamer, with the long coiled-coil being exposed on the surface. The D2-small domain is essential for oligomerisation, forming a tight interface with the D2-large domain of a neighbouring subunit, thereby providing enough binding energy to stabilise the functional assembly [].; PDB: 3HWS_A 3HTE_F 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 3PXI_A 1R6B_X ....
Probab=55.04 E-value=34 Score=22.48 Aligned_cols=38 Identities=16% Similarity=0.189 Sum_probs=26.9
Q ss_pred HHHHHHHHHhhhcCceeccChhhHHHHHHHHHHhHhhhCCC
Q 033097 45 IMRKFSEQYARRSDTFFCVDKSVTSVVIKGLADHKDSLGAP 85 (127)
Q Consensus 45 ~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa~nK~ryG~~ 85 (127)
++.+..+++++ .|..|+-|+++.+.+++-= ....||++
T Consensus 13 ~l~~l~~~l~~-~~i~l~~~~~~~~~l~~~~--~~~~~GAR 50 (81)
T PF10431_consen 13 QLKKLNERLKE-KGIELEFDDAVVDYLAEKG--YDPEYGAR 50 (81)
T ss_dssp HHHHHHHHHHH-TTEEEEE-HHHHHHHHHHH--HHTTTTTT
T ss_pred HHHHHHHHHHH-CCCeEEecHHHHHHHHHhC--cccCCCHH
Confidence 44555666666 9999999999999888742 34578875
No 9
>TIGR02417 fruct_sucro_rep D-fructose-responsive transcription factor. Members of this family belong the lacI helix-turn-helix family (pfam00356) of DNA-binding transcriptional regulators. All members are from the proteobacteria. Characterized members act as positive and negative transcriptional regulators of fructose and sucrose transport and metabolism. Sucrose is a disaccharide composed of fructose and glucose; D-fructose-1-phosphate rather than an intact sucrose moiety has been shown to act as the inducer.
Probab=53.65 E-value=20 Score=28.17 Aligned_cols=67 Identities=13% Similarity=0.107 Sum_probs=43.9
Q ss_pred HHHHHHHHHHhhhcCceecc--------------------ChhhHHHHHHHHHHhHhhhCCCCCCCccccchhhhh----
Q 033097 44 EIMRKFSEQYARRSDTFFCV--------------------DKSVTSVVIKGLADHKDSLGAPLCPCRHYDDKAAEA---- 99 (127)
Q Consensus 44 e~~~~f~ekyaek~G~~lNP--------------------D~ev~~~Vi~GLa~nK~ryG~~~CPCR~~~dkE~ev---- 99 (127)
+++++.+.+.|++.||.-|. +..+...++.|+.+--.++|+..--+....+.++|.
T Consensus 31 ~~tr~rV~~~a~~lgY~pn~~a~~l~~~~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~~gy~~~i~~~~~~~~~~~~~~~ 110 (327)
T TIGR02417 31 QETVERVMAVVREQGYQPNIHAASLRAGRSRTIGLVIPDLENYSYARIAKELEQQCREAGYQLLIACSDDNPDQEKVVIE 110 (327)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHhhcCCCceEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHH
Confidence 35667788888888886542 234667889999998889999876554433333221
Q ss_pred ------hCCceeecCcc
Q 033097 100 ------QQGFWNCPCVP 110 (127)
Q Consensus 100 ------~d~diICPC~y 110 (127)
-|+-|+.|...
T Consensus 111 ~l~~~~vdgiIi~~~~~ 127 (327)
T TIGR02417 111 NLLARQVDALIVASCMP 127 (327)
T ss_pred HHHHcCCCEEEEeCCCC
Confidence 15556777654
No 10
>PF11123 DNA_Packaging_2: DNA packaging protein ; InterPro: IPR024345 This entry represents Gp18 (gene 18 product), also known as DNA maturase A, from T7-like bacteriophages. In Bacteriophage T3, this protein is required for DNA packaging and functions in a complex with Gp19 [].
Probab=53.47 E-value=31 Score=24.73 Aligned_cols=46 Identities=17% Similarity=0.179 Sum_probs=39.2
Q ss_pred CHHHHHHHHHHHHHHhhhcCce---eccChhhHHHHHHHHHHhHhhhCC
Q 033097 39 SEKSVEIMRKFSEQYARRSDTF---FCVDKSVTSVVIKGLADHKDSLGA 84 (127)
Q Consensus 39 se~~~e~~~~f~ekyaek~G~~---lNPD~ev~~~Vi~GLa~nK~ryG~ 84 (127)
.++.--++|+-+.|+-+++.|. +-||+++.-.+..||..-++.+|.
T Consensus 26 dekRsPQLYnAI~k~L~RHkF~iskl~pd~~~LG~L~~aL~ey~~~~g~ 74 (82)
T PF11123_consen 26 DEKRSPQLYNAIGKLLDRHKFQISKLQPDENILGELAAALEEYKKMVGA 74 (82)
T ss_pred hhhcChHHHHHHHHHHHHccchhhhcCccHHHHHHHHHHHHHHHHHcCC
Confidence 3445567889999999999986 579999999999999999998885
No 11
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=52.36 E-value=13 Score=23.21 Aligned_cols=19 Identities=16% Similarity=-0.200 Sum_probs=13.3
Q ss_pred HHHHHHHHHHhhhcCceec
Q 033097 44 EIMRKFSEQYARRSDTFFC 62 (127)
Q Consensus 44 e~~~~f~ekyaek~G~~lN 62 (127)
+++++.+.+.|++.||.-|
T Consensus 28 ~~tr~rI~~~a~~lgY~pN 46 (46)
T PF00356_consen 28 EETRERILEAAEELGYRPN 46 (46)
T ss_dssp HHHHHHHHHHHHHHTB-SS
T ss_pred HHHHHHHHHHHHHHCCCCC
Confidence 3456667888899999765
No 12
>TIGR01924 rsbW_low_gc serine-protein kinase RsbW. This model describes the anti-sigma B factor also known as serine-protein kinase RsbW. Sigma B controls the general stress regulon in B subtilis and is activated by cell stresses such as stationary phase and heat shock. RsbW binds to sigma B and prevents formation of the transcription complex at the promoter. RsbV (anti-anti-sigma factor) binds to RsbW to inhibit association with sigma B, however RsbW can phosphorylate RsbV, causing disassociation of the RsbV/RsbW complex. Low ATP level or environmental stress causes the dephosphorylation of RsbV.
Probab=51.48 E-value=66 Score=23.96 Aligned_cols=56 Identities=13% Similarity=0.022 Sum_probs=41.8
Q ss_pred eeccCCcCHHHHHHHHHHHHHHhhhcCceeccChhhHHHHHHHHHHhHhhhCCCCCC
Q 033097 32 IRAQVEPSEKSVEIMRKFSEQYARRSDTFFCVDKSVTSVVIKGLADHKDSLGAPLCP 88 (127)
Q Consensus 32 ~~~~~~~se~~~e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa~nK~ryG~~~CP 88 (127)
+........+.+...+.|++.+|+..|+- ..+.+-+..++.-|+.|--+||++..|
T Consensus 8 ~~l~~~a~~~~~~~vr~~~~~~a~~~g~~-~~~~~~l~lav~Ea~~Nai~ha~~~~~ 63 (159)
T TIGR01924 8 IEMTVPAKPEYVGLIRLTLSGIASRAGYT-YDDIEDLKIAVSEACTNAVKHAYKEGE 63 (159)
T ss_pred EEEEccCcHHHHHHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHHHHHHHHhccCCCC
Confidence 33444556788899999999999999964 233344666788899999999987553
No 13
>TIGR01481 ccpA catabolite control protein A. Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [ex: acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.
Probab=50.96 E-value=28 Score=27.33 Aligned_cols=46 Identities=13% Similarity=0.023 Sum_probs=33.5
Q ss_pred HHHHHHHHHHhhhcCceecc--------------------ChhhHHHHHHHHHHhHhhhCCCCCCC
Q 033097 44 EIMRKFSEQYARRSDTFFCV--------------------DKSVTSVVIKGLADHKDSLGAPLCPC 89 (127)
Q Consensus 44 e~~~~f~ekyaek~G~~lNP--------------------D~ev~~~Vi~GLa~nK~ryG~~~CPC 89 (127)
+++++.+.+.|++.||.-|+ +..+...++.|+.+.-.++|+..=-+
T Consensus 30 ~~tr~rV~~~a~~lgY~pn~~a~~l~~~~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~~g~~~~i~ 95 (329)
T TIGR01481 30 PATRKKVLEVIKRLDYRPNAVARGLASKRTTTVGVIIPDISNIYYAELARGIEDIATMYKYNIILS 95 (329)
T ss_pred HHHHHHHHHHHHHHCCCCCHHHHHHhhCCCCEEEEEeCCCCchhHHHHHHHHHHHHHHcCCEEEEE
Confidence 45666678888888887653 23567789999988888888876433
No 14
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=50.69 E-value=11 Score=33.44 Aligned_cols=34 Identities=18% Similarity=0.333 Sum_probs=26.5
Q ss_pred eeccCCcCHHHHHHHHHHHHHHhhhcCceeccChhh
Q 033097 32 IRAQVEPSEKSVEIMRKFSEQYARRSDTFFCVDKSV 67 (127)
Q Consensus 32 ~~~~~~~se~~~e~~~~f~ekyaek~G~~lNPD~ev 67 (127)
+..+-.|+++++++.++|.+++|++-= +-|++..
T Consensus 371 l~~~~~P~ee~~~~~~~~g~~la~~~~--~~~~~~~ 404 (479)
T PRK05452 371 LKAKWRPDQDALELCREHGREIARQWA--LAPLPQS 404 (479)
T ss_pred EEEEecCCHHHHHHHHHHHHHHHHHHh--hCCcccc
Confidence 455566899999999999999997653 7777754
No 15
>COG5502 Uncharacterized conserved protein [Function unknown]
Probab=50.09 E-value=26 Score=27.12 Aligned_cols=39 Identities=21% Similarity=0.044 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHhhhcCceeccChhhHH-HHHHHHHHhH
Q 033097 41 KSVEIMRKFSEQYARRSDTFFCVDKSVTS-VVIKGLADHK 79 (127)
Q Consensus 41 ~~~e~~~~f~ekyaek~G~~lNPD~ev~~-~Vi~GLa~nK 79 (127)
+..-..+.|+.+++++.|+--|.|.+.+. +|..-|.+|-
T Consensus 73 ~~~~s~~dFl~Rv~~~~g~~~~vd~e~a~~AVf~vL~r~I 112 (135)
T COG5502 73 KLPFSLDDFLTRVANKFGLEPPVDPEHAIAAVFAVLKRHI 112 (135)
T ss_pred CCcccHHHHHHHHHHccCCCCCCCHHHHHHHHHHHHHHhC
Confidence 33445689999999999999999999888 8888888774
No 16
>PHA02745 hypothetical protein; Provisional
Probab=49.69 E-value=46 Score=28.35 Aligned_cols=58 Identities=7% Similarity=0.097 Sum_probs=47.7
Q ss_pred cceeeeccCCcCHHHHHHHHHHHHHHhhhcCceeccChhhHHHHHHHHHHhHhhhCCC
Q 033097 28 PVTQIRAQVEPSEKSVEIMRKFSEQYARRSDTFFCVDKSVTSVVIKGLADHKDSLGAP 85 (127)
Q Consensus 28 ~~~~~~~~~~~se~~~e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa~nK~ryG~~ 85 (127)
+........+..+-.--.+..|++.|..+.||.---.+.+...+-.-|..-+-+||.+
T Consensus 207 d~~gt~vRPgLDe~Ar~vLL~fVe~yG~~~~W~t~D~~~I~ntiR~KiqeiR~K~g~~ 264 (265)
T PHA02745 207 DGEGTDVRPGLDEDARTVLLRYVEIYGEKQRWCTEDHQAIINVIRNKMQESRRKDRHR 264 (265)
T ss_pred cccCcccCCCcchHHHHHHHHHHHHHhhccCCCCCchHHHHHHHHHHHHHHHHHhCCc
Confidence 3344455666778888899999999999999998888888888888888888888875
No 17
>PF00078 RVT_1: Reverse transcriptase (RNA-dependent DNA polymerase); InterPro: IPR000477 The use of an RNA template to produce DNA, for integration into the host genome and exploitation of a host cell, is a strategy employed in the replication of retroid elements, such as the retroviruses and bacterial retrons. The enzyme catalysing polymerisation is an RNA-directed DNA-polymerase, or reverse trancriptase (RT) (2.7.7.49 from EC). Reverse transcriptase occurs in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses. Retroviral reverse transcriptase is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. The discovery of retroelements in the prokaryotes raises intriguing questions concerning their roles in bacteria and the origin and evolution of reverse transcriptases and whether the bacterial reverse transcriptases are older than eukaryotic reverse transcriptases [].; GO: 0003723 RNA binding, 0003964 RNA-directed DNA polymerase activity, 0006278 RNA-dependent DNA replication; PDB: 1MU2_B 3RWE_C 3DU6_B 3DU5_A 3KYL_A 2WOM_B 1DTQ_A 2OPS_A 3FFI_A 1VRU_B ....
Probab=49.54 E-value=24 Score=25.55 Aligned_cols=29 Identities=10% Similarity=0.079 Sum_probs=24.9
Q ss_pred CHHHHHHHHHHHHHHhhhcCceeccChhh
Q 033097 39 SEKSVEIMRKFSEQYARRSDTFFCVDKSV 67 (127)
Q Consensus 39 se~~~e~~~~f~ekyaek~G~~lNPD~ev 67 (127)
+.++++++.+.+.++.++.|..+||++-.
T Consensus 171 ~~~~~~~~~~~i~~~~~~~gl~ln~~Kt~ 199 (214)
T PF00078_consen 171 SKEELQKILEKISQWLEELGLKLNPEKTK 199 (214)
T ss_dssp SHHHHHHHHHHHHHHHHHTTSBCSSTTTS
T ss_pred CHHHHHHHHHHHHHHHHHCCCEEChHHEE
Confidence 36778889999999999999999999864
No 18
>PRK13612 photosystem II reaction center protein Psb28; Provisional
Probab=49.22 E-value=19 Score=27.16 Aligned_cols=25 Identities=28% Similarity=0.438 Sum_probs=22.3
Q ss_pred cCHHHHHHHHHHHHHHhhhcCceec
Q 033097 38 PSEKSVEIMRKFSEQYARRSDTFFC 62 (127)
Q Consensus 38 ~se~~~e~~~~f~ekyaek~G~~lN 62 (127)
.++++-+.+.+|+++||+.+|.-|.
T Consensus 87 ~s~~~WdRFMRFMeRYA~~ngl~f~ 111 (113)
T PRK13612 87 KSEQEWDRFMRFMERYAKENGLGFS 111 (113)
T ss_pred CCHHHHHHHHHHHHHHHHhcCCccc
Confidence 4899999999999999999997653
No 19
>PF03912 Psb28: Psb28 protein; InterPro: IPR005610 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein Psb28 (PsbW) found in PSII, where it is a subunit of the oxygen-evolving complex. Psb28 appears to have several roles, including guiding PSII biogenesis and assembly, stabilising dimeric PSII [], and facilitating PSII repair after photo-inhibition []. There appears to be two classes of Psb28, class 1 being found predominantly in algae and cyanobacteria, and class 2 being found predominantly in plants. This entry represents class 1 Psb28.; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009654 oxygen evolving complex, 0016020 membrane; PDB: 2KVO_A.
Probab=49.15 E-value=14 Score=27.56 Aligned_cols=24 Identities=29% Similarity=0.405 Sum_probs=19.2
Q ss_pred cCHHHHHHHHHHHHHHhhhcCcee
Q 033097 38 PSEKSVEIMRKFSEQYARRSDTFF 61 (127)
Q Consensus 38 ~se~~~e~~~~f~ekyaek~G~~l 61 (127)
.++++-+...+|+++||+.+|.-|
T Consensus 84 ~s~~~WdRFMRFMeRYA~~Ngl~f 107 (108)
T PF03912_consen 84 KSEEEWDRFMRFMERYAEANGLGF 107 (108)
T ss_dssp -SSHHHHHHHHHHHHHHHH--SSS
T ss_pred CCHHHHHHHHHHHHHHHHhcCCcc
Confidence 578999999999999999999754
No 20
>TIGR03047 PS_II_psb28 photosystem II reaction center protein Psb28. Members of this protein family are the Psb28 protein of photosystem II. Two different protein families, apparently without homology between them, have been designated PsbW. Cyanobacterial proteins previously designated PsbW are members of the family described here. However, while members of the plant PsbW family are not found (so far) in Cyanobacteria, members of the present family do occur in plants. We therefore support the alternative designation that has emerged for this protein family, Psp28, rather than PsbW.
Probab=49.14 E-value=18 Score=27.03 Aligned_cols=24 Identities=25% Similarity=0.369 Sum_probs=21.7
Q ss_pred cCHHHHHHHHHHHHHHhhhcCcee
Q 033097 38 PSEKSVEIMRKFSEQYARRSDTFF 61 (127)
Q Consensus 38 ~se~~~e~~~~f~ekyaek~G~~l 61 (127)
.++++-+...+|+++||+.+|.-|
T Consensus 84 ~s~~~WdRFMRFmeRYA~~ngl~f 107 (109)
T TIGR03047 84 KSEDEWDRFMRFMERYAEANGLGY 107 (109)
T ss_pred CCHHHHHHHHHHHHHHHHhcCCcc
Confidence 489999999999999999999755
No 21
>PRK13611 photosystem II reaction center protein Psb28; Provisional
Probab=48.20 E-value=20 Score=26.67 Aligned_cols=24 Identities=13% Similarity=0.245 Sum_probs=21.4
Q ss_pred cCHHHHHHHHHHHHHHhhhcCcee
Q 033097 38 PSEKSVEIMRKFSEQYARRSDTFF 61 (127)
Q Consensus 38 ~se~~~e~~~~f~ekyaek~G~~l 61 (127)
.++++-+...+|+++||+.+|.-|
T Consensus 80 ~s~~~wdRFMRFmeRYA~~Ngl~f 103 (104)
T PRK13611 80 ETEAEWDRFLRFMERFSAANQMGM 103 (104)
T ss_pred CCHHHHHHHHHHHHHHHHhcCCcc
Confidence 489999999999999999998644
No 22
>COG2825 HlpA Outer membrane protein [Cell envelope biogenesis, outer membrane]
Probab=48.14 E-value=22 Score=27.72 Aligned_cols=40 Identities=25% Similarity=0.256 Sum_probs=33.0
Q ss_pred CCcCHHHHHHHHHHHHHHhhhcCce----------eccChhhHHHHHHHH
Q 033097 36 VEPSEKSVEIMRKFSEQYARRSDTF----------FCVDKSVTSVVIKGL 75 (127)
Q Consensus 36 ~~~se~~~e~~~~f~ekyaek~G~~----------lNPD~ev~~~Vi~GL 75 (127)
.+...+.++++..-++.+|++.||- .+|-.++|+.|++-|
T Consensus 118 ~e~~~~~~~~i~~ai~~~a~~~gy~~vl~~~~V~y~~~~~DIT~~Vlk~l 167 (170)
T COG2825 118 AEEEQKLLEKIQRAIESVAEKGGYSLVLDSNAVLYAKPSKDITDDVLKAL 167 (170)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCcceEecCCchhccCCCCCchHHHHHHH
Confidence 4556777888999999999999985 478888999999876
No 23
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=48.12 E-value=33 Score=26.89 Aligned_cols=45 Identities=11% Similarity=0.005 Sum_probs=32.8
Q ss_pred HHHHHHHHHHhhhcCceecc--------------------ChhhHHHHHHHHHHhHhhhCCCCCC
Q 033097 44 EIMRKFSEQYARRSDTFFCV--------------------DKSVTSVVIKGLADHKDSLGAPLCP 88 (127)
Q Consensus 44 e~~~~f~ekyaek~G~~lNP--------------------D~ev~~~Vi~GLa~nK~ryG~~~CP 88 (127)
+++++.+.+.|++.||.-|+ +..+...+++|+.+.-..+|+..=-
T Consensus 32 ~~tr~rV~~~a~elgY~pn~~a~~l~~~~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~~~~~ 96 (328)
T PRK11303 32 DKTVEKVMAVVREHNYHPNAVAAGLRAGRTRSIGLIIPDLENTSYARIAKYLERQARQRGYQLLI 96 (328)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHhhcCCCceEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEE
Confidence 34667778888888886553 2346677899999988899987543
No 24
>CHL00128 psbW photosystem II protein W; Reviewed
Probab=47.94 E-value=20 Score=27.01 Aligned_cols=25 Identities=20% Similarity=0.367 Sum_probs=22.3
Q ss_pred cCHHHHHHHHHHHHHHhhhcCceec
Q 033097 38 PSEKSVEIMRKFSEQYARRSDTFFC 62 (127)
Q Consensus 38 ~se~~~e~~~~f~ekyaek~G~~lN 62 (127)
.++++-+...+|+++||+.+|.-|.
T Consensus 87 ~s~~~WdRFMRFMeRYA~~ngl~f~ 111 (113)
T CHL00128 87 KNPEAWDRFMRFMERYAEDNGLTFT 111 (113)
T ss_pred CCHHHHHHHHHHHHHHHHhcCCccc
Confidence 4899999999999999999997653
No 25
>PLN00039 photosystem II reaction center Psb28 protein; Provisional
Probab=47.93 E-value=20 Score=26.93 Aligned_cols=25 Identities=24% Similarity=0.364 Sum_probs=22.3
Q ss_pred cCHHHHHHHHHHHHHHhhhcCceec
Q 033097 38 PSEKSVEIMRKFSEQYARRSDTFFC 62 (127)
Q Consensus 38 ~se~~~e~~~~f~ekyaek~G~~lN 62 (127)
.++++-+...+|+++||+.+|.-|.
T Consensus 85 ~s~~~WdRFMRFMeRYA~~ngl~f~ 109 (111)
T PLN00039 85 RSPREWDRFMRFMERYAEENGLGFV 109 (111)
T ss_pred CCHHHHHHHHHHHHHHHHhcCCccc
Confidence 4899999999999999999997653
No 26
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=47.54 E-value=33 Score=26.49 Aligned_cols=42 Identities=17% Similarity=0.030 Sum_probs=33.1
Q ss_pred HHHHHHHHHHhhhcCceecc--------------------ChhhHHHHHHHHHHhHhhhCCC
Q 033097 44 EIMRKFSEQYARRSDTFFCV--------------------DKSVTSVVIKGLADHKDSLGAP 85 (127)
Q Consensus 44 e~~~~f~ekyaek~G~~lNP--------------------D~ev~~~Vi~GLa~nK~ryG~~ 85 (127)
+++++.+.+.|++.||.-|. +..+...+++|+.+--..+|+.
T Consensus 6 ~~Tr~rV~~~a~elgY~pn~~a~~l~~~~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~ 67 (309)
T PRK11041 6 QATRQRVEQAVLEVGYSPQSLGRNLKRNESRTILVIVPDICDPFFSEIIRGIEVTAAEHGYL 67 (309)
T ss_pred HHHHHHHHHHHHHHCCCcCHHHHHhhcCCCcEEEEEeCCCcCccHHHHHHHHHHHHHHCCCE
Confidence 46677788999999998764 3456788899999998888864
No 27
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=47.36 E-value=33 Score=27.38 Aligned_cols=44 Identities=5% Similarity=-0.130 Sum_probs=32.9
Q ss_pred HHHHHHHHHHhhhcCceecc--------------------ChhhHHHHHHHHHHhHhhhCCCCC
Q 033097 44 EIMRKFSEQYARRSDTFFCV--------------------DKSVTSVVIKGLADHKDSLGAPLC 87 (127)
Q Consensus 44 e~~~~f~ekyaek~G~~lNP--------------------D~ev~~~Vi~GLa~nK~ryG~~~C 87 (127)
+++++.+.+.|++.||.-|+ +..+...+++|+..--.++|+..-
T Consensus 30 ~~tr~kV~~~a~elgY~pn~~a~~l~~~~~~~Igvi~~~~~~~f~~~l~~gi~~~~~~~gy~~~ 93 (346)
T PRK10401 30 ADTREAVMKAVSELGYRPNANAQALATQVSDTIGVVVMDVSDAFFGALVKAVDLVAQQHQKYVL 93 (346)
T ss_pred HHHHHHHHHHHHHHCCCCCHHHHHhhcCCCCEEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEE
Confidence 45566677888888887552 245777899999999899998754
No 28
>PF14791 DNA_pol_B_thumb: DNA polymerase beta thumb ; PDB: 1HUZ_A 3K75_D 1HUO_A 2BPC_A 1RPL_A 1NOM_A 1ZQX_A 1ZQU_A 1ZQZ_A 1ZQV_A ....
Probab=44.97 E-value=28 Score=23.10 Aligned_cols=20 Identities=15% Similarity=0.130 Sum_probs=16.1
Q ss_pred HHHHHHHHHhhhcCceeccC
Q 033097 45 IMRKFSEQYARRSDTFFCVD 64 (127)
Q Consensus 45 ~~~~f~ekyaek~G~~lNPD 64 (127)
.....+..+|.+.||.||..
T Consensus 10 ~fnr~lR~~A~~~g~~L~~~ 29 (64)
T PF14791_consen 10 EFNRDLRQYAKKKGMKLSEY 29 (64)
T ss_dssp HHHHHHHHHHHHTTEEEESS
T ss_pred HHHHHHHHHHHHcCCeeCcc
Confidence 34567888999999999985
No 29
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=41.96 E-value=43 Score=26.31 Aligned_cols=42 Identities=14% Similarity=0.053 Sum_probs=29.7
Q ss_pred HHHHHHHHHHhhhcCceecc------------------C--hhhHHHHHHHHHHhHhhhCCC
Q 033097 44 EIMRKFSEQYARRSDTFFCV------------------D--KSVTSVVIKGLADHKDSLGAP 85 (127)
Q Consensus 44 e~~~~f~ekyaek~G~~lNP------------------D--~ev~~~Vi~GLa~nK~ryG~~ 85 (127)
+++++.+.+.|++.||.-|+ | ..+...+++|+..--..+|+.
T Consensus 30 ~~tr~rV~~~a~~lgY~pn~~a~~l~~~~~~~Ig~i~~~~~~~~~~~~~~~i~~~~~~~gy~ 91 (311)
T TIGR02405 30 IETRERVEQVIQQSGFVPSKSARAMRGGSDKVVAVIVSRLDSPSENLAVSGMLPVFYTAGYD 91 (311)
T ss_pred HHHHHHHHHHHHHHCCCcCHHHHHhhcCCCCEEEEEeCCcccccHHHHHHHHHHHHHHCCCe
Confidence 34455577777777776542 2 235667899999999999987
No 30
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=40.17 E-value=51 Score=26.23 Aligned_cols=43 Identities=12% Similarity=-0.022 Sum_probs=31.2
Q ss_pred HHHHHHHHHHhhhcCceec------------------c--ChhhHHHHHHHHHHhHhhhCCCC
Q 033097 44 EIMRKFSEQYARRSDTFFC------------------V--DKSVTSVVIKGLADHKDSLGAPL 86 (127)
Q Consensus 44 e~~~~f~ekyaek~G~~lN------------------P--D~ev~~~Vi~GLa~nK~ryG~~~ 86 (127)
+++++.+.+.|++.||.-| | +..+...+++|+.+--.++|+..
T Consensus 30 ~~tr~rV~~~a~elgY~pn~~ar~l~~~~~~~Igvi~~~~~~~f~~~~~~gi~~~~~~~g~~~ 92 (343)
T PRK10727 30 EASRLAVHSAMESLSYHPNANARALAQQSTETVGLVVGDVSDPFFGAMVKAVEQVAYHTGNFL 92 (343)
T ss_pred HHHHHHHHHHHHHHCCCCCHHHHhhhhCCCCeEEEEeCCCCcchHHHHHHHHHHHHHHcCCEE
Confidence 4556667777777887654 2 23577889999999888898764
No 31
>cd01646 RT_Bac_retron_I RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA branches out from a small ssRNA molecule via a 2'-5'phosphodiester linkage. Bacterial retron RTs produce cDNA corresponding to only a small portion of the retron genome.
Probab=39.89 E-value=42 Score=24.53 Aligned_cols=36 Identities=11% Similarity=0.091 Sum_probs=27.7
Q ss_pred CHHHHHHHHHHHHHHhhhcCceeccChhhHHHHHHH
Q 033097 39 SEKSVEIMRKFSEQYARRSDTFFCVDKSVTSVVIKG 74 (127)
Q Consensus 39 se~~~e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~G 74 (127)
+.+.++++.+.+....++.|..+||++.....+-+|
T Consensus 98 ~~~~~~~~~~~i~~~l~~~gL~ln~~Kt~~~~~~~~ 133 (158)
T cd01646 98 SKEEAEEILEELKEFLAELGLSLNLSKTEILPLPEG 133 (158)
T ss_pred CHHHHHHHHHHHHHHHHHCCCEEChhhceeeecCCC
Confidence 456677788888888888999999998766555444
No 32
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=39.49 E-value=53 Score=25.67 Aligned_cols=41 Identities=10% Similarity=0.026 Sum_probs=29.3
Q ss_pred HHHHHHHHHhhhcCceec------------------cC--hhhHHHHHHHHHHhHhhhCCC
Q 033097 45 IMRKFSEQYARRSDTFFC------------------VD--KSVTSVVIKGLADHKDSLGAP 85 (127)
Q Consensus 45 ~~~~f~ekyaek~G~~lN------------------PD--~ev~~~Vi~GLa~nK~ryG~~ 85 (127)
++++.+.+.|++.||.-| |+ ..+-..+++|+..--.++|+.
T Consensus 28 ~tr~rV~~~a~~lgY~pn~~a~~l~~~~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~ 88 (327)
T PRK10423 28 AITAKVEAAIKELNYAPSALARSLKLNQTRTIGMLITASTNPFYSELVRGVERSCFERGYS 88 (327)
T ss_pred HHHHHHHHHHHHHCCCccHHHHHHhhCCCCeEEEEeCCCCCCcHHHHHHHHHHHHHHcCCE
Confidence 455556677777777543 22 346778999999988899987
No 33
>PF12683 DUF3798: Protein of unknown function (DUF3798); InterPro: IPR024258 This entry represents functionally uncharacterised proteins that are found in bacteria. They are typically between 247 and 417 amino acids in length. Most of the proteins in this entry have an N-terminal lipoprotein attachment site. These proteins have distant similarity to periplasmic ligand binding families suggesting that this family has a similar role.; PDB: 3QI7_A.
Probab=39.47 E-value=63 Score=27.68 Aligned_cols=50 Identities=18% Similarity=0.361 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHhhhcCceeccChhhHHHHHHHHHHhHhhhCCCCCCCccc
Q 033097 42 SVEIMRKFSEQYARRSDTFFCVDKSVTSVVIKGLADHKDSLGAPLCPCRHY 92 (127)
Q Consensus 42 ~~e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa~nK~ryG~~~CPCR~~ 92 (127)
-+|.+-+|++||-+... +|+-+..+++.+|+.++.++-.|=..-||+-+-
T Consensus 187 IlE~vp~~i~kYGkdta-ff~TN~a~~epllk~~~~~g~i~~e~~~psp~~ 236 (275)
T PF12683_consen 187 ILEDVPKWIKKYGKDTA-FFCTNDAMTEPLLKQALEYGGIFPEADLPSPLM 236 (275)
T ss_dssp HHHHHHHHHHHH-S--E-EEESSHHHHHHHHHHHHHH--BB---SS--TTT
T ss_pred HHHHHHHHHHHhCCcee-EEecCccccHHHHHHHHHcCCEEEeCCCCChhh
Confidence 57788899999955554 567788899999999999998888888888764
No 34
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=37.96 E-value=57 Score=25.78 Aligned_cols=21 Identities=10% Similarity=0.085 Sum_probs=17.1
Q ss_pred hhhHHHHHHHHHHhHhhhCCC
Q 033097 65 KSVTSVVIKGLADHKDSLGAP 85 (127)
Q Consensus 65 ~ev~~~Vi~GLa~nK~ryG~~ 85 (127)
..+...+++|+.+--..+|+.
T Consensus 71 ~~~~~~~~~gi~~~~~~~g~~ 91 (341)
T PRK10703 71 APYFAEIIEAVEKNCYQKGYT 91 (341)
T ss_pred CchHHHHHHHHHHHHHHCCCE
Confidence 356778999999988889975
No 35
>KOG3820 consensus Aromatic amino acid hydroxylase [Amino acid transport and metabolism]
Probab=37.41 E-value=18 Score=32.87 Aligned_cols=36 Identities=22% Similarity=0.242 Sum_probs=30.8
Q ss_pred CCcCHHHHHHHHHHHHHHhhhcCceeccChhhHHHH
Q 033097 36 VEPSEKSVEIMRKFSEQYARRSDTFFCVDKSVTSVV 71 (127)
Q Consensus 36 ~~~se~~~e~~~~f~ekyaek~G~~lNPD~ev~~~V 71 (127)
+|-+++..+||++|+...-+.+|-++||=.+-++.|
T Consensus 395 aeSFedAk~KlR~fa~ti~RPF~VrynpyT~svEvL 430 (461)
T KOG3820|consen 395 AESFEDAKEKLRKFASTIKRPFSVRYNPYTQSVEVL 430 (461)
T ss_pred hhhHHHHHHHHHHHHHhCCCCceeeeccccceehhh
Confidence 466899999999999999999999999977655443
No 36
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=36.89 E-value=65 Score=25.41 Aligned_cols=43 Identities=14% Similarity=0.081 Sum_probs=32.9
Q ss_pred HHHHHHHHHHhhhcCceecc------------------C--hhhHHHHHHHHHHhHhhhCCCC
Q 033097 44 EIMRKFSEQYARRSDTFFCV------------------D--KSVTSVVIKGLADHKDSLGAPL 86 (127)
Q Consensus 44 e~~~~f~ekyaek~G~~lNP------------------D--~ev~~~Vi~GLa~nK~ryG~~~ 86 (127)
+++++.+.+.|++.||.-|+ + ..+...+++|+.+--..+|+..
T Consensus 34 ~~tr~rV~~~a~elgY~pn~~a~~l~~~~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~ 96 (331)
T PRK14987 34 VALRGKIAAALDELGYIPNRAPDILSNATSRAIGVLLPSLTNQVFAEVLRGIESVTDAHGYQT 96 (331)
T ss_pred HHHHHHHHHHHHHhCCCccHHHHHHhhCCCCEEEEEeCCCcchhHHHHHHHHHHHHHHCCCEE
Confidence 35677788888889986543 2 2367789999999999999873
No 37
>PRK09492 treR trehalose repressor; Provisional
Probab=36.05 E-value=56 Score=25.45 Aligned_cols=42 Identities=10% Similarity=-0.069 Sum_probs=29.8
Q ss_pred HHHHHHHHHhhhcCceecc--------------------ChhhHHHHHHHHHHhHhhhCCCC
Q 033097 45 IMRKFSEQYARRSDTFFCV--------------------DKSVTSVVIKGLADHKDSLGAPL 86 (127)
Q Consensus 45 ~~~~f~ekyaek~G~~lNP--------------------D~ev~~~Vi~GLa~nK~ryG~~~ 86 (127)
++++.+.+.|++.||.-|. +..+...++.|+...-.++|+..
T Consensus 34 ~tr~rV~~~a~elgY~pn~~a~~l~~~~~~~Ig~i~~~~~~~~~~~~~~~i~~~~~~~gy~~ 95 (315)
T PRK09492 34 ETRERVEAVINQHGFSPSKSARAMRGQSDKVVGIIVSRLDSLSENQAVRTMLPAFYEQGYDP 95 (315)
T ss_pred HHHHHHHHHHHHHCCCcCHHHHHhhcCCCCeEEEEecCCcCcccHHHHHHHHHHHHHcCCeE
Confidence 4455677778888886542 12345678899999989999875
No 38
>KOG4634 consensus Mitochondrial F1F0-ATP synthase, subunit Cf6 (coupling factor 6) [Energy production and conversion]
Probab=35.81 E-value=75 Score=23.72 Aligned_cols=35 Identities=11% Similarity=0.193 Sum_probs=30.0
Q ss_pred HHHHHhhh--cCceeccChhhHHHHHHHHHHhHhhhC
Q 033097 49 FSEQYARR--SDTFFCVDKSVTSVVIKGLADHKDSLG 83 (127)
Q Consensus 49 f~ekyaek--~G~~lNPD~ev~~~Vi~GLa~nK~ryG 83 (127)
.++.|..+ .|=-.|+|.++-..|.+-|-+-+..||
T Consensus 41 KvREy~~ks~~Gklvds~pe~e~eLk~el~rla~qfg 77 (105)
T KOG4634|consen 41 KVREYKKKSPAGKLVDSDPEYEQELKEELFRLAQQFG 77 (105)
T ss_pred HHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHHHHHhC
Confidence 34445555 999999999999999999999999999
No 39
>KOG1220 consensus Phosphoglucomutase/phosphomannomutase [Carbohydrate transport and metabolism]
Probab=35.38 E-value=29 Score=32.64 Aligned_cols=46 Identities=15% Similarity=0.219 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHhhhcCceeccChhhHHHHHHHHHHhHhhhCCC
Q 033097 40 EKSVEIMRKFSEQYARRSDTFFCVDKSVTSVVIKGLADHKDSLGAP 85 (127)
Q Consensus 40 e~~~e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa~nK~ryG~~ 85 (127)
.+-++.+++-..-.-..+.|++++|+++++.+-++|=.-...|+||
T Consensus 457 ~e~l~~l~e~yg~~~~~~~y~l~~~pe~~~~lf~~lR~~~~~~~yp 502 (607)
T KOG1220|consen 457 SEVLEDLYERYGYHSTANSYRLCIDPEVIKALFDGLRNYDTGYIYP 502 (607)
T ss_pred HHHHHHHHHhhCccceeeEEEEecCCchhHHHHHHHhhcccccccc
Confidence 4455666666666678899999999999999999986666545444
No 40
>PF04748 Polysacc_deac_2: Divergent polysaccharide deacetylase; InterPro: IPR006837 This is a family of uncharacterised proteins that includes YibQ.; PDB: 2QV5_A 2NLY_A.
Probab=34.99 E-value=1.3e+02 Score=23.91 Aligned_cols=47 Identities=9% Similarity=0.055 Sum_probs=36.5
Q ss_pred eccCCcCHHHHHHHHHHHHHHhhhcCcee---ccChhhHHHHHHHHHHhH
Q 033097 33 RAQVEPSEKSVEIMRKFSEQYARRSDTFF---CVDKSVTSVVIKGLADHK 79 (127)
Q Consensus 33 ~~~~~~se~~~e~~~~f~ekyaek~G~~l---NPD~ev~~~Vi~GLa~nK 79 (127)
.-+.+.+.+.+++..+.+.+.|++.|+.+ +|.++-++.|.+.+...+
T Consensus 150 fLD~~~~~~~I~~ql~~~~~~A~~~G~aI~Igh~~p~Tl~~L~~~~~~l~ 199 (213)
T PF04748_consen 150 FLDNDQDEAAIRRQLDQAARIARKQGSAIAIGHPRPETLEALEEWLPELE 199 (213)
T ss_dssp ETTST-SHHHHHHHHHHHHHHHHCCSEEEEEEE-SCCHHHHHHHHHHHHH
T ss_pred ecCCCCCHHHHHHHHHHHHHhhhhcCcEEEEEcCCHHHHHHHHHHHhHHh
Confidence 34556899999999999999999999976 788887777777766544
No 41
>PF11794 HpaB_N: 4-hydroxyphenylacetate 3-hydroxylase N terminal; InterPro: IPR024674 This domain is found in the N terminus of HpaB, which encodes part of the 4-hydroxyphenylacetate 3-hydroxylase from Escherichia coli []. The enzyme is NADH-dependent and uses FAD as the redox chromophore. The domain is also found in pyoverdin chromophore biosynthetic protein (PvcC), which may play a role in one of the proposed hydroxylation steps of pyoverdine chromophore biosynthesis [] and in 4-hydroxybutyryl-CoA dehydratase (4-BUDH), a key enzyme in the metabolism of gamma-aminobutyrate [].; PDB: 3HWC_D 1U8V_D 2YYM_A 2YYI_A 2YYJ_A 2YYL_A 2YYG_A 2YYK_A.
Probab=34.09 E-value=76 Score=26.56 Aligned_cols=47 Identities=21% Similarity=0.281 Sum_probs=41.9
Q ss_pred cCHHHHHHHHHHHHHHhhhcCceeccChhhHHHHHHHHHHhHhhhCC
Q 033097 38 PSEKSVEIMRKFSEQYARRSDTFFCVDKSVTSVVIKGLADHKDSLGA 84 (127)
Q Consensus 38 ~se~~~e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa~nK~ryG~ 84 (127)
-+.++|.+-++-++..++.+|-.+.--.+....++.|+..+.+.||.
T Consensus 74 ~s~eDL~~rr~~~~~~a~~t~G~~gR~pD~~n~~~~~~~~~~~~~~~ 120 (264)
T PF11794_consen 74 RSKEDLVKRRKAIREWARYTGGCMGRSPDYMNALLAGLAAAADFFGT 120 (264)
T ss_dssp -SHHHHHHHHHHHHHHHHHCCC--STCHHHHHHHHHHHHHCCHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHcCceeecChhHHHHHHHHHHHHHHHHhH
Confidence 47889999999999999999999999999999999999999999998
No 42
>TIGR00050 rRNA_methyl_1 RNA methyltransferase, TrmH family, group 1. This is part of the trmH (spoU) family of S-adenosyl-L-methionine (AdoMet)-dependent methyltransferases, and is now characterized, in E. coli, as a tRNA:Cm32/Um32 methyltransferase. It may be named TrMet(Xm32), or TrmJ, according to the nomenclature style chosen
Probab=33.68 E-value=98 Score=24.85 Aligned_cols=39 Identities=8% Similarity=-0.046 Sum_probs=29.9
Q ss_pred CcCHHHHHHHHHHHHHHhhhcCceeccChhhHHHHHHHH
Q 033097 37 EPSEKSVEIMRKFSEQYARRSDTFFCVDKSVTSVVIKGL 75 (127)
Q Consensus 37 ~~se~~~e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GL 75 (127)
.++.++++.+++++++..++.||+-+..++.+..-++-|
T Consensus 169 ~a~~~~~~~l~~~l~~~l~~~~~~~~~~~~~~~~~lr~l 207 (233)
T TIGR00050 169 YATTDQLELLLEHLEEILLSLGFIPEHKIRRVMRKFRRL 207 (233)
T ss_pred CCCHHHHHHHHHHHHHHHHHcCCCCccCHHHHHHHHHHH
Confidence 368899999999999999999987655665555444433
No 43
>PF01402 RHH_1: Ribbon-helix-helix protein, copG family; InterPro: IPR002145 CopG, also known as RepA, is responsible for the regulation of plasmid copy number. It binds to the repAB promoter and controls synthesis of the plasmid replication initiator protein RepB. Many bacterial transcription regulation proteins bind DNA through a 'helix-turn-helix' motif, nevertheless CopG displays a fully defined HTH-motif structure that is involved not in DNA-binding, but in the maintenance of the intrinsic dimeric functional structure and cooperativity [, ].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2BJ3_B 2BJ8_A 2BJ1_A 2BJ9_A 2BJ7_B 1EA4_L 2CPG_C 1B01_B 2BA3_A 2K9I_B ....
Probab=33.59 E-value=94 Score=17.57 Aligned_cols=30 Identities=7% Similarity=0.063 Sum_probs=18.2
Q ss_pred HHHHHHHHHHhhhcCceeccChhhHHHHHHHHH
Q 033097 44 EIMRKFSEQYARRSDTFFCVDKSVTSVVIKGLA 76 (127)
Q Consensus 44 e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa 76 (127)
+++++.++++|++.| -+-.+++..++...+
T Consensus 8 ~~~~~~l~~~a~~~g---~s~s~~ir~ai~~~l 37 (39)
T PF01402_consen 8 DELYERLDELAKELG---RSRSELIREAIREYL 37 (39)
T ss_dssp HHHHHHHHHHHHHHT---SSHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHC---cCHHHHHHHHHHHHH
Confidence 356677888999998 233444444444443
No 44
>PHA01748 hypothetical protein
Probab=32.30 E-value=1e+02 Score=20.04 Aligned_cols=31 Identities=13% Similarity=0.212 Sum_probs=19.1
Q ss_pred HHHHHHHHHhhhcCceeccChhhHHHHHHHHHH
Q 033097 45 IMRKFSEQYARRSDTFFCVDKSVTSVVIKGLAD 77 (127)
Q Consensus 45 ~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa~ 77 (127)
.+.+.++++|++.|+ |-.+-+-.++-+.+..
T Consensus 12 el~~eld~~a~~~g~--~RSE~Ir~Ai~~~~~~ 42 (60)
T PHA01748 12 DLLELLDRYAIKHGL--NRSEAIRKAIEKMVKD 42 (60)
T ss_pred HHHHHHHHHHHHhCC--CHHHHHHHHHHHHHHH
Confidence 455668899999996 6444444444443333
No 45
>cd01648 TERT TERT: Telomerase reverse transcriptase (TERT). Telomerase is a ribonucleoprotein (RNP) that synthesizes telomeric DNA repeats. The telomerase RNA subunit provides the template for synthesis of these repeats. The catalytic subunit of RNP is known as telomerase reverse transcriptase (TERT). The reverse transcriptase (RT) domain is located in the C-terminal region of the TERT polypeptide. Single amino acid substitutions in this region lead to telomere shortening and senescence. Telomerase is an enzyme that, in certain cells, maintains the physical ends of chromosomes (telomeres) during replication. In somatic cells, replication of the lagging strand requires the continual presence of an RNA primer approximately 200 nucleotides upstream, which is complementary to the template strand. Since there is a region of DNA less than 200 base pairs from the end of the chromosome where this is not possible, the chromosome is continually shortened. However, a surplus of repetitive DNA at
Probab=31.84 E-value=65 Score=22.76 Aligned_cols=30 Identities=13% Similarity=0.026 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHh-hhcCceeccChhhHH
Q 033097 40 EKSVEIMRKFSEQYA-RRSDTFFCVDKSVTS 69 (127)
Q Consensus 40 e~~~e~~~~f~ekya-ek~G~~lNPD~ev~~ 69 (127)
+++.+++.+.+...- ++.|..+|++|..+-
T Consensus 69 ~~~~~~~~~~l~~~l~~~~gl~iN~~Kt~~~ 99 (119)
T cd01648 69 LDKAIKFLNLLLRGFINQYKTFVNFDKTQIN 99 (119)
T ss_pred HHHHHHHHHHHHHhhHHhhCeEECcccceee
Confidence 455566666666664 889999999987654
No 46
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=31.58 E-value=77 Score=24.98 Aligned_cols=42 Identities=10% Similarity=0.023 Sum_probs=30.6
Q ss_pred HHHHHHHHHhhhcCceeccC--------------------hhhHHHHHHHHHHhHhhhCCCC
Q 033097 45 IMRKFSEQYARRSDTFFCVD--------------------KSVTSVVIKGLADHKDSLGAPL 86 (127)
Q Consensus 45 ~~~~f~ekyaek~G~~lNPD--------------------~ev~~~Vi~GLa~nK~ryG~~~ 86 (127)
++++.+.+.|++.||.-|.- ..+-..+++|+..--.++|+..
T Consensus 36 ~tr~~V~~~a~elgY~p~~~a~~l~~~~~~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~~~ 97 (342)
T PRK10014 36 ATGERVNQAIEELGFVRNRQASALRGGQSGVIGLIVRDLSAPFYAELTAGLTEALEAQGRMV 97 (342)
T ss_pred HHHHHHHHHHHHhCCCcCHHHHhhccCCCCEEEEEeCCCccchHHHHHHHHHHHHHHcCCEE
Confidence 44666778888888876522 3466788999998888899753
No 47
>PF13410 GST_C_2: Glutathione S-transferase, C-terminal domain; PDB: 4DEJ_H 3IC8_A 2JL4_A 2V6K_B 3CBU_B 1JLW_B 3F6D_B 3G7I_A 3F63_A 3G7J_B ....
Probab=31.25 E-value=1.3e+02 Score=18.35 Aligned_cols=46 Identities=11% Similarity=0.066 Sum_probs=36.9
Q ss_pred CHHHHHHHHHHHHHHhhhcCceeccChhhHHHHHHHHHHhHhhhCC
Q 033097 39 SEKSVEIMRKFSEQYARRSDTFFCVDKSVTSVVIKGLADHKDSLGA 84 (127)
Q Consensus 39 se~~~e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa~nK~ryG~ 84 (127)
..+.+++..+.+++....++|.+.....+++..+-+....-..+|.
T Consensus 7 ~~~~~~~~l~~le~~L~~~~fl~G~~~s~aD~~l~~~l~~~~~~~~ 52 (69)
T PF13410_consen 7 ARAQLEAALDALEDHLADGPFLFGDRPSLADIALAPFLWRLRFVGP 52 (69)
T ss_dssp HHHHHHHHHHHHHHHHTTSSBTTBSS--HHHHHHHHHHHHHHHCTH
T ss_pred HHHHHHHHHHHHHHHHhhCCCCCCCCCCHHHHHHHHHHHHHHHhCc
Confidence 4566777788888899999999999999999999999888777654
No 48
>PRK09526 lacI lac repressor; Reviewed
Probab=30.41 E-value=77 Score=24.97 Aligned_cols=43 Identities=14% Similarity=0.054 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhhhcCceeccC--------------------hhhHHHHHHHHHHhHhhhCCCC
Q 033097 44 EIMRKFSEQYARRSDTFFCVD--------------------KSVTSVVIKGLADHKDSLGAPL 86 (127)
Q Consensus 44 e~~~~f~ekyaek~G~~lNPD--------------------~ev~~~Vi~GLa~nK~ryG~~~ 86 (127)
+++++.+.+.|++.||.-|.- ..+...+++|+.+.-..+|+.+
T Consensus 34 ~~tr~rV~~~a~elgY~pn~~a~~l~~~~~~~Igvv~~~~~~~~~~~~~~gi~~~a~~~g~~~ 96 (342)
T PRK09526 34 AKTREKVEAAMAELNYVPNRVAQQLAGKQSLTIGLATTSLALHAPSQIAAAIKSRADQLGYSV 96 (342)
T ss_pred HHHHHHHHHHHHHHCCCcCHHHHHhhcCCCceEEEEeCCCCcccHHHHHHHHHHHHHHCCCEE
Confidence 445666777788888865431 1345678999999888899873
No 49
>KOG4198 consensus RNA-binding Ran Zn-finger protein and related proteins [General function prediction only]
Probab=30.01 E-value=20 Score=30.53 Aligned_cols=14 Identities=36% Similarity=0.906 Sum_probs=11.6
Q ss_pred hhhCCceeec-Cccc
Q 033097 98 EAQQGFWNCP-CVPM 111 (127)
Q Consensus 98 ev~d~diICP-C~y~ 111 (127)
+-+-+||+|| |.++
T Consensus 135 ~~~~GDW~Cp~C~fh 149 (280)
T KOG4198|consen 135 PWRSGDWECPGCNFH 149 (280)
T ss_pred CccccCcccCCCCce
Confidence 3458999999 9996
No 50
>KOG1671 consensus Ubiquinol cytochrome c reductase, subunit RIP1 [Energy production and conversion]
Probab=29.63 E-value=17 Score=30.03 Aligned_cols=15 Identities=27% Similarity=0.724 Sum_probs=13.2
Q ss_pred HHHhHhhhCCCCCCC
Q 033097 75 LADHKDSLGAPLCPC 89 (127)
Q Consensus 75 La~nK~ryG~~~CPC 89 (127)
.+.|+-.||..||||
T Consensus 160 p~~~AGd~gg~~CPC 174 (210)
T KOG1671|consen 160 PIANAGDYGGYYCPC 174 (210)
T ss_pred ccccccccCceeccc
Confidence 356899999999999
No 51
>PRK05802 hypothetical protein; Provisional
Probab=29.46 E-value=26 Score=29.36 Aligned_cols=13 Identities=31% Similarity=0.930 Sum_probs=11.4
Q ss_pred hhCCCCCCCcccc
Q 033097 81 SLGAPLCPCRHYD 93 (127)
Q Consensus 81 ryG~~~CPCR~~~ 93 (127)
..|-.||||-++.
T Consensus 9 d~~~~~cpc~la~ 21 (320)
T PRK05802 9 DAGSEYCPCHLAE 21 (320)
T ss_pred ccCCCcCceeeec
Confidence 4699999999987
No 52
>cd01651 RT_G2_intron RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable element with both gag-like and pol-like genes. This subfamily of proteins appears to have captured the RT sequences from transposable elements, which lack long terminal repeats (LTRs).
Probab=29.31 E-value=78 Score=23.41 Aligned_cols=31 Identities=10% Similarity=0.165 Sum_probs=24.9
Q ss_pred CHHHHHHHHHHHHHHhhhcCceeccChhhHH
Q 033097 39 SEKSVEIMRKFSEQYARRSDTFFCVDKSVTS 69 (127)
Q Consensus 39 se~~~e~~~~f~ekyaek~G~~lNPD~ev~~ 69 (127)
.++.++++.+.++.++++.|..+|+++....
T Consensus 182 ~~~~~~~~~~~i~~~~~~~gl~ln~~Kt~i~ 212 (226)
T cd01651 182 GPKEAEEIKELIREFLEELGLELNPEKTRIT 212 (226)
T ss_pred CHHHHHHHHHHHHHHHHHcCCeechhhccee
Confidence 4444788888899999999999999986543
No 53
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=28.61 E-value=1.1e+02 Score=25.19 Aligned_cols=47 Identities=11% Similarity=0.029 Sum_probs=33.6
Q ss_pred HHHHHHHHHhhhcCceeccCh--------------------hhHHHHHHHHHHhHhhhCCCC--CCCcc
Q 033097 45 IMRKFSEQYARRSDTFFCVDK--------------------SVTSVVIKGLADHKDSLGAPL--CPCRH 91 (127)
Q Consensus 45 ~~~~f~ekyaek~G~~lNPD~--------------------ev~~~Vi~GLa~nK~ryG~~~--CPCR~ 91 (127)
++++.+.+.+++.||.-|+-. .+...+++|+..--.++||.. |++..
T Consensus 30 eTr~kV~~a~~elgY~pN~~Ar~L~~~~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~~gy~~~l~~~~~ 98 (333)
T COG1609 30 ETREKVLAAIKELGYRPNAVARSLRTGRTKTIGLVVPDITNPFFAEILKGIEEAAREAGYSLLLANTDD 98 (333)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHhCCCCEEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEECCCC
Confidence 455557779999999944321 466788999999888888864 55544
No 54
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=28.11 E-value=1.5e+02 Score=20.18 Aligned_cols=48 Identities=13% Similarity=0.099 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHhhhcCceeccChhhHHHHHHHHHHhHhhhCCCCCC
Q 033097 40 EKSVEIMRKFSEQYARRSDTFFCVDKSVTSVVIKGLADHKDSLGAPLCP 88 (127)
Q Consensus 40 e~~~e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa~nK~ryG~~~CP 88 (127)
-+.+..++.|+...+++.|+--.- ...+.-++.=++.|--+||+.--+
T Consensus 5 ~~~i~~~r~~~~~~~~~~~~~~~~-~~~~~lav~E~~~Nav~H~~~~~~ 52 (125)
T PF13581_consen 5 PEDIREARAFLREFLERLGLPEED-RDDLELAVSEALTNAVEHGYPGDP 52 (125)
T ss_pred HHHHHHHHHHHHHHHHHcCCCHHH-HHHHHHHHHHHHHHHHHHcCCCCC
Confidence 468899999999999997654222 223444555566799999998665
No 55
>COG2861 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.84 E-value=1.9e+02 Score=24.51 Aligned_cols=45 Identities=20% Similarity=0.180 Sum_probs=37.1
Q ss_pred ccCCcCHHHHHHHHHHHHHHhhhcCcee---ccChhhHHHHHHHHHHh
Q 033097 34 AQVEPSEKSVEIMRKFSEQYARRSDTFF---CVDKSVTSVVIKGLADH 78 (127)
Q Consensus 34 ~~~~~se~~~e~~~~f~ekyaek~G~~l---NPD~ev~~~Vi~GLa~n 78 (127)
-+.+-+++++.+-.+-++++|+++|..+ +|-++-++.|.+++..-
T Consensus 183 LD~e~~~~~V~kql~~~~~~Ark~G~ai~IGh~~~~Tv~vl~~~~~~l 230 (250)
T COG2861 183 LDDEDTEAAVLKQLDAAEKLARKNGSAIGIGHPHKNTVAVLQQWLDEL 230 (250)
T ss_pred ecCcCCHHHHHHHHHHHHHHHHhcCceEEecCCchhHHHHHHHHHHhC
Confidence 4566779999999999999999999988 68788888887777543
No 56
>cd01650 RT_nLTR_like RT_nLTR: Non-LTR (long terminal repeat) retrotransposon and non-LTR retrovirus reverse transcriptase (RT). This subfamily contains both non-LTR retrotransposons and non-LTR retrovirus RTs. RTs catalyze the conversion of single-stranded RNA into double-stranded DNA for integration into host chromosomes. RT is a multifunctional enzyme with RNA-directed DNA polymerase, DNA directed DNA polymerase and ribonuclease hybrid (RNase H) activities.
Probab=27.66 E-value=77 Score=23.49 Aligned_cols=29 Identities=10% Similarity=0.117 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHhhhcCceeccChhhHH
Q 033097 41 KSVEIMRKFSEQYARRSDTFFCVDKSVTS 69 (127)
Q Consensus 41 ~~~e~~~~f~ekyaek~G~~lNPD~ev~~ 69 (127)
+.++.+.+.+..+++..|..+|+++....
T Consensus 160 ~~~~~~~~~~~~~~~~~gl~in~~Kt~~~ 188 (220)
T cd01650 160 RKLQELLQRLQEWSKESGLKINPSKSKVM 188 (220)
T ss_pred HHHHHHHHHHHHHHHHcCCEEChhheEEE
Confidence 57888888888899999999999987554
No 57
>PF03869 Arc: Arc-like DNA binding domain; InterPro: IPR005569 Arc repressor act by the cooperative binding of two Arc repressor dimers to a 21-base-pair operator site. Each Arc dimer uses an antiparallel beta-sheet to recognise bases in the major groove [].; GO: 0003677 DNA binding; PDB: 3QOQ_D 1MNT_B 1QTG_B 1BDV_A 1PAR_C 1BDT_C 1ARR_B 1MYL_F 1MYK_A 1NLA_B ....
Probab=26.57 E-value=1.3e+02 Score=18.97 Aligned_cols=33 Identities=9% Similarity=0.115 Sum_probs=23.7
Q ss_pred HHHHHHHHHHhhhcCceeccChhhHHHHHHHHHHh
Q 033097 44 EIMRKFSEQYARRSDTFFCVDKSVTSVVIKGLADH 78 (127)
Q Consensus 44 e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa~n 78 (127)
+.+++++++.|+..|=-+| .+++..|.+.|.++
T Consensus 13 ~~l~~~lk~~A~~~gRS~N--sEIv~~L~~~l~~e 45 (50)
T PF03869_consen 13 EELKEKLKERAEENGRSMN--SEIVQRLEEALKKE 45 (50)
T ss_dssp HHHHHHHHHHHHHTTS-HH--HHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHhCCChH--HHHHHHHHHHHhcc
Confidence 3678889999999997776 45777776666644
No 58
>TIGR02793 nikR nickel-responsive transcriptional regulator NikR. Three members of the seed for this model, from Escherichia coli, Pseudomonas putida, and Brucella melitensis, are found associated with a nickel ABC transporter operon that acts to import nickel for use as a cofactor in urease or hydrogenase. These proteins, with characterized nickel-binding and DNA-binding domains, act as nickel-responsive transcriptional regulators. In the larger family of full-length homologs, most others both lack proximity to the nickel ABC transporter operon and form a separate clade. Several of the homologs not within the scope of this model, but rather scoring between the trusted and noise cutoffs, have been shown to bind nickel, copper, or both, and to regulate genes in response to nickel.
Probab=26.30 E-value=1.3e+02 Score=22.59 Aligned_cols=38 Identities=8% Similarity=0.113 Sum_probs=27.9
Q ss_pred HHHHHHHHHHhhhcCceeccChhhHHHHHHHHHHhHhhh
Q 033097 44 EIMRKFSEQYARRSDTFFCVDKSVTSVVIKGLADHKDSL 82 (127)
Q Consensus 44 e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa~nK~ry 82 (127)
+++.+.+++++++.|| -|.-+-+-+.+-+.|..++..-
T Consensus 9 ~~ll~~lD~~~~~~g~-~~RSe~ir~~ir~~l~e~~~~~ 46 (129)
T TIGR02793 9 DDLLETLDRLIARRGY-QNRSEAIRDLLRSGLQQEAAEQ 46 (129)
T ss_pred HHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHHHhhhhc
Confidence 3456668899999999 5666666777777888887443
No 59
>KOG3651 consensus Protein kinase C, alpha binding protein [Signal transduction mechanisms]
Probab=25.78 E-value=29 Score=30.93 Aligned_cols=25 Identities=44% Similarity=0.824 Sum_probs=17.2
Q ss_pred hCCCCCCCcccc---chhhhhhCCceee
Q 033097 82 LGAPLCPCRHYD---DKAAEAQQGFWNC 106 (127)
Q Consensus 82 yG~~~CPCR~~~---dkE~ev~d~diIC 106 (127)
=|.|||||-..- |+.-..+|+.|-|
T Consensus 24 GGapyCPClYiVQvFD~tPAa~dG~i~~ 51 (429)
T KOG3651|consen 24 GGAPYCPCLYIVQVFDKTPAAKDGRIRC 51 (429)
T ss_pred CCCCcCCeEEEEEeccCCchhccCcccc
Confidence 389999997653 6655556766655
No 60
>TIGR03164 UHCUDC OHCU decarboxylase. Previously thought to only proceed spontaneously, the decarboxylation of 2-oxo-4-hydroxy-4-carboxy--5-ureidoimidazoline (OHCU) has been recently been shown to be catalyzed by this enzyme in Mus musculus. Homologs of this enzyme are found adjacent to and fused with uricase in a number of prokaryotes and are represented by this model.
Probab=25.74 E-value=1e+02 Score=23.65 Aligned_cols=25 Identities=16% Similarity=0.264 Sum_probs=21.7
Q ss_pred CcCHHHHHHHHHHHHHHhhhcCcee
Q 033097 37 EPSEKSVEIMRKFSEQYARRSDTFF 61 (127)
Q Consensus 37 ~~se~~~e~~~~f~ekyaek~G~~l 61 (127)
..++++.+++.+.-+.|-+|+|+.|
T Consensus 87 ~~~~~~~~~L~~lN~~Y~~kFGfpF 111 (157)
T TIGR03164 87 QLSQEEFARFTRLNNAYRARFGFPF 111 (157)
T ss_pred CCCHHHHHHHHHHHHHHHHHCCCee
Confidence 4677899999999999999999876
No 61
>PF00570 HRDC: HRDC domain Bloom syndrome. Werner syndrome.; InterPro: IPR002121 The HRDC (Helicase and RNase D C-terminal) domain has a putative role in nucleic acid binding. Mutations in the HRDC domain associated with the human BLM gene result in Bloom Syndrome (BS), an autosomal recessive disorder characterised by proportionate pre- and postnatal growth deficiency; sun-sensitive, telangiectatic, hypo- and hyperpigmented skin; predisposition to malignancy; and chromosomal instability [].; GO: 0003676 nucleic acid binding, 0005622 intracellular; PDB: 3SAG_B 3SAH_B 2CPR_A 3SAF_B 3CYM_A 1WUD_A 2HBK_A 2HBJ_A 2HBM_A 2HBL_A ....
Probab=25.73 E-value=1.2e+02 Score=18.80 Aligned_cols=37 Identities=14% Similarity=0.244 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHhhhcCceeccChhhHHHHHHHHHHhH
Q 033097 41 KSVEIMRKFSEQYARRSDTFFCVDKSVTSVVIKGLADHK 79 (127)
Q Consensus 41 ~~~e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa~nK 79 (127)
+-++++.+|=++.|++.| ..|..=+.+.++.-||.+.
T Consensus 3 ~~~~~L~~~R~~~A~~~~--~~~~~Il~~~~L~~ia~~~ 39 (68)
T PF00570_consen 3 ALLKALKEWREELAREED--VPPYRILSDEALLEIAKRL 39 (68)
T ss_dssp HHHHHHHHHHHHHHHHHT--S-HHHHS-HHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHcC--cCcccccCHHHHHHHHHhC
Confidence 567899999999999999 7788888888888888775
No 62
>TIGR03180 UraD_2 OHCU decarboxylase. Previously thought to only proceed spontaneously, the decarboxylation of 2-oxo-4-hydroxy-4-carboxy--5-ureidoimidazoline (OHCU) has been recently been shown to be catalyzed by this enzyme in Mus musculus. Homologs of this enzyme are found adjacent to and fused with uricase in a number of prokaryotes and are represented by this model. This model is a separate (but related) clade from that represented by TIGR3164. This model places a second homolog in streptomyces species which (are not in the vicinity of other urate catabolism associated genes) below the trusted cutoff.
Probab=25.25 E-value=1e+02 Score=23.62 Aligned_cols=26 Identities=12% Similarity=0.180 Sum_probs=21.7
Q ss_pred CCcCHHHHHHHHHHHHHHhhhcCcee
Q 033097 36 VEPSEKSVEIMRKFSEQYARRSDTFF 61 (127)
Q Consensus 36 ~~~se~~~e~~~~f~ekyaek~G~~l 61 (127)
.+.++++.+++.+.-+.|-+|+|+.|
T Consensus 86 ~~~~~~~~~~L~~lN~~Y~~kFGfpF 111 (158)
T TIGR03180 86 DGADEETRAALLEGNAAYEEKFGRIF 111 (158)
T ss_pred cCCCHHHHHHHHHHHHHHHHHCCCeE
Confidence 34688888899999999999999876
No 63
>PF14747 DUF4473: Domain of unknown function (DUF4473)
Probab=24.15 E-value=2.4e+02 Score=19.19 Aligned_cols=47 Identities=15% Similarity=0.181 Sum_probs=38.7
Q ss_pred cCCcCHHHHHHHHHHHHHHhhhcCceeccChhhHHHHHHHHHHhHhhh
Q 033097 35 QVEPSEKSVEIMRKFSEQYARRSDTFFCVDKSVTSVVIKGLADHKDSL 82 (127)
Q Consensus 35 ~~~~se~~~e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa~nK~ry 82 (127)
.+-.|++.++.+.++.+++..+..-. ++|++-...++.-+...-+.|
T Consensus 17 aAGmS~~aidgi~~i~~~~~~~~~~~-~~~~e~~~~~~~~~~~e~~~f 63 (82)
T PF14747_consen 17 AAGMSEKAIDGIVKIAEKFKSQFAKA-KGNKEAAKKFFEKYKAEVDAF 63 (82)
T ss_pred HcCCCHHHHHHHHHHHHHHHhccccc-cCCHHHHHHHHHHHHHHHHHH
Confidence 34578999999999999999887777 999999998888777666544
No 64
>TIGR01463 mtaA_cmuA methyltransferase, MtaA/CmuA family. This subfamily is closely related to, yet is distinct from, uroporphyrinogen decarboxylase (EC 4.1.1.37). It includes two isozymes from Methanosarcina barkeri of methylcobalamin--coenzyme M methyltransferase. It also includes a chloromethane utilization protein, CmuA, which transfers the methyl group of chloromethane to a corrinoid protein.
Probab=24.08 E-value=1.4e+02 Score=24.53 Aligned_cols=55 Identities=9% Similarity=0.146 Sum_probs=33.8
Q ss_pred eeeeccCCcC----HHHHHHHHHHHHHHhhhcCceeccChhh----HHHHHHHHHHhHhhhCC
Q 033097 30 TQIRAQVEPS----EKSVEIMRKFSEQYARRSDTFFCVDKSV----TSVVIKGLADHKDSLGA 84 (127)
Q Consensus 30 ~~~~~~~~~s----e~~~e~~~~f~ekyaek~G~~lNPD~ev----~~~Vi~GLa~nK~ryG~ 84 (127)
.++..+.+|. ..+.|++++.+++..++.||.|||+=.+ -..=++-+.+--..|||
T Consensus 278 ~~i~Gnidp~~ll~~gt~eeI~~~v~~~l~~~~~Il~~gcgi~~~tp~eni~a~v~a~~~~~~ 340 (340)
T TIGR01463 278 ASLVGNLSPFSTLMNGTPEKVKKLAKEVLYNGGDIVMPGCDIDWMTPLENLKAMIEACKSIKY 340 (340)
T ss_pred eEEEecCChHHHhcCCCHHHHHHHHHHHHHcCCeEECCCCCCCCCCCHHHHHHHHHHHHhccC
Confidence 3445555542 2355778888888888999999997332 33334444444455554
No 65
>PF08722 Tn7_Tnp_TnsA_N: TnsA endonuclease N terminal; InterPro: IPR014833 The Tn7 transposase is composed of proteins TnsA and TnsB. DNA breakage at the 5'-end of the transposon is carried out by TnsA, and breakage and joining at the 3'-end is carried out by TnsB. The N-terminal domain of TnsA is catalytic. ; PDB: 1F1Z_B 1T0F_B.
Probab=23.94 E-value=90 Score=20.84 Aligned_cols=29 Identities=10% Similarity=0.077 Sum_probs=17.3
Q ss_pred ccCCcCHHHHHHHHHHHHHHhhhcCceec
Q 033097 34 AQVEPSEKSVEIMRKFSEQYARRSDTFFC 62 (127)
Q Consensus 34 ~~~~~se~~~e~~~~f~ekyaek~G~~lN 62 (127)
...+.......+-.+..++|+++.||.|.
T Consensus 56 ~~~~l~~~~~~~k~~~~~~y~~~~g~~f~ 84 (88)
T PF08722_consen 56 PSSELEKPRTKEKLEIEREYWEEQGIPFR 84 (88)
T ss_dssp -GGGGGSHHHHHHHHHHHHHHHHCT--EE
T ss_pred cHHHhcChhHHHHHHHHHHHHHHcCCeEE
Confidence 33444444555556668899999999874
No 66
>cd00304 RT_like RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses. These elements can be divided into two major groups. One group contains retroviruses and DNA viruses whose propagation involves an RNA intermediate. They are grouped together with transposable elements containing long terminal repeats (LTRs). The other group, also called poly(A)-type retrotransposons, contain fungal mitochondrial introns and transposable elements that lack LTRs.
Probab=23.66 E-value=99 Score=20.02 Aligned_cols=26 Identities=12% Similarity=0.153 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHhhhcCceeccChhh
Q 033097 42 SVEIMRKFSEQYARRSDTFFCVDKSV 67 (127)
Q Consensus 42 ~~e~~~~f~ekyaek~G~~lNPD~ev 67 (127)
+.+...+-+....++.|..+|+++..
T Consensus 58 ~~~~~~~~l~~~l~~~gl~ln~~Kt~ 83 (98)
T cd00304 58 QQAVKKRELEEFLARLGLNLSDEKTQ 83 (98)
T ss_pred HHHHHHHHHHHHHHHcCcEEChheeE
Confidence 55666666777778899999999864
No 67
>PRK13798 putative OHCU decarboxylase; Provisional
Probab=23.33 E-value=1.2e+02 Score=23.57 Aligned_cols=25 Identities=12% Similarity=0.232 Sum_probs=21.2
Q ss_pred CcCHHHHHHHHHHHHHHhhhcCcee
Q 033097 37 EPSEKSVEIMRKFSEQYARRSDTFF 61 (127)
Q Consensus 37 ~~se~~~e~~~~f~ekyaek~G~~l 61 (127)
+.++++.+.+.+.-+.|-+|+|+.|
T Consensus 92 ~l~~~~~~~l~~lN~~Y~~kFGfpF 116 (166)
T PRK13798 92 DADEAVMAALAAGNRAYEEKFGFVF 116 (166)
T ss_pred cCCHHHHHHHHHHHHHHHHhCCCeE
Confidence 4578888899999999999999876
No 68
>PRK07308 flavodoxin; Validated
Probab=23.05 E-value=1.1e+02 Score=21.98 Aligned_cols=25 Identities=16% Similarity=0.514 Sum_probs=17.1
Q ss_pred eeccCCcCHHHHHHHHHHHHHHhhh
Q 033097 32 IRAQVEPSEKSVEIMRKFSEQYARR 56 (127)
Q Consensus 32 ~~~~~~~se~~~e~~~~f~ekyaek 56 (127)
+..+..|.++++++.++|.++++++
T Consensus 121 ~~~~~~p~~~~~~~~~~~~~~l~~~ 145 (146)
T PRK07308 121 VKVDLAAEDEDIERLEAFAEELAAK 145 (146)
T ss_pred EEEeCCCCHHHHHHHHHHHHHHHhh
Confidence 3344457778888888888877754
No 69
>cd07015 Clp_protease_NfeD Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease. Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentially cle
Probab=21.95 E-value=33 Score=26.76 Aligned_cols=42 Identities=14% Similarity=0.150 Sum_probs=26.7
Q ss_pred CHHHHHHHHHHHHHHhhhcC-------------ceeccChhhHHHHHHHHHHhHh
Q 033097 39 SEKSVEIMRKFSEQYARRSD-------------TFFCVDKSVTSVVIKGLADHKD 80 (127)
Q Consensus 39 se~~~e~~~~f~ekyaek~G-------------~~lNPD~ev~~~Vi~GLa~nK~ 80 (127)
.++.......+++.+|+++| ..|+.++.+-..++.+++.|.+
T Consensus 113 ~~ki~~~~~~~~r~~A~~~Gr~~~~a~~~v~~~~~lta~EA~~~G~iD~ia~~~~ 167 (172)
T cd07015 113 PPKITNYFIAYIKSLAQESGRNATIAEEFITKDLSLTPEEALKYGVIEVVARDIN 167 (172)
T ss_pred hHHHHHHHHHHHHHHHHHHCcCHHHHHHHHHhhcCcCHHHHHHcCCceeeeCCHH
Confidence 45677788888899999988 4444444444444444444443
No 70
>KOG0707 consensus Guanylate kinase [Nucleotide transport and metabolism]
Probab=21.51 E-value=50 Score=27.51 Aligned_cols=55 Identities=16% Similarity=0.025 Sum_probs=35.3
Q ss_pred ccccccccccCCCccccccCCcceeeeccCCcCHHHHHHHHHHHHHHhhhcCcee
Q 033097 7 LCGSGVSTFICTPRPIIARPRPVTQIRAQVEPSEKSVEIMRKFSEQYARRSDTFF 61 (127)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~se~~~e~~~~f~ekyaek~G~~l 61 (127)
.|+|++|..+.+||++-.-...-+.+....=.+.-..+++.+|+...-.+.|...
T Consensus 64 ~~~fsvS~ttr~pr~~E~~g~~y~fs~~~~~~s~i~~~~fiE~a~~~gn~yGtsi 118 (231)
T KOG0707|consen 64 MFGFSVSHTTRTPRAGEVHGKHYHFSTTEEFLSMIKNNEFIEFATFSGNKYGTSI 118 (231)
T ss_pred cceEEecCCCCCCCcccccCCcceeccHHHHHHHhhhhhhhhhhhhhcccCCchH
Confidence 6889999999999866554433333333322444555677777777777777654
No 71
>PRK06242 flavodoxin; Provisional
Probab=21.48 E-value=1.1e+02 Score=21.60 Aligned_cols=22 Identities=27% Similarity=0.570 Sum_probs=18.9
Q ss_pred cCCcCHHHHHHHHHHHHHHhhh
Q 033097 35 QVEPSEKSVEIMRKFSEQYARR 56 (127)
Q Consensus 35 ~~~~se~~~e~~~~f~ekyaek 56 (127)
...|.++++++.++|.++.++|
T Consensus 128 ~~~p~~~d~~~~~~~gk~l~~~ 149 (150)
T PRK06242 128 KGHPNEKDLENAKEFAENLKKK 149 (150)
T ss_pred CCCcCHHHHHHHHHHHHHHhhc
Confidence 3458899999999999999876
No 72
>PF08608 Wyosine_form: Wyosine base formation; InterPro: IPR013917 The proteins in this entry appear to be important in wyosine base formation in a subset of phenylalanine specific tRNAs. It has been proposed that it participates in converting tRNA(Phe)-m(1)G(37) to tRNA(Phe)-yW []. ; PDB: 2YX0_A 2Z2U_A.
Probab=21.41 E-value=1e+02 Score=20.44 Aligned_cols=28 Identities=18% Similarity=0.135 Sum_probs=18.7
Q ss_pred eeccCCcCHHHHHHHHHHHHHHhhhcCceec
Q 033097 32 IRAQVEPSEKSVEIMRKFSEQYARRSDTFFC 62 (127)
Q Consensus 32 ~~~~~~~se~~~e~~~~f~ekyaek~G~~lN 62 (127)
......|.-+++ .+|+++.++..||.+-
T Consensus 22 Lt~~nmp~h~eV---~~F~~~l~~~~~y~i~ 49 (62)
T PF08608_consen 22 LTMGNMPWHEEV---LDFAEELAELLGYEIT 49 (62)
T ss_dssp --GGGS--HHHH---HHHHHHHHTTSTEEEE
T ss_pred cccCCCCcHHHH---HHHHHHHHhhcCCEEE
Confidence 344455665555 9999999999998764
No 73
>cd03487 RT_Bac_retron_II RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA branches out from a small ssRNA molecule via a 2'-5'phosphodiester linkage. Bacterial retron RTs produce cDNA corresponding to only a small portion of the retron genome.
Probab=21.31 E-value=1.6e+02 Score=22.61 Aligned_cols=30 Identities=7% Similarity=0.010 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHhhhcCceeccChhhHHH
Q 033097 41 KSVEIMRKFSEQYARRSDTFFCVDKSVTSV 70 (127)
Q Consensus 41 ~~~e~~~~f~ekyaek~G~~lNPD~ev~~~ 70 (127)
++++++.+.+++..++.|..+||++..+..
T Consensus 154 ~~~~~~~~~i~~~l~~~gL~ln~~Kt~i~~ 183 (214)
T cd03487 154 EALDKLLEIIRSILSEEGFKINKSKTRISS 183 (214)
T ss_pred hHHHHHHHHHHHHHHHCCceeCCCceEEcc
Confidence 477888888888888999999999865443
No 74
>PF10905 DUF2695: Protein of unknown function (DUF2695); InterPro: IPR024248 This bacterial family of proteins has no known function.
Probab=20.99 E-value=1.2e+02 Score=19.78 Aligned_cols=34 Identities=21% Similarity=0.425 Sum_probs=24.8
Q ss_pred HHHHHHHHhhhcCceeccChhhHHHHHHHHHHhHhhhCCCCCCCcc
Q 033097 46 MRKFSEQYARRSDTFFCVDKSVTSVVIKGLADHKDSLGAPLCPCRH 91 (127)
Q Consensus 46 ~~~f~ekyaek~G~~lNPD~ev~~~Vi~GLa~nK~ryG~~~CPCR~ 91 (127)
..+++.++.++.+. +. +.|++.|-.|- .||-|-.
T Consensus 17 tlr~t~~fl~~~~~----~~---~~vl~~l~~nG-----g~CDCEV 50 (53)
T PF10905_consen 17 TLRLTRQFLRQRQL----DW---EDVLEWLRENG-----GYCDCEV 50 (53)
T ss_pred cHHHHHHHHHHcCC----CH---HHHHHHHHHcC-----CCcceee
Confidence 35677777777653 33 68899999988 8898853
No 75
>PF03732 Retrotrans_gag: Retrotransposon gag protein ; InterPro: IPR005162 Transposable elements (TEs) promote various chromosomal rearrangements more efficiently, and often more specifically, than other cellular processes. Retrotransposons are structurally similar to retroviruses and are bounded by long terminal repeats. This entry represents eukaryotic Gag or capsid-related retrotranspon-related proteins. There is a central motif QGXXEXXXXXFXXLXXH that is common to Retroviridae gag-proteins, but is poorly conserved.
Probab=20.89 E-value=1e+02 Score=19.56 Aligned_cols=36 Identities=22% Similarity=0.234 Sum_probs=27.9
Q ss_pred CHHHHHHHHHHHHHHhhhcCceeccChhhHHHHHHHH
Q 033097 39 SEKSVEIMRKFSEQYARRSDTFFCVDKSVTSVVIKGL 75 (127)
Q Consensus 39 se~~~e~~~~f~ekyaek~G~~lNPD~ev~~~Vi~GL 75 (127)
-.+++....+..++.+.+.+. --+++..+...++||
T Consensus 59 ~~esv~~y~~rf~~l~~~~~~-~~~e~~~v~~f~~GL 94 (96)
T PF03732_consen 59 GNESVREYVNRFRELARRAPP-PMDEEMLVERFIRGL 94 (96)
T ss_pred cCCcHHHHHHHHHHHHHHCCC-CcCHHHHHHHHHHCC
Confidence 566777777777888888887 556678888888887
No 76
>KOG0917 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.82 E-value=2.3e+02 Score=24.92 Aligned_cols=60 Identities=13% Similarity=0.178 Sum_probs=36.8
Q ss_pred cccccCCCccccccCCcceeeeccCCcCHHHHHHHHHHHHHHhhhcCceeccCh--hhHHHHHHHH
Q 033097 12 VSTFICTPRPIIARPRPVTQIRAQVEPSEKSVEIMRKFSEQYARRSDTFFCVDK--SVTSVVIKGL 75 (127)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~se~~~e~~~~f~ekyaek~G~~lNPD~--ev~~~Vi~GL 75 (127)
.+..+.+|-|-+.+.-...++.+..+++.|++-+ +.||++-.|=.|+=|. -.++.|++.|
T Consensus 269 ~~~P~~qP~~a~d~~~~qPV~~~g~qptpE~fae----a~K~~kyA~sAl~yedVstavenL~KaL 330 (338)
T KOG0917|consen 269 TIQPTPQPIPAIDPALFQPVSQGGVQPTPEDFAE----AQKYCKYAGSALQYEDVSTAVENLQKAL 330 (338)
T ss_pred CCCCCCCCCCcccccccccccCCCCccCHHHHHH----HHHHHHHhhhhcchHHHHHHHHHHHHHH
Confidence 3344444555555555667788889999998877 5666776676666443 2333444443
No 77
>PF08369 PCP_red: Proto-chlorophyllide reductase 57 kD subunit; InterPro: IPR013580 This domain is found in bacteria and plant chloroplast proteins. It often appears at the C-terminal of nitrogenase component 1 type oxidoreductases (IPR000510 from INTERPRO) and sometimes independently in bacterial proteins such as the proto-chlorophyllide reductase subunit B of the cyanobacterium Synechocystis. This domain is also associated with chlorophyllide reductase subunit Z, converts chlorophylls (Chl) into bacteriochlorophylls (BChl) by reducing ring B of the tetrapyrrole.; GO: 0016491 oxidoreductase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process, 0055114 oxidation-reduction process; PDB: 2KRU_A 2L09_A.
Probab=20.81 E-value=98 Score=19.18 Aligned_cols=17 Identities=29% Similarity=0.389 Sum_probs=14.4
Q ss_pred HHHHHHHHHHhhhcCce
Q 033097 44 EIMRKFSEQYARRSDTF 60 (127)
Q Consensus 44 e~~~~f~ekyaek~G~~ 60 (127)
.++++-+|+||++.|+.
T Consensus 18 ~~~r~~~E~~Ar~~G~~ 34 (45)
T PF08369_consen 18 KKLRDAAEKYARERGYD 34 (45)
T ss_dssp HHHHHHHHHHHHHCT-S
T ss_pred HHHHHHHHHHHHHcCCC
Confidence 67899999999999974
No 78
>PRK13590 putative bifunctional OHCU decarboxylase/allantoate amidohydrolase; Provisional
Probab=20.07 E-value=1.8e+02 Score=26.33 Aligned_cols=25 Identities=12% Similarity=0.223 Sum_probs=22.3
Q ss_pred CcCHHHHHHHHHHHHHHhhhcCcee
Q 033097 37 EPSEKSVEIMRKFSEQYARRSDTFF 61 (127)
Q Consensus 37 ~~se~~~e~~~~f~ekyaek~G~~l 61 (127)
+.++++.+++.+.-+.|-+|+|+.|
T Consensus 97 ~~~~~~~~~l~~lN~~Y~~kFGf~f 121 (591)
T PRK13590 97 HCTPEEFARIQQLNADYNARFGFPF 121 (591)
T ss_pred cCCHHHHHHHHHHHHHHHHhCCCeE
Confidence 4578899999999999999999988
Done!