Query psy12607
Match_columns 175
No_of_seqs 109 out of 207
Neff 5.5
Searched_HMMs 46136
Date Fri Aug 16 23:37:11 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12607.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12607hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2957|consensus 100.0 9.8E-70 2.1E-74 468.3 16.0 172 3-174 42-213 (350)
2 COG1527 NtpC Archaeal/vacuolar 100.0 2.7E-31 5.8E-36 234.9 13.9 164 4-173 39-202 (346)
3 PF01992 vATP-synt_AC39: ATP s 99.9 1.1E-24 2.4E-29 187.1 8.0 168 4-174 29-197 (337)
4 TIGR02923 AhaC ATP synthase A1 99.9 1.4E-22 3E-27 175.0 15.5 166 4-174 35-203 (343)
5 PRK01198 V-type ATP synthase s 99.9 1E-21 2.2E-26 170.0 15.7 166 4-173 41-210 (352)
6 PRK01198 V-type ATP synthase s 99.5 2.9E-13 6.3E-18 117.2 15.0 165 4-172 149-320 (352)
7 TIGR02923 AhaC ATP synthase A1 99.1 1.5E-09 3.2E-14 94.0 14.9 151 4-158 143-298 (343)
8 PF01992 vATP-synt_AC39: ATP s 98.7 1.8E-07 3.8E-12 80.6 10.5 154 4-160 135-294 (337)
9 COG1527 NtpC Archaeal/vacuolar 98.4 7.5E-06 1.6E-10 73.2 13.6 152 4-160 142-301 (346)
10 PF10962 DUF2764: Protein of u 84.7 2.5 5.5E-05 36.9 5.8 85 49-152 35-127 (271)
11 KOG2957|consensus 62.7 34 0.00074 30.9 7.1 155 4-160 149-320 (350)
12 PLN02460 indole-3-glycerol-pho 61.4 2.6 5.7E-05 37.9 -0.0 53 59-115 188-247 (338)
13 COG0315 MoaC Molybdenum cofact 51.9 7.1 0.00015 31.6 1.0 22 73-94 59-80 (157)
14 PF12345 DUF3641: Protein of u 48.8 45 0.00098 26.4 5.0 95 27-121 4-114 (134)
15 cd00528 MoaC MoaC family. Memb 45.4 8.9 0.00019 30.4 0.6 21 74-94 46-66 (136)
16 COG0134 TrpC Indole-3-glycerol 44.6 9.9 0.00021 33.0 0.8 57 59-119 114-177 (254)
17 cd01420 MoaC_PE MoaC family, p 43.1 10 0.00022 30.1 0.6 21 74-94 46-66 (140)
18 PRK01022 hypothetical protein; 41.6 1.3E+02 0.0029 24.4 6.9 66 28-100 44-131 (167)
19 cd05519 Bromo_SNF2 Bromodomain 40.7 23 0.0005 25.8 2.2 54 107-160 4-70 (103)
20 PF12249 AftA_C: Arabinofurano 39.9 21 0.00045 29.5 2.0 33 91-124 80-116 (178)
21 TIGR00581 moaC molybdenum cofa 39.0 13 0.00028 29.8 0.6 22 74-95 57-78 (147)
22 PRK12343 putative molybdenum c 37.8 14 0.00029 29.9 0.6 21 74-94 54-74 (151)
23 cd01419 MoaC_A MoaC family, ar 37.5 13 0.00027 29.7 0.3 21 74-94 46-66 (141)
24 PRK09427 bifunctional indole-3 37.0 9.8 0.00021 35.5 -0.4 53 59-115 117-176 (454)
25 PLN02375 molybderin biosynthes 34.7 19 0.00041 31.5 1.0 22 74-95 172-193 (270)
26 PRK09364 moaC molybdenum cofac 33.1 19 0.0004 29.3 0.7 21 74-94 60-80 (159)
27 COG4359 Uncharacterized conser 31.5 81 0.0018 26.8 4.2 65 53-128 15-81 (220)
28 PF08696 Dna2: DNA replication 30.2 82 0.0018 26.0 4.1 56 114-173 90-145 (209)
29 KOG4427|consensus 30.2 26 0.00055 35.4 1.2 62 110-172 816-885 (1096)
30 PRK14500 putative bifunctional 28.0 27 0.00058 31.3 0.8 21 74-94 60-80 (346)
31 PF09888 DUF2115: Uncharacteri 27.9 3.2E+02 0.0069 22.0 7.0 68 28-102 41-131 (163)
32 PF01967 MoaC: MoaC family; I 27.6 13 0.00029 29.3 -1.0 21 74-94 46-66 (136)
33 PRK03604 moaC bifunctional mol 26.8 27 0.00058 31.0 0.6 21 74-94 56-76 (312)
34 PRK14082 hypothetical protein; 26.1 1.2E+02 0.0026 21.2 3.6 44 6-62 22-65 (65)
35 PF07319 DnaI_N: Primosomal pr 25.8 49 0.0011 23.9 1.8 48 105-162 18-65 (94)
36 PF01465 GRIP: GRIP domain; I 25.2 1E+02 0.0022 19.6 3.0 30 136-173 2-31 (46)
37 cd05517 Bromo_polybromo_II Bro 25.1 60 0.0013 23.9 2.1 53 108-160 5-70 (103)
38 PF14711 Nitr_red_bet_C: Respi 24.8 1.7E+02 0.0037 21.1 4.4 39 123-166 33-71 (83)
39 PRK13802 bifunctional indole-3 24.5 15 0.00033 36.1 -1.5 57 59-119 118-181 (695)
40 COG1074 RecB ATP-dependent exo 24.0 1.4E+02 0.003 31.0 5.2 98 27-124 566-689 (1139)
41 PRK14499 molybdenum cofactor b 22.6 41 0.0009 29.9 1.0 22 73-94 58-79 (308)
42 PF12209 SAC3: Leucine permeas 22.6 75 0.0016 22.7 2.2 50 108-158 6-58 (79)
43 PHA00202 DNA replication initi 22.4 1.9E+02 0.004 26.8 5.2 85 15-117 303-387 (388)
44 PF01152 Bac_globin: Bacterial 22.3 1.9E+02 0.0041 20.9 4.4 45 107-167 15-59 (120)
45 smart00342 HTH_ARAC helix_turn 21.9 2.3E+02 0.0049 18.1 5.0 60 26-91 2-61 (84)
46 PF03338 Pox_J1: Poxvirus J1 p 21.6 1.7E+02 0.0037 23.5 4.2 44 53-114 36-84 (145)
47 cd05520 Bromo_polybromo_III Br 20.8 81 0.0018 23.2 2.1 43 118-160 20-70 (103)
48 COG5494 Predicted thioredoxin/ 20.7 2E+02 0.0042 25.0 4.6 54 25-85 91-145 (265)
49 PF00218 IGPS: Indole-3-glycer 20.4 3.3 7.2E-05 35.7 -6.2 58 58-119 115-179 (254)
50 PF00163 Ribosomal_S4: Ribosom 20.3 1.6E+02 0.0034 20.9 3.5 29 141-174 66-94 (94)
No 1
>KOG2957|consensus
Probab=100.00 E-value=9.8e-70 Score=468.31 Aligned_cols=172 Identities=77% Similarity=1.256 Sum_probs=170.2
Q ss_pred chhhhhhcCCCCchhhhhCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCccchHHHHHHHhhhhhHHHHHHHHHHHhcCCC
Q psy12607 3 NINLKLHLQGTDYGSFLANEPSPLAVSVIDDKLREKLVIEFIHMRNHAVEPLSTFLDFITYSYMIDNIILLITGTLHQRP 82 (175)
Q Consensus 3 ~~dlk~~L~~TDYg~~L~~e~~~~~~~~I~~~l~~kL~~ef~~lr~~a~~~l~~fld~~~~~~mIdNv~~Li~g~~~~~~ 82 (175)
-+|+|++||+||||+||++++||+|++.|+++|++||+++|+++|+||.+|+++||||++|+||||||++||+|++|+|+
T Consensus 42 LEDlki~Ls~Tdyg~fl~n~~s~lt~s~I~~~l~ekL~~ef~h~R~~a~epl~tfldyity~ymIdNv~lLitgtl~~r~ 121 (350)
T KOG2957|consen 42 LEDLKIHLSSTDYGNFLANEPSPLTVSVIDEKLREKLVDEFDHIRDQADEPLSTFLDYITYGYMIDNVILLITGTLHDRD 121 (350)
T ss_pred HHHHHHhhcccccccccccCCCCCcHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhHHHHHHhccccCCC
Confidence 37999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhhhhccCCCCchhhhHhhhcCCHHHHHHHHhhcCCCchHhhhhccccccccccHHHHHHHHHHHHHHHHHHHHHhcC
Q psy12607 83 ISELIPKCHPLGSFEQMEAIHVAATPAELYNAVLVDTPLAPFFVDCISEQDLDEMNIEIIRNTLYKAYLEAFYDFCKKLG 162 (175)
Q Consensus 83 ~~ell~~chPLG~F~~l~al~~a~~~~el~~~vL~dTpl~~yf~~~l~~~~l~e~nieiir~~L~K~yLE~fy~f~~~lg 162 (175)
+.|+++||||||||++|+||++|+|++|+|++||+|||+||||++|++++||+++|||++||+|||+|||+||+||+.+|
T Consensus 122 ~~ell~kChpLG~F~~l~ai~vA~n~~ely~~vlvdTpla~~F~dc~~~~dld~mniEIiRn~lYKaylE~fY~fc~~~g 201 (350)
T KOG2957|consen 122 VGELLEKCHPLGSFDQLEAIKVASNPAELYNAVLVDTPLAPYFEDCLSEEDLDEMNIEIIRNTLYKAYLEDFYNFCKKLG 201 (350)
T ss_pred HHHHHHhcCCcCchhhhhhhhhcCCHHHHHHHHHhcCcchHHHHhhcCHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CchHHHHHHhhc
Q psy12607 163 GTTADTMCEILS 174 (175)
Q Consensus 163 g~t~~vM~~iL~ 174 (175)
|+|||+||+||+
T Consensus 202 ~~tae~M~~iL~ 213 (350)
T KOG2957|consen 202 GATAEVMCEILA 213 (350)
T ss_pred CchHHHHHHHHh
Confidence 999999999995
No 2
>COG1527 NtpC Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]
Probab=99.97 E-value=2.7e-31 Score=234.87 Aligned_cols=164 Identities=26% Similarity=0.297 Sum_probs=148.0
Q ss_pred hhhhhhcCCCCchhhhhCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCccchHHHHHHHhhhhhHHHHHHHHHHHhcCCCc
Q psy12607 4 INLKLHLQGTDYGSFLANEPSPLAVSVIDDKLREKLVIEFIHMRNHAVEPLSTFLDFITYSYMIDNIILLITGTLHQRPI 83 (175)
Q Consensus 4 ~dlk~~L~~TDYg~~L~~e~~~~~~~~I~~~l~~kL~~ef~~lr~~a~~~l~~fld~~~~~~mIdNv~~Li~g~~~~~~~ 83 (175)
+||+.+|++|||++++.+.++ .+++.++++|.++|+++|+.++.++|+.++.++++++++|||+||+.||+||.+| ++
T Consensus 39 ee~~~~L~~T~Y~~~~d~l~~-~~~~~le~aL~~~L~~~~~~i~~~sp~~~k~~i~~~l~k~di~NIk~li~ak~~g-~~ 116 (346)
T COG1527 39 EEFARVLEETDYKEDLDSLTS-LGPDLLEKALNRKLVDTYRLILRISPGSIKKLIDAYLYKWDIENIKTLLRAKLAG-DP 116 (346)
T ss_pred HHHHHHHhcCCchhHHHHHhc-cCchHHHHHHHHHHHHHHHHHHHhCChhHHHHHHHHHHHHHHHHHHHHHHHHHhC-Cc
Confidence 689999999999999999876 7899999999999999999999999999999999999999999999999999999 99
Q ss_pred hhhhhhccCCCCchhhhHhhhcCCHHHHHHHHhhcCCCchHhhhhccccccccccHHHHHHHHHHHHHHHHHHHHHhcCC
Q psy12607 84 SELIPKCHPLGSFEQMEAIHVAATPAELYNAVLVDTPLAPFFVDCISEQDLDEMNIEIIRNTLYKAYLEAFYDFCKKLGG 163 (175)
Q Consensus 84 ~ell~~chPLG~F~~l~al~~a~~~~el~~~vL~dTpl~~yf~~~l~~~~l~e~nieiir~~L~K~yLE~fy~f~~~lgg 163 (175)
+++..+|||+|+|+.+.+++.|+|++|++..+.+.|+++++...|. ...+..|+++|++.|||+|+|+|+++|++..|
T Consensus 117 ~~~~~~liP~G~~~~~~~l~~a~t~eev~~~~~~~~y~~~~~~~~~--~y~~~~~i~~le~~Ldk~Yye~l~~~~~~~~~ 194 (346)
T COG1527 117 EEISDLLIPLGDFETLLTLAEAKTMEEVVETLEGTTYLAPLEEALR--DYEDTGDIEPLENALDKAYYEDLLRSVNSEKG 194 (346)
T ss_pred cchHHhcCcCchHHHHHHHHhhcchHHHHHHHhcCchhHHHHHHHH--HHhhcCCHHHHHHHHHHHHHHHHHHhcccccc
Confidence 9999999999999999999999999999988666665665554443 22566999999999999999999999999887
Q ss_pred chHHHHHHhh
Q psy12607 164 TTADTMCEIL 173 (175)
Q Consensus 164 ~t~~vM~~iL 173 (175)
.. +|.+++
T Consensus 195 ~~--~~~~~~ 202 (346)
T COG1527 195 DE--LLREFL 202 (346)
T ss_pred hH--HHHHHH
Confidence 75 666554
No 3
>PF01992 vATP-synt_AC39: ATP synthase (C/AC39) subunit; InterPro: IPR002843 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. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit C from the A0 complex of A-ATPases, and subunits C and D from the V0 complex of V-ATPases, all of which are involved in the translocation of protons across a membrane. There is more than one type of D subunit in V-ATPases, where the D1 subunit is ubiquitous, while the D2 subunit has limited tissue expressivity, possibly to account for differential functions, targeting or regulation of V-ATPase activity []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015991 ATP hydrolysis coupled proton transport, 0033177 proton-transporting two-sector ATPase complex, proton-transporting domain; PDB: 1R5Z_A 1V9M_A 3J0J_M.
Probab=99.91 E-value=1.1e-24 Score=187.14 Aligned_cols=168 Identities=27% Similarity=0.410 Sum_probs=131.9
Q ss_pred hhhhhhcCCCCchhhhhCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCccchHHHHHHHhhhhhHHHHHHHHHHHhcCCCc
Q psy12607 4 INLKLHLQGTDYGSFLANEPSPLAVSVIDDKLREKLVIEFIHMRNHAVEPLSTFLDFITYSYMIDNIILLITGTLHQRPI 83 (175)
Q Consensus 4 ~dlk~~L~~TDYg~~L~~e~~~~~~~~I~~~l~~kL~~ef~~lr~~a~~~l~~fld~~~~~~mIdNv~~Li~g~~~~~~~ 83 (175)
+|+...|++|+||+++.+.+...+...|+.+|+.+++++|+.++..+|++.+.|++++..+|+|+|++.+|+|+.+|++.
T Consensus 29 ~~~~~~l~~t~Y~~~l~~~~~~~~~~~iE~~L~~~l~~~~~~l~~~~~~~~~~~~~~~~~r~ei~nik~ilr~~~~g~~~ 108 (337)
T PF01992_consen 29 EEAVSLLEDTGYGDYLEEVSSEIHRRDIEQALRRELFKEFQKLLRFAPGEAKEFLDAYLMRYEIHNIKTILRAKLSGRDL 108 (337)
T ss_dssp HHHHHHHTS-GGGGG--SSSHH----HHHHHHHHHHHHHTTTGGGG--HHHHHHHHHHHHHHHHHHHHHHHHHHHHT--G
T ss_pred HHHHHHHhcccHHHHHHhccccccHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHHHHHHHHHHhCcCH
Confidence 67889999999999998865435778999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhccCCC-CchhhhHhhhcCCHHHHHHHHhhcCCCchHhhhhccccccccccHHHHHHHHHHHHHHHHHHHHHhcC
Q psy12607 84 SELIPKCHPLG-SFEQMEAIHVAATPAELYNAVLVDTPLAPFFVDCISEQDLDEMNIEIIRNTLYKAYLEAFYDFCKKLG 162 (175)
Q Consensus 84 ~ell~~chPLG-~F~~l~al~~a~~~~el~~~vL~dTpl~~yf~~~l~~~~l~e~nieiir~~L~K~yLE~fy~f~~~lg 162 (175)
+++...++|+| .++.+..+..++|++|+. .+|.||||+++++++.++ +++.++..++..|++.|++++++.+..++
T Consensus 109 ~~~~~~l~~~g~~~~~l~~l~~~~~~~e~~-~~L~~t~y~~~l~~~~~~--~~~~~~~~~~~~l~~~yy~~~~~~~~~~~ 185 (337)
T PF01992_consen 109 EEILELLIPLGFSFEDLKELLSAKDVEELI-EALKGTPYYEVLRQALED--YEQQDFFYIEEALDDRYYEDLLKAAKKLS 185 (337)
T ss_dssp GGS---S-SS-HHHHHHHHSSSHHHHHHHH--HTTT-THHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHH---
T ss_pred HHHHHhccccCCChhhHHHHhccCCHHHHH-HHhcCcchHHHHHHHHHh--hcccchHHHHHHHHHHHHHHHHHHhhccc
Confidence 99999999999 445899999999999999 559999999999999874 88899999999999999999999999999
Q ss_pred CchHHHHHHhhc
Q psy12607 163 GTTADTMCEILS 174 (175)
Q Consensus 163 g~t~~vM~~iL~ 174 (175)
|.+++++.++++
T Consensus 186 ~~~~~~l~~~~~ 197 (337)
T PF01992_consen 186 GSEREILRELLG 197 (337)
T ss_dssp TSS-HHHHHHHH
T ss_pred cchHHHHHHHHH
Confidence 999999998864
No 4
>TIGR02923 AhaC ATP synthase A1, C subunit. The A1/A0 ATP synthase is homologous to the V-type (V1/V0, vacuolar) ATPase, but functions in the ATP synthetic direction as does the F1/F0 ATPase of bacteria. The C subunit is part of the hydrophilic A1 "stalk" complex (AhaABCDEFG) which is the site of ATP generation and is coupled to the membrane-embedded proton translocating A0 complex.
Probab=99.89 E-value=1.4e-22 Score=175.03 Aligned_cols=166 Identities=18% Similarity=0.237 Sum_probs=150.7
Q ss_pred hhhhhhcCCCCchhhhhCCCC-CCCHHHHHHHHHHHHHHHHHHHHhcCccchHHHHHHHhhhhhHHHHHHHHHHHhcCCC
Q psy12607 4 INLKLHLQGTDYGSFLANEPS-PLAVSVIDDKLREKLVIEFIHMRNHAVEPLSTFLDFITYSYMIDNIILLITGTLHQRP 82 (175)
Q Consensus 4 ~dlk~~L~~TDYg~~L~~e~~-~~~~~~I~~~l~~kL~~ef~~lr~~a~~~l~~fld~~~~~~mIdNv~~Li~g~~~~~~ 82 (175)
+|+...|++|+|++++++... ..++..|+.+|+..+.++|+.++.+++++.+.|++++..+|||+||+.+++|+..|++
T Consensus 35 ~e~~~~L~~t~Y~~~l~~~~~~~~~~~~iE~~L~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~di~Nik~ilR~~~~g~~ 114 (343)
T TIGR02923 35 DEIVRFLEETDYKKELDELGSKSYGVDLIEHALDANLAKTYEKLFRISPGASRDLIRLYLKKWDVWNIKTLIRAKYANAS 114 (343)
T ss_pred HHHHHHhcCCChHHHHHHhhhccCCHHHHHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhHHHHHHHHHHHHcCCC
Confidence 688999999999999987421 3468899999999999999999999999999999999999999999999999999999
Q ss_pred chhhhhhccCCCCch--hhhHhhhcCCHHHHHHHHhhcCCCchHhhhhccccccccccHHHHHHHHHHHHHHHHHHHHHh
Q psy12607 83 ISELIPKCHPLGSFE--QMEAIHVAATPAELYNAVLVDTPLAPFFVDCISEQDLDEMNIEIIRNTLYKAYLEAFYDFCKK 160 (175)
Q Consensus 83 ~~ell~~chPLG~F~--~l~al~~a~~~~el~~~vL~dTpl~~yf~~~l~~~~l~e~nieiir~~L~K~yLE~fy~f~~~ 160 (175)
.+++.+.++|.|.|+ .++++..++|++|+++ +|.+|||++++++++ + +..++..++..|+++|++++++.|+.
T Consensus 115 ~~~i~~~l~~~g~~~~~~l~~l~~~~~~~e~~~-~L~~t~y~~~l~~~~-~---~~~~l~~~E~~Ld~~y~~~l~~~~~~ 189 (343)
T TIGR02923 115 AEEVEDLLIPAGEFLEKRIKELAEAKTIEEIVE-ALEGTPYYGPLQEAL-A---GNGDLSPIENELDRMYYEKLLKYVGS 189 (343)
T ss_pred HHHHHHHhccccccCHHHHHHHHcCCCHHHHHH-HcCCCccHHHHHHHH-h---cCCCHHHHHHHHHHHHHHHHHHHhcC
Confidence 999999999999998 4999999999999998 599999999999997 2 34889999999999999999999987
Q ss_pred cCCchHHHHHHhhc
Q psy12607 161 LGGTTADTMCEILS 174 (175)
Q Consensus 161 lgg~t~~vM~~iL~ 174 (175)
.+|.+..++..++.
T Consensus 190 ~~~~~~~~l~~~~~ 203 (343)
T TIGR02923 190 PSDDETKLFTEFIK 203 (343)
T ss_pred CCcccHHHHHHHHH
Confidence 77777778887764
No 5
>PRK01198 V-type ATP synthase subunit C; Provisional
Probab=99.88 E-value=1e-21 Score=169.99 Aligned_cols=166 Identities=17% Similarity=0.249 Sum_probs=150.2
Q ss_pred hhhhhhcCCCCchhhhhCCCCC-CCHHHHHHHHHHHHHHHHHHHHhcCccchHHHHHHHhhhhhHHHHHHHHHHHhcCCC
Q psy12607 4 INLKLHLQGTDYGSFLANEPSP-LAVSVIDDKLREKLVIEFIHMRNHAVEPLSTFLDFITYSYMIDNIILLITGTLHQRP 82 (175)
Q Consensus 4 ~dlk~~L~~TDYg~~L~~e~~~-~~~~~I~~~l~~kL~~ef~~lr~~a~~~l~~fld~~~~~~mIdNv~~Li~g~~~~~~ 82 (175)
+|+...|++|+|++.+.+..+. .++..|+.+|+..+..+|+.++.++|++.+.|++++..+|||+||+.+++|+..|++
T Consensus 41 ~e~~~~L~~t~Y~~~l~~~~~~~~~~~~~E~~L~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~di~NIk~ilr~~~~g~~ 120 (352)
T PRK01198 41 EEIIRFLEETEYKEEIDELGSRYSGPDLIEKALNRNLAKTYELLLEISPGRLKELVDVYLRKWDIHNIKTLLRGKILGLD 120 (352)
T ss_pred HHHHHHHhcCCcHHHHHHhcccccchhHHHHHHHHHHHHHHHHHHHHCcchHHHHHHHHHHHHhHHHHHHHHHHHHhCCC
Confidence 6889999999999999875443 357789999999999999999999999999999999999999999999999999999
Q ss_pred chhhhhhccCCCCch--hhhHhhhcCCHHHHHHHHhhcCCCchHhhhhcccccccc-ccHHHHHHHHHHHHHHHHHHHHH
Q psy12607 83 ISELIPKCHPLGSFE--QMEAIHVAATPAELYNAVLVDTPLAPFFVDCISEQDLDE-MNIEIIRNTLYKAYLEAFYDFCK 159 (175)
Q Consensus 83 ~~ell~~chPLG~F~--~l~al~~a~~~~el~~~vL~dTpl~~yf~~~l~~~~l~e-~nieiir~~L~K~yLE~fy~f~~ 159 (175)
.+++.+.++|.|.|+ .+..+..++|++|+.+. |.+|||++++.++... +.+ .++..++..|+++|++++++.+
T Consensus 121 ~~~i~~~l~~~g~l~~~~l~~l~~~~~~~e~~~~-L~~T~Y~~~l~~~~~~--~~~~~~~~~~E~~Ld~~~~~~l~~~~- 196 (352)
T PRK01198 121 AEEIEELLIPAGELDLEKLKELLEAKSVEEIVKI-LEGTEYYEVLEEALED--YEETGDLQPIENALDKYYYENLLEIA- 196 (352)
T ss_pred hHHhhhheeeCCcCCHHHHHHHHhCCCHHHHHHH-hcCCchHHHHHHHHHH--HhccCCHHHHHHHHHHHHHHHHHHHh-
Confidence 999999999999998 89999999999999975 9999999999999865 544 8999999999999999999999
Q ss_pred hcCCchHHHHHHhh
Q psy12607 160 KLGGTTADTMCEIL 173 (175)
Q Consensus 160 ~lgg~t~~vM~~iL 173 (175)
+.++.+.+.+.+.+
T Consensus 197 ~~~~~~~~~l~~~~ 210 (352)
T PRK01198 197 SPKDIDEKLLLEYV 210 (352)
T ss_pred ccCCcchHHHHHHH
Confidence 56666777776655
No 6
>PRK01198 V-type ATP synthase subunit C; Provisional
Probab=99.53 E-value=2.9e-13 Score=117.21 Aligned_cols=165 Identities=17% Similarity=0.202 Sum_probs=135.0
Q ss_pred hhhhhhcCCCCchhhhhCC----CCCCCHHHHHHHHHHHHHHHHHHHHhcCccchHHHHHHHhhhhhHHHHHHHHHHHhc
Q psy12607 4 INLKLHLQGTDYGSFLANE----PSPLAVSVIDDKLREKLVIEFIHMRNHAVEPLSTFLDFITYSYMIDNIILLITGTLH 79 (175)
Q Consensus 4 ~dlk~~L~~TDYg~~L~~e----~~~~~~~~I~~~l~~kL~~ef~~lr~~a~~~l~~fld~~~~~~mIdNv~~Li~g~~~ 79 (175)
+++.-.|++|.|++.|.+- ....++..++.+++..+......+.+-.+.+-..+.+|+..+++|.||..+++|+..
T Consensus 149 ~e~~~~L~~T~Y~~~l~~~~~~~~~~~~~~~~E~~Ld~~~~~~l~~~~~~~~~~~~~l~~~~~~~iD~~Ni~~ilr~k~~ 228 (352)
T PRK01198 149 EEIVKILEGTEYYEVLEEALEDYEETGDLQPIENALDKYYYENLLEIASPKDIDEKLLLEYVRTEIDITNIKTLLRLKAQ 228 (352)
T ss_pred HHHHHHhcCCchHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence 5677889999999998751 122578999999999995555444444466778999999999999999999999999
Q ss_pred CCCchhhhhhccCCCCch--hhhHhhhcCCHHHHHHHHhhcCCCchHhhhhcccccccc-ccHHHHHHHHHHHHHHHHHH
Q psy12607 80 QRPISELIPKCHPLGSFE--QMEAIHVAATPAELYNAVLVDTPLAPFFVDCISEQDLDE-MNIEIIRNTLYKAYLEAFYD 156 (175)
Q Consensus 80 ~~~~~ell~~chPLG~F~--~l~al~~a~~~~el~~~vL~dTpl~~yf~~~l~~~~l~e-~nieiir~~L~K~yLE~fy~ 156 (175)
|.+.+++.+.++|.|.++ .+.+++ +++++++.+. |.+|||++++.++..+ +.+ .++..++..++++|++...+
T Consensus 229 ~~~~e~i~~~li~~g~i~~~~l~~l~-~~~~~~~~~~-L~~t~y~~~l~~~~~~--~~~~~~~~~~E~~~d~~~~~~~~~ 304 (352)
T PRK01198 229 GLSADFIEKVLIPGGSLDEEKLKELL-AEDIEELVSA-LEGTKYGDVLSEALEE--YEETGSLSVFEKALDNYLLEYMKK 304 (352)
T ss_pred CCCHHHHHHHccCCCCcCHHHHHHHh-cCCHHHHHHH-HhcCccHHHHHHHHHH--HHccCCHHHHHHHHHHHHHHHHHH
Confidence 999999988899999777 899999 9999999977 9999999999998755 665 78999999999999999887
Q ss_pred HHHhcCCchHHHHHHh
Q psy12607 157 FCKKLGGTTADTMCEI 172 (175)
Q Consensus 157 f~~~lgg~t~~vM~~i 172 (175)
.+.......+-+++.+
T Consensus 305 ~~~~~~~~~~~~l~yl 320 (352)
T PRK01198 305 LSKRYPFSVEPILGYI 320 (352)
T ss_pred HhCcCCCChHHHHHHH
Confidence 7664333333355444
No 7
>TIGR02923 AhaC ATP synthase A1, C subunit. The A1/A0 ATP synthase is homologous to the V-type (V1/V0, vacuolar) ATPase, but functions in the ATP synthetic direction as does the F1/F0 ATPase of bacteria. The C subunit is part of the hydrophilic A1 "stalk" complex (AhaABCDEFG) which is the site of ATP generation and is coupled to the membrane-embedded proton translocating A0 complex.
Probab=99.15 E-value=1.5e-09 Score=93.98 Aligned_cols=151 Identities=17% Similarity=0.226 Sum_probs=121.7
Q ss_pred hhhhhhcCCCCchhhhhCC-CCCCCHHHHHHHHHHHHHHHHHHHHhcC-ccchHHHHHHHhhhhhHHHHHHHHHHHhcCC
Q psy12607 4 INLKLHLQGTDYGSFLANE-PSPLAVSVIDDKLREKLVIEFIHMRNHA-VEPLSTFLDFITYSYMIDNIILLITGTLHQR 81 (175)
Q Consensus 4 ~dlk~~L~~TDYg~~L~~e-~~~~~~~~I~~~l~~kL~~ef~~lr~~a-~~~l~~fld~~~~~~mIdNv~~Li~g~~~~~ 81 (175)
+++.-.|.+|.|++.+..- ...-++..|+.+++...........+.. ..+...+-.++..+.++.|+..+++|+..|.
T Consensus 143 ~e~~~~L~~t~y~~~l~~~~~~~~~l~~~E~~Ld~~y~~~l~~~~~~~~~~~~~~l~~~~~~eiD~~Nl~~ilr~k~~~~ 222 (343)
T TIGR02923 143 EEIVEALEGTPYYGPLQEALAGNGDLSPIENELDRMYYEKLLKYVGSPSDDETKLFTEFIKTEVDIRNLKTLLRLKAAGL 222 (343)
T ss_pred HHHHHHcCCCccHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 5677889999999999651 1124688999999997766655544432 2445678888999999999999999999999
Q ss_pred CchhhhhhccCCC-Cch--hhhHhhhcCCHHHHHHHHhhcCCCchHhhhhccccccccccHHHHHHHHHHHHHHHHHHHH
Q psy12607 82 PISELIPKCHPLG-SFE--QMEAIHVAATPAELYNAVLVDTPLAPFFVDCISEQDLDEMNIEIIRNTLYKAYLEAFYDFC 158 (175)
Q Consensus 82 ~~~ell~~chPLG-~F~--~l~al~~a~~~~el~~~vL~dTpl~~yf~~~l~~~~l~e~nieiir~~L~K~yLE~fy~f~ 158 (175)
+++++.+.++|-| .++ .+.+++.|.+++++.+. |.+|||++++.+++.+ +..++..++..++++.++..-+.+
T Consensus 223 ~~e~i~~~li~~g~~l~~~~l~~l~~~~~~~~~~~~-l~~t~y~~~l~~~~~~---~~~~~~~~E~~~d~~~~~~~~~~~ 298 (343)
T TIGR02923 223 SPDEIMPYTIPGGYELDEEKLAPLAHIESIDEVVSA-LDGTKYGEDISEVLSE---EEKSVAVFERALDEYLIKMATKLS 298 (343)
T ss_pred CHHHHHhhccCcccccCHHHHHHHHcCCCHHHHHHH-HhcCcchHHHHHHHhh---ccCcHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999 556 78999999999999976 9999999999988751 237888898888887776665444
No 8
>PF01992 vATP-synt_AC39: ATP synthase (C/AC39) subunit; InterPro: IPR002843 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. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit C from the A0 complex of A-ATPases, and subunits C and D from the V0 complex of V-ATPases, all of which are involved in the translocation of protons across a membrane. There is more than one type of D subunit in V-ATPases, where the D1 subunit is ubiquitous, while the D2 subunit has limited tissue expressivity, possibly to account for differential functions, targeting or regulation of V-ATPase activity []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015991 ATP hydrolysis coupled proton transport, 0033177 proton-transporting two-sector ATPase complex, proton-transporting domain; PDB: 1R5Z_A 1V9M_A 3J0J_M.
Probab=98.68 E-value=1.8e-07 Score=80.55 Aligned_cols=154 Identities=16% Similarity=0.211 Sum_probs=95.4
Q ss_pred hhhhhhcCCCCchhhhhCCCC---CCCHHHHHHHHHHHHHH-HHHHHHhcCccchHHHHHHHhhhhhHHHHHHHHHHHhc
Q psy12607 4 INLKLHLQGTDYGSFLANEPS---PLAVSVIDDKLREKLVI-EFIHMRNHAVEPLSTFLDFITYSYMIDNIILLITGTLH 79 (175)
Q Consensus 4 ~dlk~~L~~TDYg~~L~~e~~---~~~~~~I~~~l~~kL~~-ef~~lr~~a~~~l~~fld~~~~~~mIdNv~~Li~g~~~ 79 (175)
+|+.-.|++|.|++.|..-.. ......++..+....-. -+.............+-+++..+-|+-||..+++++..
T Consensus 135 ~e~~~~L~~t~y~~~l~~~~~~~~~~~~~~~~~~l~~~yy~~~~~~~~~~~~~~~~~l~~~~~~~iD~~Ni~~~~R~k~~ 214 (337)
T PF01992_consen 135 EELIEALKGTPYYEVLRQALEDYEQQDFFYIEEALDDRYYEDLLKAAKKLSGSEREILRELLGMEIDLTNIKTILRAKKY 214 (337)
T ss_dssp HHHH-HTTT-THHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHH---TSS-HHHHHHHHHHHHHHHHHHHHHTTTS
T ss_pred HHHHHHhcCcchHHHHHHHHHhhcccchHHHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 567788999999999966211 12455565555554433 33444433445555666899999999999999999999
Q ss_pred CCCchhhhhhccCCCCch--hhhHhhhcCCHHHHHHHHhhcCCCchHhhhhccccccccccHHHHHHHHHHHHHHHHHHH
Q psy12607 80 QRPISELIPKCHPLGSFE--QMEAIHVAATPAELYNAVLVDTPLAPFFVDCISEQDLDEMNIEIIRNTLYKAYLEAFYDF 157 (175)
Q Consensus 80 ~~~~~ell~~chPLG~F~--~l~al~~a~~~~el~~~vL~dTpl~~yf~~~l~~~~l~e~nieiir~~L~K~yLE~fy~f 157 (175)
|.+.+++...+.|-|.++ .+.+++.++|++++... |.+||+++.+.....+ ..+.++..++-.++++.++...+.
T Consensus 215 ~~~~~~i~~ll~~~g~l~~~~l~~l~~~~~~~~~~~~-l~~t~y~~~~~~~~~~--~~~~~~~~~E~~~~~~~~~~~~~~ 291 (337)
T PF01992_consen 215 GLSPEEIKQLLPPGGRLSKDRLKALAEAEDVEEFLEA-LSGTPYGKLLSDAEEE--YEETSLSELERALDRYLLKKALRL 291 (337)
T ss_dssp ---GGGT-----SS-SS--H-HHHHHHHTT-GGGGGS--TTSTTGGGTT--S---------HHHHHHHHHHHHHH-HHHG
T ss_pred CCCHhhhhccCCCCCeeCHHHHHHHHHCCCHHHHHHH-HhcCchHHHHHHhhhh--hhhhhHHHHHHHHHHHHHHHHHHH
Confidence 999999997778888777 59999999999999977 9999999999887644 333368888888888888766665
Q ss_pred HHh
Q psy12607 158 CKK 160 (175)
Q Consensus 158 ~~~ 160 (175)
+..
T Consensus 292 ~~~ 294 (337)
T PF01992_consen 292 SRR 294 (337)
T ss_dssp GTT
T ss_pred Hhh
Confidence 543
No 9
>COG1527 NtpC Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]
Probab=98.40 E-value=7.5e-06 Score=73.17 Aligned_cols=152 Identities=16% Similarity=0.191 Sum_probs=120.2
Q ss_pred hhhhhhcCCCCchhhhh----CCCCCCCHHHHHHHHHHHHHHHHHHHH-hcCccchHHHHHHHhhhhhHHHHHHHHHHHh
Q psy12607 4 INLKLHLQGTDYGSFLA----NEPSPLAVSVIDDKLREKLVIEFIHMR-NHAVEPLSTFLDFITYSYMIDNIILLITGTL 78 (175)
Q Consensus 4 ~dlk~~L~~TDYg~~L~----~e~~~~~~~~I~~~l~~kL~~ef~~lr-~~a~~~l~~fld~~~~~~mIdNv~~Li~g~~ 78 (175)
+++...+.+|.|-..+. +.....+...|+-.+++.-...+.-.. +-..++ .|.+|+.-.=|+.|+..+++|+.
T Consensus 142 eev~~~~~~~~y~~~~~~~~~~y~~~~~i~~le~~Ldk~Yye~l~~~~~~~~~~~--~~~~~~~~eID~~Ni~~~lr~k~ 219 (346)
T COG1527 142 EEVVETLEGTTYLAPLEEALRDYEDTGDIEPLENALDKAYYEDLLRSVNSEKGDE--LLREFLRLEIDRRNIKTALRGKA 219 (346)
T ss_pred HHHHHHHhcCchhHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHhcccccchH--HHHHHHHHHHHHHHHHHHHHHhh
Confidence 45667788888877775 333446889999999988766554432 222222 67788888899999999999999
Q ss_pred cCCCchhhhhhccCCCCch--hhhHhhhcCCHHHHHHHHhhcCCCchHhhhhcccccccc-ccHHHHHHHHHHHHHHHHH
Q psy12607 79 HQRPISELIPKCHPLGSFE--QMEAIHVAATPAELYNAVLVDTPLAPFFVDCISEQDLDE-MNIEIIRNTLYKAYLEAFY 155 (175)
Q Consensus 79 ~~~~~~ell~~chPLG~F~--~l~al~~a~~~~el~~~vL~dTpl~~yf~~~l~~~~l~e-~nieiir~~L~K~yLE~fy 155 (175)
.+.+.+.....+.|-|.++ .+..|..+.++.++.+. |.+|+|++.+...... +.+ ..+......+.|+++...-
T Consensus 220 ~~~~~e~~~~li~~gg~l~~~~~~~l~~~ed~~~~~~~-l~~t~yg~~l~~~~~~--~~~~~~~~~~e~~l~~~~~~~~~ 296 (346)
T COG1527 220 SELSEELMESLIPDGGSLDASALRDLAEAEDILDVLEA-LEGTSYGDALSEYREE--YEEGGSIAVFEEALRKALLKRAK 296 (346)
T ss_pred cCCcHHHHHHhcCCCccCCHHHHHHHHhcccHHHHHHH-cccCchHHHHHHHHHH--hhcCCchhHHHHHHHHHHHHHHH
Confidence 7777777777777777888 89999999999999998 9999999999998877 888 5666666779999999999
Q ss_pred HHHHh
Q psy12607 156 DFCKK 160 (175)
Q Consensus 156 ~f~~~ 160 (175)
++++.
T Consensus 297 ~~a~~ 301 (346)
T COG1527 297 EFAQY 301 (346)
T ss_pred HHhhc
Confidence 88765
No 10
>PF10962 DUF2764: Protein of unknown function (DUF2764); InterPro: IPR024492 This bacterial family of proteins has no known function.
Probab=84.67 E-value=2.5 Score=36.89 Aligned_cols=85 Identities=21% Similarity=0.329 Sum_probs=52.9
Q ss_pred cCccchHHHHHHHhhhhhHHH-HHHHHHHHhcCCCchhhhhhccCCCCchhhhHhhhcCCHHHHHHHHhh----cCCCch
Q psy12607 49 HAVEPLSTFLDFITYSYMIDN-IILLITGTLHQRPISELIPKCHPLGSFEQMEAIHVAATPAELYNAVLV----DTPLAP 123 (175)
Q Consensus 49 ~a~~~l~~fld~~~~~~mIdN-v~~Li~g~~~~~~~~ell~~chPLG~F~~l~al~~a~~~~el~~~vL~----dTpl~~ 123 (175)
+-++.=.+.++++...||+.| +..+.+|+ + ..+|.|.|+ ...+++++.++-. +.-+..
T Consensus 35 ~lS~~D~~~~~ll~~~~D~~n~l~~l~~~~----~------~~~~~g~~~-------~~el~~~~~~~~~~~~~~~~lP~ 97 (271)
T PF10962_consen 35 NLSAKDAKLIDLLYLYFDNENLLRLLWKGE----P------APDPRGNYS-------EEELEELIKAQKEGDEPDKGLPS 97 (271)
T ss_pred hcCHHHHHHHHHHHHhccHHHHHHHHHcCC----C------CcCcccCcC-------HHHHHHHHHHHHhcccccccccH
Confidence 344444678899999999999 55554433 1 126899884 3445555555333 447889
Q ss_pred Hhhhhcccccc--cc-ccHHHHHHHHHHHHHH
Q psy12607 124 FFVDCISEQDL--DE-MNIEIIRNTLYKAYLE 152 (175)
Q Consensus 124 yf~~~l~~~~l--~e-~nieiir~~L~K~yLE 152 (175)
|+.+++.+ + .+ .+--..++.|...|++
T Consensus 98 y~~~Fl~~--y~~~~~e~~~~~e~~L~~~yy~ 127 (271)
T PF10962_consen 98 YLKDFLED--YLNEEAEERIRHEDRLVAAYYA 127 (271)
T ss_pred HHHHHHHH--HcccchhhccchHHHHHHHHHH
Confidence 99999866 4 22 3334466777665544
No 11
>KOG2957|consensus
Probab=62.65 E-value=34 Score=30.86 Aligned_cols=155 Identities=14% Similarity=0.249 Sum_probs=89.7
Q ss_pred hhhhhhcCCCCchhhhhC-----CCCCCCHHHHHHHHHHHHHHHHHHHHhcCccchHHHH-HHHhhhhhHHHHHHHH---
Q psy12607 4 INLKLHLQGTDYGSFLAN-----EPSPLAVSVIDDKLREKLVIEFIHMRNHAVEPLSTFL-DFITYSYMIDNIILLI--- 74 (175)
Q Consensus 4 ~dlk~~L~~TDYg~~L~~-----e~~~~~~~~I~~~l~~kL~~ef~~lr~~a~~~l~~fl-d~~~~~~mIdNv~~Li--- 74 (175)
+++...|-+|.-.+|+.+ +-..+..+.|+..+-+.-.++|--..++.+++-+..| +.+.-+-|=+=|..-|
T Consensus 149 ely~~vlvdTpla~~F~dc~~~~dld~mniEIiRn~lYKaylE~fY~fc~~~g~~tae~M~~iL~fEaDRRai~ItiNs~ 228 (350)
T KOG2957|consen 149 ELYNAVLVDTPLAPYFEDCLSEEDLDEMNIEIIRNTLYKAYLEDFYNFCKKLGGATAEVMCEILAFEADRRAIIITINSF 228 (350)
T ss_pred HHHHHHHhcCcchHHHHhhcCHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHhhcccceeEEEehhhc
Confidence 456677889999999887 2223578888888877655555444455555444333 2233333322222222
Q ss_pred HHHhcCCCchhhhhhccCCCCch-hhhHhhhcCCHHHHHHHHhhcCCCchHhhhhccc--ccccc----ccHHH-HHHHH
Q psy12607 75 TGTLHQRPISELIPKCHPLGSFE-QMEAIHVAATPAELYNAVLVDTPLAPFFVDCISE--QDLDE----MNIEI-IRNTL 146 (175)
Q Consensus 75 ~g~~~~~~~~ell~~chPLG~F~-~l~al~~a~~~~el~~~vL~dTpl~~yf~~~l~~--~~l~e----~niei-ir~~L 146 (175)
.--+.+++-..+++.|+- +.| .+..|+-|.+.+++-+++=.=-+|+++|.+.-.. ..+++ ..++. ..+.+
T Consensus 229 gteL~~~~R~kL~P~~g~--lyp~~~~~La~aed~e~vk~v~~~~~~Y~~~fd~~~~~g~ktLed~f~e~Ev~~~~~aF~ 306 (350)
T KOG2957|consen 229 GTELSKEDRAKLYPNCGK--LYPRGLELLARAEDYEQVKNVLSTYYEYKALFDKDGGPGSKTLEDVFYEHEVKLNVLAFL 306 (350)
T ss_pred ccccChhHHHHhCCCcCc--cChhHHHHHHhhhhHHHHHHHHHhhhhhHhHhhcCCCCccccHHHHHHHHHHHHHHHHHH
Confidence 223345555566655543 344 8999999999999987755556777778765210 01222 22221 12334
Q ss_pred HHHHHHHHHHHHHh
Q psy12607 147 YKAYLEAFYDFCKK 160 (175)
Q Consensus 147 ~K~yLE~fy~f~~~ 160 (175)
...++.=||.|.+.
T Consensus 307 qqfh~gvfyay~Kl 320 (350)
T KOG2957|consen 307 QQFHFGVFYAYMKL 320 (350)
T ss_pred hhhhhhhhhHHHHH
Confidence 44677778888765
No 12
>PLN02460 indole-3-glycerol-phosphate synthase
Probab=61.44 E-value=2.6 Score=37.92 Aligned_cols=53 Identities=26% Similarity=0.421 Sum_probs=47.4
Q ss_pred HHHhhhhhHH-------HHHHHHHHHhcCCCchhhhhhccCCCCchhhhHhhhcCCHHHHHHHH
Q psy12607 59 DFITYSYMID-------NIILLITGTLHQRPISELIPKCHPLGSFEQMEAIHVAATPAELYNAV 115 (175)
Q Consensus 59 d~~~~~~mId-------Nv~~Li~g~~~~~~~~ell~~chPLG~F~~l~al~~a~~~~el~~~v 115 (175)
|||.++|+|. ..++||.+.+......++++.|+-||+ .+|.+..|-+|+-+++
T Consensus 188 DFIID~yQI~eAr~~GADAVLLIaaiL~~~~L~~l~~~A~~LGm----e~LVEVH~~~ElerAl 247 (338)
T PLN02460 188 EFIVDAWQIYYARSKGADAILLIAAVLPDLDIKYMLKICKSLGM----AALIEVHDEREMDRVL 247 (338)
T ss_pred cccCCHHHHHHHHHcCCCcHHHHHHhCCHHHHHHHHHHHHHcCC----eEEEEeCCHHHHHHHH
Confidence 7889999998 568999999999999999999999984 6888999999999874
No 13
>COG0315 MoaC Molybdenum cofactor biosynthesis enzyme [Coenzyme metabolism]
Probab=51.92 E-value=7.1 Score=31.65 Aligned_cols=22 Identities=50% Similarity=0.881 Sum_probs=17.8
Q ss_pred HHHHHhcCCCchhhhhhccCCC
Q psy12607 73 LITGTLHQRPISELIPKCHPLG 94 (175)
Q Consensus 73 Li~g~~~~~~~~ell~~chPLG 94 (175)
-|.|.++-....|+++.||||.
T Consensus 59 riAgimaaKkT~elIPlCHpi~ 80 (157)
T COG0315 59 RIAGIMAAKRTSELIPLCHPLP 80 (157)
T ss_pred HHHHHHHhhhhhhhCccCCCCc
Confidence 3567777778889999999886
No 14
>PF12345 DUF3641: Protein of unknown function (DUF3641) ; InterPro: IPR024521 This domain is found in bacteria and eukaryotes, and is approximately 140 amino acids in length. It is found in association with an N-terminal radical_SAM domain (Pfam:PF04055 from PFAM).
Probab=48.77 E-value=45 Score=26.39 Aligned_cols=95 Identities=15% Similarity=0.267 Sum_probs=66.3
Q ss_pred CHHHHHHHHHHHHHHH----HHHHHhcCccchHHHHHHHhhhhhHHHHHHHHHHHhcCCCchhhhhh----ccCCC-C--
Q psy12607 27 AVSVIDDKLREKLVIE----FIHMRNHAVEPLSTFLDFITYSYMIDNIILLITGTLHQRPISELIPK----CHPLG-S-- 95 (175)
Q Consensus 27 ~~~~I~~~l~~kL~~e----f~~lr~~a~~~l~~fld~~~~~~mIdNv~~Li~g~~~~~~~~ell~~----chPLG-~-- 95 (175)
+-..+|+.-++.|.++ |+.+..++.-|++.|.+++..+--.+--.-++.+..+.-+++.++=| ..--| .
T Consensus 4 ~Q~~LE~~Yk~~L~~~~GI~Fn~L~titNmPI~RF~~~L~~~g~~~~Ym~lL~~~fNp~~v~~vMCR~~iSV~wdG~lYD 83 (134)
T PF12345_consen 4 PQQALEADYKRELKERFGIVFNNLFTITNMPIGRFGSFLERSGNLEDYMELLVDAFNPANVEGVMCRSQISVDWDGYLYD 83 (134)
T ss_pred CHHHHHHHHHHHHHHhcCceecchhhhhcCcHHHHHHHHHHccCHHHHHHHHHHhcCHHHHhhcccccceeECCCCeEeC
Confidence 4566777777777765 78899999999999999999888888888888888877777665421 11222 1
Q ss_pred --chhhhHhhhc---CCHHHHHHHHhhcCCC
Q psy12607 96 --FEQMEAIHVA---ATPAELYNAVLVDTPL 121 (175)
Q Consensus 96 --F~~l~al~~a---~~~~el~~~vL~dTpl 121 (175)
|.++-.|... .++.|+-..-|.+.|+
T Consensus 84 CDFNQ~l~lp~~~~~~~i~dl~~~~l~~~~I 114 (134)
T PF12345_consen 84 CDFNQMLGLPLSGPRLHISDLLEEDLEGRPI 114 (134)
T ss_pred ChhHHHcCCCCCCCCcCHHHHhhcccCCCce
Confidence 5566666553 3667776665555554
No 15
>cd00528 MoaC MoaC family. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine derivative to the precursor Z by inserting the carbon-8 of the purine between the 2' and 3' ribose carbon atoms, which is the first of three phases of Moco biosynthesis.
Probab=45.43 E-value=8.9 Score=30.36 Aligned_cols=21 Identities=52% Similarity=0.958 Sum_probs=17.2
Q ss_pred HHHHhcCCCchhhhhhccCCC
Q psy12607 74 ITGTLHQRPISELIPKCHPLG 94 (175)
Q Consensus 74 i~g~~~~~~~~ell~~chPLG 94 (175)
+.|...-....++++.||||.
T Consensus 46 iAgI~aaK~T~~LIPlCHpl~ 66 (136)
T cd00528 46 IAGIMAAKRTSELIPLCHPLP 66 (136)
T ss_pred HHHHHHHHhcccccccCCCCc
Confidence 566666677889999999986
No 16
>COG0134 TrpC Indole-3-glycerol phosphate synthase [Amino acid transport and metabolism]
Probab=44.62 E-value=9.9 Score=33.00 Aligned_cols=57 Identities=32% Similarity=0.499 Sum_probs=47.9
Q ss_pred HHHhhhhhHHH-------HHHHHHHHhcCCCchhhhhhccCCCCchhhhHhhhcCCHHHHHHHHhhcC
Q psy12607 59 DFITYSYMIDN-------IILLITGTLHQRPISELIPKCHPLGSFEQMEAIHVAATPAELYNAVLVDT 119 (175)
Q Consensus 59 d~~~~~~mIdN-------v~~Li~g~~~~~~~~ell~~chPLG~F~~l~al~~a~~~~el~~~vL~dT 119 (175)
|||..+|.|+= .++||-+.+......++++.+|-||+ ..|.+..|-+|+-+++=.|.
T Consensus 114 DFiiD~yQI~~Ar~~GADavLLI~~~L~~~~l~el~~~A~~LGm----~~LVEVh~~eEl~rAl~~ga 177 (254)
T COG0134 114 DFIIDPYQIYEARAAGADAVLLIVAALDDEQLEELVDRAHELGM----EVLVEVHNEEELERALKLGA 177 (254)
T ss_pred cCCCCHHHHHHHHHcCcccHHHHHHhcCHHHHHHHHHHHHHcCC----eeEEEECCHHHHHHHHhCCC
Confidence 67778888874 58999999999999999999998884 67889999999998844333
No 17
>cd01420 MoaC_PE MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine derivative to the precursor Z by inserting the carbon-8 of the purine between the 2' and 3' ribose carbon atoms, which is the first of three phases of Moco biosynthesis.
Probab=43.07 E-value=10 Score=30.15 Aligned_cols=21 Identities=52% Similarity=0.958 Sum_probs=17.1
Q ss_pred HHHHhcCCCchhhhhhccCCC
Q psy12607 74 ITGTLHQRPISELIPKCHPLG 94 (175)
Q Consensus 74 i~g~~~~~~~~ell~~chPLG 94 (175)
+.|...-....++++.||||.
T Consensus 46 iAgI~aaK~T~~LIPlCHpi~ 66 (140)
T cd01420 46 IAGIMAAKRTSELIPLCHPLP 66 (140)
T ss_pred HHHHHHHHhhhcccccCCCCc
Confidence 566666677889999999986
No 18
>PRK01022 hypothetical protein; Provisional
Probab=41.56 E-value=1.3e+02 Score=24.37 Aligned_cols=66 Identities=18% Similarity=0.230 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHh----------cCccchHHHHHHHhhhh--------hHHHHHHHHHHH---hcCCCchhh
Q psy12607 28 VSVIDDKLREKLVIEFIHMRN----------HAVEPLSTFLDFITYSY--------MIDNIILLITGT---LHQRPISEL 86 (175)
Q Consensus 28 ~~~I~~~l~~kL~~ef~~lr~----------~a~~~l~~fld~~~~~~--------mIdNv~~Li~g~---~~~~~~~el 86 (175)
...+.+.+.+.+...|+.|+. ...+.++.|...+.... ....+..+|.+= ..++|.
T Consensus 44 r~~~~~~~~~~~~~~~~eIk~~~~~~~~d~~~d~e~~~~~~~~i~~~~~~~~~~~~~~~~~~~lv~~Y~~FI~~~Pl--- 120 (167)
T PRK01022 44 REKYIESFFEYLFGTLNEIKSGSFSEIEDPEIDEEEFKEFLARIEDQCENPDPGEPRFRLLYKLVSPYLIFILKEPL--- 120 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCcccCCcCccCCHHHHHHHHHHHHHHHhccCCCchHHHHHHHHHHHHHHHHhCCCC---
Confidence 355666777778888888885 12223455555554331 123334444332 356665
Q ss_pred hhhccCCCC-chhhh
Q psy12607 87 IPKCHPLGS-FEQME 100 (175)
Q Consensus 87 l~~chPLG~-F~~l~ 100 (175)
||.|+ ||.--
T Consensus 121 ----HPvG~~FPGG~ 131 (167)
T PRK01022 121 ----HPVGTPFPGGF 131 (167)
T ss_pred ----CCCCCCCCCCe
Confidence 99995 98543
No 19
>cd05519 Bromo_SNF2 Bromodomain, SNF2-like subfamily, specific to fungi. SNF2 is a yeast protein involved in transcriptional activation, it is the catalytic component of the SWI/SNF ATP-dependent chromatin remodeling complex. The protein is essential for the regulation of gene expression (both positive and negative) of a large number of genes. The SWI/SNF complex changes chromatin structure by altering DNA-histone contacts within the nucleosome, which results in a re-positioning of the nucleosome and facilitates or represses the binding of gene-specific transcription factors. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=40.69 E-value=23 Score=25.82 Aligned_cols=54 Identities=19% Similarity=0.372 Sum_probs=36.7
Q ss_pred CHHHHHHHHh-----hcCCCchHhhhhccccc-------ccc-ccHHHHHHHHHHHHHHHHHHHHHh
Q psy12607 107 TPAELYNAVL-----VDTPLAPFFVDCISEQD-------LDE-MNIEIIRNTLYKAYLEAFYDFCKK 160 (175)
Q Consensus 107 ~~~el~~~vL-----~dTpl~~yf~~~l~~~~-------l~e-~nieiir~~L~K~yLE~fy~f~~~ 160 (175)
.+.++|..|. .+-|++..|.+.-+..+ .+. +++..|+..|....+.++-.|+..
T Consensus 4 ~~~~i~~~v~~~~~~~~~~~~~~F~~~p~~~~~pdYy~iIk~Pmdl~~I~~kl~~~~Y~s~~~f~~D 70 (103)
T cd05519 4 AMLEIYDAVLNCEDETGRKLSELFLEKPSKKLYPDYYVIIKRPIALDQIKRRIEGRAYKSLEEFLED 70 (103)
T ss_pred HHHHHHHHHHHhcCcCCCchhHHhcCCCCCCCCcCHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHH
Confidence 4567777755 36788888887655444 233 899999999987666666555443
No 20
>PF12249 AftA_C: Arabinofuranosyltransferase A C terminal; InterPro: IPR020959 The arabinofuranosyltransferase enzyme AftA is involved in cell wall arabinan biosynthesis in bacteria []. It catalyses the addition of the first key arabinofuranosyl residue from the sugar donor beta-D-arabinofuranosyl-1-monophosphoryldecaprenol to the galactan domain of the cell wall, thus priming the galactan for further elaboration by the arabinofuranosyltransferases. As this enzyme is important for cell growth and is found in some important pathogens, such as Mycobacterium tuberculosis, it represents a potential target for the devlopment of new antibacterial drugs. This entry represents the C-terminal domain of AftA.; GO: 0016757 transferase activity, transferring glycosyl groups, 0044038 cell wall macromolecule biosynthetic process, 0005886 plasma membrane, 0016021 integral to membrane
Probab=39.88 E-value=21 Score=29.52 Aligned_cols=33 Identities=30% Similarity=0.511 Sum_probs=28.2
Q ss_pred cCCCCch----hhhHhhhcCCHHHHHHHHhhcCCCchH
Q psy12607 91 HPLGSFE----QMEAIHVAATPAELYNAVLVDTPLAPF 124 (175)
Q Consensus 91 hPLG~F~----~l~al~~a~~~~el~~~vL~dTpl~~y 124 (175)
.|||.|+ +|++-+.+++.+|+..+ |..+|..+.
T Consensus 80 NPLaeF~~R~~~Ie~Ws~~~~p~el~~a-ld~~pWr~P 116 (178)
T PF12249_consen 80 NPLAEFDERNAEIESWSELTDPDELLAA-LDSSPWRAP 116 (178)
T ss_pred CchhhHHHHHHHHHHHhccCCHHHHHHH-HHhCCCCCC
Confidence 7999999 57777889999999977 999997653
No 21
>TIGR00581 moaC molybdenum cofactor biosynthesis protein MoaC. MoaC catalyzes an early step in molybdenum cofactor biosynthesis in E. coli. The Arabidopsis homolog Cnx3 complements MoaC deficiency in E. coli (MUID:95197640). Eukarotic members of this family branch within the bacterial branch, with the archaeal members as an apparent outgroup. This protein is absent in a number of the pathogens with smaller genomes, including Mycoplasmas, Chlamydias, and spirochetes, but is found in most other complete genomes to date. The homolog form Synechocystis sp. is fused to a MobA-homologous region and is an outlier to all other bacterial forms by both neighbor-joining and UPGMA analyses. Members of this family are well-conserved. The seed for this model excludes both archaeal sequences and the most divergent bacterial sequences, but still finds all candidate MoaC sequences easily between trusted and noise cutoffs. We suggest that sequences branching outside the set that contains all seed members
Probab=38.98 E-value=13 Score=29.78 Aligned_cols=22 Identities=41% Similarity=0.842 Sum_probs=17.8
Q ss_pred HHHHhcCCCchhhhhhccCCCC
Q psy12607 74 ITGTLHQRPISELIPKCHPLGS 95 (175)
Q Consensus 74 i~g~~~~~~~~ell~~chPLG~ 95 (175)
|.|...-....++++.|||+..
T Consensus 57 iAgi~aaK~T~~lIPlCHpi~l 78 (147)
T TIGR00581 57 IAGIMAAKRTGDLIPLCHPLPL 78 (147)
T ss_pred HHHHHHHHhhhhhcCCCCCccc
Confidence 5666666778899999999874
No 22
>PRK12343 putative molybdenum cofactor biosynthesis protein MoaC; Reviewed
Probab=37.77 E-value=14 Score=29.85 Aligned_cols=21 Identities=43% Similarity=0.910 Sum_probs=17.1
Q ss_pred HHHHhcCCCchhhhhhccCCC
Q psy12607 74 ITGTLHQRPISELIPKCHPLG 94 (175)
Q Consensus 74 i~g~~~~~~~~ell~~chPLG 94 (175)
|.|...-....++++.||||.
T Consensus 54 iAgi~aAK~T~~LIPlCHPl~ 74 (151)
T PRK12343 54 VAGILAVKKTPELIPMCHPIP 74 (151)
T ss_pred HHHHHHHHhhhhhccCCCCcc
Confidence 566666677889999999987
No 23
>cd01419 MoaC_A MoaC family, archaeal. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine derivative to the precursor Z by inserting the carbon-8 of the purine between the 2' and 3' ribose carbon atoms, which is the first of three phases of Moco biosynthesis.
Probab=37.53 E-value=13 Score=29.71 Aligned_cols=21 Identities=48% Similarity=0.925 Sum_probs=16.3
Q ss_pred HHHHhcCCCchhhhhhccCCC
Q psy12607 74 ITGTLHQRPISELIPKCHPLG 94 (175)
Q Consensus 74 i~g~~~~~~~~ell~~chPLG 94 (175)
|.|...-....++++.||||.
T Consensus 46 iAgI~aaK~T~~LIPlCHpl~ 66 (141)
T cd01419 46 IAGILAVKKTPELIPMCHPIP 66 (141)
T ss_pred HHHHHHHHhhhhhccCCCCcc
Confidence 455555567789999999986
No 24
>PRK09427 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional
Probab=37.03 E-value=9.8 Score=35.46 Aligned_cols=53 Identities=28% Similarity=0.413 Sum_probs=46.2
Q ss_pred HHHhhhhhHH-------HHHHHHHHHhcCCCchhhhhhccCCCCchhhhHhhhcCCHHHHHHHH
Q psy12607 59 DFITYSYMID-------NIILLITGTLHQRPISELIPKCHPLGSFEQMEAIHVAATPAELYNAV 115 (175)
Q Consensus 59 d~~~~~~mId-------Nv~~Li~g~~~~~~~~ell~~chPLG~F~~l~al~~a~~~~el~~~v 115 (175)
||+..+|+|+ ..++||.+.+......++++.++-||+ .+|.+..|.+|+-+++
T Consensus 117 DFiid~~QI~ea~~~GADavLLI~~~L~~~~l~~l~~~a~~lGl----~~lvEvh~~~El~~al 176 (454)
T PRK09427 117 DFIIDPYQIYLARYYGADAILLMLSVLDDEQYRQLAAVAHSLNM----GVLTEVSNEEELERAI 176 (454)
T ss_pred cccCCHHHHHHHHHcCCCchhHHHHhCCHHHHHHHHHHHHHcCC----cEEEEECCHHHHHHHH
Confidence 7788999998 568899999998899999999998884 6788899999999873
No 25
>PLN02375 molybderin biosynthesis protein CNX3
Probab=34.70 E-value=19 Score=31.48 Aligned_cols=22 Identities=36% Similarity=0.631 Sum_probs=17.7
Q ss_pred HHHHhcCCCchhhhhhccCCCC
Q psy12607 74 ITGTLHQRPISELIPKCHPLGS 95 (175)
Q Consensus 74 i~g~~~~~~~~ell~~chPLG~ 95 (175)
|.|...-....+|++.||||..
T Consensus 172 IAGImAAKkTseLIPLCHPLpL 193 (270)
T PLN02375 172 IAGINGAKQTSSLIPLCHNIAL 193 (270)
T ss_pred HHHHHHhhccccccccCCCccc
Confidence 5666666778899999999873
No 26
>PRK09364 moaC molybdenum cofactor biosynthesis protein MoaC; Provisional
Probab=33.07 E-value=19 Score=29.28 Aligned_cols=21 Identities=48% Similarity=0.914 Sum_probs=17.2
Q ss_pred HHHHhcCCCchhhhhhccCCC
Q psy12607 74 ITGTLHQRPISELIPKCHPLG 94 (175)
Q Consensus 74 i~g~~~~~~~~ell~~chPLG 94 (175)
|.|...-....++++.|||+.
T Consensus 60 iAgi~aaK~T~~LIPlCHpi~ 80 (159)
T PRK09364 60 IAGIMAAKRTSDLIPLCHPLM 80 (159)
T ss_pred HHHHHHHHhhhhhcccCCCCc
Confidence 566666677889999999976
No 27
>COG4359 Uncharacterized conserved protein [Function unknown]
Probab=31.51 E-value=81 Score=26.76 Aligned_cols=65 Identities=22% Similarity=0.310 Sum_probs=44.1
Q ss_pred chHHHHHHHhhhhhHHHHHHHHHHHhcCCC-chhhhhhccCCC-CchhhhHhhhcCCHHHHHHHHhhcCCCchHhhhh
Q psy12607 53 PLSTFLDFITYSYMIDNIILLITGTLHQRP-ISELIPKCHPLG-SFEQMEAIHVAATPAELYNAVLVDTPLAPFFVDC 128 (175)
Q Consensus 53 ~l~~fld~~~~~~mIdNv~~Li~g~~~~~~-~~ell~~chPLG-~F~~l~al~~a~~~~el~~~vL~dTpl~~yf~~~ 128 (175)
.+..+-+|++..|--+|++.|-.|.+.+.= -.+- +| +|.. +-++.+|+...+|.|--+-|+|.++
T Consensus 15 Tl~Ds~~~itdtf~~~e~k~l~~~vls~tiS~rd~------~g~mf~~-----i~~s~~Eile~llk~i~Idp~fKef 81 (220)
T COG4359 15 TLNDSNDYITDTFGPGEWKALKDGVLSKTISFRDG------FGRMFGS-----IHSSLEEILEFLLKDIKIDPGFKEF 81 (220)
T ss_pred EecchhHHHHhccCchHHHHHHHHHhhCceeHHHH------HHHHHHh-----cCCCHHHHHHHHHhhcccCccHHHH
Confidence 356778888888888888888888875432 2222 23 3332 3457788888888888887877543
No 28
>PF08696 Dna2: DNA replication factor Dna2; InterPro: IPR014808 Dna2 is a DNA replication factor with single-stranded DNA-dependent ATPase, ATP-dependent nuclease, (5'-flap endonuclease) and helicase activities. It is required for Okazaki fragment processing and is involved in DNA repair pathways []. ; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication
Probab=30.20 E-value=82 Score=26.02 Aligned_cols=56 Identities=25% Similarity=0.448 Sum_probs=33.1
Q ss_pred HHhhcCCCchHhhhhccccccccccHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHhh
Q psy12607 114 AVLVDTPLAPFFVDCISEQDLDEMNIEIIRNTLYKAYLEAFYDFCKKLGGTTADTMCEIL 173 (175)
Q Consensus 114 ~vL~dTpl~~yf~~~l~~~~l~e~nieiir~~L~K~yLE~fy~f~~~lgg~t~~vM~~iL 173 (175)
..|.||=+-..||+|+...+++.-.++.+=..+-+.|++++| .+|-+.++++.+|.
T Consensus 90 ~ml~GtIvHelfQ~~l~~~~~~~~~l~~~~~~~l~~~~~~ly----~~~~~~~~~~~~l~ 145 (209)
T PF08696_consen 90 PMLIGTIVHELFQKALRTNDFDLEFLEELADRILEKYLEELY----ALGETEDEAREELE 145 (209)
T ss_pred hheeeeeHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHHHH----hcCCCHHHHHHHHH
Confidence 446777777888888866556553333333333336777776 33445666666554
No 29
>KOG4427|consensus
Probab=30.17 E-value=26 Score=35.39 Aligned_cols=62 Identities=29% Similarity=0.574 Sum_probs=40.7
Q ss_pred HHHHHHhhcCCCchHhhhhc----c---ccccccccHHHHHHHHH-HHHHHHHHHHHHhcCCchHHHHHHh
Q psy12607 110 ELYNAVLVDTPLAPFFVDCI----S---EQDLDEMNIEIIRNTLY-KAYLEAFYDFCKKLGGTTADTMCEI 172 (175)
Q Consensus 110 el~~~vL~dTpl~~yf~~~l----~---~~~l~e~nieiir~~L~-K~yLE~fy~f~~~lgg~t~~vM~~i 172 (175)
-+|..|++|-|+|++|-..+ + -.+|..+|.|..||.-+ |.|=.|.-+.|-+. ..+.++|+.|
T Consensus 816 AvYEGIvvDv~fa~vflsqlLG~~~~s~~DELs~LDpElYrnLtfvKhYdgd~~dL~Ltf-SvdedfmGki 885 (1096)
T KOG4427|consen 816 AVYEGIVVDVPFASVFLSQLLGRHSLSFIDELSSLDPELYRNLTFVKHYDGDLKDLCLTF-SVDEDFMGKI 885 (1096)
T ss_pred HHhcceEEecccHHHHHHHHhcccchhhhhhccccCHHHHhhhhHHHhhcccHhhheeee-Eechhhccce
Confidence 47899999999999986432 1 11266689999998765 44444555555443 2355677755
No 30
>PRK14500 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MoaC/MobA; Provisional
Probab=27.98 E-value=27 Score=31.30 Aligned_cols=21 Identities=43% Similarity=0.817 Sum_probs=17.8
Q ss_pred HHHHhcCCCchhhhhhccCCC
Q psy12607 74 ITGTLHQRPISELIPKCHPLG 94 (175)
Q Consensus 74 i~g~~~~~~~~ell~~chPLG 94 (175)
|.|...-+...++++.||||.
T Consensus 60 ~agi~a~k~t~~liplch~~~ 80 (346)
T PRK14500 60 IAGTMAVKRTADLIPFCHTLP 80 (346)
T ss_pred HHHHHHHhhhhhhccccCccc
Confidence 677777778889999999976
No 31
>PF09888 DUF2115: Uncharacterized protein conserved in archaea (DUF2115); InterPro: IPR019215 This entry represents various hypothetical archaeal proteins, has no known function.
Probab=27.95 E-value=3.2e+02 Score=21.95 Aligned_cols=68 Identities=19% Similarity=0.329 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHh--c----------CccchHHHHHHHhhh---h----hHHHHHHHHHHH---hcCCCchh
Q psy12607 28 VSVIDDKLREKLVIEFIHMRN--H----------AVEPLSTFLDFITYS---Y----MIDNIILLITGT---LHQRPISE 85 (175)
Q Consensus 28 ~~~I~~~l~~kL~~ef~~lr~--~----------a~~~l~~fld~~~~~---~----mIdNv~~Li~g~---~~~~~~~e 85 (175)
...+.+.+.+.+...|+.|+. + -++.++.|++.+... + ....+..+|.+= ..++|.
T Consensus 41 r~~~~~~~~~~~~~~~~eIk~~~~~~~~~~~~~~d~~~~~~~~~~i~~~~~~~~~~~~~~~l~~lis~Y~~FI~~~Pl-- 118 (163)
T PF09888_consen 41 REKYIESFFEYFFGTYHEIKNMYRSGSFIEDFEIDEEEFKEFLNMIEDGCSYSDEESEFRKLYYLISPYLIFILKEPL-- 118 (163)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCCCcccccCCHHHHHHHHHHHHHhhccCCcchhHHHHHHHHHHHHHHHhCCCC--
Confidence 456677788888888888888 1 122344555544322 0 133344444432 255555
Q ss_pred hhhhccCCC-CchhhhHh
Q psy12607 86 LIPKCHPLG-SFEQMEAI 102 (175)
Q Consensus 86 ll~~chPLG-~F~~l~al 102 (175)
||.| -||.-..+
T Consensus 119 -----HPvG~~FPGG~~V 131 (163)
T PF09888_consen 119 -----HPVGMPFPGGFKV 131 (163)
T ss_pred -----CCCCCCCCCCeEE
Confidence 9999 88854433
No 32
>PF01967 MoaC: MoaC family; InterPro: IPR002820 The majority of molybdenum-containing enzymes utilise a molybdenum cofactor (MoCF or Moco) consisting of a Mo atom coordinated via a cis-dithiolene moiety to molybdopterin (MPT). MoCF is ubiquitous in nature, and the pathway for MoCF biosynthesis is conserved in all three domains of life. MoCF-containing enzymes function as oxidoreductases in carbon, nitrogen, and sulphur metabolism [, ]. In Escherichia coli, biosynthesis of MoCF is a three stage process. It begins with the MoaA and MoaC conversion of GTP to the meta-stable pterin intermediate precursor Z. The second stage involves MPT synthase (MoaD and MoaE), which converts precursor Z to MPT; MoeB is involved in the recycling of MPT synthase. The final step in MoCF synthesis is the attachment of mononuclear Mo to MPT, a process that requires MoeA and which is enhanced by MogA in an Mg2 ATP-dependent manner []. MoCF is the active co-factor in eukaryotic and some prokaryotic molybdo-enzymes, but the majority of bacterial enzymes requiring MoCF, need a modification of MTP for it to be active; MobA is involved in the attachment of a nucleotide monophosphate to MPT resulting in the MGD co-factor, the active co-factor for most prokaryotic molybdo-enzymes. Bacterial two-hybrid studies have revealed the close interactions between MoeA, MogA, and MobA in the synthesis of MoCF []. Moreover the close functional association of MoeA and MogA in the synthesis of MoCF is supported by fact that the known eukaryotic homologues to MoeA and MogA exist as fusion proteins: CNX1 (Q39054 from SWISSPROT) of Arabidopsis thaliana (Mouse-ear cress), mammalian Gephryin (e.g. Q9NQX3 from SWISSPROT) and Drosophila melanogaster (Fruit fly) Cinnamon (P39205 from SWISSPROT) []. This entry contains the molybdenum cofactor biosynthesis protein MoaC.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 2EKN_B 1EKS_A 1EKR_A 3JQM_D 2IIH_A 3JQJ_I 2IDE_K 3JQK_A 2OHD_B 2EEY_A.
Probab=27.60 E-value=13 Score=29.32 Aligned_cols=21 Identities=48% Similarity=0.944 Sum_probs=11.6
Q ss_pred HHHHhcCCCchhhhhhccCCC
Q psy12607 74 ITGTLHQRPISELIPKCHPLG 94 (175)
Q Consensus 74 i~g~~~~~~~~ell~~chPLG 94 (175)
|.|...=.-..+|++.|||+.
T Consensus 46 iAgI~aaKkT~~LIPlCHpi~ 66 (136)
T PF01967_consen 46 IAGIMAAKKTSELIPLCHPIP 66 (136)
T ss_dssp HHHHHHHHHHHHHSTT-----
T ss_pred HHHHHHhhhhhhhcccccccc
Confidence 455555556789999999997
No 33
>PRK03604 moaC bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional
Probab=26.77 E-value=27 Score=31.04 Aligned_cols=21 Identities=52% Similarity=0.888 Sum_probs=17.1
Q ss_pred HHHHhcCCCchhhhhhccCCC
Q psy12607 74 ITGTLHQRPISELIPKCHPLG 94 (175)
Q Consensus 74 i~g~~~~~~~~ell~~chPLG 94 (175)
|.|...-....++++.|||+.
T Consensus 56 ~agi~aaK~t~~liPlchp~~ 76 (312)
T PRK03604 56 IAGIQAAKRTSELIPLCHPLP 76 (312)
T ss_pred HHHHHHHHhcccccccCCCCC
Confidence 566666677889999999987
No 34
>PRK14082 hypothetical protein; Provisional
Probab=26.05 E-value=1.2e+02 Score=21.17 Aligned_cols=44 Identities=23% Similarity=0.400 Sum_probs=28.0
Q ss_pred hhhhcCCCCchhhhhCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCccchHHHHHHHh
Q psy12607 6 LKLHLQGTDYGSFLANEPSPLAVSVIDDKLREKLVIEFIHMRNHAVEPLSTFLDFIT 62 (175)
Q Consensus 6 lk~~L~~TDYg~~L~~e~~~~~~~~I~~~l~~kL~~ef~~lr~~a~~~l~~fld~~~ 62 (175)
+|-.|+.|+|.+ .+.+++-++.|+.+.-.-+ .-...-.|++|++
T Consensus 22 IkKsL~~T~yqe----------REDLeQElk~Ki~eK~~~~---~~~e~PGF~efi~ 65 (65)
T PRK14082 22 IKKKLSNTSYQE----------REDLEQELKIKIIEKADML---LCQEVPGFWEFIT 65 (65)
T ss_pred HHHHHhcCChhh----------HHHHHHHHHHHHHHHHHHh---hcccCCcHHHhhC
Confidence 455677776654 4678888888877664444 3444447888763
No 35
>PF07319 DnaI_N: Primosomal protein DnaI N-terminus; InterPro: IPR009928 This entry represents the N terminus (approximately 120 residues) of bacterial primosomal DnaI proteins, although one family member appears to be of viral origin. DnaI is one of the components of the Bacillus subtilis replication restart primosome, and is required for the DnaB75-dependent loading of the DnaC helicase [].; PDB: 2K7R_A.
Probab=25.81 E-value=49 Score=23.93 Aligned_cols=48 Identities=21% Similarity=0.394 Sum_probs=30.9
Q ss_pred cCCHHHHHHHHhhcCCCchHhhhhccccccccccHHHHHHHHHHHHHHHHHHHHHhcC
Q psy12607 105 AATPAELYNAVLVDTPLAPFFVDCISEQDLDEMNIEIIRNTLYKAYLEAFYDFCKKLG 162 (175)
Q Consensus 105 a~~~~el~~~vL~dTpl~~yf~~~l~~~~l~e~nieiir~~L~K~yLE~fy~f~~~lg 162 (175)
...++++.+.||.|-.+..|+++.- .+++=+.|+..+ ..||.|+...+
T Consensus 18 ~~~~~~l~~~vl~dp~V~~Fl~~h~-----~eLt~~~i~rsl-----~kLyEy~~e~~ 65 (94)
T PF07319_consen 18 EERYEQLKQEVLSDPEVQAFLQEHQ-----PELTQEMIERSL-----SKLYEYVSERK 65 (94)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHST-----TT--HHHHHHTH-----HHHHHHHHS-S
T ss_pred HHHHHHHHHHHHcCHHHHHHHHHhH-----HhcCHHHHHHHH-----HHHHHHHHHHH
Confidence 4577889999999988887776653 336667777777 45666765543
No 36
>PF01465 GRIP: GRIP domain; InterPro: IPR000237 The GRIP (golgin-97, RanBP2alpha,Imh1p and p230/golgin-245) domain [, , ] is found in many large coiled-coil proteins. It has been shown to be sufficient for targeting to the Golgi []. The GRIP domain contains a completely conserved tyrosine residue.; GO: 0005515 protein binding, 0000042 protein targeting to Golgi; PDB: 1R4A_H 1UPT_B.
Probab=25.21 E-value=1e+02 Score=19.59 Aligned_cols=30 Identities=17% Similarity=0.428 Sum_probs=17.8
Q ss_pred cccHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHhh
Q psy12607 136 EMNIEIIRNTLYKAYLEAFYDFCKKLGGTTADTMCEIL 173 (175)
Q Consensus 136 e~nieiir~~L~K~yLE~fy~f~~~lgg~t~~vM~~iL 173 (175)
+.|+|.+||.+.| |..+.++..++-|-+.+
T Consensus 2 ~~~~eYLKNvl~~--------fl~~~~~~~~~~llpvi 31 (46)
T PF01465_consen 2 GINLEYLKNVLLQ--------FLESREPSEREQLLPVI 31 (46)
T ss_dssp -HHHHHHHHHHHH--------HHTTSS---HHHHHHHH
T ss_pred chhHHHHHHHHHH--------HhcCCchhhHHHHHHHH
Confidence 4689999999966 44555555666555544
No 37
>cd05517 Bromo_polybromo_II Bromodomain, polybromo repeat II. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=25.12 E-value=60 Score=23.88 Aligned_cols=53 Identities=19% Similarity=0.327 Sum_probs=33.1
Q ss_pred HHHHHHHHhh-----cCCCchHhhhhccccc-------ccc-ccHHHHHHHHHHHHHHHHHHHHHh
Q psy12607 108 PAELYNAVLV-----DTPLAPFFVDCISEQD-------LDE-MNIEIIRNTLYKAYLEAFYDFCKK 160 (175)
Q Consensus 108 ~~el~~~vL~-----dTpl~~yf~~~l~~~~-------l~e-~nieiir~~L~K~yLE~fy~f~~~ 160 (175)
.++|+..|+. |-|++.+|.+.-+... .+. +++..|+..|...++..+..|+..
T Consensus 5 ~~~l~~~i~~~~d~~gr~~~~~F~~lp~~~~~pdYy~vI~~PmdL~tI~~kl~~~~Y~s~~~f~~D 70 (103)
T cd05517 5 LEQLLEAVMTATDPSGRLISELFQKLPSKVLYPDYYAVIKEPIDLKTIAQRIQSGYYKSIEDMEKD 70 (103)
T ss_pred HHHHHHHHHHhhCcCCCChhHHHhcCCCCCCCCCHHHHcCCCcCHHHHHHHHCcCCCCCHHHHHHH
Confidence 4556666553 5677777776433222 333 789999999987776666555543
No 38
>PF14711 Nitr_red_bet_C: Respiratory nitrate reductase beta C-terminal; PDB: 3IR7_B 1Y5N_B 1R27_D 3EGW_B 1Y5I_B 1Q16_B 1Y4Z_B 1Y5L_B 3IR6_B 3IR5_B ....
Probab=24.80 E-value=1.7e+02 Score=21.12 Aligned_cols=39 Identities=18% Similarity=0.285 Sum_probs=29.0
Q ss_pred hHhhhhccccccccccHHHHHHHHHHHHHHHHHHHHHhcCCchH
Q psy12607 123 PFFVDCISEQDLDEMNIEIIRNTLYKAYLEAFYDFCKKLGGTTA 166 (175)
Q Consensus 123 ~yf~~~l~~~~l~e~nieiir~~L~K~yLE~fy~f~~~lgg~t~ 166 (175)
.|+.+.|++ .|.++++..|.|.--=.-|.=..++||...
T Consensus 33 ~YLAnLftA-----Gd~~~V~~~L~rL~AmR~ymR~~~v~~~~~ 71 (83)
T PF14711_consen 33 EYLANLFTA-----GDEEPVRRALKRLLAMRSYMRAKNVGGEPD 71 (83)
T ss_dssp HHHHHHHST-----T-HHHHHHHHHHHHHHHHHHHHHHTT-S--
T ss_pred HHHHHHHcc-----CChHHHHHHHHHHHHHHHHHHHHHhCCCCc
Confidence 577777766 999999999999887777777788888665
No 39
>PRK13802 bifunctional indole-3-glycerol phosphate synthase/tryptophan synthase subunit beta; Provisional
Probab=24.45 E-value=15 Score=36.08 Aligned_cols=57 Identities=28% Similarity=0.454 Sum_probs=47.7
Q ss_pred HHHhhhhhHH-------HHHHHHHHHhcCCCchhhhhhccCCCCchhhhHhhhcCCHHHHHHHHhhcC
Q psy12607 59 DFITYSYMID-------NIILLITGTLHQRPISELIPKCHPLGSFEQMEAIHVAATPAELYNAVLVDT 119 (175)
Q Consensus 59 d~~~~~~mId-------Nv~~Li~g~~~~~~~~ell~~chPLG~F~~l~al~~a~~~~el~~~vL~dT 119 (175)
|||..+|+|. ..++||.+.+.....+++++.|+-||+ .+|.+..|.+|+-+++-.+.
T Consensus 118 DFIid~~QI~ea~~~GADavLLI~~~L~~~~l~~l~~~a~~lGm----e~LvEvh~~~el~~a~~~ga 181 (695)
T PRK13802 118 DFIVTDYQIWEARAHGADLVLLIVAALDDAQLKHLLDLAHELGM----TVLVETHTREEIERAIAAGA 181 (695)
T ss_pred cccCCHHHHHHHHHcCCCEeehhHhhcCHHHHHHHHHHHHHcCC----eEEEEeCCHHHHHHHHhCCC
Confidence 7888999998 457899999988899999999998884 67888999999998754343
No 40
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=23.96 E-value=1.4e+02 Score=30.98 Aligned_cols=98 Identities=15% Similarity=0.108 Sum_probs=80.0
Q ss_pred CHHHHHHHHHHH------HHHHHHHHHhcCccchHHHHHHHhhhhhHHHHHHHHHHHhcCCCchhhhhhccC--------
Q psy12607 27 AVSVIDDKLREK------LVIEFIHMRNHAVEPLSTFLDFITYSYMIDNIILLITGTLHQRPISELIPKCHP-------- 92 (175)
Q Consensus 27 ~~~~I~~~l~~k------L~~ef~~lr~~a~~~l~~fld~~~~~~mIdNv~~Li~g~~~~~~~~ell~~chP-------- 92 (175)
....|+++|++. +.+.=.+...+....+-..|.++..+.+=-.+..+++..+-|.+.+++...-++
T Consensus 566 ea~~i~~aL~~~~~ipv~~~~r~~~~~~~e~~dll~lL~~il~P~~d~~L~a~L~Spifgl~~d~L~~l~~~~~~~~~~~ 645 (1139)
T COG1074 566 EAAAIERALKKAGIIPVYLSNRSSLFETLEAQDLLALLRAILNPEDDLPLAALLRSPLFGLTEDDLAALAQDEAEWEFLW 645 (1139)
T ss_pred hHHHHHHHHHhcCCCCEEecCcccccccHHHHHHHHHHHHHcCccccHHHHHHHhCcccCCCHHHHHHHhcCcccHHHHH
Confidence 356677777766 223335566667778888999999988889999999999999999999888766
Q ss_pred ------------CCCchhhhHhhhcCCHHHHHHHHhhcCCCchH
Q psy12607 93 ------------LGSFEQMEAIHVAATPAELYNAVLVDTPLAPF 124 (175)
Q Consensus 93 ------------LG~F~~l~al~~a~~~~el~~~vL~dTpl~~y 124 (175)
.|.++.+..++--..+.+++-.++-+|+++.+
T Consensus 646 ~~~~~~~~~~~~~~~L~~~~~l~~~~~~~~~i~~~l~~~~~~e~ 689 (1139)
T COG1074 646 ENLRQLADIWRFRGVLAMWRALAKITPLHDLIAERLLSTNLGER 689 (1139)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHhhccHHHHHHHHHhccccchh
Confidence 67777888888888999999999999999977
No 41
>PRK14499 molybdenum cofactor biosynthesis protein MoaC/MOSC-domain-containing protein; Provisional
Probab=22.63 E-value=41 Score=29.86 Aligned_cols=22 Identities=36% Similarity=0.594 Sum_probs=18.0
Q ss_pred HHHHHhcCCCchhhhhhccCCC
Q psy12607 73 LITGTLHQRPISELIPKCHPLG 94 (175)
Q Consensus 73 Li~g~~~~~~~~ell~~chPLG 94 (175)
-|.|...-.-..+|+++||||.
T Consensus 58 ~~agi~aaK~t~~liPlchp~~ 79 (308)
T PRK14499 58 KIAAIMAAKKTSELIPLCHNIF 79 (308)
T ss_pred HHHHHHHhhhcccccccCCCcc
Confidence 3567777778889999999986
No 42
>PF12209 SAC3: Leucine permease transcriptional regulator helical domain; InterPro: IPR024293 This domain is found in fungal proteins, including the nuclear mRNA export protein SAC3. It has been suggested this domain provides a scaffold within the yeast Sac3:Cdc31:Sus1:Thp1 (TREX-2) complex to integrate interactions between protein complexes to facilitate the coupling of transcription and mRNA export during gene expression [].; PDB: 3FWC_N 3FWB_B.
Probab=22.55 E-value=75 Score=22.66 Aligned_cols=50 Identities=14% Similarity=0.291 Sum_probs=35.0
Q ss_pred HHHHHHHHhhcCCCchHhhhhcccccccccc---HHHHHHHHHHHHHHHHHHHH
Q psy12607 108 PAELYNAVLVDTPLAPFFVDCISEQDLDEMN---IEIIRNTLYKAYLEAFYDFC 158 (175)
Q Consensus 108 ~~el~~~vL~dTpl~~yf~~~l~~~~l~e~n---ieiir~~L~K~yLE~fy~f~ 158 (175)
+.++.+. .+++.++.+.++++.++.-..-- |+.+...||.+++-.-.-+|
T Consensus 6 ~~~ii~~-vV~~el~~~l~~~l~~~n~~~~R~~iI~sLs~ELy~AFi~E~~Y~~ 58 (79)
T PF12209_consen 6 YSQIIQD-VVHSELSKILKNLLRRQNARKERKQIIDSLSEELYDAFIHEQLYQI 58 (79)
T ss_dssp HHHHHHH-HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556655 57889999999998764433322 88899999998886655444
No 43
>PHA00202 DNA replication initiation protein
Probab=22.42 E-value=1.9e+02 Score=26.81 Aligned_cols=85 Identities=16% Similarity=0.243 Sum_probs=56.6
Q ss_pred chhhhhCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCccchHHHHHHHhhhhhHHHHHHHHHHHhcCCCchhhhhhccCCC
Q psy12607 15 YGSFLANEPSPLAVSVIDDKLREKLVIEFIHMRNHAVEPLSTFLDFITYSYMIDNIILLITGTLHQRPISELIPKCHPLG 94 (175)
Q Consensus 15 Yg~~L~~e~~~~~~~~I~~~l~~kL~~ef~~lr~~a~~~l~~fld~~~~~~mIdNv~~Li~g~~~~~~~~ell~~chPLG 94 (175)
|...+.+.+ |...+.+.|+..-.+......+|+|-.+-+...+++. +++++=|+-.|...-++||--|+
T Consensus 303 ~~~~i~~~~-p~~~~~~kK~~~l~~~~~~~~~rrQ~Gk~ln~l~~~~--~~d~~~~~~~l~~~~~~~~~~~~-------- 371 (388)
T PHA00202 303 FAASIECTP-PVKFSRNKKAQGLEFMARIAWVRRQCGVALAEVIAMT--QGDLGEAFGMLIPHKHRRPDFEL-------- 371 (388)
T ss_pred HHHHhccCC-CccccchhhhhhhhHHHHHHHHHHHHhHHHHHHHHHh--CCCHHHHHHHHhcCCCCCccccc--------
Confidence 344444432 4555668899999999999999999877666666643 77777777766655555554443
Q ss_pred CchhhhHhhhcCCHHHHHHHHhh
Q psy12607 95 SFEQMEAIHVAATPAELYNAVLV 117 (175)
Q Consensus 95 ~F~~l~al~~a~~~~el~~~vL~ 117 (175)
+.+.+++.-|.+.+|+
T Consensus 372 -------~~~p~~y~~l~~~~l~ 387 (388)
T PHA00202 372 -------LGVPDSYGQLKNTILE 387 (388)
T ss_pred -------cCCccHHHHHHHHHhc
Confidence 4456677777666654
No 44
>PF01152 Bac_globin: Bacterial-like globin; InterPro: IPR001486 Globins are haem-containing proteins involved in binding and/or transporting oxygen. They belong to a very large and well studied family that is widely distributed in many organisms []. Globins have evolved from a common ancestor and can be divided into three groups: single-domain globins, and two types of chimeric globins, flavohaemoglobins and globin-coupled sensors. Bacteria have all three types of globins, while archaea lack flavohaemoglobins, and eukaryotes lack globin-coupled sensors []. Several functionally different haemoglobins can coexist in the same species. The major types of globins include: Haemoglobin (Hb): trimer of two alpha and two beta chains, although embryonic and foetal forms can substitute the alpha or beta chain for ones with higher oxygen affinity, such as gamma, delta, epsilon or zeta chains. Hb transports oxygen from lungs to other tissues in vertebrates []. Hb proteins are also present in unicellular organisms where they act as enzymes or sensors []. Myoglobin (Mb): monomeric protein responsible for oxygen storage in vertebrate muscle []. Neuroglobin: a myoglobin-like haemprotein expressed in vertebrate brain and retina, where it is involved in neuroprotection from damage due to hypoxia or ischemia []. Neuroglobin belongs to a branch of the globin family that diverged early in evolution. Cytoglobin: an oxygen sensor expressed in multiple tissues. Related to neuroglobin []. Erythrocruorin: highly cooperative extracellular respiratory proteins found in annelids and arthropods that are assembled from as many as 180 subunit into hexagonal bilayers []. Leghaemoglobin (legHb or symbiotic Hb): occurs in the root nodules of leguminous plants, where it facilitates the diffusion of oxygen to symbiotic bacteriods in order to promote nitrogen fixation. Non-symbiotic haemoglobin (NsHb): occurs in non-leguminous plants, and can be over-expressed in stressed plants []. Flavohaemoglobins (FHb): chimeric, with an N-terminal globin domain and a C-terminal ferredoxin reductase-like NAD/FAD-binding domain. FHb provides protection against nitric oxide via its C-terminal domain, which transfers electrons to haem in the globin []. Globin-coupled sensors: chimeric, with an N-terminal myoglobin-like domain and a C-terminal domain that resembles the cytoplasmic signalling domain of bacterial chemoreceptors. They bind oxygen, and act to initiate an aerotactic response or regulate gene expression [, ]. Protoglobin: a single domain globin found in archaea that is related to the N-terminal domain of globin-coupled sensors []. Truncated 2/2 globin: lack the first helix, giving them a 2-over-2 instead of the canonical 3-over-3 alpha-helical sandwich fold. Can be divided into three main groups (I, II and II) based on structural features []. This entry represents a group of haemoglobin-like proteins found in eubacteria, cyanobacteria, protozoa, algae and plants, but not in animals or yeast. These proteins have a truncated 2-over-2 rather than the canonical 3-over-3 alpha-helical sandwich fold []. This entry includes: HbN (or GlbN): a truncated haemoglobin-like protein that binds oxygen cooperatively with a very high affinity and a slow dissociation rate, which may exclude it from oxygen transport. It appears to be involved in bacterial nitric oxide detoxification and in nitrosative stress []. Cyanoglobin (or GlbN): a truncated haemoprotein found in cyanobacteria that has high oxygen affinity, and which appears to serve as part of a terminal oxidase, rather than as a respiratory pigment []. HbO (or GlbO): a truncated haemoglobin-like protein with a lower oxygen affinity than HbN. HbO associates with the bacterial cell membrane, where it significantly increases oxygen uptake over membranes lacking this protein. HbO appears to interact with a terminal oxidase, and could participate in an oxygen/electron-transfer process that facilitates oxygen transfer during aerobic metabolism []. Glb3: a nuclear-encoded truncated haemoglobin from plants that appears more closely related to HbO than HbN. Glb3 from Arabidopsis thaliana (Mouse-ear cress) exhibits an unusual concentration-independent binding of oxygen and carbon dioxide []. ; GO: 0019825 oxygen binding, 0015671 oxygen transport; PDB: 2BKM_B 1UVY_A 1DLW_A 2XYK_B 2IG3_A 2GKM_B 1S61_A 1S56_B 1RTE_B 2GLN_A ....
Probab=22.32 E-value=1.9e+02 Score=20.93 Aligned_cols=45 Identities=29% Similarity=0.538 Sum_probs=29.0
Q ss_pred CHHHHHHHHhhcCCCchHhhhhccccccccccHHHHHHHHHHHHHHHHHHHHHhcCCchHH
Q psy12607 107 TPAELYNAVLVDTPLAPFFVDCISEQDLDEMNIEIIRNTLYKAYLEAFYDFCKKLGGTTAD 167 (175)
Q Consensus 107 ~~~el~~~vL~dTpl~~yf~~~l~~~~l~e~nieiir~~L~K~yLE~fy~f~~~lgg~t~~ 167 (175)
=++..|+-|+.|--+++||.. .+++..+..+.. | +|.-+||+..-
T Consensus 15 lv~~fY~rv~~d~~l~~~F~~---------~d~~~~~~~~~~-----f--l~~~~GGp~~Y 59 (120)
T PF01152_consen 15 LVDAFYDRVLADPRLKPFFEG---------IDLEKHKEKQAE-----F--LSQLLGGPPLY 59 (120)
T ss_dssp HHHHHHHHHHT-TTTGGGGTT---------SCHHHHHHHHHH-----H--HHHHTTSSSHH
T ss_pred HHHHHHHHHHcCHHHHhhcCC---------CCHHHHHHHHHH-----H--HHHHhCCCCCC
Confidence 367889998888889998863 455555555432 2 24558888754
No 45
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=21.89 E-value=2.3e+02 Score=18.08 Aligned_cols=60 Identities=10% Similarity=0.101 Sum_probs=31.7
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHhcCccchHHHHHHHhhhhhHHHHHHHHHHHhcCCCchhhhhhcc
Q psy12607 26 LAVSVIDDKLREKLVIEFIHMRNHAVEPLSTFLDFITYSYMIDNIILLITGTLHQRPISELIPKCH 91 (175)
Q Consensus 26 ~~~~~I~~~l~~kL~~ef~~lr~~a~~~l~~fld~~~~~~mIdNv~~Li~g~~~~~~~~ell~~ch 91 (175)
++...|.+.+.-....-.+.++.....+.+.++. ...|+.++..|... +.++.++-..|.
T Consensus 2 ~~~~~la~~~~~s~~~l~~~f~~~~~~s~~~~~~----~~r~~~a~~~l~~~--~~~~~~ia~~~g 61 (84)
T smart00342 2 LTLEDLAEALGMSPRHLQRLFKKETGTTPKQYLR----DRRLERARRLLRDT--DLSVTEIALRVG 61 (84)
T ss_pred CCHHHHHHHhCCCHHHHHHHHHHHhCcCHHHHHH----HHHHHHHHHHHHcC--CCCHHHHHHHhC
Confidence 3555566665444333334444444444555555 34577777666543 566666654433
No 46
>PF03338 Pox_J1: Poxvirus J1 protein; InterPro: IPR005006 This is a family of proteins expressed by members of the Poxviridae.
Probab=21.57 E-value=1.7e+02 Score=23.46 Aligned_cols=44 Identities=25% Similarity=0.377 Sum_probs=28.9
Q ss_pred chHHHHHHHhhhhhHHHHHHHHHHHhcCCCchhhhhhccCCCCch-----hhhHhhhcCCHHHHHHH
Q psy12607 53 PLSTFLDFITYSYMIDNIILLITGTLHQRPISELIPKCHPLGSFE-----QMEAIHVAATPAELYNA 114 (175)
Q Consensus 53 ~l~~fld~~~~~~mIdNv~~Li~g~~~~~~~~ell~~chPLG~F~-----~l~al~~a~~~~el~~~ 114 (175)
.+.++|||+. .+||+|| +|+.-+|... +.+++..-+++.++.+.
T Consensus 36 ~i~~~LdFLL--------~llirsK----------dKLEaiG~~YeplSe~~ral~~f~d~~~lr~l 84 (145)
T PF03338_consen 36 TIKNYLDFLL--------ALLIRSK----------DKLEAIGYCYEPLSEEFRALFEFRDMKELRKL 84 (145)
T ss_pred HHHHHHHHHH--------HHHHhhH----------HHHHHccccccchhHHHHHHhhccccHHHHHH
Confidence 3467777775 6888988 3455667332 56777777777776643
No 47
>cd05520 Bromo_polybromo_III Bromodomain, polybromo repeat III. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=20.83 E-value=81 Score=23.16 Aligned_cols=43 Identities=19% Similarity=0.279 Sum_probs=28.8
Q ss_pred cCCCchHhhhhccccc-------ccc-ccHHHHHHHHHHHHHHHHHHHHHh
Q psy12607 118 DTPLAPFFVDCISEQD-------LDE-MNIEIIRNTLYKAYLEAFYDFCKK 160 (175)
Q Consensus 118 dTpl~~yf~~~l~~~~-------l~e-~nieiir~~L~K~yLE~fy~f~~~ 160 (175)
|.|++.+|.+.-+... .+. +++..|+..|.+..+.++-.|+..
T Consensus 20 g~~~s~pF~~~p~~~~~PdYy~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~D 70 (103)
T cd05520 20 GQLLAEPFLKLPSKRKYPDYYQEIKNPISLQQIRTKLKNGEYETLEELEAD 70 (103)
T ss_pred CCCccHhhhcCCCcccCCCHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHH
Confidence 4477777766644332 334 899999999988776666666544
No 48
>COG5494 Predicted thioredoxin/glutaredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=20.67 E-value=2e+02 Score=24.99 Aligned_cols=54 Identities=22% Similarity=0.252 Sum_probs=36.9
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHh-cCccchHHHHHHHhhhhhHHHHHHHHHHHhcCCCchh
Q psy12607 25 PLAVSVIDDKLREKLVIEFIHMRN-HAVEPLSTFLDFITYSYMIDNIILLITGTLHQRPISE 85 (175)
Q Consensus 25 ~~~~~~I~~~l~~kL~~ef~~lr~-~a~~~l~~fld~~~~~~mIdNv~~Li~g~~~~~~~~e 85 (175)
.+++....+++..-.++.|....- .-...+..||| ..-+...++|+++|.++.+
T Consensus 91 ~iDv~~~Ve~~m~gI~~S~aa~~~~~l~~sl~p~Ld-------~~~~s~avr~klsgl~~r~ 145 (265)
T COG5494 91 QIDVASLVEKLMLGIVDSFAATAWLYLNRSLDPFLD-------QKDFSMAVRGKLSGLDERE 145 (265)
T ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHhcccchhHh-------HHHHHHHHhccccCCCccc
Confidence 466666666666666666654433 33456677777 3456778999999999987
No 49
>PF00218 IGPS: Indole-3-glycerol phosphate synthase; InterPro: IPR013798 Indole-3-glycerol phosphate synthase (4.1.1.48 from EC) (IGPS) catalyses the fourth step in the biosynthesis of tryptophan, the ring closure of 1-(2-carboxy-phenylamino)-1-deoxyribulose into indol-3-glycerol-phosphate. In some bacteria, IGPS is a single chain enzyme. In others, such as Escherichia coli, it is the N-terminal domain of a bifunctional enzyme that also catalyses N-(5'-phosphoribosyl)anthranilate isomerase (5.3.1.24 from EC) (PRAI) activity (see IPR001240 from INTERPRO), the third step of tryptophan biosynthesis. In fungi, IGPS is the central domain of a trifunctional enzyme that contains a PRAI C-terminal domain and a glutamine amidotransferase (2.4.2 from EC) (GATase) N-terminal domain (see IPR000991 from INTERPRO). A structure of the IGPS domain of the bifunctional enzyme from the mesophilic bacterium E. coli (eIGPS) has been compared with the monomeric indole-3-glycerol phosphate synthase from the hyperthermophilic archaeon Sulfolobus solfataricus (sIGPS). Both are single-domain (beta/alpha)8 barrel proteins, with one (eIGPS) or two (sIGPS) additional helices inserted before the first beta strand []. ; GO: 0004425 indole-3-glycerol-phosphate synthase activity; PDB: 1VC4_A 1PII_A 1JCM_P 1I4N_B 1J5T_A 3TSM_B 4FB7_A 3QJA_A 1JUL_A 2C3Z_A ....
Probab=20.37 E-value=3.3 Score=35.67 Aligned_cols=58 Identities=33% Similarity=0.475 Sum_probs=41.6
Q ss_pred HHHHhhhhhHH-------HHHHHHHHHhcCCCchhhhhhccCCCCchhhhHhhhcCCHHHHHHHHhhcC
Q psy12607 58 LDFITYSYMID-------NIILLITGTLHQRPISELIPKCHPLGSFEQMEAIHVAATPAELYNAVLVDT 119 (175)
Q Consensus 58 ld~~~~~~mId-------Nv~~Li~g~~~~~~~~ell~~chPLG~F~~l~al~~a~~~~el~~~vL~dT 119 (175)
=|||..+|+|. ..++||.+.+......++++.||-+| |.+|.+..|.+|+-+++-.+.
T Consensus 115 KDFIid~~QI~eA~~~GADaVLLI~~~L~~~~l~~l~~~a~~lG----le~lVEVh~~~El~~al~~~a 179 (254)
T PF00218_consen 115 KDFIIDPYQIYEARAAGADAVLLIAAILSDDQLEELLELAHSLG----LEALVEVHNEEELERALEAGA 179 (254)
T ss_dssp ES---SHHHHHHHHHTT-SEEEEEGGGSGHHHHHHHHHHHHHTT-----EEEEEESSHHHHHHHHHTT-
T ss_pred ccCCCCHHHHHHHHHcCCCEeehhHHhCCHHHHHHHHHHHHHcC----CCeEEEECCHHHHHHHHHcCC
Confidence 37888888887 34567777777777789999999887 467888999999998853443
No 50
>PF00163 Ribosomal_S4: Ribosomal protein S4/S9 N-terminal domain; InterPro: IPR001912 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein S4 is one of the proteins from the small ribosomal subunit. S4 is known to bind directly to 16S ribosomal RNA. The crystal structure of a bacterial S4 protein revealed a two domain molecule. The first domain is composed of four helices in the known structure. The second domain is an insertion within domain 1 and displays some structural homology with the ETS DNA binding domain []. This entry represents the domain found at the N terminus of small ribosomal subunits S4 and S9. ; GO: 0019843 rRNA binding, 0005622 intracellular; PDB: 3BBN_D 2WWL_D 3OR9_D 3OFA_D 2QBB_D 3OFP_D 4A2I_D 2QB9_D 3OFO_D 2QBF_D ....
Probab=20.31 E-value=1.6e+02 Score=20.91 Aligned_cols=29 Identities=28% Similarity=0.378 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCchHHHHHHhhc
Q psy12607 141 IIRNTLYKAYLEAFYDFCKKLGGTTADTMCEILS 174 (175)
Q Consensus 141 iir~~L~K~yLE~fy~f~~~lgg~t~~vM~~iL~ 174 (175)
+++..|++++.+. ....|.|.+.+-.+|+
T Consensus 66 ~lekql~~~~~~a-----~k~~g~tg~~l~~lLE 94 (94)
T PF00163_consen 66 ILEKQLRRYGKIA-----AKLKGVTGENLLQLLE 94 (94)
T ss_dssp HHHHHHHHHHHHH-----HHSSSHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHH-----HhcCCCHHHHHHHHhC
Confidence 5666676666655 7899999999998885
Done!