Query 034046
Match_columns 105
No_of_seqs 103 out of 150
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 09:10:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034046.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034046hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF09446 VMA21: VMA21-like dom 99.9 1.1E-24 2.4E-29 141.6 8.8 65 2-66 2-66 (66)
2 KOG4783 Uncharacterized conser 99.7 5.4E-18 1.2E-22 119.0 8.2 68 3-70 26-93 (102)
3 TIGR03513 GldL_gliding gliding 78.4 8.2 0.00018 30.3 6.0 56 9-80 6-61 (202)
4 PRK12772 bifunctional flagella 54.2 1.5E+02 0.0032 26.5 9.5 73 4-93 215-287 (609)
5 PF11460 DUF3007: Protein of u 49.8 89 0.0019 22.3 6.2 52 10-67 8-59 (104)
6 PF01277 Oleosin: Oleosin; In 46.6 50 0.0011 23.9 4.6 35 59-96 75-109 (118)
7 PRK01315 putative inner membra 45.2 1.4E+02 0.0031 24.7 7.6 33 55-87 244-277 (329)
8 PF11683 DUF3278: Protein of u 44.6 1.1E+02 0.0024 21.6 8.2 37 49-85 69-106 (129)
9 TIGR02507 MtrF tetrahydrometha 43.4 22 0.00048 23.4 2.1 16 9-24 49-64 (65)
10 PLN02755 complex I subunit 42.8 19 0.00041 24.2 1.8 23 7-29 33-55 (71)
11 PHA02681 ORF089 virion membran 42.4 36 0.00079 23.8 3.2 33 52-88 9-42 (92)
12 PF12301 CD99L2: CD99 antigen 40.2 37 0.0008 25.8 3.2 29 40-68 112-140 (169)
13 TIGR00847 ccoS cytochrome oxid 39.8 68 0.0015 20.0 3.8 26 3-28 2-27 (51)
14 PF02714 DUF221: Domain of unk 39.6 1.5E+02 0.0033 23.0 6.7 51 9-62 111-161 (325)
15 PF13858 DUF4199: Protein of u 38.5 1.4E+02 0.003 20.9 7.5 65 14-87 37-104 (163)
16 PRK13275 mtrF tetrahydromethan 38.3 39 0.00084 22.3 2.7 18 9-26 49-66 (67)
17 PRK10983 putative inner membra 38.1 95 0.0021 25.6 5.6 29 62-90 340-368 (368)
18 PF09472 MtrF: Tetrahydrometha 37.3 29 0.00062 22.7 1.9 16 9-24 49-64 (64)
19 PF01544 CorA: CorA-like Mg2+ 33.8 59 0.0013 24.3 3.5 20 2-23 231-250 (292)
20 TIGR00540 hemY_coli hemY prote 33.7 85 0.0019 25.5 4.6 19 40-58 37-55 (409)
21 PF06027 DUF914: Eukaryotic pr 33.1 1.7E+02 0.0037 24.2 6.3 68 4-76 232-315 (334)
22 PF11511 RhodobacterPufX: Intr 32.4 1.2E+02 0.0025 20.2 4.2 33 45-77 26-62 (67)
23 PF09803 DUF2346: Uncharacteri 28.9 53 0.0012 22.0 2.2 12 16-27 15-26 (80)
24 KOG3787 Glutamate/aspartate an 28.3 2.3E+02 0.005 25.3 6.5 26 3-30 226-251 (507)
25 PF02532 PsbI: Photosystem II 27.1 1.4E+02 0.0029 17.7 3.5 20 4-23 2-21 (36)
26 PF09125 COX2-transmemb: Cytoc 26.9 1E+02 0.0022 18.4 2.9 14 7-20 15-28 (38)
27 KOG4112 Signal peptidase subun 26.7 98 0.0021 22.0 3.3 46 53-103 52-99 (101)
28 KOG1134 Uncharacterized conser 26.6 2.1E+02 0.0046 26.3 6.2 57 8-67 416-472 (728)
29 PF04279 IspA: Intracellular s 26.2 2.4E+02 0.0053 21.0 5.6 40 17-68 7-46 (176)
30 KOG4136 Predicted mitochondria 25.9 52 0.0011 25.9 2.0 18 8-25 127-144 (198)
31 PF07074 TRAP-gamma: Transloco 25.9 3E+02 0.0065 21.2 6.1 43 12-62 25-67 (170)
32 TIGR02761 TraE_TIGR type IV co 25.4 90 0.0019 23.3 3.1 28 42-69 18-45 (181)
33 PF03176 MMPL: MMPL family; I 25.4 2.9E+02 0.0062 21.5 6.1 33 59-91 219-251 (333)
34 COG1784 Predicted membrane pro 25.3 3.6E+02 0.0078 23.4 7.0 53 6-66 304-356 (395)
35 COG0598 CorA Mg2+ and Co2+ tra 25.2 3.2E+02 0.007 21.8 6.5 36 1-38 258-293 (322)
36 PF09900 DUF2127: Predicted me 23.8 93 0.002 22.5 2.9 20 48-67 122-141 (141)
37 KOG1362 Choline transporter-li 22.5 2.5E+02 0.0054 25.3 5.8 64 8-76 479-549 (577)
38 PF11712 Vma12: Endoplasmic re 22.1 3E+02 0.0064 19.5 6.6 49 14-66 88-136 (142)
39 PF01891 CbiM: Cobalt uptake s 21.1 3.6E+02 0.0078 20.1 7.6 51 8-59 105-155 (205)
40 PRK10921 twin-arginine protein 21.1 4.2E+02 0.0092 20.9 7.6 32 4-36 70-101 (258)
41 PF01102 Glycophorin_A: Glycop 20.1 2.1E+02 0.0046 20.6 4.1 32 44-75 69-101 (122)
No 1
>PF09446 VMA21: VMA21-like domain; InterPro: IPR019013 The vacuolar ATPase assembly integral membrane protein VMA21 is required for the assembly of the integral membrane sector (V0 component) of the vacuolar ATPase (V-ATPase) in the endoplasmic reticulum []. This entry represents a putative short domain found in VMA21-like proteins, and which appears to contain two potential transmembrane helices.
Probab=99.92 E-value=1.1e-24 Score=141.65 Aligned_cols=65 Identities=40% Similarity=0.676 Sum_probs=63.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCcCCccchHHHHHHHHHHHHHHHHHHHHHHHh
Q 034046 2 AAVVKKFFIASMFMWMAPLAILYAFNHNLLPGSTNLTPYSATLLSGFLAVISVNIVIAFYIYMAM 66 (105)
Q Consensus 2 ~~Vi~KLl~fSiaM~~lPl~~fF~~~~~lf~g~~~ls~~~~t~ysgi~AVv~vNvVL~~YI~~A~ 66 (105)
++|+.||++||++|+++|+++||++++++|+|.+++++++|++|||++||+++|+||++||++||
T Consensus 2 ~~vi~kLl~fs~~M~~lPl~~ff~~~~~~~~~~~~~~~~~~~~~sgi~Avi~vnvVl~~Yi~~A~ 66 (66)
T PF09446_consen 2 ASVIQKLLFFSVLMFTLPLGTFFGFKYFLFDGFFGLSPSDNTIYSGIAAVIVVNVVLASYIYVAY 66 (66)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCcchhhHHHHHHHHHHHHHHHHHHHHHhC
Confidence 48999999999999999999999999999999999999999999999999999999999999997
No 2
>KOG4783 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.75 E-value=5.4e-18 Score=118.95 Aligned_cols=68 Identities=25% Similarity=0.483 Sum_probs=65.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCcCCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 034046 3 AVVKKFFIASMFMWMAPLAILYAFNHNLLPGSTNLTPYSATLLSGFLAVISVNIVIAFYIYMAMREPS 70 (105)
Q Consensus 3 ~Vi~KLl~fSiaM~~lPl~~fF~~~~~lf~g~~~ls~~~~t~ysgi~AVv~vNvVL~~YI~~A~~Ed~ 70 (105)
+.++.|++||.+|+.+|+++||.++.++|+|+.+++..|..+||+|.||+.||++|++|||.||++.+
T Consensus 26 s~vktlLfy~~lii~vPiatfF~lK~fvleg~lgis~~da~iySaI~aVVavHvalglyiy~A~~~~s 93 (102)
T KOG4783|consen 26 SIVKTLLFYCSLIIGVPIATFFALKFFVLEGYLGISEVDADIYSAICAVVAVHVALGLYIYRAIYAKS 93 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence 56789999999999999999999999999999999999999999999999999999999999999954
No 3
>TIGR03513 GldL_gliding gliding motility-associated protein GldL. This protein family, GldL, is named for the member from Flavobacterium johnsoniae, which is required for a type of rapid gliding motility found in certain members of the Bacteriodetes. However, members are found also in several members of the Bacteriodetes that appear not to be motile
Probab=78.44 E-value=8.2 Score=30.33 Aligned_cols=56 Identities=11% Similarity=0.023 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhcCCCCcCCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHH
Q 034046 9 FIASMFMWMAPLAILYAFNHNLLPGSTNLTPYSATLLSGFLAVISVNIVIAFYIYMAMREPSDKHEPDPKFL 80 (105)
Q Consensus 9 l~fSiaM~~lPl~~fF~~~~~lf~g~~~ls~~~~t~ysgi~AVv~vNvVL~~YI~~A~~Ed~~~~~~d~~~~ 80 (105)
++|++-..++=||+.|=..||= | ++..=.++.-.=.+.|.+.||.. ++++.||+.+
T Consensus 6 ~~~~~ga~~vi~GalfKi~h~~--~------------~~~~l~~g~~te~lvFfiSAFe~--p~~e~dW~~v 61 (202)
T TIGR03513 6 IVYGWGAAVVILGALFKIMHWP--M------------GNPMLFVGLITEALIFAISAFEK--PADEYDWERV 61 (202)
T ss_pred HHHHHhHHHHHHHHHHHHhccC--C------------chHHHHHHHHHHHHHHHHhccCC--Cccccchhhh
Confidence 4688888899999999999963 2 22222222222233477889943 4667777765
No 4
>PRK12772 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional
Probab=54.21 E-value=1.5e+02 Score=26.55 Aligned_cols=73 Identities=14% Similarity=0.125 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCcCCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHH
Q 034046 4 VVKKFFIASMFMWMAPLAILYAFNHNLLPGSTNLTPYSATLLSGFLAVISVNIVIAFYIYMAMREPSDKHEPDPKFLAEA 83 (105)
Q Consensus 4 Vi~KLl~fSiaM~~lPl~~fF~~~~~lf~g~~~ls~~~~t~ysgi~AVv~vNvVL~~YI~~A~~Ed~~~~~~d~~~~~~a 83 (105)
.++-++.+.++++++|....+....+- ...+.+.. .+ -+.=...=|-++++..+|.++++++|
T Consensus 215 Plki~~gl~~l~l~lp~l~~~~~~~~~--------~~~~~~~~----~~-----~~~~~~~~~~~~eKTE~pT~krl~~A 277 (609)
T PRK12772 215 PIKILVGLTAFVIALPLFLKVISSAFS--------NLPDAIRG----FY-----KAIPLLLIFASDDKTEEATPKKKSDA 277 (609)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHH----HH-----HHhhHHHhhccCCCCCCCChhHHHHH
Confidence 356677888888888887776544321 11111121 11 12222333556667788999999999
Q ss_pred hhhcCCCCcc
Q 034046 84 KASVSQPTDK 93 (105)
Q Consensus 84 ~~s~~~~~~~ 93 (105)
|+.=+-|.|+
T Consensus 278 RekGqV~kS~ 287 (609)
T PRK12772 278 RKKGQIAKSK 287 (609)
T ss_pred HhcCCCCchH
Confidence 9875555443
No 5
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=49.85 E-value=89 Score=22.30 Aligned_cols=52 Identities=13% Similarity=0.191 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcCCCCcCCccchHHHHHHHHHHHHHHHHHHHHHHHhc
Q 034046 10 IASMFMWMAPLAILYAFNHNLLPGSTNLTPYSATLLSGFLAVISVNIVIAFYIYMAMR 67 (105)
Q Consensus 10 ~fSiaM~~lPl~~fF~~~~~lf~g~~~ls~~~~t~ysgi~AVv~vNvVL~~YI~~A~~ 67 (105)
.-++..+.++.+.|.+++. .++++.++-++|-.+=|+.+-.=+..|++....
T Consensus 8 ~Iglgv~~~Gg~~Y~~l~~------~G~d~~~AGi~sq~~lv~glvgW~~sYlfRV~t 59 (104)
T PF11460_consen 8 LIGLGVFLLGGLLYGGLQA------AGLDSLSAGIWSQALLVLGLVGWVSSYLFRVVT 59 (104)
T ss_pred eecHHHHHHHHHHHHHHHH------cCCCchhhhHHHHHHHHHHHHHHHhHHHhhhcc
Confidence 3467788889999998885 466777788888877777776667788886654
No 6
>PF01277 Oleosin: Oleosin; InterPro: IPR000136 Oleosins [] are the proteinaceous components of plants' lipid storage bodies called oil bodies. Oil bodies are small droplets (0.2 to 1.5 mu-m in diameter) containing mostly triacylglycerol that are surrounded by a phospholipid/ oleosin annulus. Oleosins may have a structural role in stabilising the lipid body during dessication of the seed, by preventing coalescence of the oil. They may also provide recognition signals for specific lipase anchorage in lipolysis during seedling growth. Oleosins are found in the monolayer lipid/ water interface of oil bodies and probably interact with both the lipid and phospholipid moieties. Oleosins are proteins of 16 Kd to 24 Kd and are composed of three domains: an N-terminal hydrophilic region of variable length (from 30 to 60 residues); a central hydrophobic domain of about 70 residues and a C-terminal amphipathic region of variable length (from 60 to 100 residues). The central hydrophobic domain is proposed to be made up of beta-strand structure and to interact with the lipids []. It is the only domain whose sequence is conserved.; GO: 0012511 monolayer-surrounded lipid storage body, 0016021 integral to membrane
Probab=46.61 E-value=50 Score=23.94 Aligned_cols=35 Identities=23% Similarity=0.389 Sum_probs=19.7
Q ss_pred HHHHHHHhcCCCCCCCCCHHHHHHHhhhcCCCCccccC
Q 034046 59 AFYIYMAMREPSDKHEPDPKFLAEAKASVSQPTDKAEV 96 (105)
Q Consensus 59 ~~YI~~A~~Ed~~~~~~d~~~~~~a~~s~~~~~~~~~~ 96 (105)
..|+|.=++. .+.+-++.++.||..+..-++++++
T Consensus 75 lsW~~~y~rg---~~~~~~~q~d~Ak~ri~d~a~~v~~ 109 (118)
T PF01277_consen 75 LSWMYNYFRG---RHPPGPDQLDYAKRRIADTASYVGQ 109 (118)
T ss_pred HHHHHHHhcc---CCCCCCccHHHHHHHHHHHHHHHHH
Confidence 3444444444 4556677778888766554444433
No 7
>PRK01315 putative inner membrane protein translocase component YidC; Provisional
Probab=45.19 E-value=1.4e+02 Score=24.74 Aligned_cols=33 Identities=9% Similarity=0.004 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHhcC-CCCCCCCCHHHHHHHhhhc
Q 034046 55 NIVIAFYIYMAMRE-PSDKHEPDPKFLAEAKASV 87 (105)
Q Consensus 55 NvVL~~YI~~A~~E-d~~~~~~d~~~~~~a~~s~ 87 (105)
|++-++--+..++. |++..+.-.++.+|..+..
T Consensus 244 nl~si~Qq~~v~r~~p~p~s~a~~~~~~r~~~~~ 277 (329)
T PRK01315 244 NVWTMGQQFYVIRNNPTPGSPAAIAREERLAKKG 277 (329)
T ss_pred HHHHHHHHHHHHhcCCCCCCHHHHHHHHHhhccc
Confidence 44444444444555 4444444445555554443
No 8
>PF11683 DUF3278: Protein of unknown function (DUF3278); InterPro: IPR021697 This bacterial family of proteins has no known function.
Probab=44.60 E-value=1.1e+02 Score=21.57 Aligned_cols=37 Identities=24% Similarity=0.359 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHhcCCC-CCCCCCHHHHHHHhh
Q 034046 49 LAVISVNIVIAFYIYMAMREPS-DKHEPDPKFLAEAKA 85 (105)
Q Consensus 49 ~AVv~vNvVL~~YI~~A~~Ed~-~~~~~d~~~~~~a~~ 85 (105)
...+....++.+|+..+.+... ++.+.++.-..+|+-
T Consensus 69 ~~~~~~~~~~~~yi~~~~~~~~l~~~Ev~~~~~~k~~k 106 (129)
T PF11683_consen 69 INIFFIIFIVSGYITFATRKLHLDDNEVSAKEYSKAKK 106 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCccccCcccHHHHHH
Confidence 4556677788899999988743 444444443344443
No 9
>TIGR02507 MtrF tetrahydromethanopterin S-methyltransferase, F subunit. coenzyme M methyltransferase in methanogenic archaea. This methyltranferase is membrane-associated enzyme complex that uses methy-transfer reaction to drive sodium-ion pump. Archaea domain, have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of 'methyl' group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.
Probab=43.39 E-value=22 Score=23.41 Aligned_cols=16 Identities=19% Similarity=0.627 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 034046 9 FIASMFMWMAPLAILY 24 (105)
Q Consensus 9 l~fSiaM~~lPl~~fF 24 (105)
++|+++|+.+|+..++
T Consensus 49 ~~~Al~lV~IP~ll~~ 64 (65)
T TIGR02507 49 FLFAVLLVAVPIAMKF 64 (65)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 4688999999998876
No 10
>PLN02755 complex I subunit
Probab=42.83 E-value=19 Score=24.18 Aligned_cols=23 Identities=9% Similarity=0.273 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 034046 7 KFFIASMFMWMAPLAILYAFNHN 29 (105)
Q Consensus 7 KLl~fSiaM~~lPl~~fF~~~~~ 29 (105)
++-+..+.|+++|.++||+..+-
T Consensus 33 t~~i~~ifgv~VP~liy~giv~e 55 (71)
T PLN02755 33 NLAVVGIFGIAVPILVYKGIVRE 55 (71)
T ss_pred hhhhhhhhhhhhhHHhhhhhhhh
Confidence 45567788999999999998764
No 11
>PHA02681 ORF089 virion membrane protein; Provisional
Probab=42.45 E-value=36 Score=23.77 Aligned_cols=33 Identities=24% Similarity=0.285 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHH-HHhcCCCCCCCCCHHHHHHHhhhcC
Q 034046 52 ISVNIVIAFYIY-MAMREPSDKHEPDPKFLAEAKASVS 88 (105)
Q Consensus 52 v~vNvVL~~YI~-~A~~Ed~~~~~~d~~~~~~a~~s~~ 88 (105)
+++-|+|++|++ ++||-- .+++|++. +-++.++
T Consensus 9 ~~V~V~IVclliya~YRR~-~i~~p~~~---r~~D~L~ 42 (92)
T PHA02681 9 TVIVISIVCYIVIMMYRRS-CVSAPAVP---RNKDLLP 42 (92)
T ss_pred HHHHHHHHHHHHHHHHHhc-cCCCCCCC---cccccCC
Confidence 344555566654 555554 44555533 3444444
No 12
>PF12301 CD99L2: CD99 antigen like protein 2; InterPro: IPR022078 This family of proteins is found in eukaryotes. Proteins in this family are typically between 165 and 237 amino acids in length. CD99L2 and CD99 are involved in trans-endothelial migration of neutrophils in vitro and in the recruitment of neutrophils into inflamed peritoneum.
Probab=40.16 E-value=37 Score=25.82 Aligned_cols=29 Identities=24% Similarity=0.385 Sum_probs=25.6
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 034046 40 YSATLLSGFLAVISVNIVIAFYIYMAMRE 68 (105)
Q Consensus 40 ~~~t~ysgi~AVv~vNvVL~~YI~~A~~E 68 (105)
...-++|||+++|+|-+|=+.=-|.||+-
T Consensus 112 ~~~g~IaGIvsav~valvGAvsSyiaYqk 140 (169)
T PF12301_consen 112 AEAGTIAGIVSAVVVALVGAVSSYIAYQK 140 (169)
T ss_pred cccchhhhHHHHHHHHHHHHHHHHHHHHh
Confidence 45567899999999999999999999975
No 13
>TIGR00847 ccoS cytochrome oxidase maturation protein, cbb3-type. CcoS from Rhodobacter capsulatus has been shown essential for incorporation of redox-active prosthetic groups (heme, Cu) into cytochrome cbb(3) oxidase. FixS of Bradyrhizobium japonicum appears to have the same function. Members of this family are found so far in organisms with a cbb3-type cytochrome oxidase, including Neisseria meningitidis, Helicobacter pylori, Campylobacter jejuni, Caulobacter crescentus, Bradyrhizobium japonicum, and Rhodobacter capsulatus.
Probab=39.78 E-value=68 Score=19.98 Aligned_cols=26 Identities=8% Similarity=-0.000 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034046 3 AVVKKFFIASMFMWMAPLAILYAFNH 28 (105)
Q Consensus 3 ~Vi~KLl~fSiaM~~lPl~~fF~~~~ 28 (105)
+++.-|+--|+.+..+.+.+|++..+
T Consensus 2 ~il~~LIpiSl~l~~~~l~~f~Wavk 27 (51)
T TIGR00847 2 EILTILIPISLLLGGVGLVAFLWSLK 27 (51)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 67888888888888888888887543
No 14
>PF02714 DUF221: Domain of unknown function DUF221; InterPro: IPR003864 This domain is found in a family of hypothetical transmembrane proteins none of which have any known function, the aligned region is at 538 residues at maximum length.; GO: 0016020 membrane
Probab=39.58 E-value=1.5e+02 Score=23.03 Aligned_cols=51 Identities=14% Similarity=0.285 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhcCCCCcCCccchHHHHHHHHHHHHHHHHHHHH
Q 034046 9 FIASMFMWMAPLAILYAFNHNLLPGSTNLTPYSATLLSGFLAVISVNIVIAFYI 62 (105)
Q Consensus 9 l~fSiaM~~lPl~~fF~~~~~lf~g~~~ls~~~~t~ysgi~AVv~vNvVL~~YI 62 (105)
++.++.+..+|....+.++. +|+.+-+..++....-..--..+|+.++..+
T Consensus 111 l~l~~~~~llp~ii~~ls~~---e~~~s~S~~~~sv~~k~f~f~~~n~~lv~~l 161 (325)
T PF02714_consen 111 LLLSIFNALLPIIIRFLSKF---EGHKSRSEVERSVLRKLFFFLFFNVFLVPSL 161 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHh---cCCCchhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35667788999999998874 8888878888888888777888888877654
No 15
>PF13858 DUF4199: Protein of unknown function (DUF4199)
Probab=38.50 E-value=1.4e+02 Score=20.93 Aligned_cols=65 Identities=18% Similarity=0.326 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHhhh---cCCCCcCCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHhhhc
Q 034046 14 FMWMAPLAILYAFNHNL---LPGSTNLTPYSATLLSGFLAVISVNIVIAFYIYMAMREPSDKHEPDPKFLAEAKASV 87 (105)
Q Consensus 14 aM~~lPl~~fF~~~~~l---f~g~~~ls~~~~t~ysgi~AVv~vNvVL~~YI~~A~~Ed~~~~~~d~~~~~~a~~s~ 87 (105)
.++..++..+++.+++- .+|.. +....+-.|+.-.+.+-++...+.+.-++- -||+++++..+..
T Consensus 37 ~~~~~~~~i~~~i~~~R~~~~~g~i---sf~~a~~~g~~~~~ia~li~~v~~~i~~~~------IdP~~~~~~~~~~ 104 (163)
T PF13858_consen 37 SMVITIIFIYFAIRRYRKKYNGGFI---SFGQAFKVGFLISLIAGLISAVFQYIYFNY------IDPDFFENYIEAQ 104 (163)
T ss_pred HHHHHHHHHHHHHHHHHHHccCCCe---eHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------hCHHHHHHHHHHH
Confidence 36666777777777654 23332 234444445444444444444444443332 2567777766655
No 16
>PRK13275 mtrF tetrahydromethanopterin S-methyltransferase subunit F; Provisional
Probab=38.32 E-value=39 Score=22.33 Aligned_cols=18 Identities=11% Similarity=0.338 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 034046 9 FIASMFMWMAPLAILYAF 26 (105)
Q Consensus 9 l~fSiaM~~lPl~~fF~~ 26 (105)
++|+++|+.+|+..++..
T Consensus 49 ~~~AlvLv~ip~~l~~~~ 66 (67)
T PRK13275 49 FLLALLLVVVPPLLYGLV 66 (67)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 468899999999887753
No 17
>PRK10983 putative inner membrane protein; Provisional
Probab=38.13 E-value=95 Score=25.62 Aligned_cols=29 Identities=14% Similarity=0.267 Sum_probs=20.8
Q ss_pred HHHHhcCCCCCCCCCHHHHHHHhhhcCCC
Q 034046 62 IYMAMREPSDKHEPDPKFLAEAKASVSQP 90 (105)
Q Consensus 62 I~~A~~Ed~~~~~~d~~~~~~a~~s~~~~ 90 (105)
++..|.++.+.+++|||-.-|--+++++|
T Consensus 340 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 368 (368)
T PRK10983 340 LFSAWVHEVPPPTDQPEEILEELEEIEKP 368 (368)
T ss_pred HHHHHHhcCCCCCCChhHHHHHHHhccCC
Confidence 34456666678888888877777778776
No 18
>PF09472 MtrF: Tetrahydromethanopterin S-methyltransferase, F subunit (MtrF); InterPro: IPR013347 Many archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This domain is mostly found in MtrF, where it covers the entire length of the protein. This polypeptide is one of eight subunits of the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase complex found in methanogenic archaea. This is a membrane-associated enzyme complex that uses methyl-transfer reactions to drive a sodium-ion pump []. MtrF itself is involved in the transfer of the methyl group from N5-methyltetrahydromethanopterin to coenzyme M. Subsequently, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme, methyl-coenzyme M reductase. In some organisms this domain is found at the C-terminal region of what appears to be a fusion of the MtrA and MtrF proteins [, ]. The function of these proteins is unknown, though it is likely that they are involved in C1 metabolism.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016020 membrane
Probab=37.28 E-value=29 Score=22.69 Aligned_cols=16 Identities=13% Similarity=0.569 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHH
Q 034046 9 FIASMFMWMAPLAILY 24 (105)
Q Consensus 9 l~fSiaM~~lPl~~fF 24 (105)
++|+++|+.+|+..+|
T Consensus 49 ~~~AlvLv~ip~~l~~ 64 (64)
T PF09472_consen 49 FLFALVLVGIPILLMF 64 (64)
T ss_pred HHHHHHHHHHHHHHhC
Confidence 5789999999988764
No 19
>PF01544 CorA: CorA-like Mg2+ transporter protein; InterPro: IPR002523 The CorA transport system is the primary Mg2+ influx system of Salmonella typhimurium and Escherichia coli [, ]. CorA is virtually ubiquitous in the Bacteria and Archaea. There are also eukaryotic relatives of this protein. Transporter ZntB mediates efflux of zinc ions [].; GO: 0046873 metal ion transmembrane transporter activity, 0030001 metal ion transport, 0055085 transmembrane transport, 0016020 membrane; PDB: 2HN1_A 3NWI_D 3NVO_B 3CK6_A 2IUB_E 2BBJ_E 2HN2_A 2BBH_A.
Probab=33.84 E-value=59 Score=24.29 Aligned_cols=20 Identities=25% Similarity=0.416 Sum_probs=11.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 034046 2 AAVVKKFFIASMFMWMAPLAIL 23 (105)
Q Consensus 2 ~~Vi~KLl~fSiaM~~lPl~~f 23 (105)
+.++.+|-+.|+ +.+|+...
T Consensus 231 n~~m~~LT~~t~--iflPlt~i 250 (292)
T PF01544_consen 231 NRVMKVLTIVTA--IFLPLTFI 250 (292)
T ss_dssp HHHHHHHHHHHH--HHHHHHHH
T ss_pred HHHHHHHHHHHH--HHHHHHHH
Confidence 456666655444 44896543
No 20
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=33.74 E-value=85 Score=25.49 Aligned_cols=19 Identities=11% Similarity=0.032 Sum_probs=11.0
Q ss_pred cchHHHHHHHHHHHHHHHH
Q 034046 40 YSATLLSGFLAVISVNIVI 58 (105)
Q Consensus 40 ~~~t~ysgi~AVv~vNvVL 58 (105)
.+.+++.++++++++-+++
T Consensus 37 ie~s~~~~~~~~~~~~~~~ 55 (409)
T TIGR00540 37 IEMSITGLAIFFIIALAII 55 (409)
T ss_pred EEeeHHHHHHHHHHHHHHH
Confidence 5566666666666554444
No 21
>PF06027 DUF914: Eukaryotic protein of unknown function (DUF914); InterPro: IPR009262 This family consists of several hypothetical proteins of unknown function. Some of the sequences in this family are annotated as putative membrane proteins.
Probab=33.13 E-value=1.7e+02 Score=24.23 Aligned_cols=68 Identities=9% Similarity=0.252 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHH----HHHHHHHHHhhhcCCCCcCCccchHHHHHHHH------------HHHHHHHHHHHHHHHhc
Q 034046 4 VVKKFFIASMFMWMA----PLAILYAFNHNLLPGSTNLTPYSATLLSGFLA------------VISVNIVIAFYIYMAMR 67 (105)
Q Consensus 4 Vi~KLl~fSiaM~~l----Pl~~fF~~~~~lf~g~~~ls~~~~t~ysgi~A------------Vv~vNvVL~~YI~~A~~ 67 (105)
++.-++.|++.|++. |+......-- ..+++-..+..||-+.. .++.=+|++++++....
T Consensus 232 ~~~~~v~~~~~lf~~y~l~p~~l~~ssAt-----~~nLsLLTsd~~ali~~i~~f~~~~~~ly~~af~lIiiG~vvy~~~ 306 (334)
T PF06027_consen 232 VIGLLVGYALCLFLFYSLVPIVLRMSSAT-----FFNLSLLTSDFYALIIDIFFFGYKFSWLYILAFALIIIGFVVYNLA 306 (334)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhCccc-----eeehHHHHhhHHHHHHHHHhcCccccHHHHHHHHHHHHHhheEEcc
Confidence 456677788887765 4332221111 11222333444544333 34555678888888888
Q ss_pred CCCCCCCCC
Q 034046 68 EPSDKHEPD 76 (105)
Q Consensus 68 Ed~~~~~~d 76 (105)
|+..++++.
T Consensus 307 ~~~~~~~~~ 315 (334)
T PF06027_consen 307 ESPEEEARR 315 (334)
T ss_pred CCcccccch
Confidence 865444443
No 22
>PF11511 RhodobacterPufX: Intrinsic membrane protein PufX; InterPro: IPR020169 PufX organises RC-LH1, the photosynthesis reaction centre-light harvesting complex 1 core complex of Rhodobacter sphaeroides []. It also facilitates the exchange of quinol for quinone between the reaction centre and cytochrome bc(1) complexes. In organic solvent, PufX contains two hydrophobic helices which are flanked by unstructured regions and connected by a helical bend [].; PDB: 2DW3_A 2ITA_A 2NRG_A.
Probab=32.37 E-value=1.2e+02 Score=20.18 Aligned_cols=33 Identities=18% Similarity=0.331 Sum_probs=15.4
Q ss_pred HHHHHHHHHH----HHHHHHHHHHHhcCCCCCCCCCH
Q 034046 45 LSGFLAVISV----NIVIAFYIYMAMREPSDKHEPDP 77 (105)
Q Consensus 45 ysgi~AVv~v----NvVL~~YI~~A~~Ed~~~~~~d~ 77 (105)
++++.|++.. -+++++|.+=-+.-+++.+.|||
T Consensus 26 kGag~Aav~~~~~~~~l~~~~~iG~~LPe~s~~aP~P 62 (67)
T PF11511_consen 26 KGAGYAAVFFLGLWFLLVALYFIGLLLPERSRQAPDP 62 (67)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHSSTTTCSS-SSS
T ss_pred hcccHHHHHHHHHHHHHHHHHHHHHhCchhcccCCCC
Confidence 4444444433 34444554444444445555655
No 23
>PF09803 DUF2346: Uncharacterized conserved protein (DUF2346); InterPro: IPR018625 Members of this family of proteins have no known function.
Probab=28.87 E-value=53 Score=22.04 Aligned_cols=12 Identities=33% Similarity=0.791 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHH
Q 034046 16 WMAPLAILYAFN 27 (105)
Q Consensus 16 ~~lPl~~fF~~~ 27 (105)
+++||++||.++
T Consensus 15 v~fPI~~~~~fN 26 (80)
T PF09803_consen 15 VFFPIGMFYYFN 26 (80)
T ss_pred HHHHHHHHHhcC
Confidence 678999988654
No 24
>KOG3787 consensus Glutamate/aspartate and neutral amino acid transporters [Amino acid transport and metabolism]
Probab=28.31 E-value=2.3e+02 Score=25.32 Aligned_cols=26 Identities=27% Similarity=0.685 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 034046 3 AVVKKFFIASMFMWMAPLAILYAFNHNL 30 (105)
Q Consensus 3 ~Vi~KLl~fSiaM~~lPl~~fF~~~~~l 30 (105)
.++.|++ +..||..|+|+.|..-.-+
T Consensus 226 e~iMklV--~~iMWy~PvGI~fLIagkI 251 (507)
T KOG3787|consen 226 EAIMKLV--SWIMWYSPVGILFLIAGKI 251 (507)
T ss_pred HHHHHHH--HHHHHHcchhHHHHHHHhh
Confidence 4555654 7899999999999865544
No 25
>PF02532 PsbI: Photosystem II reaction centre I protein (PSII 4.8 kDa protein); InterPro: IPR003686 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 PsbI, which is tightly associated with the D1/D2 heterodimer in PSII. The function of PsbI is unknown, but it may be involved in the assembly, dimerisation or stabilisation of PSII dimers [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_i 3ARC_I 3A0B_i 3BZ2_I 3PRQ_I 3KZI_I 3PRR_I 2AXT_i 4FBY_I 1S5L_i ....
Probab=27.15 E-value=1.4e+02 Score=17.68 Aligned_cols=20 Identities=20% Similarity=0.516 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 034046 4 VVKKFFIASMFMWMAPLAIL 23 (105)
Q Consensus 4 Vi~KLl~fSiaM~~lPl~~f 23 (105)
...|+++|++..+.+++-.|
T Consensus 2 ~~LK~~Vy~vV~ffv~LFif 21 (36)
T PF02532_consen 2 LTLKIFVYTVVIFFVSLFIF 21 (36)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred eEEEEeehhhHHHHHHHHhc
Confidence 35789999988888877665
No 26
>PF09125 COX2-transmemb: Cytochrome C oxidase subunit II, transmembrane; InterPro: IPR015209 This N-terminal domain forms the transmembrane region in subunit II of cytochrome c oxidase from Thermus thermophilus. This domain adopts a tertiary structure consisting of two antiparallel transmembrane helices, in a transmembrane helix hairpin fold []. ; PDB: 1EHK_B 2QPE_B 3S8F_B 4EV3_B 3BVD_B 3S8G_B 3EH3_B 3S3C_B 3S39_B 3QJQ_B ....
Probab=26.92 E-value=1e+02 Score=18.38 Aligned_cols=14 Identities=7% Similarity=0.154 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHH
Q 034046 7 KFFIASMFMWMAPL 20 (105)
Q Consensus 7 KLl~fSiaM~~lPl 20 (105)
+.++|+++|+.+=+
T Consensus 15 ~Wi~F~l~mi~vFi 28 (38)
T PF09125_consen 15 GWIAFALAMILVFI 28 (38)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHH
Confidence 45677777776543
No 27
>KOG4112 consensus Signal peptidase subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.66 E-value=98 Score=22.03 Aligned_cols=46 Identities=20% Similarity=0.244 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHhhhcCCCC--ccccCChhhhhc
Q 034046 53 SVNIVIAFYIYMAMREPSDKHEPDPKFLAEAKASVSQPT--DKAEVSSESLKK 103 (105)
Q Consensus 53 ~vNvVL~~YI~~A~~Ed~~~~~~d~~~~~~a~~s~~~~~--~~~~~~~~~~~~ 103 (105)
.+-+|++++++.+.-- -|+|-+..|-.----+|. +.++|-++|+||
T Consensus 52 tvy~vg~~~v~t~li~-----LPpwP~y~rn~LkW~~Pa~esssdd~d~g~kk 99 (101)
T KOG4112|consen 52 TVYIVGAGFVFTLLIT-----LPPWPWYRRNPLKWAQPAIESSSDDKDKGTKK 99 (101)
T ss_pred HHHHHHHHHHHHHHhc-----CCCchhhhcCcccccCCccccccccCCccccc
Confidence 4567777777777654 577777777444445555 334444555555
No 28
>KOG1134 consensus Uncharacterized conserved protein [General function prediction only]
Probab=26.65 E-value=2.1e+02 Score=26.28 Aligned_cols=57 Identities=14% Similarity=0.210 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhcCCCCcCCccchHHHHHHHHHHHHHHHHHHHHHHHhc
Q 034046 8 FFIASMFMWMAPLAILYAFNHNLLPGSTNLTPYSATLLSGFLAVISVNIVIAFYIYMAMR 67 (105)
Q Consensus 8 Ll~fSiaM~~lPl~~fF~~~~~lf~g~~~ls~~~~t~ysgi~AVv~vNvVL~~YI~~A~~ 67 (105)
-+++.++|.++|....+..+ ++|..+-+..++....=..+-..+|+-++.-+.-+..
T Consensus 416 ~l~l~~~~~~lP~~l~~ls~---~eG~~s~S~~e~~a~~k~~~F~~~nvFl~~~l~~sa~ 472 (728)
T KOG1134|consen 416 TLALVIFLALLPPFLRYLSK---LEGLISRSEEERSALNKYYIFLLVNVFLVVTLSGSAL 472 (728)
T ss_pred HHHHHHHHHHHHHHHHHHHH---hcCccchhHHHHHHHHhHHHHHHhhhHHHhhhhHHHH
Confidence 46788999999999999887 4898887888888877788888888877655544433
No 29
>PF04279 IspA: Intracellular septation protein A ; InterPro: IPR006008 Intracellular septation protein A is a family of proteins which are essential for both normal cell division and bacterial virulence and are believed to play a role in the septation process [].; GO: 0016021 integral to membrane
Probab=26.19 E-value=2.4e+02 Score=21.03 Aligned_cols=40 Identities=15% Similarity=0.398 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHhhhcCCCCcCCccchHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 034046 17 MAPLAILYAFNHNLLPGSTNLTPYSATLLSGFLAVISVNIVIAFYIYMAMRE 68 (105)
Q Consensus 17 ~lPl~~fF~~~~~lf~g~~~ls~~~~t~ysgi~AVv~vNvVL~~YI~~A~~E 68 (105)
.+|+..||..+.+ .| ++.|..+.+.+-++-++|-+.-.|+
T Consensus 7 ~~P~i~Ffv~y~~--~~----------i~~At~~~i~~~~~~v~~~~~~~r~ 46 (176)
T PF04279_consen 7 FGPLILFFVVYKT--YG----------IFVATAVLIVATLAQVAYSWIRRRK 46 (176)
T ss_pred HHHHHHHHHHHHH--hC----------HHHHHHHHHHHHHHHHHHHHHHhCc
Confidence 4799999998872 22 5666677777777777777766654
No 30
>KOG4136 consensus Predicted mitochondrial cholesterol transporter [Signal transduction mechanisms; Lipid transport and metabolism]
Probab=25.90 E-value=52 Score=25.91 Aligned_cols=18 Identities=17% Similarity=0.508 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 034046 8 FFIASMFMWMAPLAILYA 25 (105)
Q Consensus 8 Ll~fSiaM~~lPl~~fF~ 25 (105)
+..|++.||++|++.|-.
T Consensus 127 ~syf~icvW~vPfa~FVS 144 (198)
T KOG4136|consen 127 ASYFGICVWIVPFAFFVS 144 (198)
T ss_pred HHHHHHHHHHhhHHheeE
Confidence 567899999999987744
No 31
>PF07074 TRAP-gamma: Translocon-associated protein, gamma subunit (TRAP-gamma); InterPro: IPR009779 This family consists of several eukaryotic translocon-associated protein, gamma subunit (TRAP-gamma) sequences. The translocation site (translocon), at which nascent polypeptides pass through the endoplasmic reticulum membrane, contains a component previously called 'signal sequence receptor' that is now renamed as 'translocon-associated protein' (TRAP). The TRAP complex is comprised of four membrane proteins alpha, beta, gamma and delta, which are present in a stoichiometric relation, and are genuine neighbours in intact microsomes. The gamma subunit is predicted to span the membrane four times [].; GO: 0006613 cotranslational protein targeting to membrane, 0005784 Sec61 translocon complex, 0030176 integral to endoplasmic reticulum membrane
Probab=25.88 E-value=3e+02 Score=21.21 Aligned_cols=43 Identities=9% Similarity=0.329 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHHhhhcCCCCcCCccchHHHHHHHHHHHHHHHHHHHH
Q 034046 12 SMFMWMAPLAILYAFNHNLLPGSTNLTPYSATLLSGFLAVISVNIVIAFYI 62 (105)
Q Consensus 12 SiaM~~lPl~~fF~~~~~lf~g~~~ls~~~~t~ysgi~AVv~vNvVL~~YI 62 (105)
++..-.+|+..|+...+ |+..++.++=++.+.+++-++-..|-
T Consensus 25 A~ivS~vPi~LF~~Ih~--------m~~~~~~I~f~i~t~~sayll~fAYk 67 (170)
T PF07074_consen 25 ALIVSAVPIWLFWRIHQ--------MDLYDSLIVFVIVTLVSAYLLAFAYK 67 (170)
T ss_pred HHHHHHHHHHHHHHHHh--------cccchhhHHHHHHHHHHHHHHHHHHH
Confidence 44556789998888765 45667777888888888777766663
No 32
>TIGR02761 TraE_TIGR type IV conjugative transfer system protein TraE. TraE is a component of type IV secretion systems involved in conjugative transfer of plasmid DNA. The function of the TraE protein is unknown.
Probab=25.38 E-value=90 Score=23.26 Aligned_cols=28 Identities=18% Similarity=0.401 Sum_probs=21.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 034046 42 ATLLSGFLAVISVNIVIAFYIYMAMREP 69 (105)
Q Consensus 42 ~t~ysgi~AVv~vNvVL~~YI~~A~~Ed 69 (105)
|.+..-+++.+.+|++|..+.+.+++++
T Consensus 18 n~l~~l~~~~l~~~~ll~~~~~~~~~~~ 45 (181)
T TIGR02761 18 NLLFVLVSGVLAVNVLLSIVLIVALKKT 45 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCc
Confidence 3334445999999999999999996653
No 33
>PF03176 MMPL: MMPL family; InterPro: IPR004869 Proteins of this entry are putative integral membrane proteins from bacteria. Several of the members are mycobacterial proteins. Many of the proteins contain two copies of this aligned region. The function of these proteins is not known, although it has been suggested that they may be involved in lipid transport [].; GO: 0016020 membrane
Probab=25.38 E-value=2.9e+02 Score=21.52 Aligned_cols=33 Identities=12% Similarity=0.089 Sum_probs=22.7
Q ss_pred HHHHHHHhcCCCCCCCCCHHHHHHHhhhcCCCC
Q 034046 59 AFYIYMAMREPSDKHEPDPKFLAEAKASVSQPT 91 (105)
Q Consensus 59 ~~YI~~A~~Ed~~~~~~d~~~~~~a~~s~~~~~ 91 (105)
..|++.-|+|.-.+.....+-+.+|=.+..+|.
T Consensus 219 ~i~l~~r~ree~~~g~~~~~ai~~a~~~~g~~i 251 (333)
T PF03176_consen 219 SIHLINRYREELRRGMSRKEAIRRAVRSTGRAI 251 (333)
T ss_pred HHHHHHHHHHHHHhccchHHHHHHHHhccCchh
Confidence 456777899976666666667777776666653
No 34
>COG1784 Predicted membrane protein [Function unknown]
Probab=25.34 E-value=3.6e+02 Score=23.43 Aligned_cols=53 Identities=21% Similarity=0.141 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhcCCCCcCCccchHHHHHHHHHHHHHHHHHHHHHHHh
Q 034046 6 KKFFIASMFMWMAPLAILYAFNHNLLPGSTNLTPYSATLLSGFLAVISVNIVIAFYIYMAM 66 (105)
Q Consensus 6 ~KLl~fSiaM~~lPl~~fF~~~~~lf~g~~~ls~~~~t~ysgi~AVv~vNvVL~~YI~~A~ 66 (105)
.-++..+..|+++++..+....... .-..--|+...|.+..-+|+..|+++-+
T Consensus 304 ~i~l~~~a~~i~~~L~~~ls~~~~~--------~v~~~~~s~l~a~vl~~lvil~~~~~gf 356 (395)
T COG1784 304 LIFLVLSAALIAVALAPWLSILALL--------KVRFKDYSKLCAGVLLFLVILGYLLMGF 356 (395)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 3467788889999988887765531 0111125665555555444444887755
No 35
>COG0598 CorA Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]
Probab=25.23 E-value=3.2e+02 Score=21.81 Aligned_cols=36 Identities=19% Similarity=0.273 Sum_probs=20.1
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCcCC
Q 034046 1 MAAVVKKFFIASMFMWMAPLAILYAFNHNLLPGSTNLT 38 (105)
Q Consensus 1 m~~Vi~KLl~fSiaM~~lPl~~fF~~~~~lf~g~~~ls 38 (105)
|+.++++|-+.| ++.+|...-.+++..=|++...++
T Consensus 258 ~N~imk~LTi~s--~iflPpTlIagiyGMNf~~mPel~ 293 (322)
T COG0598 258 QNEIMKILTIVS--TIFLPPTLITGFYGMNFKGMPELD 293 (322)
T ss_pred HHHHHHHHHHHH--HHHHhhHHHHcccccCCCCCcCCC
Confidence 456777776655 456676655555443355554443
No 36
>PF09900 DUF2127: Predicted membrane protein (DUF2127); InterPro: IPR021125 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are predicted to be integral membrane proteins (with several transmembrane segments).
Probab=23.78 E-value=93 Score=22.47 Aligned_cols=20 Identities=30% Similarity=0.507 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHhc
Q 034046 48 FLAVISVNIVIAFYIYMAMR 67 (105)
Q Consensus 48 i~AVv~vNvVL~~YI~~A~~ 67 (105)
-+++..+|++++.|.+.-+|
T Consensus 122 ~~~~l~~Nv~iV~yl~~~~R 141 (141)
T PF09900_consen 122 KILVLLVNVAIVVYLLREYR 141 (141)
T ss_pred HHHHHHHHHHHHHHHHHHhC
Confidence 46788999999999987664
No 37
>KOG1362 consensus Choline transporter-like protein [Lipid transport and metabolism]
Probab=22.53 E-value=2.5e+02 Score=25.26 Aligned_cols=64 Identities=11% Similarity=0.138 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhcCCCCcCCccchHHHHHHHH-HHHHHHHHHHH------HHHHhcCCCCCCCCC
Q 034046 8 FFIASMFMWMAPLAILYAFNHNLLPGSTNLTPYSATLLSGFLA-VISVNIVIAFY------IYMAMREPSDKHEPD 76 (105)
Q Consensus 8 Ll~fSiaM~~lPl~~fF~~~~~lf~g~~~ls~~~~t~ysgi~A-Vv~vNvVL~~Y------I~~A~~Ed~~~~~~d 76 (105)
+..+.+++...=.+.++...+ .+. +..---.+++.+++ -+.+|+.+..| +|++|-||.+..+-+
T Consensus 479 lgk~l~~~~~g~~g~~~l~~~---~~~--l~~y~V~lla~iig~ylIa~~f~~v~~m~VdtlflCf~eD~e~n~gs 549 (577)
T KOG1362|consen 479 LGKLLGAIGSGVAGIWLLIGR---KDV--LYYYVVPLLAFIIGAYLIAHIFFSVLEMCVDTLFLCFAEDPESNDGS 549 (577)
T ss_pred HHHHHHHHHHHHHHHHHHhcC---CCc--ceeEeHHHHHHHHHHHHHHHHHHHHHHHHHHHhhheeEecHhhcCCC
Confidence 333344444444444444433 121 22344566777766 77778877777 688999988777766
No 38
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 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. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=22.10 E-value=3e+02 Score=19.54 Aligned_cols=49 Identities=16% Similarity=0.087 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHhhhcCCCCcCCccchHHHHHHHHHHHHHHHHHHHHHHHh
Q 034046 14 FMWMAPLAILYAFNHNLLPGSTNLTPYSATLLSGFLAVISVNIVIAFYIYMAM 66 (105)
Q Consensus 14 aM~~lPl~~fF~~~~~lf~g~~~ls~~~~t~ysgi~AVv~vNvVL~~YI~~A~ 66 (105)
.|+..=++.||+..+.. .+++...+.+.+.+.|+++.-+=+.+|+..-.
T Consensus 88 sv~~~~~~~~~~~~~~~----~~~~~~~Rvllgl~~al~vlvAEv~l~~~y~~ 136 (142)
T PF11712_consen 88 SVFAVFFAGWYWAGYSF----GGWSFPYRVLLGLFGALLVLVAEVVLYIRYLR 136 (142)
T ss_pred HHHHHHHHHHHHHHHhh----cccchHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34444455555555432 13455667777777666665555555555433
No 39
>PF01891 CbiM: Cobalt uptake substrate-specific transmembrane region; InterPro: IPR002751 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents the integral membrane protein CbiM, which is involved in cobalamin synthesis, although its exact function in unknown.; GO: 0009236 cobalamin biosynthetic process, 0016021 integral to membrane
Probab=21.11 E-value=3.6e+02 Score=20.10 Aligned_cols=51 Identities=20% Similarity=0.299 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhcCCCCcCCccchHHHHHHHHHHHHHHHHH
Q 034046 8 FFIASMFMWMAPLAILYAFNHNLLPGSTNLTPYSATLLSGFLAVISVNIVIA 59 (105)
Q Consensus 8 Ll~fSiaM~~lPl~~fF~~~~~lf~g~~~ls~~~~t~ysgi~AVv~vNvVL~ 59 (105)
|-.-.+.|.++|....|...+.+..- +.....-+...+|.+++...-++..
T Consensus 105 lG~N~l~m~~~~~~~~~~~~~~l~~~-~~~~~~~~~F~ag~l~~~~~~~~~~ 155 (205)
T PF01891_consen 105 LGANALNMGVPPVLVSYLLFRLLRRK-FPRNIFVAGFLAGFLSVLLAALAVS 155 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhc-ccccHHHHHHHHHHHHHHHHHHHHH
Confidence 45567789999999999877765322 1112233334444444444443333
No 40
>PRK10921 twin-arginine protein translocation system subunit TatC; Provisional
Probab=21.06 E-value=4.2e+02 Score=20.93 Aligned_cols=32 Identities=13% Similarity=0.224 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCc
Q 034046 4 VVKKFFIASMFMWMAPLAILYAFNHNLLPGSTN 36 (105)
Q Consensus 4 Vi~KLl~fSiaM~~lPl~~fF~~~~~lf~g~~~ 36 (105)
+-.|+-++..+.+..|+..|....- +-||...
T Consensus 70 ~~lk~sl~~g~~la~P~ilyqiw~F-i~PgLy~ 101 (258)
T PRK10921 70 TPIKLTFMVSLILSAPVILYQVWAF-IAPALYK 101 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-HhccCCH
Confidence 4578888999999999999987654 4467554
No 41
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=20.11 E-value=2.1e+02 Score=20.60 Aligned_cols=32 Identities=22% Similarity=0.354 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCC-CCCCC
Q 034046 44 LLSGFLAVISVNIVIAFYIYMAMREPS-DKHEP 75 (105)
Q Consensus 44 ~ysgi~AVv~vNvVL~~YI~~A~~Ed~-~~~~~ 75 (105)
+.=|+.|-+..-+.|+.|++.=.+... .+.+|
T Consensus 69 Ii~gv~aGvIg~Illi~y~irR~~Kk~~~~~~p 101 (122)
T PF01102_consen 69 IIFGVMAGVIGIILLISYCIRRLRKKSSSDVQP 101 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHS---------
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHhccCCCCCCC
Confidence 344444444555667888887666643 33444
Done!